Update valgrind.supp #1280
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| # This is a basic workflow to help you get started with Actions | |
| name: CI | |
| # Controls when the action will run. Triggers the workflow on push or pull request events | |
| on: | |
| push: | |
| branches: | |
| - '**' | |
| pull_request: | |
| branches: | |
| - '**' | |
| workflow_dispatch: | |
| inputs: | |
| debug_enabled: | |
| description: 'Run the build with tmate debugging enabled (https://github.com/marketplace/actions/debugging-with-tmate)' | |
| required: false | |
| default: false | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| jobs: | |
| # Build for posix systems | |
| posix: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| platform: [ ubuntu-latest, macos-latest ] | |
| mpilib: [null, mpich, openmpi] | |
| plugins: [OFF, ON] | |
| exclude: | |
| - platform: macos-latest | |
| mpilib: openmpi | |
| # The type of runner that the job will run on | |
| runs-on: ${{ matrix.platform }} | |
| env: | |
| OMPI_MCA_btl_base_warn_component_unused: "0" | |
| CODECOV_TOKEN: "99465b5f-26b4-4487-8355-fbcac5249a05" | |
| # Steps represent a sequence of tasks that will be executed as part of the job | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - uses: actions/checkout@v2 | |
| - name: Create source file with all required environment variables | |
| run: | | |
| # Create a source file that will contain environment variables used in additional steps | |
| # Environment variabls are not normally preserved between steps, so the source file is necessary | |
| touch env.source | |
| # Set MDI_TESTS, which defines which tests will be performed for this job | |
| export MDI_TESTS_TEMP="" | |
| [ "${{ matrix.mpilib }}" == "" ] && export MDI_TESTS_TEMP="not mpi" | |
| [ "${{ matrix.mpilib }}" != "" ] && [ "${{ matrix.platform }}" == "macos-latest" ] && export MDI_TESTS_TEMP="not mpi and not py_plug and not py_cxx_plug" | |
| # Ensure that plugins tests are not run if plugins are not enabled | |
| [ "${{ matrix.plugins }}" == "OFF" ] && [ "${MDI_TESTS_TEMP}" == "" ] && export MDI_TESTS_TEMP="not plug" | |
| [ "${{ matrix.plugins }}" == "OFF" ] && [ "${MDI_TESTS_TEMP}" != "" ] && export MDI_TESTS_TEMP="${MDI_TESTS_TEMP} and not plug" | |
| echo "export MDI_TESTS=\"${MDI_TESTS_TEMP}\"" >> env.source | |
| cat env.source | |
| # Only custom build python on ubuntu | |
| # On Mac, just use the prebuilt package | |
| #- uses: actions/setup-python@v2 | |
| # if: matrix.platform == 'ubuntu-latest' | |
| # with: | |
| # python-version: '3.7' | |
| - name: Install dependencies (ubuntu) | |
| if: matrix.platform == 'ubuntu-latest' | |
| run: | | |
| source env.source | |
| sudo apt-get clean | |
| sudo apt-get update | |
| sudo apt-get install gfortran | |
| sudo apt-get install valgrind | |
| sudo apt-get install libsqlite3-dev | |
| # Custom build Python with Valgrind compatibility | |
| git clone https://github.com/python/cpython.git | |
| cd cpython | |
| git checkout v3.12.8 | |
| ./configure --with-pydebug --without-pymalloc --enable-shared --prefix /opt/debugpython | |
| make OPT=-g | |
| make install | |
| cd .. | |
| - name: Install dependencies (ubuntu, MPICH) | |
| if: ${{ matrix.platform == 'ubuntu-latest' && matrix.mpilib == 'mpich' }} | |
| run: | | |
| echo 'export PATH="${PATH}:/usr/mpich/bin"' >> env.source | |
| echo 'export LD_LIBRARY_PATH="${LD_LIBRARY_PATH}:/usr/mpich/lib"' >> env.source | |
| source env.source | |
| wget https://github.com/pmodels/mpich/releases/download/v3.4.2/mpich-3.4.2.tar.gz | |
| tar -xvf ./mpich-3.4.2.tar.gz | |
| cd mpich-3.4.2 | |
| ./configure --prefix="/usr/mpich" --with-device=ch4:ofi --enable-g=dbg,meminit CPPFLAGS='-I/usr/include/valgrind' FFLAGS='-fallow-argument-mismatch' | |
