Release 4.0.1 #332
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| name: Unit tests external tools | |
| on: | |
| pull_request: | |
| branches: [ main, master ] | |
| jobs: | |
| tests-external: | |
| strategy: | |
| matrix: | |
| platform: [ubuntu-latest] | |
| python-version: ['3.11', '3.12'] | |
| runs-on: ${{ matrix.platform }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| path: epytope | |
| - uses: actions/checkout@v4 | |
| with: | |
| repository: kohlbacherlab/fred-tools | |
| token: ${{ secrets.FRED_CI_PAT }} | |
| path: epytope-tools | |
| - name: Install epytope-tools system dependencies | |
| run: | |
| apt-fast install -y tcsh | |
| - name: epytope-tools post scripts | |
| working-directory: ./epytope-tools/ | |
| run: | | |
| ./post.runner | |
| - name: Activate epytope-tools | |
| run: | | |
| echo "$PWD/epytope-tools/bin" >> $GITHUB_PATH | |
| echo "PATH=$PATH" | |
| - name: Set up Miniconda | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| activate-environment: test | |
| auto-activate-base: false | |
| - name: Install epytope | |
| shell: bash -el {0} | |
| run: | | |
| pip install ./epytope/ | |
| - name: Set up test environment | |
| shell: bash -el {0} | |
| run: | | |
| pip install pytest | |
| - name: Run Tests - Cleavage Prediction | |
| working-directory: ./epytope/ | |
| shell: bash -el {0} | |
| continue-on-error: true | |
| run: pytest -v epytope/test/external/TestExternalCleavagePrediction.py || echo "Cleavage Prediction" >> FAILED_TESTS | |
| - name: Run Tests - Epitope Prediction | |
| working-directory: ./epytope/ | |
| shell: bash -el {0} | |
| run: pytest -v epytope/test/external/TestExternalEpitopePrediction.py || echo "Epitope Prediction" >> FAILED_TESTS | |
| - name: Validate Test Results | |
| working-directory: ./epytope/ | |
| run: | | |
| if [ -e FAILED_TESTS ]; then | |
| echo "FAILED TESTS:" >&2 | |
| cat FAILED_TESTS | |
| exit 1 | |
| fi |