%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  rplec
%global packver   0.1.3
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.1.3
Release:          1%{?dist}%{?buildtag}
Summary:          Placental Epigenetic Clock to Estimate Aging by DNA Methylation

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


BuildRequires:    R-devel >= 4.4
Requires:         R-core >= 4.4
BuildArch:        noarch
BuildRequires:    R-CRAN-doParallel 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-foreach 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-parallel 
BuildRequires:    R-CRAN-pbapply 
BuildRequires:    R-CRAN-purrr 
BuildRequires:    R-CRAN-RPMM 
BuildRequires:    R-stats 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-tibble 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-utils 
Requires:         R-CRAN-doParallel 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-foreach 
Requires:         R-CRAN-ggplot2 
Requires:         R-parallel 
Requires:         R-CRAN-pbapply 
Requires:         R-CRAN-purrr 
Requires:         R-CRAN-RPMM 
Requires:         R-stats 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-tibble 
Requires:         R-CRAN-tidyr 
Requires:         R-utils 

%description
Placental epigenetic clock to estimate aging based on gestational age
using DNA methylation levels, so called placental epigenetic clock (PlEC).
We developed a PlEC for the 2024 Placental Clock DREAM Challenge
(<https://www.synapse.org/Synapse:syn59520082/wiki/628063>). Our PlEC
achieved the top performance based on an independent test set. PlEC can be
used to identify accelerated/decelerated aging of placenta for
understanding placental dysfunction-related conditions, e.g., great
obstetrical syndromes including preeclampsia, fetal growth restriction,
preterm labor, preterm premature rupture of the membranes, late
spontaneous abortion, and placental abruption. Detailed methodologies and
examples are documented in our vignette, available at
<https://herdiantrisufriyana.github.io/rplec/doc/placental_aging_analysis.html>.

%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}