Update dependency numpy to v1 [SECURITY] #258
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| name: Build and push Docker image | |
| on: | |
| push: | |
| paths: | |
| - '.github/workflows/buildDockerImage.yml' | |
| - 'Dockerfile' | |
| - 'Dockerfile-base' | |
| - 'Dockerfile-assets/**' | |
| jobs: | |
| buildAndPushImage: | |
| name: Build and push Docker image | |
| if: "!contains(github.event.head_commit.message, '[skip ci]') && github.actor != 'allcontributors'" | |
| runs-on: ubuntu-20.04 | |
| steps: | |
| # Free disk space | |
| # Inspiration | |
| # - https://github.com/easimon/maximize-build-space/blob/master/action.yml | |
| # - https://githubmemory.com/repo/ros-industrial/industrial_ci/issues/648 | |
| # - https://github.community/t/bigger-github-hosted-runners-disk-space/17267/11 | |
| - name: Maximize build space | |
| run: | | |
| sudo apt-get -qq purge build-essential ghc* | |
| sudo apt-get clean | |
| sudo rm -rf /usr/share/dotnet | |
| sudo rm -rf /usr/local/lib/android | |
| sudo rm -rf /opt/ghc | |
| sudo rm -rf /usr/local/share/boost | |
| sudo rm -rf "$AGENT_TOOLSDIRECTORY" | |
| docker system prune -f | |
| # checkout repository | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| with: | |
| fetch-depth: 1 | |
| # Build Docker image | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v1 | |
| - name: Cache Docker layers | |
| uses: actions/cache@v2 | |
| with: | |
| path: /tmp/.buildx-cache | |
| key: ${{ runner.os }}-buildx-${{ github.sha }} | |
| restore-keys: | | |
| ${{ runner.os }}-buildx- | |
| - name: Login to GHCR | |
| uses: docker/login-action@v1 | |
| with: | |
| registry: ghcr.io | |
| username: "${{ secrets.DOCKER_REGISTRY_USERNAME }}" | |
| password: "${{ secrets.DOCKER_REGISTRY_TOKEN }}" | |
| - id: get-timestamp | |
| name: Get timestamp | |
| run: | | |
| TIMESTAMP=$(date --rfc-3339=seconds | sed 's/ /T/') | |
| echo "timestamp=$TIMESTAMP" >> $GITHUB_OUTPUT | |
| - name: Copy Dockerfile to Dockerfile-assets | |
| run: | | |
| cp Dockerfile Dockerfile-assets/ | |
| cp Dockerfile-base Dockerfile-assets/ | |
| - name: Build base image | |
| uses: docker/build-push-action@v2 | |
| with: | |
| context: Dockerfile-assets | |
| file: Dockerfile-base | |
| pull: true | |
| load: true | |
| push: false | |
| tags: | | |
| ghcr.io/biosimulators/biosimulators-base:sha-${{github.sha}} | |
| labels: | | |
| org.opencontainers.image.revision=${{github.sha}} | |
| org.opencontainers.image.created=${{steps.get-timestamp.outputs.timestamp}}" | |
| cache-from: type=registry,ref=ghcr.io/biosimulators/biosimulators-base:buildcache | |
| cache-to: type=registry,ref=ghcr.io/biosimulators/biosimulators-base:buildcache,mode=max | |
| - name: Push base Docker image | |
| run: docker image push ghcr.io/biosimulators/biosimulators-base:sha-${{github.sha}} | |
| - name: Label base Docker image | |
| run: docker image tag ghcr.io/biosimulators/biosimulators-base:sha-${{github.sha}} ghcr.io/biosimulators/biosimulators-base:latest | |
| - name: Maximize build space | |
| run: | | |
| docker system prune -f | |
| - name: Build image | |
| uses: docker/build-push-action@v2 | |
| with: | |
| context: Dockerfile-assets | |
| file: Dockerfile | |
| pull: false | |
| load: true | |
| push: false | |
| tags: | | |
| ghcr.io/biosimulators/biosimulators:sha-${{github.sha}} | |
| labels: | | |
| org.opencontainers.image.revision=${{github.sha}} | |
| org.opencontainers.image.created=${{steps.get-timestamp.outputs.timestamp}}" | |
| cache-from: type=registry,ref=ghcr.io/biosimulators/biosimulators:buildcache | |
| cache-to: type=registry,ref=ghcr.io/biosimulators/biosimulators:buildcache,mode=max | |
| - name: Push Docker image | |
| run: docker image push ghcr.io/biosimulators/biosimulators:sha-${{github.sha}} | |
| - name: Label Docker image | |
| run: docker image tag ghcr.io/biosimulators/biosimulators:sha-${{github.sha}} ghcr.io/biosimulators/biosimulators:latest | |
| - name: Maximize build space | |
| run: | | |
| docker system prune -f | |
| # Test Docker image | |
| - name: Test Docker image | |
| run: | | |
| cwd=$(pwd) | |
| docker run \ | |
| --rm \ | |
| --entrypoint bash \ | |
| --mount type=bind,source=${cwd},target=/app/Biosimulators \ | |
| ghcr.io/biosimulators/biosimulators:latest \ | |
| -c " | |
| pipenv install --dev --system --deploy | |
| /bin/bash /xvfb-startup.sh python -m pytest --forked --verbose Biosimulators/tests/ | |
| " | |
| # Get version number | |
| - id: get-version-number | |
| name: Get version number | |
| if: startsWith(github.ref, 'refs/tags/') | |
| env: | |
| TAG: ${{ github.ref }} | |
| run: | | |
| version="${TAG/refs\/tags\//}" | |
| echo "version=$version" >> $GITHUB_OUTPUT | |
| # Create GitHub release | |
| - name: Create GitHub release | |
| if: startsWith(github.ref, 'refs/tags/') | |
| uses: actions/create-release@v1 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| tag_name: ${{ steps.get-version-number.outputs.version }} | |
| release_name: Release ${{ steps.get-version-number.outputs.version }} | |
| # Push Docker image | |
| - name: Push Docker image | |
| if: startsWith(github.ref, 'refs/tags/') | |
| env: | |
| VERSION: ${{ steps.get-version-number.outputs.version }} | |
| run: | | |
| docker image tag ghcr.io/biosimulators/biosimulators-base:sha-${{github.sha}} ghcr.io/biosimulators/biosimulators-base:${VERSION} | |
| docker image tag ghcr.io/biosimulators/biosimulators:sha-${{github.sha}} ghcr.io/biosimulators/biosimulators:${VERSION} | |
| docker push ghcr.io/biosimulators/biosimulators-base:${VERSION} | |
| docker push ghcr.io/biosimulators/biosimulators-base:latest | |
| docker push ghcr.io/biosimulators/biosimulators:${VERSION} | |
| docker push ghcr.io/biosimulators/biosimulators:latest |