Bug fix in clustering code + parallelization strategy for deriv. approx. #131
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| # This workflow will install Python dependencies, run tests and lint with a variety of Python versions | |
| # For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python | |
| # Adapted based on: https://github.com/pypa/cibuildwheel | |
| # https://stackoverflow.com/questions/69257912/ | |
| # and the python-package-conda.yml | |
| name: Python package | |
| on: | |
| push: | |
| workflow_dispatch: | |
| jobs: | |
| build: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ["3.10", "3.11"] | |
| os: [macos-latest,ubuntu-latest,windows-latest] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| #- name: Install build | |
| # run: | | |
| # python -m pip install --upgrade build | |
| #- name: Build wheels | |
| # run: python -m build | |
| #- uses: actions/upload-artifact@v3 | |
| # with: | |
| # path: ./dist/*.whl | |
| - name: Install cibuildwheel | |
| run: python -m pip install cibuildwheel==2.16.2 | |
| - name: Build wheels | |
| run: python -m cibuildwheel --output-dir wheelhouse | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: wheels | |
| path: ./wheelhouse/*.whl | |
| test-coverage: | |
| # Runs tests for one build for which coverage is computed as well | |
| needs: build | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python for Coverage | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.11' | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install . | |
| - name: Test with pytest | |
| run: | | |
| pip install pytest pytest-cov | |
| pytest ./tests --cov=mssm --cov-report=xml --cov-report=html | |
| - name: Upload coverage reports to Codecov with GitHub Action | |
| uses: codecov/codecov-action@v3 | |
| # Also store coverage as artifact | |
| - uses: actions/upload-artifact@v3 | |
| with: | |
| name: coverage | |
| path: | | |
| coverage.xml | |
| ./htmlcov/index.html | |
| release: | |
| # https://packaging.python.org/en/latest/guides/publishing-package-distribution-releases-using-github-actions-ci-cd-workflows/ | |
| # https://docs.github.com/en/actions/learn-github-actions/variables#default-environment-variables | |
| # Only create release if pull-target was 'stable' or work-flow was triggered on 'stable' | |
| # if: github.ref_name == 'stable' || github.base_ref == 'stable' | |
| # Changed this, because the above did not work - instead simply release on new tags. | |
| if: startsWith(github.ref, 'refs/tags/') | |
| needs: | |
| - build | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: write # Necessary for creating releases apparently. | |
| steps: | |
| - name: Echo Branch | |
| run: echo "${{ github.ref_name }} ${{ github.base_ref }}" | |
| - name: Download Artifacts | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: wheels | |
| path: ./wheelhouse/ | |
| - name: Print wheel content | |
| run: ls ./wheelhouse | |
| - name: Create GitHub Release | |
| env: | |
| GITHUB_TOKEN: ${{ github.token }} | |
| run: >- | |
| gh release create | |
| '${{ github.ref_name }}' | |
| --repo '${{ github.repository }}' | |
| --notes "" | |
| - name: Connect Artifacts to release | |
| env: | |
| GITHUB_TOKEN: ${{ github.token }} | |
| run: >- | |
| gh release upload | |
| '${{ github.ref_name }}' ./wheelhouse/** | |
| --repo '${{ github.repository }}' | |
| publish-test: | |
| # https://packaging.python.org/en/latest/guides/publishing-package-distribution-releases-using-github-actions-ci-cd-workflows/ | |
| # Publish to test-pypi - only if release is triggered. | |
| needs: | |
| - release | |
| runs-on: ubuntu-latest | |
| environment: | |
| name: test-pypi | |
| url: https://test.pypi.org/p/mssm | |
| permissions: | |
| id-token: write | |
| steps: | |
| - name: Download Artifacts | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: wheels | |
| path: ./wheelhouse/ | |
| - name: Publish wheels to test-pypi | |
| uses: pypa/gh-action-pypi-publish@release/v1 | |
| with: | |
| packages-dir: ./wheelhouse/ | |
| repository-url: https://test.pypi.org/legacy/ | |
| publish-release: | |
| # https://packaging.python.org/en/latest/guides/publishing-package-distribution-releases-using-github-actions-ci-cd-workflows/ | |
| # Publish to pypi stable - only if release is triggered. | |
| needs: | |
| - release | |
| runs-on: ubuntu-latest | |
| environment: | |
| name: pypi | |
| url: https://pypi.org/p/mssm | |
| permissions: | |
| id-token: write | |
| steps: | |
| - name: Download Artifacts | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: wheels | |
| path: ./wheelhouse/ | |
| - name: Publish wheels to test-pypi | |
| uses: pypa/gh-action-pypi-publish@release/v1 | |
| with: | |
| packages-dir: ./wheelhouse/ |