%global __brp_check_rpaths %{nil}
%global packname  rehh
%global packver   3.2.2
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          3.2.2
Release:          1%{?dist}%{?buildtag}
Summary:          Searching for Footprints of Selection using 'Extended Haplotype Homozygosity' Based Tests

License:          GPL (>= 2)
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
BuildRequires:    R-methods 
BuildRequires:    R-CRAN-rehh.data 
Requires:         R-methods 
Requires:         R-CRAN-rehh.data 

%description
Population genetic data such as 'Single Nucleotide Polymorphisms' (SNPs)
is often used to identify genomic regions that have been under recent
natural or artificial selection and might provide clues about the
molecular mechanisms of adaptation. One approach, the concept of an
'Extended Haplotype Homozygosity' (EHH), introduced by (Sabeti 2002)
<doi:10.1038/nature01140>, has given rise to several statistics designed
for whole genome scans. The package provides functions to compute three of
these, namely: 'iHS' (Voight 2006) <doi:10.1371/journal.pbio.0040072> for
detecting positive or 'Darwinian' selection within a single population as
well as 'Rsb' (Tang 2007) <doi:10.1371/journal.pbio.0050171> and 'XP-EHH'
(Sabeti 2007) <doi:10.1038/nature06250>, targeted at differential
selection between two populations. Various plotting functions are included
to facilitate visualization and interpretation of these statistics.

%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}