CMake Support #9
Workflow file for this run
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| name: Tests CMake | |
| on: | |
| push: | |
| pull_request: | |
| workflow_dispatch: | |
| jobs: | |
| tests: | |
| name: Testing ${{ matrix.projects.name }} on ${{ matrix.platform.os }} | |
| runs-on: ${{ matrix.platform.os }} | |
| strategy: | |
| # Set fail-fast to false to ensure that feedback is delivered for all matrix combinations. Consider changing this to true when your workflow is stable. | |
| fail-fast: false | |
| # Set up a matrix to run cross-product of projects and OS/compiler combinations | |
| matrix: | |
| projects: [ | |
| {"use_physiboss": false, cwd: "build/sample_projects/template", name: "PhysiCell Template", binary: "template", max_time: 120, config: "config/PhysiCell_settings.xml", validation_output_folder: "output_template"}, | |
| {"use_physiboss": true, cwd: "build/sample_projects_intracellular/boolean/template_BM", name: "PhysiBoSS Template", binary: "template_BM", max_time: 120, config: "config/PhysiCell_settings.xml", validation_output_folder: "output_template_BM"}, | |
| {"use_physiboss": true, cwd: "build/sample_projects_intracellular/boolean/physiboss_cell_lines", name: "PhysiBoSS Cell Lines", binary: "physiboss_cell_lines", max_time: 120, config: "config/PhysiCell_settings.xml", validation_output_folder: "output_physiboss-cell-lines-sample"}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/physimess", name: "PhysiMeSS Sample", binary: "physimess", config: "config/Fibre_Degradation/mymodel_matrix_degradation.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": true, cwd: "build/sample_projects_intracellular/boolean/tutorial", name: "PhysiBoSS Tutorial", binary: "tutorial", config: "config/cell_cycle/PhysiCell_settings.xml", max_time: 300, validation_output_folder: "output_physiboss-tutorial"}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/worm", name: "PhysiCell worm", binary: "worm", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: "output_worm-sample"}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/virus_macrophage", name: "Virus Macrophage", binary: "virus_macrophage", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: "output_virus-macrophage-sample"}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/mechano", name: "PhysiCell Mechano", binary: "mechano", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: "output_mechano-sample"}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/cancer_biorobots", name: "PhysiCell Cancer Biorobots", binary: "cancer_biorobots", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/biorobots", name: "PhysiCell Biorobots", binary: "biorobots", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/celltypes3", name: "PhysiCell Celltypes3", binary: "celltypes3", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/custom_division", name: "PhysiCell custom division", binary: "custom_division", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/interactions", name: "PhysiCell interactions", binary: "interactions", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/pred_prey_farmer", name: "PhysiCell prey predator", binary: "pred_prey_farmer", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/rules_sample", name: "PhysiCell rules sample", binary: "rules_sample", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/asymmetric_division", name: "PhysiCell asymmetric division", binary: "asymmetric_division", config: "config/PhysiCell_settings.xml", max_time: 120, validation_output_folder: ""}, | |
| {"use_physiboss": false, cwd: "build/sample_projects/episode", name: "PhysiCell Episode", binary: "episode", max_time: 120, config: "config/PhysiCell_settings.xml", validation_output_folder: ""}, | |
| ] | |
| platform: [ | |
| {"os": "windows-latest", "c_compiler": "cl", "cpp_compiler": "cl", "build_physiboss": "OFF"}, | |
| {"os": "ubuntu-latest", "c_compiler": "gcc", "cpp_compiler": "g++", "build_physiboss": "ON"}, | |
| {"os": "ubuntu-latest", "c_compiler": "clang", "cpp_compiler": "clang++", "build_physiboss": "ON"}, | |
| {"os": "macos-latest", "c_compiler": "gcc-15", "cpp_compiler": "g++-15", "build_physiboss": "ON"}, | |
| # {"os": "macos-latest", "c_compiler": "cc", "cpp_compiler": "c++", "build_physiboss": "ON"}, | |
| ] | |
| exclude: | |
| - { projects: { use_physiboss: true }, platform: { build_physiboss: "OFF" } } | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set reusable strings | |
| # Turn repeated input strings (such as the build output directory) into step outputs. These step outputs can be used throughout the workflow file. | |
| id: strings | |
| shell: bash | |
| run: | | |
| echo "build-output-dir=${{ github.workspace }}/build" >> "$GITHUB_OUTPUT" | |
| - name: Install dependencies (Linux) | |
| if: matrix.platform.os == 'ubuntu-latest' | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y libomp-dev | |
| - name: Configure CMake | |
| # Configure CMake in a 'build' subdirectory. `CMAKE_BUILD_TYPE` is only required if you are using a single-configuration generator such as make. | |
| # See https://cmake.org/cmake/help/latest/variable/CMAKE_BUILD_TYPE.html?highlight=cmake_build_type | |
| run: > | |
| cmake -B ${{ steps.strings.outputs.build-output-dir }} | |
| -DCMAKE_CXX_COMPILER=${{ matrix.platform.cpp_compiler }} | |
| -DCMAKE_C_COMPILER=${{ matrix.platform.c_compiler }} | |
| -DCMAKE_BUILD_TYPE=Release | |
| -DPHYSICELL_BUILD_PHYSIBOSS=${{ matrix.platform.build_physiboss }} | |
| -S ${{ github.workspace }} | |
| - name: Build | |
| # Build your program with the given configuration. Note that --config is needed because the default Windows generator is a multi-config generator (Visual Studio generator). | |
| run: cmake --build ${{ steps.strings.outputs.build-output-dir }} --config Release --target ${{ matrix.projects.binary }} | |
| - name: Run ${{ matrix.projects.name }} project | |
| run: | | |
| python ${{ github.workspace }}/beta/test_run_sample.py ${{ matrix.projects.binary }}${{ matrix.platform.os == 'windows-latest' && '.exe' || '' }} ${{ matrix.projects.config }} ${{ matrix.projects.max_time }} | |
| working-directory: ${{ matrix.projects.cwd }} | |
| - name: Check ${{ matrix.projects.name }} project simulation results | |
| if: matrix.projects.validation_output_folder != '' | |
| run: | | |
| python ${{ github.workspace }}/beta/test_diff_svg.py output ${{ github.workspace }}/tests/cases/${{ matrix.projects.validation_output_folder }} | |
| working-directory: ${{ matrix.projects.cwd }} | |