Add CSV Writer output plugin #713
Workflow file for this run
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| name: C/C++ CI for ls1 | |
| on: | |
| push: | |
| # pushes to master | |
| branches: [ master ] | |
| pull_request: | |
| # PRs to master | |
| branches: [ master ] | |
| # abort old runs if a new one is started | |
| concurrency: | |
| group: ${{ github.head_ref }}-tests | |
| cancel-in-progress: true | |
| jobs: | |
| ci-matrix: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| # do not cancel all other workflow runs if one fails | |
| fail-fast: false | |
| matrix: | |
| vector: ['SSE', 'NONE', 'AVX', 'AVX2'] | |
| target: ['Debug', 'Release'] | |
| parall: ['SEQ', 'PAR'] | |
| cc: ['gcc', 'clang'] | |
| cxx: ['g++', 'clang++'] | |
| autopas: ['ON', 'OFF'] | |
| procs: ['1', '4', '8'] #TODO: >= 27 ranks case, to have non-border rank | |
| openmp: ['ON', 'OFF'] | |
| exclude: | |
| # exclude incompatible compiler pairs | |
| - cc: 'gcc' | |
| cxx: 'clang++' | |
| - cc: 'clang' | |
| cxx: 'g++' | |
| # exclude legacy configurations | |
| - vector: 'SSE' | |
| - vector: 'AVX' | |
| - openmp: 'OFF' | |
| # exclude SEQ & np > 1, exclude PAR & np = 1 | |
| - parall: 'PAR' | |
| procs: '1' | |
| - parall: 'SEQ' | |
| procs: '4' | |
| - parall: 'SEQ' | |
| procs: '8' | |
| env: | |
| JOBNAME: ${{ join(matrix.*, '-') }} | |
| name: ${{ matrix.vector }}-${{ matrix.target }}-${{ matrix.parall }}-${{ matrix.cc }}-AutoPas=${{ matrix.autopas }}-Ranks=${{ matrix.procs }}-OMP=${{ matrix.openmp }} | |
| steps: | |
| # setup github actions runner node | |
| - uses: actions/checkout@v4 | |
| - name: Setup | |
| run: | | |
| sudo apt-get update | |
| # MPICH 4.0.3 seems to have a bug that triggers a FP exception in our collective communication when doing 0+0. | |
| sudo apt-get install -y \ | |
| uuid-dev \ | |
| libcppunit-dev \ | |
| libopenmpi-dev \ | |
| libomp-dev \ | |
| libxerces-c-dev | |
| echo "Running ${JOBNAME}" | |
| git status | |
| mkdir build_${JOBNAME} | |
| # build testing & unit testing | |
| - name: Build and Unit Test | |
| run: | | |
| cd build_${JOBNAME} | |
| #translate matrix to ON/OFF for certain entries | |
| if [[ ${{ matrix.parall }} == 'PAR' ]] | |
| then | |
| mpi_enabled='ON' | |
| else | |
| mpi_enabled='OFF' | |
| fi | |
| if [[ ${{ matrix.parall }} == 'PAR' ]] && [[ ${{ matrix.autopas }} == 'ON' ]] | |
| then | |
| alllbl_enabled='ON' | |
| else | |
| alllbl_enabled='OFF' | |
| fi | |
| cmake -DVECTOR_INSTRUCTIONS=${{ matrix.vector }} \ | |
| -DCMAKE_BUILD_TYPE=${{ matrix.target }} \ | |
| -DENABLE_AUTOPAS=${{ matrix.autopas }} \ | |
| -DAUTOPAS_ENABLE_RULES_BASED_AND_FUZZY_TUNING=ON \ | |
| -DENABLE_ALLLBL=$alllbl_enabled \ | |
| -DOPENMP=${{ matrix.openmp }} \ | |
| -DENABLE_MPI=$mpi_enabled \ | |
| -DENABLE_UNIT_TESTS=ON \ | |
| -DENABLE_VTK=ON \ | |
| .. | |
| cmake --build . --parallel 1 | |
| cd .. | |
| if [[ ${{ matrix.parall }} == 'PAR' ]] | |
| then | |
| # when using OpenMPI --oversubscribe is needed. Remove it if you switch to MPICH. | |
| mpirun --oversubscribe -np ${{ matrix.procs }} ./build_${JOBNAME}/src/MarDyn -t -d ./test_input/ | |
| else | |
| ./build_${JOBNAME}/src/MarDyn -t -d ./test_input/ | |
| fi | |
| env: | |
| CC: ${{ matrix.cc }} | |
| CXX: ${{ matrix.cxx }} | |
| OMP_NUM_THREADS: 2 | |
| # validation testing | |
| - if: ${{ matrix.parall == 'PAR' }} | |
| name: Validation | |
| run: | | |
| #save absolute path to root of ls1 directory | |
