CI: flawfinder has too many false positives... #1
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| # This is a basic workflow to help you get started with Actions | |
| name: SEACAS Variant builds | |
| # Controls when the action will run. Triggers the workflow on push | |
| on: | |
| push: | |
| branches: | |
| - master | |
| pull_request: | |
| branches: | |
| - master | |
| concurrency: | |
| group: ${{ github.workflow}}-${{ github.head_ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| build-deps: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| compiler: [ gnu, clang, mpi ] | |
| hdf5: [ V110 ] | |
| netcdf: [ 4.9.2 ] | |
| cgns: [ 4.4.0 ] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev openmpi-bin libopenmpi-dev libboost-all-dev | |
| ### | |
| # Installing TPL | |
| ### | |
| - name: Cache TPL-${{ matrix.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} | |
| id: cache-TPL-mpi | |
| uses: actions/cache@v3 | |
| with: | |
| path: ~/environments/${{ matrix.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} | |
| key: TPL-v1-${{ runner.os }}-${{ matrix.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} | |
| - name: Build TPL-${{ matrix.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} | |
| if: steps.cache-TPL.outputs.cache-hit != 'true' | |
| run: | | |
| set -x | |
| COMPILER=${{ matrix.compiler }} H5VERSION=${{ matrix.hdf5}} GNU_PARALLEL=OFF INSTALL_PATH=${HOME}/environments/${{ matrix.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} ./install-tpl.sh | |
| ls ${HOME} && ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} && ls ${HOME}/environments/${{ matrix.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }}/lib | |
| build: | |
| needs: build-deps | |
| # The type of runner that the job will run on | |
| name: ${{ matrix.config.name }} | |
| runs-on: ${{ matrix.config.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| hdf5: [ V110 ] | |
| netcdf: [ 4.9.2 ] | |
| cgns: [ 4.4.0 ] | |
| config: | |
| - { | |
| name: "Debug serial build", | |
| os: ubuntu-latest, | |
| compiler: "gnu", | |
| debug: "YES", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "Debug parallel build", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "YES", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "Threadsafe ON, No Fortran", | |
| os: ubuntu-latest, | |
| compiler: "gnu", | |
| debug: "YES", | |
| threadsafe: "YES", | |
| fortran: "NO", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "thread" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "Threadsafe ON, Parallel, No Fortran", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "YES", | |
| threadsafe: "YES", | |
| fortran: "NO", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "thread" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "Sanitize address, no fortran", | |
| os: ubuntu-latest, | |
| compiler: "clang", | |
| debug: "YES", | |
| threadsafe: "NO", | |
| fortran: "NO", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "address" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "Sanitize undefined", | |
| os: ubuntu-latest, | |
| compiler: "clang", | |
| debug: "YES", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "undefined" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "Sanitize integer", | |
| os: ubuntu-latest, | |
| compiler: "clang", | |
| debug: "YES", | |
| threadsafe: "NO", | |
| fortran: "NO", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "integer" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "GTest Enabled", | |
| os: ubuntu-latest, | |
| compiler: "gnu", | |
| debug: "YES", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "YES", | |
| extra: "", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "No applications, legacy, or fortran", | |
| os: ubuntu-latest, | |
| compiler: "clang", | |
| debug: "NO", | |
| threadsafe: "NO", | |
| fortran: "NO", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "APPLICATIONS=NO LEGACY=NO", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "CATALYST2, parallel", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "NO", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "YES", | |
| gtest: "YES", | |
