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#!/usr/bin/env bash
set -ex
#build dynamic by default
build_type=$1
bc=`perl -e '$bt="'$build_type'"; if($bt=~/static/i) { print "megadepth_static"; } else { print "megadepth_dynamic"; }'`
#make sure submodules are present
git submodule update --init --recursive
export SUBMODULE=1
ln -fs CMakeLists.txt.ci CMakeLists.txt
#clear symlink main lib dirs
rm -rf zlib htslib libBigWig libdeflate build-release-temp
if [[ -n $build_type && "$build_type" == "static" ]] ; then
if [[ ! -s zlib_ci/libz.a ]] ; then
if [[ -n $SUBMODULE ]]; then
ln -fs zlib_ci zlib
fi
./get_zlib.sh
if [[ -z $SUBMODULE ]]; then
mv zlib zlib_ci
fi
fi
ln -fs zlib_ci zlib
fi
if [[ ! -s libdeflate_ci/libdeflate.a ]] ; then
if [[ -n $SUBMODULE ]]; then
ln -fs libdeflate_ci libdeflate
fi
./get_libdeflate.sh
if [[ -z $SUBMODULE ]]; then
mv libdeflate libdeflate_ci
fi
fi
ln -fs libdeflate_ci libdeflate
htslib_to_link="htslib_ci"
if [[ -n $build_type && "$build_type" == "static" ]]; then
htslib_to_link="htslib_static"
fi
if [[ ! -s htslib_ci/libhts.so && "$htslib_to_link" != "htslib_static" ]] ||
[[ ! -s htslib_static/libhts.a && "$htslib_to_link" == "htslib_static" ]]; then
export CPPFLAGS="-I../libdeflate"
export LDFLAGS="-L../libdeflate -ldeflate"
if [[ "$htslib_to_link" == "htslib_static" ]]; then
./get_htslib.sh linux static
else
if [[ -n $SUBMODULE ]]; then
ln -fs htslib_ci htslib
fi
./get_htslib.sh linux
if [[ -z $SUBMODULE ]]; then
mv htslib htslib_ci
fi
fi
export CPPFLAGS=
export LDFLAGS=
fi
ln -fs $htslib_to_link htslib
if [[ ! -s libBigWig_ci/libBigWig.so ]] ; then
if [[ -n $SUBMODULE ]]; then
ln -fs libBigWig_ci libBigWig
fi
./get_libBigWig.sh
if [[ -z $SUBMODULE ]]; then
mv libBigWig libBigWig_ci
fi
pushd libBigWig_ci
make clean
make -f Makefile.orig lib-shared
popd
fi
ln -fs libBigWig_ci libBigWig
#compile a no-curl static version of libBigWig
if [[ $bc == 'megadepth_static' ]]; then
pushd libBigWig
make clean
make -f Makefile.nocurl lib-static
popd
fi
export LD_LIBRARY_PATH=./htslib:./libBigWig:$LD_LIBRARY_PATH
DR=build-release-temp
mkdir -p ${DR}
pushd ${DR}
cmake -DCMAKE_BUILD_TYPE=Release ..
make ${bc}
popd
cp ${DR}/${bc} ./megadepth_release
./megadepth --version
rm -rf ${DR}
DR=build-debug-temp
mkdir -p ${DR}
pushd ${DR}
cmake -DCMAKE_BUILD_TYPE=Debug ..
make ${bc}
popd
cp ${DR}/${bc} ./megadepth_debug
./megadepthd --version
rm -rf ${DR}
|
