[WIP] Timstof support #252
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| name: Build and Test | |
| on: | |
| push: | |
| branches: main | |
| pull_request: | |
| branches: main | |
| env: | |
| IMAGE_NAME: nf-encyclopedia | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout the repository | |
| uses: actions/checkout@v3 | |
| - name: Set up Python 3.10 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.10" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install pytest numpy pandas | |
| curl -s https://get.nextflow.io | bash | |
| chmod u+x nextflow | |
| mkdir -p bin && mv nextflow bin | |
| echo "$(pwd)/bin" >> $GITHUB_PATH | |
| - name: Build the Docker image | |
| uses: docker/build-push-action@v4 | |
| with: | |
| context: . | |
| load: true | |
| tags: ${{ env.IMAGE_NAME }}:latest | |
| - name: Run Unit Tests | |
| run: | | |
| REMOTE=/app/nf-encyclopedia | |
| docker run -v $(pwd):${REMOTE} nf-encyclopedia:latest \ | |
| pytest ${REMOTE}/tests/unit_tests | |
| - name: Run System Tests | |
| run: | | |
| pytest tests/system_tests |