Merge pull request #76 from aertslab/genome_object #276
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| name: Test | |
| on: | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main] | |
| schedule: | |
| - cron: "0 5 1,15 * *" | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| shell: bash -e {0} # -e to fail on error | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| include: | |
| # TensorFlow Test Cases | |
| - os: ubuntu-latest | |
| python: "3.9" | |
| backend: "tensorflow" | |
| - os: ubuntu-latest | |
| python: "3.11" | |
| backend: "tensorflow" | |
| - os: ubuntu-latest | |
| python: "3.11" | |
| backend: "tensorflow" | |
| pip-flags: "--pre" | |
| name: "TensorFlow PRE-RELEASE DEPENDENCIES" | |
| # PyTorch Test Cases | |
| - os: ubuntu-latest | |
| python: "3.9" | |
| backend: "pytorch" | |
| - os: ubuntu-latest | |
| python: "3.11" | |
| backend: "pytorch" | |
| - os: ubuntu-latest | |
| python: "3.11" | |
| backend: "pytorch" | |
| pip-flags: "--pre" | |
| name: "PyTorch PRE-RELEASE DEPENDENCIES" | |
| name: ${{ matrix.name }} Python ${{ matrix.python }} Backend ${{ matrix.backend }} | |
| env: | |
| OS: ${{ matrix.os }} | |
| PYTHON: ${{ matrix.python }} | |
| BACKEND: ${{ matrix.backend }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python }} | |
| cache: "pip" | |
| cache-dependency-path: "**/pyproject.toml" | |
| - name: Install test dependencies | |
| run: | | |
| python -m pip install --upgrade pip wheel | |
| - name: Install dependencies for ${{ matrix.backend }} | |
| run: | | |
| if [ "${{ matrix.backend }}" = "tensorflow" ]; then | |
| pip install ${{ matrix.pip-flags }} "tensorflow" ".[dev,test]"; | |
| elif [ "${{ matrix.backend }}" = "pytorch" ]; then | |
| pip install ${{ matrix.pip-flags }} "torch" ".[dev,test]"; | |
| fi | |
| - name: Run tests | |
| env: | |
| MPLBACKEND: agg | |
| PLATFORM: ${{ matrix.os }} | |
| DISPLAY: :42 | |
| run: | | |
| coverage run -m pytest -v --color=yes | |
| - name: Report coverage | |
| run: | | |
| coverage report | |
| - name: Upload coverage | |
| uses: codecov/codecov-action@v3 | |
| env: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| slug: aertslab/CREsted |