Fix create output from abspath #192
Workflow file for this run
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| name: Tests | |
| on: | |
| push: | |
| pull_request: | |
| workflow_dispatch: | |
| jobs: | |
| tests: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ | |
| {name: "Ubuntu", os: "ubuntu-latest", shell: "bash", compiler: "g++"}, | |
| {name: "MacOS 12", os: "macos-12", shell: "bash", compiler: "g++-12"}, | |
| {name: "MacOS 14 (M1)", os: "macos-14", shell: "bash", compiler: "g++-13"}, | |
| {name: "Windows", os: "windows-latest", shell: "msys2", compiler: "g++"}, | |
| ] | |
| projects: [ | |
| {project: "template", name: "PhysiCell Template", binary: "project", max_time: 120, config: "config/PhysiCell_settings.xml", output_folder: "output"}, | |
| {project: "template_BM", name: "PhysiBoSS Template", binary: "project", max_time: 120, config: "config/PhysiCell_settings.xml", output_folder: "output"}, | |
| {project: "physiboss-cell-lines-sample", name: "PhysiBoSS Cell Lines", binary: "PhysiBoSS_Cell_Lines", max_time: 120, config: "config/PhysiCell_settings.xml", output_folder: "output"}, | |
| {project: "physimess-sample", name: "PhysiMeSS Sample", binary: "project", config: "config/Fibre_Degradation/mymodel_matrix_degradation.xml", max_time: 120, output_folder: ""}, | |
| {project: "physiboss-tutorial", name: "PhysiBoSS Tutorial", binary: "project", config: "config/cell_cycle/PhysiCell_settings.xml", max_time: 300, output_folder: "output"}, | |
| {project: "worm-sample", name: "PhysiCell worm", binary: "worm", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: "output"}, | |
| {project: "virus-macrophage-sample", name: "Virus Macrophage", binary: "virus-sample", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: "output"}, | |
| {project: "mechano-sample", name: "PhysiCell Mechano", binary: "project", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: "output"}, | |
| {project: "cancer-biorobots-sample", name: "PhysiCell Cancer Biorobots", binary: "cancer_biorobots", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""}, | |
| {project: "biorobots-sample", name: "PhysiCell Biorobots", binary: "biorobots", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""}, | |
| {project: "celltypes3-sample", name: "PhysiCell Celltypes3", binary: "celltypes3", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""}, | |
| {project: "custom-division-sample", name: "PhysiCell custom division", binary: "project", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""}, | |
| {project: "interaction-sample", name: "PhysiCell interactions", binary: "interaction_demo", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""}, | |
| {project: "pred-prey-farmer", name: "PhysiCell prey predator", binary: "pred_prey", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""}, | |
| {project: "rules-sample", name: "PhysiCell rules sample", binary: "rules_sample", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""}, | |
| {project: "asymmetric-division-sample", name: "PhysiCell asymmetric division", binary: "project", config: "config/PhysiCell_settings.xml", max_time: 120, output_folder: ""} | |
| ] | |
| name: Testing ${{ matrix.projects.name }} on ${{ matrix.os.name }} | |
| runs-on: ${{ matrix.os.os }} | |
| defaults: | |
| run: | |
| shell: ${{ matrix.os.shell }} {0} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - if: matrix.os.name == 'Windows' | |
| uses: msys2/setup-msys2@v2 | |
| with: | |
| update: true | |
| install: mingw-w64-x86_64-binutils mingw-w64-x86_64-gcc mingw-w64-x86_64-headers-git mingw-w64-x86_64-gcc-libs mingw-w64-x86_64-libwinpthread-git mingw-w64-x86_64-lapack mingw-w64-x86_64-openblas mingw-w64-x86_64-libxml2 mingw-w64-x86_64-bzip2 mingw-w64-x86_64-python mingw-w64-x86_64-python-zstandard mingw-w64-x86_64-python-cffi make bison flex mingw-w64-x86_64-ca-certificates mingw-w64-x86_64-diffutils | |
| - name: Build ${{ matrix.projects.name }} project | |
| run: | | |
| make data-cleanup && make ${{ matrix.projects.project }} && make PHYSICELL_CPP=${{ matrix.os.compiler }} PROGRAM_NAME=${{ matrix.projects.binary }} | |
| - name: Run ${{ matrix.projects.name }} project | |
| run: | | |
| python beta/test_run_sample.py ${{ matrix.projects.binary }} ${{ matrix.projects.config }} ${{ matrix.projects.max_time }} | |
| - name: Check ${{ matrix.projects.name }} project simulation results | |
| if: matrix.projects.output_folder != '' | |
| run: | | |
| python beta/test_diff_svg.py ${{ matrix.projects.output_folder }} tests/cases/output_${{ matrix.projects.project }} |