| make -j 2 | |
| sudo make install | |
| - name: Install dependencies (ubuntu, OpenMPI) | |
| if: ${{ matrix.platform == 'ubuntu-latest' && matrix.mpilib == 'openmpi' }} | |
| run: | | |
| echo 'export PATH="${PATH}:/usr/openmpi/bin"' >> env.source | |
| echo 'export LD_LIBRARY_PATH="${LD_LIBRARY_PATH}:/usr/openmpi/lib"' >> env.source | |
| echo 'export OMPI_MCA_rmaps_base_oversubscribe=1' >> env.source | |
| source env.source | |
| wget https://download.open-mpi.org/release/open-mpi/v4.0/openmpi-4.0.2.tar.gz | |
| tar -xvf ./openmpi-4.0.2.tar.gz | |
| cd openmpi-4.0.2 | |
| ./configure --prefix="/usr/openmpi" --enable-debug --enable-memchecker --with-valgrind=/usr | |
| make -j 2 | |
| sudo make install | |
| - name: Install Python dependencies (ubuntu) | |
| if: matrix.platform == 'ubuntu-latest' | |
| run: | | |
| source env.source | |
| sudo apt-get install python3-dev | |
| sudo apt-get install libpython3.12-dev | |
| python -m pip install --upgrade pip | |
| [ ! "${{ matrix.mpilib }}" == "" ] && python -m pip install mpi4py | |
| python -m pip install numpy | |
| python -m pip install -U pytest pytest-cov | |
| - name: Install Python dependencies for custom-built Python (ubuntu) | |
| if: matrix.platform == 'ubuntu-latest' | |
| run: | | |
| echo 'export LD_LIBRARY_PATH="${LD_LIBRARY_PATH}:/opt/debugpython/lib"' >> env.source | |
| source env.source | |
| which python3 | |
| python3 --version | |
| /opt/debugpython/bin/python3 --version | |
| /opt/debugpython/bin/python3 -m pip install --upgrade pip | |
| [ ! "${{ matrix.mpilib }}" == "" ] && /opt/debugpython/bin/python3 -m pip install mpi4py | |
| /opt/debugpython/bin/python3 -m pip install numpy | |
| /opt/debugpython/bin/python3 -m pip install -U pytest pytest-cov | |
| - name: Update Brew (MacOS) | |
| if: matrix.platform == 'macos-latest' | |
| run: | | |
| source env.source | |
| brew update > /dev/null | |
| - name: Install GCC (MacOS) | |
| if: matrix.platform == 'macos-latest' | |
| run: | | |
| source env.source | |
| brew uninstall --ignore-dependencies gcc || true | |
| brew install gcc || brew link --overwrite [email protected] | |
| - name: Install MPICH (MacOS) | |
| if: matrix.platform == 'macos-latest' && matrix.mpilib == 'mpich' | |
| run: | | |
| source env.source | |
| brew install mpich | |
| - name: Install OpenMPI (MacOS) | |
| if: matrix.platform == 'macos-latest' && matrix.mpilib == 'openmpi' | |
| run: | | |
| source env.source | |
| brew install open-mpi@4 | |
| echo 'export OMPI_MCA_rmaps_base_oversubscribe=1' >> env.source | |
| : # OpenMPI needs access to a temporary directory | |
| mkdir -p ~/tempdir_${{ github.run_id }} | |
| echo "export TMPDIR=~/tempdir_${{ github.run_id }}" >> env.source | |
| echo 'ulimit -n 4096' >> env.source | |
| - name: Create and activate a virtual environment (MacOS) | |
| if: matrix.platform == 'macos-latest' | |
| run: | | |
| python3 -m venv venv | |
| cat venv/bin/activate >> env.source | |
| source env.source | |
| - name: Install Pip dependencies (MacOS) | |
| if: matrix.platform == 'macos-latest' | |
| run: | | |
| source env.source | |
| source venv/bin/activate | |
| python3 -m pip install --upgrade pip | |
| [ ! "${{ matrix.mpilib }}" == "" ] && python3 -m pip install mpi4py | |
| python3 -m pip install numpy | |
| python3 -m pip install -U pytest pytest-cov | |
| - name: Install MDI Library Python package | |
| run: | | |
| source env.source | |
| mkdir python_build | |
| cd python_build | |
| cmake -Dpython_package=ON -Dlanguage=Python .. | |
| make VERBOSE=1 | |
| sudo make install | |
| cd .. | |
| - name: Install local build | |
| run: | | |
| source env.source | |
| [ "${{ matrix.platform }}" == "macos-latest" ] && python3-config --include | |
| mkdir build | |
