Add dnabert #166
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| name: Test PR | |
| on: [pull_request] | |
| jobs: | |
| lint: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: psf/black@stable | |
| test: | |
| runs-on: ubuntu-latest | |
| container: | |
| image: quay.io/qiime2/core:2023.2 | |
| strategy: | |
| fail-fast: false | |
| 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 | |
| python -m pip install pytest | |
| python -m pip install flake8 | |
| python -m pip install pydocstyle | |
| python -m pip install pytest-cov | |
| python -m pip install torch | |
| python -m pip install transformers | |
| python -m pip install . | |
| - name: Test with pytest | |
| run: | | |
| flake8 hitac tests | |
| pydocstyle hitac | |
| pytest -v --cov=hitac --cov-fail-under=70 --cov-report html | |
| coverage xml | |
| - name: Upload Coverage to Codecov | |
| uses: codecov/codecov-action@v2 |