Update atlas-run runner: remove old aprun command and update slurm #1331
Workflow file for this run
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| name: build | |
| # Controls when the action will run | |
| on: | |
| # Trigger the workflow on all pushes, except on tag creation | |
| push: | |
| branches: | |
| - '**' | |
| tags-ignore: | |
| - '**' | |
| # Trigger the workflow on all pull requests | |
| pull_request: ~ | |
| # Allow workflow to be dispatched on demand | |
| workflow_dispatch: ~ | |
| env: | |
| ATLAS_TOOLS: ${{ github.workspace }}/tools | |
| CTEST_PARALLEL_LEVEL: 1 | |
| CACHE_SUFFIX: v1 | |
| jobs: | |
| ci: | |
| name: ci | |
| strategy: | |
| fail-fast: false # false: try to complete all jobs | |
| matrix: | |
| build_type: [Release,Debug] | |
| name: | |
| - linux gnu-10 | |
| - linux gnu-12 | |
| - linux gnu-7 | |
| - linux clang-12 | |
| # - linux nvhpc-22.11 | |
| - linux intel | |
| - linux intel-classic | |
| - macos | |
| include: | |
| - name: linux gnu-10 | |
| os: ubuntu-20.04 | |
| compiler: gnu-10 | |
| compiler_cc: gcc-10 | |
| compiler_cxx: g++-10 | |
| compiler_fc: gfortran-10 | |
| caching: true | |
| coverage: true | |
| - name: linux gnu-12 | |
| os: ubuntu-22.04 | |
| compiler: gnu-12 | |
| compiler_cc: gcc-12 | |
| compiler_cxx: g++-12 | |
| compiler_fc: gfortran-12 | |
| cmake_options: -DENABLE_OMP_CXX=OFF | |
| caching: true | |
| coverage: false | |
| - name: linux gnu-7 | |
| os: ubuntu-20.04 | |
| compiler: gnu-7 | |
| compiler_cc: gcc-7 | |
| compiler_cxx: g++-7 | |
| compiler_fc: gfortran-7 | |
| caching: true | |
| coverage: false | |
| - name: linux clang-12 | |
| os: ubuntu-20.04 | |
| compiler: clang-12 | |
| compiler_cc: clang-12 | |
| compiler_cxx: clang++-12 | |
| compiler_fc: gfortran-10 | |
| caching: true | |
| coverage: false | |
| - name: linux clang-12 | |
| build_type: Release | |
| os: ubuntu-20.04 | |
| compiler: clang-12 | |
| compiler_cc: clang-12 | |
| compiler_cxx: clang++-12 | |
| compiler_fc: gfortran-10 | |
| ctest_options: "-LE mpi" # For now until Checkerboard fixed | |
| caching: true | |
| coverage: false | |
| # - name: linux nvhpc-22.11 | |
| # os: ubuntu-20.04 | |
| # compiler: nvhpc-22.11 | |
| # compiler_cc: nvc | |
| # compiler_cxx: nvc++ | |
| # compiler_fc: nvfortran | |
| # cmake_options: -DCMAKE_CXX_FLAGS=--diag_suppress177 | |
| # ctest_options: "-LE mpi" # For now until Checkerboard fixed | |
| # caching: false | |
| # coverage: false | |
| - name : linux intel | |
| os: ubuntu-20.04 | |
| compiler: intel | |
| compiler_cc: icx | |
| compiler_cxx: icpx | |
| compiler_fc: ifx | |
| caching: true | |
| coverage: false | |
| - name : linux intel-classic | |
| os: ubuntu-20.04 | |
| compiler: intel-classic | |
| compiler_cc: icc | |
| compiler_cxx: icpc | |
