fix: IntegrityChecker must not load basins #135
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| name: Checks | |
| on: | |
| push: | |
| pull_request: | |
| jobs: | |
| build: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| python-version: ['3.8', '3.x'] | |
| # macos-latest (macOS 14): problems with ffmpeg (wait for imageio upgrade) | |
| os: [macos-latest, ubuntu-latest, windows-latest] | |
| extras: ['all', 'dcor-s3', 'none'] | |
| exclude: | |
| # pytest on Python 3.8 cannot handle raises and warns together in | |
| # a context. | |
| - python-version: '3.8' | |
| extras: 'all' | |
| - python-version: '3.8' | |
| extras: 'dcor-s3' | |
| fail-fast: false | |
| timeout-minutes: 30 | |
| steps: | |
| - uses: actions/checkout@main | |
| with: | |
| fetch-depth: 0 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@main | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| # Temporary fix for 'pip install imageio-ffmpeg' | |
| # not including the FFMPEG binary on Apple Silicon macs | |
| # This step can be removed when issue is fixed in imageio-ffmpeg | |
| # https://github.com/imageio/imageio-ffmpeg/issues/71 | |
| - name: Setup FFmpeg | |
| if: runner.name == 'macos-latest' | |
| run: | | |
| brew update | |
| brew install ffmpeg | |
| # Temporary fix for 'pip install imageio-ffmpeg' | |
| # not including the FFMPEG binary on Apple Silicon macs | |
| # This step can be removed when issue is fixed in imageio-ffmpeg | |
| # https://github.com/imageio/imageio-ffmpeg/issues/71 | |
| - name: Setup FFmpeg | |
| if: runner.os == 'macOS' | |
| uses: AnimMouse/setup-ffmpeg@v1 | |
| - name: Install dependencies | |
| run: | | |
| # prerequisites | |
| python -m pip install --upgrade pip wheel | |
| python -m pip install coverage flake8 pytest | |
| - name: install R | |
| if: matrix.extras == 'all' | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: '4.1.2' | |
| - name: Install R packages for lme4 | |
| if: matrix.extras == 'all' | |
| shell: bash | |
| run: | | |
| R --version | |
| R -e "install.packages(c('statmod','nloptr','lme4'),repos='http://cran.rstudio.org')" | |
| - name: Install dclab with all possible dependencies | |
| if: matrix.extras == 'all' | |
| run: | | |
| pip install -e .[all] | |
| pip install -r tests/requirements.txt | |
| - name: Install dclab with DCOR dependencies | |
| if: matrix.extras == 'dcor-s3' | |
| run: | | |
| pip install -e .[dcor,http,s3] | |
| - name: Install dclab with minimal dependencies | |
| if: matrix.extras == 'none' | |
| run: | | |
| pip install -e . | |
| - name: List installed packages | |
| run: | | |
| pip freeze | |
| - name: Lint with flake8 | |
| run: | | |
| flake8 --exclude _version.py . | |
| - name: Test with pytest | |
| run: | | |
| coverage run --source=dclab -m pytest tests | |
| - name: Upload coverage to Codecov | |
| uses: codecov/codecov-action@v4 | |
| # FIXME Limit runtime until | |
| # https://github.com/codecov/codecov-action/issues/1316 is resolved | |
| timeout-minutes: 1 | |
| continue-on-error: true | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} |