Allow correct processing of empty files #324
Workflow file for this run
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| on: | |
| pull_request: | |
| types: [ labeled ] | |
| push: | |
| branches: [ main, development ] | |
| workflow_dispatch: | |
| name: End to end testing | |
| jobs: | |
| end2end_testing: | |
| name: End to end test | |
| runs-on: self-hosted | |
| if: contains(github.event.pull_request.labels.*.name, 'test:e2e') || github.event_name == 'push' || github.event_name == 'workflow_dispatch' | |
| strategy: | |
| matrix: | |
| # test case name as defined in e2e_test_cases.yaml | |
| test_case: [ "basic", "synchropasef", "astral", "astral_automatic_calibration", ] | |
| env: | |
| RUN_NAME: alphadia-${{github.sha}}-${{github.run_id}}-${{github.run_attempt}} | |
| BRANCH_NAME: ${{ github.head_ref || github.ref_name }} | |
| NEPTUNE_API_TOKEN: ${{ secrets.NEPTUNE_E2E_TOKEN }} | |
| NEPTUNE_PROJECT_NAME: "MannLabs/alphaDIA-e2e-tests" | |
| NUMBA_BOUNDSCHECK: 1 | |
| NUMBA_DEVELOPER_MODE: 1 | |
| NUMBA_FULL_TRACEBACKS: 1 | |
| TQDM_MININTERVAL: 10 # avoid lots of tqdm outputs | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Conda info | |
| shell: bash -el {0} | |
| run: conda info | |
| - name: Pip installation with stable dependencies | |
| id: pip_installation | |
| shell: bash -el {0} | |
| run: | | |
| cd misc | |
| . ./pip_install.sh stable $RUN_NAME | |
| - name: Run e2e tests | |
| shell: bash -el {0} | |
| run: | | |
| cd tests | |
| . ./run_e2e_tests.sh ${{ matrix.test_case }} $RUN_NAME True ${GITHUB_SHA::7} $BRANCH_NAME | |
| - name: Cleanup | |
| if: always() | |
| shell: bash -el {0} | |
| run: | | |
| conda remove -n $RUN_NAME --all -y | |
| - name: Delete Caches on Error | |
| if: ${{ failure() && steps.pip_installation.conclusion == 'failure' }} | |
| run: | | |
| rm -rf ~/.cache/pip | |
| rm -rf ~/.cache/conda |