| repoPath=$PWD | |
| examplesFile="branchExamples_${JOBNAME}.txt" | |
| # choose and save examples (so that this commit and master execute the same list) | |
| if [[ ${{ matrix.autopas }} == 'ON' ]] | |
| then | |
| cp ./examples/example-list_autopas.txt "${examplesFile}" | |
| else | |
| cp ./examples/example-list.txt "${examplesFile}" | |
| fi | |
| #translate matrix to ON/OFF for certain entries | |
| if [[ ${{ matrix.parall }} == 'PAR' ]] | |
| then | |
| mpi_enabled='ON' | |
| else | |
| mpi_enabled='OFF' | |
| fi | |
| if [[ ${{ matrix.parall }} == 'PAR' ]] && [[ ${{ matrix.autopas }} == 'ON' ]] | |
| then | |
| alllbl_enabled='ON' | |
| else | |
| alllbl_enabled='OFF' | |
| fi | |
| #build master branch equivalent to compare new build to | |
| mkdir build_${JOBNAME}_master | |
| git fetch | |
| git checkout master | |
| git status | |
| cd build_${JOBNAME}_master | |
| #note: ALLLBL is enabled if AutoPas is enabled. | |
| cmake -DVECTOR_INSTRUCTIONS=${{ matrix.vector }} \ | |
| -DCMAKE_BUILD_TYPE=${{ matrix.target }} \ | |
| -DENABLE_AUTOPAS=${{ matrix.autopas }} \ | |
| -DAUTOPAS_ENABLE_RULES_BASED_AND_FUZZY_TUNING=ON \ | |
| -DENABLE_ALLLBL=$alllbl_enabled \ | |
| -DOPENMP=${{ matrix.openmp }} \ | |
| -DENABLE_MPI=$mpi_enabled \ | |
| -DENABLE_VTK=ON \ | |
| .. | |
| cmake --build . --parallel 1 | |
| #as example list of new version is used, also the example files of new version should be used | |
| #therefore, go back to new version | |
| git checkout - | |
| cd "${repoPath}" | |
| #set strict pipefail option | |
| set -eo pipefail | |
| # execute all examples. These calls create artifacts which we will then compare | |
| IFS=$'\n' | |
| for i in $(cat "${repoPath}/${examplesFile}" ) | |
| do | |
| # skip if comment or empty line | |
| if [[ $i == \#* || -z "$i" ]] | |
| then | |
| continue | |
| fi | |
| echo $i | |
| cd $repoPath/examples/$(dirname $i) | |
| # patch input files according to current conf | |
| cp $(basename $i) input_patched.xml | |
| # if AutoPas is enabled, replace all occurrences of LinkedCell in the examples' config files with AutoPas | |
| if [[ ${{ matrix.autopas }} == 'ON' ]] | |
| then | |
| sed --in-place 's/LinkedCells/AutoPas/g' input_patched.xml | |
| fi | |
| # if AutoPas is enabled and no vectorization is used, the AVX functor of Autopas has to be disabled | |
| if [[ ${{ matrix.vector }} == 'NONE' ]] | |
| then | |
| sed --in-place 's|AutoPas">|AutoPas">\n\t<functor>autoVec</functor>|g' input_patched.xml | |
| fi | |
| # run the example with the old and new exe | |
| for VERSION in "master" "new" | |
| do | |
| if [[ "${VERSION}" == "master" ]] | |
| then | |
| printf " Running master... " | |
| EXE=$repoPath/build_${JOBNAME}_master/src/MarDyn | |
| else | |
| printf " Running new version... " | |
| EXE=$repoPath/build_${JOBNAME}/src/MarDyn | |
| fi | |
| # when using OpenMPI --oversubscribe is needed. Remove it if you switch to MPICH. | |
| mpirun --oversubscribe -np ${{ matrix.procs }} ${EXE} input_patched.xml --steps=20 \ | |
| | tee "output_${{ join(matrix.*, '-') }}" \ | |
| | awk '/Simstep = /{ print $7 " " $10 " " $13 " " $16 }' > ${repoPath}/output_${VERSION} \ | |
| || (exitCode=$?; cat "output_${{ join(matrix.*, '-') }}"; (exit $exitCode)) | |
| printf "Done\n" | |
| done | |
| # compare the two runs | |
| diff ${repoPath}/output_new ${repoPath}/output_master | |
| done | |
| env: | |
| CC: ${{ matrix.cc }} | |
| CXX: ${{ matrix.cxx }} | |
| OMP_NUM_THREADS: 2 |