Adding detailed calculation for jatom too #152
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| name: Build and test | |
| on: [push, pull_request] | |
| env: | |
| CI_BUILD_DIR: build | |
| TEST_INPUTS_DIR: inputs | |
| TEST_OUTPUTS_DIR: outputs | |
| TEST_CONFIG_FILE: ci-tests.cfg | |
| TEST_SIM_NAME: mini-SURFS | |
| TEST_FIXED_SEED: 123456 | |
| jobs: | |
| build_and_test: | |
| name: Build and test shark. OS=${{ matrix.os }}, omp=${{ matrix.omp }} | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| #os: [ubuntu-latest, macos-latest] | |
| os: [ubuntu-latest] | |
| omp: [true, false] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| submodules: true | |
| - name: Install system dependencies (Linux) | |
| if: ${{ matrix.os == 'ubuntu-latest' }} | |
| run: | | |
| sudo apt install ninja-build libhdf5-dev hdf5-tools libboost-filesystem-dev libboost-program-options-dev libboost-log-dev cxxtest libgsl-dev | |
| - name: Install system dependencies (MacOS) | |
| if: ${{ matrix.os == 'macos-latest' }} | |
| run: | | |
| brew install ninja hdf5 boost cxxtest gsl ${{ matrix.omp && 'libomp' || '' }} | |
| - name: Point CMake to libomp (MacOS) | |
| if: ${{ matrix.os == 'macos-latest' && matrix.omp }} | |
| run: | | |
| # libomp is installed as keg-only, so we need to manually point to it | |
| HOMEBREW_LIBOMP_PREFIX=`brew --prefix libomp` | |
| OMP_FLAGS="-Xpreprocessor -fopenmp -I${HOMEBREW_LIBOMP_PREFIX}/include" | |
| echo "EXTRA_CMAKE_ARGS=-DOpenMP_C_FLAGS=\"$OMP_FLAGS\" -DOpenMP_C_LIB_NAMES=omp -DOpenMP_CXX_FLAGS=\"$OMP_FLAGS\" -DOpenMP_CXX_LIB_NAMES=omp -DOpenMP_omp_LIBRARY=$HOMEBREW_LIBOMP_PREFIX/lib/libomp.dylib" >> "$GITHUB_ENV" | |
| - name: Configure | |
| run: | | |
| eval cmake -B ${CI_BUILD_DIR} -G Ninja \ | |
| -DSHARK_TEST=ON -DSHARK_NO_OPENMP=${{ matrix.omp && 'OFF' || 'ON' }} -DCMAKE_CXX_FLAGS="-Wall -Werror" \ | |
| $EXTRA_CMAKE_ARGS | |
| - name: Build | |
| run: cmake --build ${CI_BUILD_DIR} | |
| - name: Run unit tests | |
| run: | | |
| cd ${CI_BUILD_DIR} | |
| ctest --output-on-failure | |
| - name: Tar shark build before upload | |
| run: tar cf shark-build.tar.gz ${{ env.CI_BUILD_DIR }} | |
| - name: Upload shark build for next jobs (Linux) | |
| if: ${{ matrix.os == 'ubuntu-latest' && matrix.omp }} | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: shark-build | |
| path: shark-build.tar.gz | |
| initial_shark_run: | |
| name: Initial shark run (with fixed seed) | |
| needs: build_and_test | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: ./.github/actions/download-shark-build | |
| - name: Download test datasets | |
| run: | | |
| mkdir -p ${TEST_INPUTS_DIR} | |
| curl -L -o ${TEST_INPUTS_DIR}/redshifts.txt 'https://docs.google.com/uc?export=download&id=1xvNmJB_KmoBHuQz-QzdPnY0HFs7smkUB' | |
| curl -L -o ${TEST_INPUTS_DIR}/tree_199.0.hdf5 'https://docs.google.com/uc?export=download&id=1JDK8ak13bEhzg9H9xt0uE8Fh_2LD3KpZ' | |
| - uses: ./.github/actions/setup-config-file | |
| - name: Run shark with fixed seed | |
| run: .ci/run_shark.sh my_model -o execution.seed=${TEST_FIXED_SEED} | |
| - name: Upload shark output for next jobs | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: shark-output | |
| path: ${{ env.TEST_OUTPUTS_DIR }} | |
| - name: Upload shark inputs for next jobs | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: shark-input | |
| path: ${{ env.TEST_INPUTS_DIR }} | |
| check_hdf5_docs: | |
| name: Check HDF5 properties documentation is up to date | |
| needs: initial_shark_run | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Install HDF5 tools | |
| run: sudo apt install hdf5-tools | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| name: shark-output | |
| path: ${{ env.TEST_OUTPUTS_DIR }} | |
| - name: Check output properties' documentation | |
| run: | | |
| .ci/check_hdf5_docs.sh my_model/199/0/galaxies.hdf5 galaxies.rst | |
| .ci/check_hdf5_docs.sh my_model/156/0/star_formation_histories.hdf5 star_formation_histories.rst | |
| .ci/check_hdf5_docs.sh my_model/199/0/black_hole_histories.hdf5 black_hole_histories.rst | |
| generate_plots: | |
| name: Generate all standard plots | |
| needs: initial_shark_run | |
| runs-on: ubuntu-latest | |
| # Currently skipped because there are a few minor problems | |
| # with some plots | |
| if: false | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| name: shark-output | |
| path: ${{ env.TEST_OUTPUTS_DIR }} | |
| - name: Install Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.10" | |
| - name: Install Python dependencies | |
| run: pip install matplotlib h5py scipy | |
| - uses: ./.github/actions/setup-config-file | |
| - name: Generate all plots | |
| run: | | |
| echo "backend: Agg" >> matplotlibrc | |
| python standard_plots/all.py -c ${{ env.TEST_CONFIG_FILE }} | |
| check_reproducibility: | |
| name: Check shark runs are reproducible | |
| needs: initial_shark_run | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: ./.github/actions/download-shark-build | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| name: shark-output | |
| path: ${{ env.TEST_OUTPUTS_DIR }} | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| name: shark-input | |
| path: ${{ env.TEST_INPUTS_DIR }} | |
| - name: Install Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.10" | |
| - name: Install Python dependencies | |
| run: pip install h5py | |
| - uses: ./.github/actions/setup-config-file | |
| - name: Check fixed seed is reproducible | |
| run: | | |
| .ci/run_shark.sh my_model_same_seed -o execution.seed=${TEST_FIXED_SEED} | |
| .ci/compare_galaxies.sh my_model my_model_same_seed | |
| - name: Check fixed seed is reproducible when multithreaded | |
| run: | | |
| # "-t 0" lets shark use the maximum number of OpenMP threads, | |
| # which OpenMP implementations usually constrain to the available hardware | |
| .ci/run_shark.sh my_model_same_seed_parallel -o execution.seed=123456 -t 0 | |
| .ci/compare_galaxies.sh my_model my_model_same_seed_parallel | |
| - name: Check random seed gives different results | |
| run: | | |
| .ci/run_shark.sh my_model_random_seed -t 0 | |
| .ci/compare_galaxies.sh my_model my_model_random_seed --expect-unequal |