Xarray datatree support #367
Workflow file for this run
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| # This workflows will upload a Python Package using Twine when a release is created | |
| # For more information see: https://help.github.com/en/actions/language-and-framework-guides/using-python-with-github-actions#publishing-to-package-registries | |
| name: tests | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - npe2 | |
| tags: | |
| - "v*" # Push events to matching v*, i.e. v1.0, v20.15.10 | |
| pull_request: | |
| branches: | |
| - main | |
| - npe2 | |
| workflow_dispatch: | |
| jobs: | |
| test: | |
| name: ${{ matrix.platform }} py${{ matrix.python-version }} | |
| runs-on: ${{ matrix.platform }} | |
| strategy: | |
| matrix: | |
| platform: [ubuntu-latest, macos-latest] # [ubuntu-latest, windows-latest, macos-latest] | |
| python-version: ["3.10", "3.12"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| # these libraries enable testing on Qt on linux | |
| - uses: tlambert03/setup-qt-libs@v1 | |
| # strategy borrowed from vispy for installing opengl libs on windows | |
| - name: Install Windows OpenGL | |
| if: runner.os == 'Windows' | |
| run: | | |
| git clone --depth 1 https://github.com/pyvista/gl-ci-helpers.git | |
| powershell gl-ci-helpers/appveyor/install_opengl.ps1 | |
| # note: if you need dependencies from conda, considering using | |
| # setup-miniconda: https://github.com/conda-incubator/setup-miniconda | |
| # and | |
| # tox-conda: https://github.com/tox-dev/tox-conda | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install setuptools tox tox-gh-actions | |
| # this runs the platform-specific tests declared in tox.ini | |
| - name: Test with tox | |
| uses: coactions/setup-xvfb@v1 | |
| with: | |
| run: python -m tox | |
| env: | |
| PLATFORM: ${{ matrix.platform }} | |
| - name: Coverage | |
| uses: codecov/codecov-action@v4 | |
| - name: Archive figures generated during testing | |
| if: always() | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: plotting-results-${{ matrix.python-version }}-${{ matrix.platform }} | |
| path: /home/runner/work/napari-spatialdata/napari-spatialdata/tests/plots/* | |
| test_benchmarks: | |
| name: test benchmarks | |
| runs-on: ubuntu-latest | |
| timeout-minutes: 60 | |
| env: | |
| GIT_LFS_SKIP_SMUDGE: 1 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.11 | |
| cache-dependency-path: pyproject.toml | |
| - uses: tlambert03/setup-qt-libs@v1 | |
| - uses: octokit/[email protected] | |
| # here we get hash of the latest release commit to compare with PR | |
| id: latest_release | |
| with: | |
| route: GET /repos/{owner}/{repo}/releases/latest | |
| owner: scverse | |
| repo: napari-spatialdata | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - name: install dependencies | |
| run: | | |
| pip install --upgrade pip | |
| pip install "asv[virtualenv]" | |
| env: | |
| PIP_CONSTRAINT: benchmarks/benchmark.txt | |
| - name: asv machine | |
| run: asv machine --yes | |
| - name: Run benchmarks PR | |
| uses: aganders3/headless-gui@v2 | |
| with: | |
| run: | | |
| asv run --show-stderr --quick --attribute timeout=300 HEAD^! | |
| env: | |
| PR: 1 # prevents asv from running very compute-intensive benchmarks | |
| PIP_CONSTRAINT: ${{ github.workspace }}/benchmarks/benchmark.txt | |
| - name: Run benchmarks latest release | |
| # here we check if the benchmark on the latest release is not broken | |
| uses: aganders3/headless-gui@v2 | |
| with: | |
| run: | | |
| asv run --show-stderr --quick --attribute timeout=300 ${{ fromJSON(steps.latest_release.outputs.data).target_commitish }}^! | |
| env: | |
| PR: 1 # prevents asv from running very compute-intensive benchmarks | |
| PIP_CONSTRAINT: ${{ github.workspace }}/benchmarks/benchmark.txt |