TYP: Annotate SpatialImage accepting affine=None #870
Workflow file for this run
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| name: Stable tests | |
| # This file tests the claimed support range of NiBabel including | |
| # | |
| # * Operating systems: Linux, Windows (x64 & x86), OSX | |
| # * Dependencies: minimum requirements, optional requirements | |
| # * Installation methods: setup.py, sdist, wheel, archive | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - maint/* | |
| tags: | |
| - "*" | |
| pull_request: | |
| branches: | |
| - master | |
| - maint/* | |
| schedule: | |
| - cron: '0 0 * * 1' | |
| defaults: | |
| run: | |
| shell: bash | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3 | |
| - run: pip install --upgrade build twine | |
| - name: Build sdist and wheel | |
| run: python -m build | |
| - run: twine check dist/* | |
| - name: Build git archive | |
| run: mkdir archive && git archive -v -o archive/nibabel-archive.tgz HEAD | |
| - name: Upload sdist and wheel artifacts | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: dist | |
| path: dist/ | |
| - name: Upload git archive artifact | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: archive | |
| path: archive/ | |
| test-package: | |
| runs-on: ubuntu-latest | |
| needs: [build] | |
| strategy: | |
| matrix: | |
| package: ['wheel', 'sdist', 'archive'] | |
| steps: | |
| - name: Download sdist and wheel artifacts | |
| if: matrix.package != 'archive' | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: dist | |
| path: dist/ | |
| - name: Download git archive artifact | |
| if: matrix.package == 'archive' | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: archive | |
| path: archive/ | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3 | |
| - name: Display Python version | |
| run: python -c "import sys; print(sys.version)" | |
| - name: Update pip | |
| run: pip install --upgrade pip | |
| - name: Install wheel | |
| if: matrix.package == 'wheel' | |
| run: pip install dist/nibabel-*.whl | |
| - name: Install sdist | |
| if: matrix.package == 'sdist' | |
| run: pip install dist/nibabel-*.tar.gz | |
| - name: Install archive | |
| if: matrix.package == 'archive' | |
| run: pip install archive/nibabel-archive.tgz | |
| - run: python -c 'import nibabel; print(nibabel.__version__)' | |
| - name: Install test extras | |
| run: pip install nibabel[test] | |
| - name: Run tests | |
| run: pytest --doctest-modules --doctest-plus -v --pyargs nibabel | |
| stable: | |
| # Check each OS, all supported Python, minimum versions and latest releases | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| os: ['ubuntu-latest', 'windows-latest', 'macos-latest'] | |
| python-version: [3.8, 3.9, "3.10", "3.11"] | |
| architecture: ['x64', 'x86'] | |
| install: ['pip'] | |
| check: ['test'] | |
| pip-flags: [''] | |
| depends: ['REQUIREMENTS'] | |
| optional-depends: ['DEFAULT_OPT_DEPENDS'] | |
| include: | |
| # Basic dependencies only | |
| - os: ubuntu-latest | |
| python-version: 3.8 | |
| install: pip | |
| check: test | |
| pip-flags: '' | |
| depends: REQUIREMENTS | |
| optional-depends: '' | |
| # Absolute minimum dependencies | |
| - os: ubuntu-latest | |
| python-version: 3.8 | |
| install: pip | |
| check: test | |
| pip-flags: '' | |
| depends: MIN_REQUIREMENTS | |
| optional-depends: '' | |
| # Absolute minimum dependencies plus old MPL, Pydicom, Pillow | |
| - os: ubuntu-latest | |
| python-version: 3.8 | |
| install: pip | |
| check: test | |
| pip-flags: '' | |
| depends: MIN_REQUIREMENTS | |
| optional-depends: MIN_OPT_DEPENDS | |
| # Clean install imports only with package-declared dependencies | |
| - os: ubuntu-latest | |
| python-version: 3.8 | |
| install: pip | |
| check: skiptests | |
| pip-flags: '' | |
| depends: '' | |
| exclude: | |
| - os: ubuntu-latest | |
| architecture: x86 | |
| - os: macos-latest | |
| architecture: x86 | |
| env: | |
| DEPENDS: ${{ matrix.depends }} | |
| OPTIONAL_DEPENDS: ${{ matrix.optional-depends }} | |
| INSTALL_TYPE: ${{ matrix.install }} | |
| CHECK_TYPE: ${{ matrix.check }} | |
| EXTRA_PIP_FLAGS: ${{ matrix.pip-flags }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| architecture: ${{ matrix.architecture }} | |
| - name: Display Python version | |
| run: python -c "import sys; print(sys.version)" | |
| - name: Create virtual environment | |
| run: tools/ci/create_venv.sh | |
| - name: Build archive | |
| run: | | |
| source tools/ci/build_archive.sh | |
| echo "ARCHIVE=$ARCHIVE" >> $GITHUB_ENV | |
| - name: Install dependencies | |
| run: tools/ci/install_dependencies.sh | |
| - name: Install NiBabel | |
| run: tools/ci/install.sh | |
| - name: Run tests | |
| if: ${{ matrix.check != 'skiptests' }} | |
| run: tools/ci/check.sh | |
| - uses: codecov/codecov-action@v3 | |
| if: ${{ always() }} | |
| with: | |
| files: cov.xml | |
| - name: Upload pytest test results | |
| if: ${{ always() && matrix.check == 'test' }} | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: pytest-results-${{ matrix.os }}-${{ matrix.python-version }} | |
| path: for_testing/test-results.xml | |
| publish: | |
| runs-on: ubuntu-latest | |
| environment: "Package deployment" | |
| needs: [stable, test-package] | |
| if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags/') | |
| steps: | |
| - uses: actions/download-artifact@v3 | |
| with: | |
| name: dist | |
| path: dist/ | |
| - uses: pypa/gh-action-pypi-publish@release/v1 | |
| with: | |
| user: __token__ | |
| password: ${{ secrets.PYPI_API_TOKEN }} |