Nextflow scripts for export #830
Workflow file for this run
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| name: Docker Compose Test API | |
| on: | |
| pull_request: | |
| branches: | |
| - main | |
| push: | |
| branches: | |
| - main | |
| jobs: | |
| docker-compose-test: | |
| runs-on: ubuntu-latest | |
| environment: | |
| name: test | |
| env: | |
| MONGO_INITDB_ROOT_PASSWORD: ${{ secrets.MONGO_INITDB_ROOT_PASSWORD }} | |
| MONGO_INITDB_ROOT_USERNAME: ${{ vars.MONGO_INITDB_ROOT_USERNAME }} | |
| MONGO_CONNSTRING: mongodb://${{ vars.MONGO_INITDB_ROOT_USERNAME }}:${{ secrets.MONGO_INITDB_ROOT_PASSWORD }}@biaint-mongo:27017 | |
| DB_NAME: ${{ vars.DB_NAME }} | |
| JWT_SECRET_KEY: ${{ secrets.JWT_SECRET_KEY }} | |
| USER_CREATE_SECRET_TOKEN: ${{ secrets.USER_CREATE_SECRET_TOKEN }} | |
| defaults: | |
| run: | |
| working-directory: ./ | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v2 # Checkout your repository to the GitHub Actions runner | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v1 # Set up Docker Buildx for building and pushing Docker images | |
| - name: Cache Docker layers | |
| uses: actions/cache@v2 # Cache Docker layers to speed up subsequent builds | |
| with: | |
| path: /tmp/.buildx-cache | |
| key: ${{ runner.os }}-buildx-${{ github.sha }} | |
| restore-keys: | | |
| ${{ runner.os }}-buildx- | |
| - name: Docker Compose Up | |
| run: | | |
| docker compose up -d --build | |
| - name: Run tests | |
| # api moved to api/ , src left in as a reference as we transition. All tests there are failing and that directory will be deleted anyway | |
| run: | | |
| docker compose run -T bia-integrator-api poetry run pytest --ignore src | |
| - name: Run client example tests to reuse db | |
| run: | | |
| make client.examples | |
| # Always cleanup - even for cancelled jobs | |
| - name: Docker Compose Down | |
| run: | | |
| docker compose down | |
| if: ${{ always() }} |