- Fixing click #9
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| name: IGVF kallisto-bustools CI | |
| on: | |
| push: | |
| branches: [ "dev", "main" ] | |
| paths: | |
| - 'modules/igvf-kallisto-bustools/**' | |
| pull_request: | |
| branches: [ "dev", "main" ] | |
| paths: | |
| - 'modules/igvf-kallisto-bustools/**' | |
| workflow_dispatch: | |
| inputs: | |
| image_tag: | |
| description: 'Docker Image Tag (default: branch_name)' | |
| env: | |
| PROJECT_NAME: IGVF atomic workflows CI | |
| # Github repo name | |
| REPOSITORY_NAME: ${{ github.event.repository.name }} | |
| # Region-specific Google Docker repository where GOOGLE_PROJECT/REPOSITORY_NAME can be found | |
| DOCKER_REGISTRY: docker.io | |
| DOCKER_PATH: igvf/kallisto-bustools | |
| TAG: ${{ github.event.inputs.image_tag || github.head_ref || github.ref_name }} | |
| jobs: | |
| build-and-test: | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| working-directory: modules/igvf-kallisto-bustools | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Check out the repository | |
| run: | | |
| echo "Checking out the repository" | |
| pwd | |
| ls -lht | |
| - name: Build the Docker image | |
| run: docker build . --file docker_builder.dockerfile --tag ${{ env.DOCKER_REGISTRY }}/${{ env.DOCKER_PATH }}:${{ env.TAG }} | |
| - name: Run tests in Docker container | |
| run: | | |
| docker run --init --rm -v ${{ github.workspace }}/test_data:/software/test_data ${{ env.DOCKER_REGISTRY }}/${{ env.DOCKER_PATH }}:${{ env.TAG }} pytest /software/tests/test_run_kallisto.py | |
| - name: Push image | |
| run: docker push ${{ env.DOCKER_REGISTRY }}/${{ env.DOCKER_PATH }}:${{ env.TAG }} |