Add functionality to save stitched image as h5 or zarr #173
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| name: tests | |
| on: | |
| push: | |
| branches: | |
| - "main" | |
| tags: | |
| - 'v**' | |
| pull_request: | |
| jobs: | |
| linting: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: neuroinformatics-unit/actions/lint@v2 | |
| manifest: | |
| name: Check Manifest | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: neuroinformatics-unit/actions/check_manifest@v2 | |
| test: | |
| needs: [linting, manifest] | |
| name: ${{ matrix.os }} py${{ matrix.python-version }} | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| # Run all supported Python versions on linux | |
| python-version: ["3.10", "3.11", "3.12"] | |
| os: [ubuntu-latest] | |
| #Include one windows and two macOS (intel based and arm based) runs | |
| include: | |
| - os: macos-13 | |
| python-version: "3.12" | |
| - os: macos-latest | |
| python-version: "3.12" | |
| - os: windows-latest | |
| python-version: "3.12" | |
| steps: | |
| - name: Cache brainglobe directory | |
| uses: actions/cache@v4 | |
| with: | |
| path: | # ensure we don't cache any interrupted atlas download and extraction, if e.g. we cancel the workflow manually | |
| ~/.cache/pooch | |
| !~/.brainglobe/atlas.tar.gz | |
| key: brainglobe | |
| # these libraries enable testing on Qt on linux | |
| - uses: pyvista/setup-headless-display-action@v2 | |
| with: | |
| qt: true | |
| # Run tests | |
| - uses: neuroinformatics-unit/actions/test@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| secret-codecov-token: ${{ secrets.CODECOV_TOKEN }} | |
| build_sdist_wheels: | |
| name: Build source distribution | |
| needs: [test] | |
| if: github.event_name == 'push' && github.ref_type == 'tag' | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: neuroinformatics-unit/actions/build_sdist_wheels@v2 | |
| upload_all: | |
| name: Publish build distributions | |
| needs: [build_sdist_wheels] | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| name: artifact | |
| path: dist | |
| - uses: pypa/gh-action-pypi-publish@v1.5.0 | |
| with: | |
| user: __token__ | |
| password: ${{ secrets.TWINE_API_KEY }} |