test #3100
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| # This workflow will install Python dependencies, run tests, and report the coverage with a variety of Python versions and OSs. | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| name: test | |
| on: | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main] | |
| schedule: | |
| # * is a special character in YAML, so you have to quote this string | |
| - cron: '0 0 * * *' # every midnight | |
| jobs: | |
| test: | |
| name: Test (${{ matrix.os }}, python version ${{ matrix.python-version }}) | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: [ubuntu-latest, windows-latest] | |
| python-version: ["3.8", "3.9", "3.10"] # list of Python versions to test | |
| exclude: | |
| - os: windows-latest | |
| python-version: "3.8" | |
| - os: windows-latest | |
| python-version: "3.9" | |
| include: | |
| - os: ubuntu-latest | |
| path: ~/.cache/pip | |
| - os: windows-latest | |
| path: ~\AppData\Local\pip\Cache | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python using Miniconda | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| auto-update-conda: true | |
| python-version: ${{ matrix.python-version }} | |
| miniconda-version: latest | |
| - name: Cache pip dependencies | |
| id: cache_pip | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ matrix.path }} | |
| key: ${{ runner.os }}-python${{ matrix.python-version }}-pip-20231130-${{ hashFiles('**/setup.py') }} | |
| restore-keys: | | |
| ${{ runner.os }}-python${{ matrix.python-version }}-pip-20231130- | |
| # We have used a softer matching strategy for the full hash of setup.py, as recommended by GitHub. | |
| # See: https://github.com/davronaliyev/Cache-dependencies-in-GitHub-Actions/blob/main/examples.md#python---pip | |
| # This restores the cache first and then downloads any changed packages to avoid updating the cache with | |
| # every change to the setup.py file, thus reducing the storage requirements of GitHub Action. | |
| # We set a date tag to the cache key to show the updated date of the cache. We can update this date tag to | |
| # generate new cache after every major changes in setup.py. | |
| - name: Install dependencies | |
| run: | | |
| pip install rdkit | |
| pip install pyparsing==3.0.9 | |
| pip install torch==2.0.0+cpu -f https://download.pytorch.org/whl/torch_stable.html | |
| pip install torchvision==0.15.0+cpu -f https://download.pytorch.org/whl/torch_stable.html | |
| pip install torch_scatter==2.1.1 -f https://data.pyg.org/whl/torch-2.0.0+cpu.html | |
| pip install torch_sparse==0.6.17 -f https://data.pyg.org/whl/torch-2.0.0+cpu.html | |
| pip install torch_cluster==1.6.1 -f https://data.pyg.org/whl/torch-2.0.0+cpu.html | |
| pip install torch_spline_conv==1.2.2 -f https://data.pyg.org/whl/torch-1.13.0+cpu.html | |
| pip install torch_geometric==2.3.0 | |
| pip install -e .[dev] | |
| shell: bash -l {0} | |
| - name: Cache downloaded test data | |
| id: cache_data | |
| uses: actions/cache@v2 | |
| with: | |
| path: tests/test_data | |
| key: ${{ runner.os }}-python${{ matrix.python-version }}-data-${{ hashFiles('tests/download_test_data.py') }} | |
| restore-keys: | | |
| ${{ runner.os }}-python${{ matrix.python-version }}-data-${{ hashFiles('tests/download_test_data.py') }} | |
| # Use strict matching for the hash of download_test_data.py, as we want to update the cache whenever the file changes. | |
| - name: Download test data | |
| if: steps.cache_data.outputs.cache-hit != 'true' | |
| run : | | |
| python tests/download_test_data.py | |
| shell: bash -l {0} | |
| - name: Run tests | |
| id: run_tests | |
| run: | | |
| pytest --nbmake --nbmake-timeout=3000 --cov=kale | |
| shell: bash -l {0} | |
| - name: Determine coverage | |
| run: | | |
| coverage xml | |
| shell: bash -l {0} | |
| - name: Report coverage | |
| uses: codecov/codecov-action@v1 |