Add Python interface #113
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| name: leapfrog-py test | |
| on: | |
| pull_request: | |
| branches: | |
| - "*" | |
| push: | |
| branches: | |
| - main | |
| jobs: | |
| run: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{matrix.config.os }} (${{ matrix.config.py }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: macos-latest, py: '3.13'} | |
| - {os: ubuntu-latest, py: '3.10'} | |
| - {os: ubuntu-latest, py: '3.11'} | |
| - {os: ubuntu-latest, py: '3.12'} | |
| - {os: ubuntu-latest, py: '3.13'} | |
| - {os: windows-latest, py: '3.13'} | |
| defaults: | |
| run: | |
| working-directory: leapfrog-py | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install uv | |
| uses: astral-sh/setup-uv@v5 | |
| with: | |
| enable-cache: true | |
| cache-dependency-glob: "leapfrog-py/uv.lock" | |
| - name: "Set up Python" | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.config.py }} | |
| - name: Extract test data | |
| shell: bash | |
| run: ../inst/standalone_model/extract_data | |
| # We need to install R to run the test to compare R and Python output | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| extra-repositories: https://mrc-ide.r-universe.dev | |
| working-directory: . | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: docopt, local::. | |
| working-directory: . | |
| - name: Install the project | |
| run: uv sync --all-extras --dev | |
| - name: Run tests & coverage | |
| run: uv run pytest --cov --cov-report=xml --cov-config=pyproject.toml | |
| - name: Lint | |
| run: | | |
| uvx ruff check . | |
| uv run --group check mypy --install-types --non-interactive src tests | |
| - name: Test install | |
| run: | | |
| pip install . | |
| python -c "import leapfrog_py;" | |
| - name: Upload to Codecov | |
| uses: codecov/codecov-action@v4 | |
| with: | |
| # This can be useful, but the false positive rate is | |
| # annoyingly high. | |
| fail_ci_if_error: false | |
| env: | |
| CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} |