FIX: Set MRS type to Nifti1Extension for backwards compatibility #560
Workflow file for this run
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| name: Build and test | |
| # 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' | |
| # Allow job to be triggered manually from GitHub interface | |
| workflow_dispatch: | |
| defaults: | |
| run: | |
| shell: bash | |
| # Force tox and pytest to use color | |
| env: | |
| FORCE_COLOR: true | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| permissions: | |
| contents: read | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v5 | |
| 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@v4 | |
| with: | |
| name: dist | |
| path: dist/ | |
| - name: Upload git archive artifact | |
| uses: actions/upload-artifact@v4 | |
| 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@v4 | |
| with: | |
| name: dist | |
| path: dist/ | |
| - name: Download git archive artifact | |
| if: matrix.package == 'archive' | |
| uses: actions/download-artifact@v4 | |
| with: | |
| name: archive | |
| path: archive/ | |
| - uses: actions/setup-python@v5 | |
| 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 minimum test dependencies | |
| run: pip install nibabel[test] | |
| - name: Run tests | |
| run: pytest --doctest-modules --doctest-plus -v --pyargs nibabel -n auto | |
| test: | |
| # Check each OS, all supported Python, minimum versions and latest releases | |
| runs-on: ${{ matrix.os }} | |
| continue-on-error: ${{ matrix.dependencies == 'pre' }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: ['ubuntu-latest', 'windows-latest', 'macos-13', 'macos-latest'] | |
| python-version: ["3.9", "3.10", "3.11", "3.12"] | |
| architecture: ['x64', 'x86', 'arm64'] | |
| dependencies: ['full', 'pre'] | |
| include: | |
| # Basic dependencies only | |
| - os: ubuntu-latest | |
| python-version: 3.9 | |
| dependencies: 'none' | |
| # Absolute minimum dependencies | |
| - os: ubuntu-latest | |
| python-version: 3.9 | |
| dependencies: 'min' | |
| # NoGIL | |
| - os: ubuntu-latest | |
| python-version: '3.13-dev' | |
| dependencies: 'dev' | |
| exclude: | |
| # x86 for Windows + Python<3.12 | |
| - os: ubuntu-latest | |
| architecture: x86 | |
| - os: macos-13 | |
| architecture: x86 | |
| - os: macos-latest | |
| architecture: x86 | |
| - python-version: '3.12' | |
| architecture: x86 | |
| # arm64 is available for macos-14+ | |
| - os: ubuntu-latest | |
| architecture: arm64 | |
| - os: windows-latest | |
| architecture: arm64 | |
| - os: macos-13 | |
| architecture: arm64 | |
| # x64 is not available for macos-14+ | |
| - os: macos-latest | |
| architecture: x64 | |
| # Drop pre tests for macos-13 | |
| - os: macos-13 | |
| dependencies: pre | |
| # Drop pre tests for SPEC-0-unsupported Python versions | |
| - python-version: '3.9' | |
| dependencies: pre | |
| - python-version: '3.10' | |
| dependencies: pre | |
| env: | |
| DEPENDS: ${{ matrix.dependencies }} | |
| ARCH: ${{ !contains(fromJSON('["none", "min"]'), matrix.dependencies) && matrix.architecture }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: recursive | |
| fetch-depth: 0 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| if: "!endsWith(matrix.python-version, '-dev')" | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| architecture: ${{ matrix.architecture }} | |
| allow-prereleases: true | |
| - name: Set up Python ${{ matrix.python-version }} | |
| if: endsWith(matrix.python-version, '-dev') | |
| uses: deadsnakes/[email protected] | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| nogil: true | |
| - name: Display Python version | |
| run: python -c "import sys; print(sys.version)" | |
| - name: Install tox | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install tox tox-gh-actions | |
| - name: Show tox config | |
| run: tox c | |
| - name: Run tox | |
| run: tox -vv --exit-and-dump-after 1200 | |
| - uses: codecov/codecov-action@v4 | |
| if: ${{ always() }} | |
| with: | |
| files: cov.xml | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| - name: Upload pytest test results | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: pytest-results-${{ matrix.os }}-${{ matrix.python-version }}-${{ matrix.dependencies }}-${{ matrix.architecture }} | |
| path: test-results.xml | |
| if: ${{ always() }} | |
| checks: | |
| runs-on: 'ubuntu-latest' | |
| continue-on-error: true | |
| strategy: | |
| matrix: | |
| check: ['style', 'doctest', 'typecheck', 'spellcheck'] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3 | |
| - name: Display Python version | |
| run: python -c "import sys; print(sys.version)" | |
| - name: Show tox config | |
| run: pipx run tox c | |
| - name: Show tox config (this call) | |
| run: pipx run tox c -e ${{ matrix.check }} | |
| - name: Run check | |
| run: pipx run tox -e ${{ matrix.check }} | |
| publish: | |
| runs-on: ubuntu-latest | |
| environment: "Package deployment" | |
| needs: [test, test-package] | |
| permissions: | |
| # Required for trusted publishing | |
| id-token: write | |
| if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags/') | |
| steps: | |
| - uses: actions/download-artifact@v4 | |
| with: | |
| name: dist | |
| path: dist/ | |
| - uses: pypa/gh-action-pypi-publish@release/v1 |