%global __brp_check_rpaths %{nil}
%global packname  chicane
%global packver   0.1.8
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.1.8
Release:          1%{?dist}%{?buildtag}
Summary:          Capture Hi-C Analysis Engine

License:          GPL-2
URL:              https://cran.r-project.org/package=%{packname}
Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz


BuildRequires:    R-devel >= 3.5.0
Requires:         R-core >= 3.5.0
BuildArch:        noarch
BuildRequires:    R-CRAN-gamlss.tr 
BuildRequires:    R-CRAN-gamlss 
BuildRequires:    R-CRAN-data.table 
BuildRequires:    R-CRAN-MASS 
BuildRequires:    R-stats 
BuildRequires:    R-CRAN-foreach 
BuildRequires:    R-CRAN-doParallel 
BuildRequires:    R-CRAN-iterators 
BuildRequires:    R-CRAN-bedr 
BuildRequires:    R-CRAN-knitr 
BuildRequires:    R-CRAN-rmarkdown 
Requires:         R-CRAN-gamlss.tr 
Requires:         R-CRAN-gamlss 
Requires:         R-CRAN-data.table 
Requires:         R-CRAN-MASS 
Requires:         R-stats 
Requires:         R-CRAN-foreach 
Requires:         R-CRAN-doParallel 
Requires:         R-CRAN-iterators 
Requires:         R-CRAN-bedr 
Requires:         R-CRAN-knitr 
Requires:         R-CRAN-rmarkdown 

%description
Toolkit for processing and calling interactions in capture Hi-C data.
Converts BAM files into counts of reads linking restriction fragments, and
identifies pairs of fragments that interact more than expected by chance.
Significant interactions are identified by comparing the observed read
count to the expected background rate from a count regression model.

%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}