| extra: "", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "KOKKOS, parallel", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "NO", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "YES", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "No deprecated exodus functions", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "NO", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "NO", | |
| extra: "OMIT_DEPRECATED=YES", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "Use modern CMake configure of netCDF and HDF5 packages with GTest", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "NO", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "YES", | |
| extra: "MODERN=YES", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "ADIOS2 enabled", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "NO", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "YES", | |
| use_faodel: "NO", | |
| use_metis: "NO", | |
| use_catalyst2: "NO", | |
| gtest: "YES", | |
| extra: "", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| - { | |
| name: "FAODEL and METIS enabled", | |
| os: ubuntu-latest, | |
| compiler: "mpi", | |
| debug: "NO", | |
| threadsafe: "NO", | |
| fortran: "YES", | |
| use_kokkos: "NO", | |
| use_adios2: "NO", | |
| use_faodel: "YES", | |
| use_metis: "YES", | |
| use_catalyst2: "NO", | |
| gtest: "YES", | |
| extra: "", | |
| sanitizer: "NO" # address, integer, thread, memory, undefined | |
| } | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Install System dependencies | |
| shell: bash -l {0} | |
| run: sudo apt update && sudo apt install -y libaec-dev zlib1g-dev automake autoconf libcurl4-openssl-dev libjpeg-dev wget curl bzip2 m4 flex bison cmake libzip-dev openmpi-bin libopenmpi-dev libboost-all-dev | |
| - name: Fetch TPL Cache | |
| id: cache-TPL | |
| uses: actions/cache@v3 | |
| with: | |
| path: ~/environments/${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} | |
| key: TPL-v1-${{ runner.os }}-${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} | |
| - name: Check Cache | |
| shell: bash -l {0} | |
| run: ls ${HOME} && ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} && ls ${HOME}/environments/${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }}/lib | |
| - name: install additional TPL | |
| if: ${{ matrix.config.use_kokkos == 'YES' || matrix.config.use_adios2 == 'YES' || matrix.config.gtest == 'YES' || matrix.config.use_faodel == 'YES' || matrix.config.use_catalyst == 'YES' || matrix.config.use_metis == 'YES' }} | |
| run: | | |
| set -x | |
| COMPILER=${{ matrix.config.compiler }} KOKKOS=${{ matrix.config.use_kokkos }} ADIOS2=${{ matrix.config.use_adios2 }} CATALYST2=${{ matrix.config.use_catalyst2 }} FAODEL=${{ matrix.config.use_faodel }} METIS=${{ matrix.config.use_metis }} GNU_PARALLEL=OFF GTEST=${{ matrix.config.gtest }} INSTALL_PATH=${HOME}/environments/${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} ./install-tpl.sh | |
| ls ${HOME} && ls ${HOME}/environments && ls ${HOME}/environments/${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} && ls ${HOME}/environments/${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }}/lib | |
| ### | |
| # Configure and build | |
| ### | |
| - name: Run cmake | |
| shell: bash -l {0} | |
| run: | | |
| echo $HOME | |
| mkdir build | |
| cd build | |
| NUMPROCS=2 ${{ matrix.config.extra }} THREADSAFE=${{ matrix.config.threadsafe }} DEBUG=${{ matrix.config.debug }} FORTRAN=${{ matrix.config.fortran }} SANITIZER=${{ matrix.config.sanitizer }} COMPILER=${{ matrix.config.compiler }} INSTALL_PATH=${HOME}/environments/${{ matrix.config.compiler }}-${{ matrix.hdf5 }}-${{ matrix.netcdf }}-${{ matrix.cgns }} bash ../cmake-config | |
| - name: Build | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| make -j 4 | |
| if: ${{ success() }} | |
| - name: Install | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| make -j 4 install | |
| if: ${{ success() }} | |
| - name: Run Non-sanitized Tests | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| ctest -j 4 --output-on-failure | |
| if: ${{ success() && matrix.config.sanitizer == 'NO' && matrix.config.threadsafe == 'NO' }} | |
| - name: Run sanitized/threadsafe Tests | |
| shell: bash -l {0} | |
| run: | | |
| cd build | |
| ctest -j 4 --output-on-failure --exclude-regex test_exo | |
| if: ${{ success() && (matrix.config.sanitizer != 'NO' || matrix.config.threadsafe != 'NO') }} |