feat: Parallelization using MPI #242
Workflow file for this run
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| name: samurai CI | |
| on: [pull_request] | |
| jobs: | |
| # | |
| # Check samurai with pre-commit | |
| # | |
| ######################################################### | |
| pre-commit: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v3 | |
| - uses: pre-commit/action@v3.0.0 | |
| # | |
| # Check samurai with cppcheck | |
| # | |
| ######################################################### | |
| cppcheck: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| ~/.cache/ccache | |
| ~/micromamba/envs/samurai-env | |
| key: cppcheck | |
| - name: Mamba and samurai env installation | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: conda/environment.yml | |
| environment-name: samurai-env | |
| cache-environment: true | |
| - name: cppcheck installation | |
| shell: bash -el {0} | |
| run: | | |
| conda install -y cppcheck cxx-compiler | |
| - name: Configure | |
| shell: bash -el {0} | |
| run: | | |
| cmake . -Bbuild -DCMAKE_EXPORT_COMPILE_COMMANDS=ON -DCMAKE_BUILD_TYPE=Debug -DBUILD_DEMOS=ON | |
| - name: Run cppcheck on samurai | |
| shell: bash -el {0} | |
| run: | | |
| cppcheck --enable=all -q --project=./build/compile_commands.json --suppressions-list=.cppcheck --inline-suppr 2> cppcheck_err.txt | |
| - name: Check for errors | |
| run: | | |
| if [[ -s cppcheck_err.txt ]]; | |
| then | |
| cat cppcheck_err.txt | |
| exit -1 | |
| fi | |
| # | |
| # Check linux build with mamba environment | |
| # | |
| ######################################################### | |
| linux-mamba: | |
| needs: [pre-commit, cppcheck] | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: true | |
| matrix: | |
| include: | |
| - cpp-version: gcc-9 | |
| compiler: "gcc" | |
| package: "gcc-9 g++-9" | |
| cc: "gcc-9" | |
| cxx: "g++-9" | |
| - cpp-version: gcc-10 | |
| compiler: "gcc" | |
| package: "gcc-10 g++-10" | |
| cc: "gcc-10" | |
| cxx: "g++-10" | |
| - cpp-version: gcc-11 | |
| compiler: "gcc" | |
| package: "gcc-11 g++-11" | |
| cc: "gcc-11" | |
| cxx: "g++-11" | |
| - cpp-version: gcc-12 | |
| compiler: "gcc" | |
| package: "gcc-12 g++-12" | |
| cc: "gcc-12" | |
| cxx: "g++-12" | |
| - cpp-version: clang-11 | |
| compiler: "clang" | |
| package: "clang-11" | |
| cc: "clang-11" | |
| cxx: "clang++-11" | |
| - cpp-version: clang-12 | |
| compiler: "clang" | |
| package: "clang-12" | |
| cc: "clang-12" | |
| cxx: "clang++-12" | |
| - cpp-version: clang-13 | |
| compiler: "clang" | |
| package: "clang-13" | |
| cc: "clang-13" | |
| cxx: "clang++-13" | |
| - cpp-version: clang-14 | |
| compiler: "clang" | |
| package: "clang-14" | |
| cc: "clang-14" | |
| cxx: "clang++-14" | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| ~/.cache/ccache | |
| ~/micromamba-root/envs/samurai-env | |
| key: linux-${{ matrix.cpp-version }} | |
| restore-keys: | | |
| linux-${{ matrix.cpp-version }} | |
| - name: Compiler and dev tools installation | |
| run: | | |
| sudo apt update | |
| sudo apt install ${{ matrix.package }} | |
| # - name: Information about ccache | |
| # run: | | |
| # ccache -s -v | |
| - name: Mamba and samurai env installation | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: conda/environment.yml | |
