%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  ProbBreed
%global packver   1.0.3.2
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.0.3.2
Release:          1%{?dist}%{?buildtag}
Summary:          Probability Theory for Selecting Candidates in Plant Breeding

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


BuildRequires:    R-devel >= 3.5.0
Requires:         R-core >= 3.5.0
BuildArch:        noarch
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-CRAN-rstan 
BuildRequires:    R-CRAN-rlang 
BuildRequires:    R-CRAN-lifecycle 
BuildRequires:    R-CRAN-rstantools
Requires:         R-CRAN-ggplot2 
Requires:         R-CRAN-rstan 
Requires:         R-CRAN-rlang 
Requires:         R-CRAN-lifecycle 
Requires:         R-CRAN-rstantools

%description
Use probability theory under the Bayesian framework for calculating the
risk of selecting candidates in a multi-environment context [Dias et al.
(2022) <doi:10.1007/s00122-022-04041-y>]. Contained are functions used to
fit a Bayesian multi-environment model (based on the available presets),
extract posterior values and maximum posterior values, compute the
variance components, check the model’s convergence, and calculate the
probabilities. For both across and within-environments scopes, the package
computes the probability of superior performance and the pairwise
probability of superior performance. Furthermore, the probability of
superior stability and the pairwise probability of superior stability
across environments is estimated. A joint probability of superior
performance and stability is also provided.

%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}