| compiler_fc: ifort | |
| caching: true | |
| coverage: false | |
| - name: macos | |
| # Xcode compiler requires empty environment variables, so we pass null (~) here | |
| os: macos-14 | |
| compiler: clang-15 | |
| compiler_cc: ~ | |
| compiler_cxx: ~ | |
| compiler_fc: gfortran-13 | |
| caching: true | |
| coverage: false | |
| cmake_options: -DMPI_SLOTS=4 | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - name: Checkout Repository | |
| uses: actions/checkout@v2 | |
| - name: Set up Homebrew | |
| id: set-up-homebrew | |
| uses: Homebrew/actions/setup-homebrew@master | |
| - name: Environment | |
| run: | | |
| echo "DEPS_DIR=${{ runner.temp }}/deps" >> $GITHUB_ENV | |
| echo "CC=${{ matrix.compiler_cc }}" >> $GITHUB_ENV | |
| echo "CXX=${{ matrix.compiler_cxx }}" >> $GITHUB_ENV | |
| echo "FC=${{ matrix.compiler_fc }}" >> $GITHUB_ENV | |
| if [[ "${{ matrix.os }}" =~ macos ]]; then | |
| export HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1 | |
| export HOMEBREW_NO_AUTO_UPDATE=1 | |
| export HOMEBREW_NO_INSTALL_CLEANUP=1 | |
| echo "HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1" >> $GITHUB_ENV | |
| echo "HOMEBREW_NO_AUTO_UPDATE=1" >> $GITHUB_ENV | |
| echo "HOMEBREW_NO_INSTALL_CLEANUP=1" >> $GITHUB_ENV | |
| brew install ninja | |
| brew install libomp | |
| else | |
| sudo apt-get update | |
| if [[ "${{ matrix.compiler }}" =~ gnu-7 ]]; then | |
| sudo apt-get install gcc-7 g++-7 gfortran-7 | |
| fi | |
| sudo apt-get install ninja-build | |
| fi | |
| printenv | |
| - name: Cache Dependencies | |
| # There seems to be a problem with cached NVHPC dependencies, leading to SIGILL perhaps due to slightly different architectures | |
| if: matrix.caching | |
| id: deps-cache | |
| uses: pat-s/[email protected] | |
| with: | |
| path: ${{ env.DEPS_DIR }} | |
| key: deps-${{ matrix.os }}-${{ matrix.compiler }}-v1 | |
| - name: Install NVHPC compiler | |
| if: contains( matrix.compiler, 'nvhpc' ) | |
| shell: bash -eux {0} | |
| run: | | |
| ${ATLAS_TOOLS}/install-nvhpc.sh --prefix ${DEPS_DIR}/nvhpc --version 22.11 | |
| source ${DEPS_DIR}/nvhpc/env.sh | |
| echo "${NVHPC_DIR}/compilers/bin" >> $GITHUB_PATH | |
| [ -z ${MPI_HOME+x} ] || echo "MPI_HOME=${MPI_HOME}" >> $GITHUB_ENV | |
| - name: Install Intel oneAPI compiler | |
| if: contains( matrix.compiler, 'intel' ) | |
| run: | | |
| ${ATLAS_TOOLS}/install-intel-oneapi.sh | |
| source /opt/intel/oneapi/setvars.sh | |
| printenv >> $GITHUB_ENV | |
| echo "CACHE_SUFFIX=$CC-$($CC -dumpversion)" >> $GITHUB_ENV | |
| - name: Install MPI | |
| shell: bash -eux {0} | |
| run: | | |
| FCFLAGS=-fPIC CFLAGS=-fPIC FFLAGS=-fPIC ${ATLAS_TOOLS}/install-mpi.sh --mpi openmpi --prefix ${DEPS_DIR}/openmpi | |
| [ -f ${DEPS_DIR}/openmpi/env.sh ] && source ${DEPS_DIR}/openmpi/env.sh | |
