%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  rYWAASB
%global packver   0.2
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.2
Release:          1%{?dist}%{?buildtag}
Summary:          Simultaneous Selection by Trait and WAASB Index

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


BuildRequires:    R-devel >= 3.5
Requires:         R-core >= 3.5
BuildArch:        noarch
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-graphics 
BuildRequires:    R-CRAN-factoextra 
BuildRequires:    R-CRAN-FactoMineR 
BuildRequires:    R-CRAN-lifecycle 
BuildRequires:    R-CRAN-mathjaxr 
Requires:         R-CRAN-ggplot2 
Requires:         R-graphics 
Requires:         R-CRAN-factoextra 
Requires:         R-CRAN-FactoMineR 
Requires:         R-CRAN-lifecycle 
Requires:         R-CRAN-mathjaxr 

%description
This tool proposes a new ranking algorithm that utilizes a "Y*WAASB"
biplot generated by the 'metan'. The aim of the current package is to
effectively distinguish the top-ranked genotypes in MET
(Multi-Environmental Trials). For a detailed explanation of the process of
obtaining "WAASB", "WAASBY" indices, and a "Y*WAASB" biplot, refer to the
manual included in this package as well as the study by Olivoto & Lúcio
(2020) <doi:10.1111/2041-210X.13384>. In this context, "WAASB" refers to
the "Weighted Average of Absolute Scores" provided by Olivoto et al.
(2019) <doi:10.2134/agronj2019.03.0220>, which quantifies the stability of
genotypes across different environments using linear mixed-effect models.
To run the package, you need to extract the "WAASB" and "WAASBY"
coefficients using the 'metan' and apply them. This tool utilizes PCA
(Principal Component Analysis) and differentiates the entries which may be
genotypes, hybrids, varieties, etc using "WAASB", "WAASBY", and a
combination of the specified trait and WAASB index.

%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}