Create a directory for the methylFlow project. Once there do
git co https://github.com/hcorrada/methylFlow_analyses.git exps
mkdir src && cd src
git co https://github.com/hcorrada/methylFlow.gitSet the location of the parent directory and install directories variables (starting from project directory)
cd exps
source setup.shpushd ${MF_PROJECT_ROOT}/src/methylFlow
mkdir build && cd build
cmake -DCMAKE_INSTALL_PREFIX=${MF_INSTALL_DIR} ..
make
make install
popdpushd ${MF_PROJECT_ROOT}/exps/simulations
mkdir build && cd build
cmake -DMF_INSTALL_DIR=${MF_INSTALL_DIR} -DCMAKE_INSTALL_PREFIX=${MF_INSTALL_DIR} ..
make
make install
popdAt this point, the layout should be
parent_dir | exps (this will contain this repository) | src (this will contain the source repo) | install (this is where all binaries, libraries and headers were installed)
# the methylFlow executable
${MF_INSTALL_DIR}/bin/methylFlow
# the simulator
${MF_INSTALL_DIR}/bin/mfSimulate
## the evaluation programs
${MF_INSTALL_DIR}/bin/mfEvaluation
${MF_INSTALL_DIR}/bin/avgEvaluationpushd ${MF_PROJECT_ROOT}/exps/bscapture
sh run_cpgmf.sh 2>&1 >/dev/null
popd