Fix for #22 for PMC identifiers in Europe PMC #79
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| name: build | |
| on: | |
| - push | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ['3.7', '3.8', '3.9', '3.10', '3.11'] | |
| name: python-${{ matrix.python-version }} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip setuptools wheel | |
| pip install -e .[test] | |
| - name: Unit Tests | |
| run: pytest tests -v --junitxml=junit/test-results-${{ matrix.python-version }}.xml --cov bioconverters --cov-report term --cov-report xml | |
| - name: Upload pytest test results | |
| uses: actions/upload-artifact@master | |
| with: | |
| name: pytest-results-${{ matrix.python-version }} | |
| path: junit/test-results-${{ matrix.python-version }}.xml | |
| # Use always() to always run this step to publish test results when there are test failures | |
| if: always() | |
| - name: Update code coverage report to CodeCov | |
| uses: codecov/codecov-action@v1 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| file: ./coverage.xml | |
| flags: unittests | |
| env_vars: OS,PYTHON | |
| name: codecov-umbrella | |
| fail_ci_if_error: true | |
| if: matrix.python-version == 3.8 | |
| - name: Test Snakemake | |
| run: bash tests/test.sh |