%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  metaGE
%global packver   1.1.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.1.0
Release:          1%{?dist}%{?buildtag}
Summary:          Meta-Analysis for Detecting Genotype x Environment Associations

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


BuildRequires:    R-devel >= 3.0.2
Requires:         R-core >= 3.0.2
BuildArch:        noarch
BuildRequires:    R-CRAN-corrplot 
BuildRequires:    R-CRAN-data.table 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-emdbook 
BuildRequires:    R-CRAN-future 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-CRAN-ggrepel 
BuildRequires:    R-CRAN-gplots 
BuildRequires:    R-graphics 
BuildRequires:    R-grDevices 
BuildRequires:    R-CRAN-ks 
BuildRequires:    R-CRAN-purrr 
BuildRequires:    R-CRAN-qqman 
BuildRequires:    R-CRAN-Rfast 
BuildRequires:    R-stats 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-tibble 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-utils 
BuildRequires:    R-CRAN-viridis 
BuildRequires:    R-CRAN-yarrr 
Requires:         R-CRAN-corrplot 
Requires:         R-CRAN-data.table 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-emdbook 
Requires:         R-CRAN-future 
Requires:         R-CRAN-ggplot2 
Requires:         R-CRAN-ggrepel 
Requires:         R-CRAN-gplots 
Requires:         R-graphics 
Requires:         R-grDevices 
Requires:         R-CRAN-ks 
Requires:         R-CRAN-purrr 
Requires:         R-CRAN-qqman 
Requires:         R-CRAN-Rfast 
Requires:         R-stats 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-tibble 
Requires:         R-CRAN-tidyr 
Requires:         R-utils 
Requires:         R-CRAN-viridis 
Requires:         R-CRAN-yarrr 

%description
Provides functions to perform all steps of genome-wide association
meta-analysis for studying Genotype x Environment interactions, from
collecting the data to the manhattan plot.  The procedure accounts for the
potential correlation between studies. In addition to the Fixed and Random
models, one can investigate the relationship between QTL effects and some
qualitative or quantitative covariate via the test of contrast and the
meta-regression, respectively.  The methodology is available from: (De
Walsche, A., et al. (2023) doi{10.1101/2023.03.01.530237}).

%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}