Merge pull request #30 from quantifyearth/mwd-habitat-process #17
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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 | |
| name: Python Pull Request CI | |
| on: | |
| push: | |
| branches: ["main"] | |
| pull_request: | |
| branches: ["main"] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| container: ghcr.io/osgeo/gdal:ubuntu-small-3.11.0 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python-version: ["3.10"] | |
| steps: | |
| - uses: actions/checkout@v5 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install system dependencies | |
| run: | | |
| apt-get update -qqy | |
| apt-get install -y git python3-pip r-base libtirpc-dev | |
| - name: Install R dependencies | |
| run: R -e "install.packages(c('lme4', 'lmerTest'), repos='https://cran.rstudio.com/')" || true | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install 'gdal[numpy]==3.11.0' | |
| python -m pip install -e .[dev,validation] | |
| - name: Lint with pylint | |
| run: python3 -m pylint . | |
| - name: Type checking | |
| run: python3 -m mypy . | |
| - name: Test with pytest | |
| run: python3 -m pytest --cov=aoh -vv | |
| - name: Test CLI tools | |
| run: | | |
| aoh-calc --help | |
| aoh-habitat-process --help | |
| aoh-species-richness --help | |
| aoh-endemism --help | |
| aoh-collate-data --help | |
| aoh-validate-prevalence --help | |
| aoh-validate-occurences --help | |
| aoh-fetch-gbif-data --help | |
| - name: Test package imports | |
| run: | | |
| python3 -c "import aoh; print('✅ Package imports work')" | |
| python3 -c "from aoh import tidy_data; print('✅ Core functions work')" | |
| python3 -c "from aoh.summaries import species_richness; print('✅ Summaries work')" | |
| python3 -c "from aoh.validation import collate_data; print('✅ Validation works')" | |
| - name: Build pip package | |
| run: python3 -m build | |
| - name: Check with twine | |
| run: twine check dist/* |