CI-test #135
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| # This workflow will reformat all python files with yapf | |
| name: CI-test | |
| on: | |
| # push: | |
| # branches: | |
| # - main | |
| workflow_dispatch: | |
| permissions: | |
| contents: read | |
| jobs: | |
| build_and_test: | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest, windows-latest, macos-13] | |
| # macos-latest should be added later as soon as libsbml support is back up | |
| python-version: ['3.9', '3.10', '3.11', '3.12'] | |
| package-manager: ['pip','conda','conda_env'] | |
| # exclude: | |
| # - os: macos-latest | |
| # package-manager: 'pip' | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Cache Conda packages | |
| uses: actions/cache@v4 | |
| with: | |
| path: | | |
| ~/conda_pkgs_dir | |
| key: ${{ runner.os }}-conda-${{ hashFiles('**/environment.yml') }} | |
| restore-keys: | | |
| ${{ runner.os }}-conda- | |
| - name: Cache pip packages | |
| uses: actions/cache@v4 | |
| with: | |
| path: | | |
| ~/.cache/pip | |
| key: ${{ runner.os }}-pip-${{ hashFiles('**/requirements.txt') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pip- | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Java Setup | |
| uses: actions/setup-java@v4 | |
| with: | |
| distribution: 'temurin' # See 'Supported distributions' for available options | |
| java-version: '17' | |
| - name: Set JAVA_HOME for mac OS | |
| if: runner.os == 'macOS' | |
| run: export JAVA_HOME=$(/usr/libexec/java_home) | |
| - name: Set up Conda Environment with Micromamba (conda environment test) | |
| if: matrix.package-manager == 'conda_env' | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| micromamba-version: '1.5.8-0' | |
| environment-file: environment.yml | |
| create-args: >- | |
| python=${{ matrix.python-version }} | |
| post-cleanup: 'none' | |
| - name: Build for PyPI (if pip) | |
| if: matrix.package-manager == 'pip' | |
| run: | | |
| pip install setuptools wheel | |
| python setup.py sdist bdist_wheel | |
| - name: Install package using pip | |
| if: matrix.package-manager == 'pip' | |
| run: pip install ./dist/*.whl | |
| - name: Install gurobi (pip) | |
| if: matrix.package-manager == 'pip' | |
| run: | | |
| pip install gurobipy | |
| - name: Install cplex (pip) | |
| if: matrix.package-manager == 'pip' && runner.os != 'macOS' && matrix.python-version != '3.12' && matrix.python-version != '3.13' | |
| run: | | |
| pip install cplex | |
| - name: Install pytest (pip) | |
| if: matrix.package-manager == 'pip' | |
| run: | | |
| pip install pytest pytest-timeout | |
| - name: Set up Conda Environment with Micromamba | |
| if: matrix.package-manager == 'conda' | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-name: straindesign | |
| micromamba-version: latest | |
| create-args: >- | |
| python=${{ matrix.python-version }} | |
| post-cleanup: 'none' | |
| - name: Activate Micromamba environment | |
| if: matrix.package-manager == 'conda' | |
| run: | | |
| micromamba activate straindesign | |
| - name: Build for Conda (if conda) | |
| if: matrix.package-manager == 'conda' | |
| run: | | |
| micromamba install anaconda-client conda-build | |
| run: rm -rf conda-bld | |
| conda build conda-recipe/. -c conda-forge --croot conda-bld --output-folder ./build | |
| - name: Install package using conda | |
| if: matrix.package-manager == 'conda' | |
| run: | | |
| conda install straindesign -c ./build | |
| - name: Install gurobi (conda) | |
| if: matrix.package-manager == 'conda' | |
| run: | | |
| micromamba install -c gurobi gurobi | |
| - name: Install cplex (conda) | |
| if: matrix.package-manager == 'conda' && matrix.python-version != '3.12' && matrix.python-version != '3.13' | |
| run: | | |
| micromamba install -c ibmdecisionoptimization cplex | |
| - name: Install scip (conda) | |
| if: matrix.package-manager == 'conda' && matrix.python-version != '3.12' && matrix.python-version != '3.13' | |
| run: | | |
| micromamba install -c conda-forge pyscipopt scip | |
| - name: Install pytest (conda) | |
| if: matrix.package-manager == 'conda' | |
| run: | | |
| micromamba install pytest pytest-timeout | |
| - name: Test with pytest | |
| if: matrix.package-manager == 'conda' || matrix.package-manager == 'pip' | |
| run: pytest tests -v --log-cli-level=INFO | |