%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  rpql
%global packver   0.8.1
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.8.1
Release:          1%{?dist}%{?buildtag}
Summary:          Regularized PQL for Joint Selection in GLMMs

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


BuildRequires:    R-devel
Requires:         R-core
BuildRequires:    R-CRAN-gamlss.dist 
BuildRequires:    R-CRAN-lme4 
BuildRequires:    R-CRAN-Matrix 
BuildRequires:    R-CRAN-MASS 
BuildRequires:    R-CRAN-mvtnorm 
BuildRequires:    R-CRAN-Rcpp 
BuildRequires:    R-CRAN-RcppArmadillo 
Requires:         R-CRAN-gamlss.dist 
Requires:         R-CRAN-lme4 
Requires:         R-CRAN-Matrix 
Requires:         R-CRAN-MASS 
Requires:         R-CRAN-mvtnorm 
Requires:         R-CRAN-Rcpp 

%description
Performs joint selection in Generalized Linear Mixed Models (GLMMs) using
penalized likelihood methods. Specifically, the Penalized Quasi-Likelihood
(PQL) is used as a loss function, and penalties are then augmented to
perform simultaneous fixed and random effects selection. Regularized PQL
avoids the need for integration (or approximations such as the Laplace's
method) during the estimation process, and so the full solution path for
model selection can be constructed relatively quickly.

%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}