| cd build | |
| export FC=gfortran | |
| export CMAKE_COVERAGE_FLAGS="" | |
| [ "${{ matrix.platform }}" == "ubuntu-latest" ] && export CMAKE_COVERAGE_FLAGS="-O0 -coverage" | |
| cmake -Dtest_codes=ON -Dplugins=${{ matrix.plugins }} -DCMAKE_INSTALL_PREFIX=./install -DCMAKE_C_FLAGS="$CMAKE_COVERAGE_FLAGS" -DCMAKE_CXX_FLAGS="$CMAKE_COVERAGE_FLAGS" -DCMAKE_Fortran_FLAGS="$CMAKE_COVERAGE_FLAGS" .. | |
| make VERBOSE=1 | |
| make install | |
| ls | |
| ls MDI_Library | |
| # Enable tmate debugging of manually-triggered workflows if the input option was provided | |
| - name: Setup tmate session | |
| uses: mxschmitt/action-tmate@v3 | |
| if: ${{ github.event_name == 'workflow_dispatch' && inputs.debug_enabled }} | |
| - name: Run test scripts | |
| run: | | |
| source env.source | |
| cd tests | |
| pytest -vv --cov-report=xml --cov=MDI_Library -k "${MDI_TESTS}" | |
| - name: Get code coverage report | |
| run: | | |
| source env.source | |
| cd tests | |
| ls -a -l | |
| ls -a -l ../build/MDI_Library/CMakeFiles/mdi.dir | |
| bash <(curl -s https://codecov.io/bash) | |
| - name: Install local valgrind build | |
| if: ${{ matrix.platform == 'ubuntu-latest' }} | |
| run: | | |
| source env.source | |
| rm -rf build | |
| mkdir build | |
| cd build | |
| export FC=gfortran | |
| cmake -Dtest_codes=ON -DPython_FIND_STRATEGY=LOCATION -DPython_ROOT_DIR=/opt/debugpython -DCMAKE_BUILD_TYPE=Debug .. | |
| make VERBOSE=1 | |
| cd .. | |
| mkdir build2 | |
| cd build2 | |
| cmake -Dtest_codes=ON -DPython_FIND_STRATEGY=LOCATION -DPython_ROOT_DIR=/opt/debugpython -DCMAKE_BUILD_TYPE=Debug -Dtest_engines=OFF -Dlibtype=STATIC .. | |
| make VERBOSE=1 | |
| - name: Run valgrind tests | |
| if: ${{ matrix.platform == 'ubuntu-latest' }} | |
| run: | | |
| source env.source | |
| cat env.source | |
| cd tests | |
| export PYTHONMALLOC=malloc | |
| /opt/debugpython/bin/python3 -m pytest -vv -k "${MDI_TESTS}" --valgrind | |
| - name: Print valgrind results | |
| if: ${{ matrix.platform == 'ubuntu-latest' && ( success() || failure() ) }} | |
| run: | | |
| source env.source | |
| cat tests/valgrind*.txt | |
| - name: Run valgrind tests that span two different MDI builds | |
| if: ${{ matrix.platform == 'ubuntu-latest' }} | |
| run: | | |
| source env.source | |
| cat env.source | |
| cd tests | |
| export PYTHONMALLOC=malloc | |
| /opt/debugpython/bin/python3 -m pytest -vv -k "${MDI_TESTS}" --driver_dir="../build2" --valgrind | |
| - name: Print valgrind results | |
| if: ${{ matrix.platform == 'ubuntu-latest' && ( success() || failure() ) }} | |
| run: | | |
| source env.source | |
| cat tests/valgrind*.txt | |
| windows: | |
| strategy: | |
| matrix: | |
| platform: [ windows-latest ] | |
| mpilib: [null] | |
| # The type of runner that the job will run on | |
| runs-on: ${{ matrix.platform }} | |
| env: | |
| TESTS: "not mpi" | |
| CODECOV_TOKEN: "99465b5f-26b4-4487-8355-fbcac5249a05" | |
| # Steps represent a sequence of tasks that will be executed as part of the job | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - uses: actions/checkout@v2 | |
| # Set the Python version | |
| - uses: actions/setup-python@v2 | |
| with: | |
| python-version: '3.6' | |
| - name: Install dependencies | |
| run: | | |
| choco install codecov | |
| python -m pip install --upgrade pip | |
| pip install -U pytest pytest-cov | |
| - name: Remove the sh.exe, which prevents MinGW from working | |
| run: | | |
| where sh > sh_loc.txt | |
| powershell -command "cat sh_loc.txt | rm" | |
| - name: Install MDI Library Python package | |
| run: | | |
| mkdir python_build | |
| cd python_build | |
| cmake -G "MinGW Makefiles" -Dpython_package=ON .. | |
| mingw32-make VERBOSE=1 | |
| mingw32-make install | |
| cd .. | |
| - name: Install local build | |
