%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  bioseq
%global packver   0.1.4
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.1.4
Release:          1%{?dist}%{?buildtag}
Summary:          A Toolbox for Manipulating Biological Sequences

License:          GPL-3
URL:              https://cran.r-project.org/package=%{packname}
Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz


BuildRequires:    R-devel >= 3.1.0
Requires:         R-core >= 3.1.0
BuildArch:        noarch
BuildRequires:    R-methods 
BuildRequires:    R-CRAN-vctrs 
BuildRequires:    R-CRAN-tibble 
BuildRequires:    R-CRAN-ape 
BuildRequires:    R-CRAN-crayon 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-pillar 
BuildRequires:    R-CRAN-stringi 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-stringdist 
BuildRequires:    R-CRAN-readr 
BuildRequires:    R-CRAN-rlang 
Requires:         R-methods 
Requires:         R-CRAN-vctrs 
Requires:         R-CRAN-tibble 
Requires:         R-CRAN-ape 
Requires:         R-CRAN-crayon 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-pillar 
Requires:         R-CRAN-stringi 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-stringdist 
Requires:         R-CRAN-readr 
Requires:         R-CRAN-rlang 

%description
Classes and functions to work with biological sequences (DNA, RNA and
amino acid sequences). Implements S3 infrastructure to work with
biological sequences as described in Keck (2020)
<doi:10.1111/2041-210X.13490>. Provides a collection of functions to
perform biological conversion among classes (transcription, translation)
and basic operations on sequences (detection, selection and replacement
based on positions or patterns). The package also provides functions to
import and export sequences from and to other package formats.

%prep
%setup -q -c -n %{packname}

# fix end of executable files
find -type f -executable -exec grep -Iq . {} \; -exec sed -i -e '$a\' {} \;
# prevent binary stripping
[ -d %{packname}/src ] && find %{packname}/src -type f -exec \
  sed -i 's@/usr/bin/strip@/usr/bin/true@g' {} \; || true
[ -d %{packname}/src ] && find %{packname}/src/Make* -type f -exec \
  sed -i 's@-g0@@g' {} \; || true
# don't allow local prefix in executable scripts
find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' {} \;

%build

%install

mkdir -p %{buildroot}%{rlibdir}
%{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname}
test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so)
rm -f %{buildroot}%{rlibdir}/R.css
# remove buildroot from installed files
find %{buildroot}%{rlibdir} -type f -exec sed -i "s@%{buildroot}@@g" {} \;

%files
%{rlibdir}/%{packname}