%global __brp_check_rpaths %{nil}
%global packname  RareComb
%global packver   1.1
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.1
Release:          1%{?dist}%{?buildtag}
Summary:          Combinatorial and Statistical Analyses of Rare Events

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-magrittr 
BuildRequires:    R-CRAN-arules 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-methods 
BuildRequires:    R-CRAN-pwr 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-CRAN-reshape2 
BuildRequires:    R-CRAN-sqldf 
Requires:         R-CRAN-magrittr 
Requires:         R-CRAN-arules 
Requires:         R-CRAN-dplyr 
Requires:         R-methods 
Requires:         R-CRAN-pwr 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-tidyr 
Requires:         R-CRAN-reshape2 
Requires:         R-CRAN-sqldf 

%description
A custom implementation of the apriori algorithm and binomial tests to
identify combinations of features (genes, variants etc) significantly
enriched for simultaneous mutations/events from sparse Boolean input, see
Vijay Kumar Pounraja, Santhosh Girirajan (2021). Version 1.1 includes a
minor adjustment to the number of combinations to be considered for
multiple testing correction. This updated version is more conservative in
its approach and hence more selective. <doi:10.1101/2021.10.01.462832>.

%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}