set -e 

## not sure how to override
if [ -e ~/.R/Makevars ]
then
    mv ~/.R/Makevars ~/.R/Makevars.ORIGINAL 
fi

printenv
R --version

dir=`mktemp`
rm ${dir}
mkdir -p ${dir}
cd ${dir}

git clone --recursive https://github.com/rwdavies/STITCH.git
cd STITCH
./scripts/install-dependencies.sh
./scripts/install-xz.sh
mkdir -p ~/.R
echo "CPPFLAGS += -I`pwd`/install/include" > ~/.R/Makevars
echo "LDFLAGS += -L`pwd`/install/lib" >> ~/.R/Makevars
export LD_LIBRARY_PATH=`pwd`/install/lib/:${LD_LIBRARY_PATH}
printenv
R CMD INSTALL ./releases/STITCH_1.5.3.tar.gz