| run: | | |
| mkdir build | |
| cd build | |
| echo "$(pwd)/install/lib/mdi" >> $GITHUB_PATH | |
| echo "$(pwd)/install/include/mdi" >> $GITHUB_PATH | |
| cmake -G "MinGW Makefiles" -Dtest_codes=ON -DCMAKE_INSTALL_PREFIX="$(pwd)/install" .. | |
| mingw32-make VERBOSE=1 | |
| mingw32-make install | |
| echo "$(dirname $(which gfortran))/../lib/mingw/tools/install/mingw64/bin" >> $GITHUB_PATH | |
| echo "$(dirname $(which gfortran))/../lib/mingw/tools/install/mingw64/lib" >> $GITHUB_PATH | |
| - name: Fortran executables don't seem to search the $PATH variable | |
| run: | | |
| cd build | |
| ls | |
| ls install | |
| cp "$(pwd)/install/lib/mdi/*.dll*" "$(pwd)" | |
| cp "$(pwd)/tests/MDI_Test_Codes/STUBS_MPI/*.dll*" "$(pwd)" | |
| ls | |
| # Enable tmate debugging of manually-triggered workflows if the input option was provided | |
| # To execute: Click the GitHub "Actions" tab, then "CI", then "Run Workflow", then set debugging to "true" | |
| - name: Setup tmate session | |
| uses: mxschmitt/action-tmate@v3 | |
| if: ${{ github.event_name == 'workflow_dispatch' && inputs.debug_enabled }} | |
| - name: Run test scripts | |
| run: | | |
| ls | |
| cd tests | |
| pytest -vv --cov-report=xml --cov=MDI_Library -k "not mpi and not f90_plug and not py_plug and not py_cxx_plug" | |
| - name: Get code coverage report | |
| run: | | |
| codecov.exe -f coverage.xml -t "99465b5f-26b4-4487-8355-fbcac5249a05" | |
| # Build for posix systems | |
| conda: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| platform: [ ubuntu-latest ] | |
| mpilib: [null] | |
| # The type of runner that the job will run on | |
| runs-on: ${{ matrix.platform }} | |
| env: | |
| OMPI_MCA_btl_base_warn_component_unused: "0" | |
| CODECOV_TOKEN: "99465b5f-26b4-4487-8355-fbcac5249a05" | |
| # Steps represent a sequence of tasks that will be executed as part of the job | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - uses: actions/checkout@v2 | |
| # Install Miniconda | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| auto-activate-base: true | |
| activate-environment: "" | |
| - name: Create source file with all required environment variables | |
| shell: bash -el {0} | |
| run: | | |
| # Create a source file that will contain environment variables used in additional steps | |
| # Environment variabls are not normally preserved between steps, so the source file is necessary | |
| touch env.source | |
| # Set MDI_TESTS, which defines which tests will be performed for this job | |
| [ "${{ matrix.mpilib }}" == "" ] && echo 'export MDI_TESTS="not mpi"' >> env.source | |
| cat env.source | |
| - name: Install dependencies | |
| shell: bash -el {0} | |
| run: | | |
| source env.source | |
| sudo apt-get clean | |
| sudo apt-get update | |
| sudo apt-get install gfortran | |
| conda install -y -c conda-forge numpy | |
| conda install -y -c conda-forge pytest | |
| conda install -y -c conda-forge pymdi | |
| - name: Install local build | |
| shell: bash -el {0} | |
| run: | | |
| source env.source | |
| mkdir build | |
| cd build | |
| cmake -Dtest_codes=ON -DCMAKE_INSTALL_PREFIX=./install .. | |
| make VERBOSE=1 | |
| #make install | |
| rm MDI_Library/__init__.py | |
| rm MDI_Library/mdi.py | |
| ls | |
| ls MDI_Library | |
| # Enable tmate debugging of manually-triggered workflows if the input option was provided | |
| # To execute: Click the GitHub "Actions" tab, then "CI", then "Run Workflow", then set debugging to "true" | |
| - name: Setup tmate session | |
| uses: mxschmitt/action-tmate@v3 | |
| if: ${{ github.event_name == 'workflow_dispatch' && inputs.debug_enabled }} | |
| - name: Run test scripts | |
| shell: bash -el {0} | |
| run: | | |
| source env.source | |
| conda list | |
| cd tests | |
| pytest -vv -k "${MDI_TESTS}" |