Test #1344
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| name: Test | |
| on: | |
| schedule: | |
| - cron: 00 00 * * 1 # every Monday at 00:00 | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main] | |
| workflow_dispatch: | |
| inputs: | |
| reason: | |
| description: Reason for the workflow dispatch. Only "release" is valid. | |
| required: true | |
| default: release | |
| jobs: | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python: ["3.10", "3.11", "3.12"] | |
| os: [ubuntu-latest] | |
| include: | |
| - python: "3.12" | |
| os: macos-latest | |
| pip-flags: "--pre" | |
| name: "Python 3.12 (pre-release)" | |
| env: | |
| OS: ${{ matrix.os }} | |
| PYTHON: ${{ matrix.python }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python }} | |
| - name: Get pip cache dir | |
| id: pip-cache-dir | |
| run: | | |
| echo "::set-output name=dir::$(pip cache dir)" | |
| - name: Restore pip cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: ${{ steps.pip-cache-dir.outputs.dir }} | |
| key: pip-${{ runner.os }}-${{ env.pythonLocation }}-${{ hashFiles('**/requirements.txt') }} | |
| restore-keys: | | |
| pip-${{ runner.os }}-${{ env.pythonLocation }}- | |
| - name: Install dependencies | |
| run: | | |
| ./.scripts/ci/install_dependencies.sh | |
| - name: Install pip dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install tox tox-gh-actions | |
| - name: Restore data cache | |
| id: data-cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| ~/.cache/squidpy/*.h5ad | |
| key: data-${{ hashFiles('**/download_data.py') }} | |
| - name: Download datasets | |
| if: steps.data-cache.outputs.cache-hit != 'true' | |
| run: | | |
| tox -e download-data | |
| # caching .tox is not encouraged, but since we're private and this shaves off ~1min from the step | |
| # if any problems occur and/or once the package is public, this can be removed | |
| - name: Restore tox cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: .tox | |
| key: tox-${{ runner.os }}-${{ env.pythonLocation }}-${{ hashFiles('**/requirements.txt', '**/tox.ini') }} | |
| - name: Test | |
| timeout-minutes: 60 | |
| env: | |
| MPLBACKEND: agg | |
| PLATFORM: ${{ matrix.os }} | |
| DISPLAY: :42 | |
| run: | | |
| tox -vv | |
| - name: Upload coverage to Codecov | |
| uses: codecov/codecov-action@v4 | |
| with: | |
| name: coverage | |
| verbose: true | |
| token: ${{ secrets.CODECOV_TOKEN }} # required |