Merge pull request #17 from instituteofcancerresearch/build-immuno-files #23
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: SOPRANO (Dev) Tests | |
| on: | |
| push: | |
| branches: | |
| - python-dev | |
| pull_request: | |
| branches: | |
| - python-dev | |
| jobs: | |
| lint: | |
| strategy: | |
| matrix: | |
| os: ["ubuntu-latest"] | |
| python-version: ["3.11"] | |
| name: lint with python ${{ matrix.python-version }} on ${{ matrix.os }} | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install ruff and black | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install ruff black | |
| - name: Lint check with ruff | |
| run: | | |
| ruff --format=github --target-version=py311 --line-length 79 . | |
| - name: Style check with black | |
| run: | | |
| black ./ --check --line-length 79 | |
| test: | |
| strategy: | |
| matrix: | |
| os: ["ubuntu-latest"] | |
| python-version: ["3.11"] | |
| name: test with python ${{ matrix.python-version }} on ${{ matrix.os }} | |
| runs-on: ${{ matrix.os }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: src/SOPRANO/local.yml | |
| init-shell: bash | |
| - name: Install SOPRANO | |
| shell: bash -l {0} | |
| run: | | |
| micromamba activate soprano-dev | |
| pip install -e .[ci] | |
| - name: Test conda environment | |
| shell: bash -l {0} | |
| run: | | |
| micromamba activate soprano-dev | |
| pytest tests/test_configuration | |
| - name: Test units | |
| shell: bash -l {0} | |
| run: | | |
| micromamba activate soprano-dev | |
| pytest tests/test_units |