🐛 Save streamlit rand quarto reports with Posix and change str paths to Path #192
Workflow file for this run
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| name: Python package | |
| on: | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main] | |
| release: | |
| types: [published] | |
| jobs: | |
| test: | |
| name: Unittests+streamlit | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: psf/black@stable | |
| - uses: isort/isort-action@v1 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| cache: 'pip' # caching pip dependencies | |
| cache-dependency-path: '**/pyproject.toml' | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install pytest | |
| pip install -e . | |
| - name: Run tests | |
| run: python -m pytest tests | |
| - name: Execute streamlit report | |
| run: | | |
| cd docs | |
| vuegen --directory example_data/Earth_microbiome_vuegen_demo_notebook | |
| vuegen --config example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml | |
| other-reports: | |
| name: Integration tests | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ["3.9", "3.10", "3.11", "3.12", "3.13"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| cache: 'pip' # caching pip dependencies | |
| cache-dependency-path: '**/pyproject.toml' | |
| - name: Install dependencies | |
| run: | | |
| pip install --upgrade pip | |
| pip install -e "." | |
| - name: Execute streamlit report (to check) | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml | |
| # repeat for easier inspection on GitHub: | |
| - name: quarto html report | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook -rt html | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml -rt html | |
| - name: quarto pdf report | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook -rt pdf | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml -rt pdf | |
| - name: quarto docx report | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook -rt docx | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml -rt docx | |
| - name: quarto odt report | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook -rt odt | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml -rt odt | |
| - name: quarto revealjs report | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook -rt revealjs | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml -rt revealjs | |
| - name: quarto pptx report | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook -rt pptx | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml -rt pptx | |
| - name: quarto jupyter report | |
| run: | | |
| cd docs | |
| vuegen -dir example_data/Earth_microbiome_vuegen_demo_notebook -rt jupyter | |
| vuegen -c example_data/Earth_microbiome_vuegen_demo_notebook/Earth_microbiome_vuegen_demo_notebook_config.yaml -rt jupyter | |
| publish: | |
| name: Publish package to PyPI | |
| if: startsWith(github.ref, 'refs/tags') | |
| permissions: | |
| id-token: write | |
| needs: | |
| - test | |
| - other-reports | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| - name: Install twine and build | |
| run: python -m pip install --upgrade twine build | |
| - name: Build | |
| run: python -m build | |
| - name: Publish package distributions to PyPI | |
| uses: pypa/gh-action-pypi-publish@release/v1 |