| [ -z ${MPI_HOME+x} ] || echo "MPI_HOME=${MPI_HOME}" >> $GITHUB_ENV | |
| - name: Install FFTW | |
| shell: bash -eux {0} | |
| run: | | |
| ${ATLAS_TOOLS}/install-fftw.sh --version 3.3.10 --prefix ${DEPS_DIR}/fftw | |
| echo "FFTW_ROOT=${DEPS_DIR}/fftw" >> $GITHUB_ENV | |
| - name: Install Qhull | |
| shell: bash -eux {0} | |
| run: | | |
| ${ATLAS_TOOLS}/install-qhull.sh --version 8.1-alpha3 --prefix ${DEPS_DIR}/qhull | |
| echo "Qhull_ROOT=${DEPS_DIR}/qhull" >> $GITHUB_ENV | |
| - name: Install LZ4 | |
| if: "!contains( matrix.compiler, 'nvhpc' )" | |
| run: | | |
| brew install lz4 | |
| echo "LZ4_ROOT=$(brew --prefix lz4)" >> $GITHUB_ENV | |
| - name: Install Eigen | |
| if: "!contains( matrix.compiler, 'nvhpc' )" | |
| run: | | |
| brew install eigen | |
| - name: Set Build & Test Environment | |
| run: | | |
| # Only add --oversubscribe arg for openmpi | |
| [ -z ${I_MPI_ROOT+x} ] && echo "ATLAS_RUN_MPI_ARGS=--oversubscribe" >> $GITHUB_ENV | |
| # Add mpirun to path for testing | |
| [ -z ${MPI_HOME+x} ] || echo "${MPI_HOME}/bin" >> $GITHUB_PATH | |
| if [[ "${{matrix.compiler}}" == intel-classic ]]; then | |
| echo "CFLAGS=-diag-disable=10441" >> $GITHUB_ENV | |
| echo "CXXFLAGS=-diag-disable=10441" >> $GITHUB_ENV | |
| echo "FCFLAGS=-diag-disable=10441" >> $GITHUB_ENV | |
| echo "FFLAGS=-diag-disable=10441" >> $GITHUB_ENV | |
| fi | |
| if [[ "${{matrix.compiler}}" == intel ]]; then | |
| echo "CFLAGS=-Rno-debug-disables-optimization" >> $GITHUB_ENV | |
| echo "CXXFLAGS=-Rno-debug-disables-optimization" >> $GITHUB_ENV | |
| fi | |
| - name: Build & Test | |
| id: build-test | |
| uses: ecmwf-actions/build-package@v2 | |
| with: | |
| self_coverage: ${{ matrix.coverage }} | |
| force_build: true | |
| cache_suffix: "${{ matrix.build_type }}-${{ env.CACHE_SUFFIX }}" | |
| recreate_cache: ${{ matrix.caching == false }} | |
| dependencies: | | |
| ecmwf/ecbuild | |
| ecmwf/eckit | |
| ecmwf/fckit | |
| dependency_branch: develop | |
| dependency_cmake_options: | | |
| ecmwf/eckit: "-G Ninja -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} -DENABLE_TESTS=OFF -DENABLE_ECKIT_CMD=OFF -DENABLE_ECKIT_SQL=OFF" | |
| ecmwf/fckit: "-G Ninja -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} -DENABLE_TESTS=OFF" | |
| cmake_options: "-G Ninja -DCMAKE_BUILD_TYPE=${{ matrix.build_type }} -DATLAS_BITS_LOCAL=32 ${{ matrix.cmake_options }}" | |
| ctest_options: "${{ matrix.ctest_options }}" | |
| - name: Verify tools | |
| run: | | |
| export PATH=${{ steps.build-test.outputs.bin_path }}:$PATH | |
| echo "+ atlas --info" | |
| atlas --info | |
| echo "+ atlas-grids --list" | |
| atlas-grids --list | |
| - name: Codecov Upload | |
| if: steps.build-test.outputs.coverage_file | |
| uses: codecov/codecov-action@v2 | |
| with: | |
| files: ${{ steps.build-test.outputs.coverage_file }} |