| environment-name: samurai-env | |
| cache-environment: true | |
| - name: Petsc installation | |
| shell: bash -l {0} | |
| run: | | |
| conda install -y petsc pkg-config | |
| - name: Conda informations | |
| shell: bash -l {0} | |
| run: | | |
| conda info | |
| conda list | |
| - name: Clone HighFive | |
| uses: actions/checkout@v3 | |
| with: | |
| repository: BlueBrain/HighFive | |
| ref: v2.7.1 | |
| path: highfive | |
| - name: Configure HighFive | |
| shell: bash -l {0} | |
| run: | | |
| CC=${{ matrix.cc }} CXX=${{ matrix.cxx }} cmake \ | |
| highfive \ | |
| -Bhighfive/build \ | |
| -GNinja \ | |
| -DCMAKE_BUILD_TYPE=Release \ | |
| -DCMAKE_INSTALL_PREFIX=$CONDA_PREFIX | |
| - name: Install HighFive | |
| shell: bash -l {0} | |
| run: | | |
| cmake --build highfive/build --target install | |
| - name: Configure | |
| shell: bash -l {0} | |
| run: | | |
| export LDFLAGS="${LDFLAGS} -L$CONDA_PREFIX/lib" | |
| CC=${{ matrix.cc }} CXX=${{ matrix.cxx }} cmake \ | |
| . \ | |
| -Bbuild \ | |
| -GNinja \ | |
| -DCMAKE_BUILD_TYPE=Release \ | |
| -DBUILD_DEMOS=ON \ | |
| -DBUILD_TESTS=ON | |
| - name: Build | |
| shell: bash -l {0} | |
| run: | | |
| cmake --build build --target all | |
| - name: Test with googletest | |
| shell: bash -l {0} | |
| run: | | |
| export LD_LIBRARY_PATH="$CONDA_PREFIX/lib:$LD_LIBRARY_PATH" | |
| cd build | |
| ./test/test_samurai_lib | |
| - name: Test with pytest | |
| shell: bash -l {0} | |
| run: | | |
| export LD_LIBRARY_PATH="$CONDA_PREFIX/lib:$LD_LIBRARY_PATH" | |
| cd test | |
| pytest -v -s --h5diff | |
| macos-mamba: | |
| needs: [pre-commit, cppcheck] | |
| runs-on: macos-12 | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Mamba and samurai env installation | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: conda/environment.yml | |
| environment-name: samurai-env | |
| cache-environment: true | |
| # - name: Petsc installation | |
| # shell: bash -l {0} | |
| # run: | | |
| # micromamba install -y petsc=3.18 pkg-config | |
| - name: Installl cxx compiler | |
| shell: bash -l {0} | |
| run: | | |
| micromamba install -y cxx-compiler | |
| - name: micromamba informations | |
| shell: bash -l {0} | |
| run: | | |
| micromamba info | |
| micromamba list | |
| - name: Clone HighFive | |
| uses: actions/checkout@v3 | |
| with: | |
| repository: BlueBrain/HighFive | |
| ref: v2.7.1 | |
| path: highfive | |
| - name: Configure HighFive | |
| shell: bash -l {0} | |
| run: | | |
| CC=${{ matrix.cc }} CXX=${{ matrix.cxx }} cmake \ | |
| highfive \ | |
| -Bhighfive/build \ | |
| -GNinja \ | |
| -DCMAKE_BUILD_TYPE=Release \ | |
| -DCMAKE_INSTALL_PREFIX=$CONDA_PREFIX | |
| - name: Install HighFive | |
| shell: bash -l {0} | |
| run: | | |
| cmake --build highfive/build --target install | |
| - name: Configure | |
| shell: bash -l {0} | |
| run: | | |
| cmake \ | |
| . \ | |
| -Bbuild \ | |
| -GNinja \ | |
| -DCMAKE_BUILD_TYPE=Release \ | |
| -DBUILD_DEMOS=ON \ | |
| -DBUILD_TESTS=ON | |
| - name: Build | |
| shell: bash -l {0} | |
| run: | | |
| cmake --build ./build --config Release | |
| - name: Run tests | |
| shell: bash -l {0} | |
| run: | | |
| ./build/test/test_samurai_lib | |
| cd test; pytest --h5diff |