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| name: Run integration tests for TRAPI | |
| # Run test at each push to master or develop, if changes to package files | |
| on: | |
| workflow_call: | |
| workflow_dispatch: | |
| push: | |
| branches: [ master, develop ] | |
| paths: | |
| - 'pyproject.toml' | |
| - 'src/**' | |
| - 'tests/**' | |
| - '.github/workflows/test-integration.yml' | |
| jobs: | |
| CodeQL-Analysis: | |
| runs-on: ubuntu-latest | |
| permissions: | |
| security-events: write # required for all workflows | |
| # only required for workflows in private repositories: | |
| actions: read | |
| contents: read | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Initialize CodeQL | |
| uses: github/codeql-action/init@v2 | |
| with: | |
| languages: python | |
| # Autobuild attempts to build any compiled languages (C/C++, C#, Go, or Java). | |
| # If this step fails, then you should remove it and run the build manually | |
| - name: Autobuild | |
| uses: github/codeql-action/autobuild@v2 | |
| - name: Perform CodeQL Analysis | |
| uses: github/codeql-action/analyze@v2 | |
| tests: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: [3.8] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| # Disabling shallow clone is recommended for improving relevancy of reporting | |
| fetch-depth: 0 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - uses: actions/setup-java@v3 | |
| with: | |
| distribution: 'zulu' | |
| java-version: '17' # The JDK version to make available on the path. | |
| - uses: vemonet/setup-spark@v1 | |
| with: | |
| spark-version: '3.0.2' | |
| - uses: iterative/setup-dvc@v1 | |
| - name: Pull data with dvc | |
| run: | | |
| dvc pull | |
| - name: Install dependencies | |
| run: | | |
| pip install -e ".[train,test,dev]" | |
| - name: Test with pytest with coverage | |
| run: | | |
| pytest -s --cov src/openpredict --cov-report xml:coverage.xml tests/integration/* | |
| build-docs: | |
| needs: [ tests ] | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.9 | |
| - name: Install dependencies | |
| run: | | |
| pip install ".[doc]" | |
| - name: Deploy mkdocs on GitHub Pages | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| git pull | |
| mkdocs gh-deploy |