add codecov token (#189) #440
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| name: tests | |
| on: | |
| push: | |
| branches: | |
| - main | |
| tags: | |
| - '*' | |
| 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: | |
| fail-fast: false | |
| matrix: | |
| # Run across a mixture of Python versions and operating systems | |
| include: | |
| - os: ubuntu-latest | |
| python-version: "3.11" | |
| - os: macos-latest | |
| python-version: "3.10" | |
| - os: windows-latest | |
| python-version: "3.9" | |
| steps: | |
| - name: Cache atlases | |
| uses: actions/cache@v3 | |
| with: | |
| path: ~/.brainglobe | |
| key: atlases | |
| - name: Setup QT libraries | |
| uses: tlambert03/setup-qt-libs@v1 | |
| # Helps set up VTK with a headless display | |
| - uses: pyvista/setup-headless-display-action@v2 | |
| - name: Run tests | |
| uses: neuroinformatics-unit/actions/test@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| secret-codecov-token: ${{ secrets.CODECOV_TOKEN }} | |
| use-xvfb: true | |
| test-with-conda: | |
| needs: [linting, manifest] | |
| name: Test conda-install, on ${{ matrix.os }} | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest, macos-latest, windows-latest] | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Setup mamba environment | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| init-shell: bash | |
| environment-name: niftyreg-env | |
| create-args: >- | |
| python=3.11 | |
| setuptools | |
| setuptools_scm | |
| wheel | |
| - name: Install package into environment | |
| shell: bash -el {0} | |
| run: | | |
| pip install .[dev] | |
| - name: Run backend tests (no conda binaries) | |
| shell: bash -el {0} | |
| run: | | |
| pytest -v tests/tests/test_backend | |
| - name: Install niftyreg with conda | |
| shell: bash -el {0} | |
| run: | | |
| micromamba install niftyreg | |
| - name: Run backend tests(conda binaries present) | |
| shell: bash -el {0} | |
| run: | | |
| pytest -v tests/tests/test_backend | |
| build_sdist_wheel: | |
| name: Build source distribution and wheel | |
| needs: [test, test-with-conda] | |
| if: github.event_name == 'push' && github.ref_type == 'tag' | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: neuroinformatics-unit/actions/build_sdist_wheels@v2 | |
| deploy: | |
| name: Deploy to PyPI | |
| needs: [build_sdist_wheel] | |
| if: github.event_name == 'push' && github.ref_type == 'tag' | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: neuroinformatics-unit/actions/upload_pypi@v2 | |
| with: | |
| secret-pypi-key: ${{ secrets.TWINE_API_KEY }} |