%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  snpAIMeR
%global packver   2.1.1
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          2.1.1
Release:          1%{?dist}%{?buildtag}
Summary:          Assess the Diagnostic Power of Genomic Marker Combinations

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


BuildRequires:    R-devel >= 2.10
Requires:         R-core >= 2.10
BuildArch:        noarch
BuildRequires:    R-CRAN-adegenet 
BuildRequires:    R-CRAN-doParallel 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-forcats 
BuildRequires:    R-CRAN-foreach 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-graphics 
BuildRequires:    R-CRAN-magrittr 
BuildRequires:    R-parallel 
BuildRequires:    R-CRAN-readr 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-utils 
BuildRequires:    R-CRAN-withr 
BuildRequires:    R-CRAN-yaml 
Requires:         R-CRAN-adegenet 
Requires:         R-CRAN-doParallel 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-forcats 
Requires:         R-CRAN-foreach 
Requires:         R-CRAN-ggplot2 
Requires:         R-graphics 
Requires:         R-CRAN-magrittr 
Requires:         R-parallel 
Requires:         R-CRAN-readr 
Requires:         R-CRAN-tidyr 
Requires:         R-utils 
Requires:         R-CRAN-withr 
Requires:         R-CRAN-yaml 

%description
Population genetics package for designing diagnostic panels. Candidate
markers, marker combinations, and different panel sizes are assessed for
how well they can predict the source population of known samples. Requires
a genotype file of candidate markers in STRUCTURE format. Methods for
population cross-validation are described in Jombart (2008)
<doi:10.1093/bioinformatics/btn129>.

%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}