Add ci #2
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| name: Docker Publish | |
| on: | |
| push: | |
| tags: | |
| - "v*" | |
| pull_request: | |
| workflow_dispatch: | |
| env: | |
| IMAGE_NAME: scop3p-toolkit | |
| DOCKERFILE_PATH: docker/Dockerfile | |
| DOCKER_TARGET: scop3p-toolkit | |
| PYTHON_VERSION: "3.12" | |
| jobs: | |
| test: | |
| name: Pytest suite | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out repository | |
| uses: actions/checkout@v4 | |
| - name: Set up Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ env.PYTHON_VERSION }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install -r requirements-biophysics.txt | |
| python -m pip install -r requirements-shiny.txt | |
| python -m pip install pytest | |
| - name: Run tests | |
| run: pytest tests/unit tests/integration | |
| docker: | |
| name: Build and publish Docker image | |
| runs-on: ubuntu-latest | |
| needs: test | |
| permissions: | |
| contents: read | |
| steps: | |
| - name: Check out repository | |
| uses: actions/checkout@v4 | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3 | |
| - name: Prepare image variables | |
| id: vars | |
| shell: bash | |
| run: | | |
| namespace="${{ vars.DOCKERHUB_NAMESPACE || secrets.DOCKERHUB_USERNAME }}" | |
| version="${GITHUB_SHA}" | |
| if [[ "${GITHUB_REF_TYPE}" == "tag" ]]; then | |
| version="${GITHUB_REF_NAME}" | |
| fi | |
| { | |
| echo "image_repository=${namespace}/${IMAGE_NAME}" | |
| echo "build_date=$(date -u +%Y-%m-%dT%H:%M:%SZ)" | |
| echo "version=${version}" | |
| } >> "${GITHUB_OUTPUT}" | |
| - name: Log in to Docker Hub | |
| if: github.event_name != 'pull_request' && github.ref_type == 'tag' | |
| uses: docker/login-action@v3 | |
| with: | |
| username: ${{ secrets.DOCKERHUB_USERNAME }} | |
| password: ${{ secrets.DOCKERHUB_TOKEN }} | |
| - name: Extract Docker metadata | |
| id: meta | |
| uses: docker/metadata-action@v5 | |
| with: | |
| images: docker.io/${{ steps.vars.outputs.image_repository }} | |
| tags: | | |
| type=raw,value=latest,enable=${{ github.ref_type == 'tag' }} | |
| type=sha,format=short,prefix=sha- | |
| type=ref,event=tag | |
| labels: | | |
| org.opencontainers.image.title=Scop3P-Toolkit | |
| org.opencontainers.image.description=Scop3P toolkit container for Galaxy interactive tool deployment | |
| org.opencontainers.image.licenses=Apache-2.0 | |
| - name: Build and push image | |
| uses: docker/build-push-action@v6 | |
| with: | |
| context: . | |
| file: ${{ env.DOCKERFILE_PATH }} | |
| target: ${{ env.DOCKER_TARGET }} | |
| platforms: linux/amd64 | |
| push: ${{ github.event_name != 'pull_request' && github.ref_type == 'tag' }} | |
| tags: ${{ steps.meta.outputs.tags }} | |
| labels: ${{ steps.meta.outputs.labels }} | |
| cache-from: type=gha | |
| cache-to: type=gha,mode=max | |
| build-args: | | |
| BUILD_DATE=${{ steps.vars.outputs.build_date }} | |
| VCS_REF=${{ github.sha }} | |
| VERSION=${{ steps.vars.outputs.version }} |