Build Container Image for Naive BBS #203
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Build Container Image for Naive BBS | |
| on: | |
| workflow_dispatch: | |
| push: | |
| paths: | |
| - "**/Dockerfile" | |
| schedule: | |
| - cron: '0 0 */2 * *' | |
| # Avoids Github UI bugs https://github.com/orgs/community/discussions/45969 | |
| env: | |
| BUILDX_NO_DEFAULT_ATTESTATIONS: 1 | |
| BUILDKIT_STEP_LOG_MAX_SIZE: 50000000 | |
| jobs: | |
| ghcrbuild: | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| ubuntu: [jammy] | |
| platform: [linux/amd64] | |
| branch: [devel, release] | |
| name: Build container images for GHCR | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Free root space | |
| uses: almahmoud/free-root-space@main | |
| with: | |
| verbose: true | |
| - uses: actions/checkout@v3 | |
| - name: Extract metadata for container image | |
| id: meta | |
| uses: docker/metadata-action@v4 | |
| with: | |
| images: ghcr.io/${{ github.repository }} | |
| tags: | | |
| type=raw,value=${{ matrix.ubuntu }} | |
| - name: Extract container name without tag | |
| id: vars | |
| run: | | |
| echo container=$(echo '${{ steps.meta.outputs.tags }}' | awk -F':' '{print $1}') >> $GITHUB_OUTPUT | |
| - name: Set up QEMU | |
| uses: docker/setup-qemu-action@v2 | |
| with: | |
| platforms: arm64 | |
| if: contains(steps.versions.outputs.platform, 'arm64') | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v2 | |
| with: | |
| platforms: ${{matrix.platform}} | |
| - name: Login to GHCR | |
| uses: docker/login-action@v2 | |
| with: | |
| registry: ghcr.io | |
| username: ${{ github.repository_owner }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Build and push container image to ghcr | |
| id: build | |
| uses: docker/build-push-action@v4 | |
| with: | |
| build-args: CYCLE=${{matrix.branch}} | |
| labels: ${{ steps.meta.outputs.labels }} | |
| outputs: type=image,name=${{ steps.vars.outputs.container }},push-by-digest=true,name-canonical=true,push=true | |
| platforms: ${{matrix.platform}} | |
| provenance: false | |
| - name: Prepare Dockerfile to extract R version with emulator | |
| run: | | |
| mkdir -p ${{matrix.ubuntu}}-${{matrix.platform}} | |
| cat << "EOF" > ${{matrix.ubuntu}}-${{matrix.platform}}-r.Dockerfile | |
| FROM ${{ steps.vars.outputs.container }}@${{ steps.build.outputs.digest }} as extract | |
| USER root | |
| RUN mkdir /bioctmp && /bbs_r_start -e 'BiocManager::version()' | grep '\[1\]' | awk -F"'" '{print $2}' > /bioctmp/biocver && /bbs_r_start --slave -e 'cat(paste(version$major, version$minor, sep = "."))' > /bioctmp/rver && cat /etc/os-release > /bioctmp/os-release | |
| FROM scratch as export | |
| COPY --from=extract /bioctmp/* / | |
| EOF | |
| - name: Build and push container image to ghcr | |
| uses: docker/build-push-action@v4 | |
| with: | |
| file: ${{matrix.ubuntu}}-${{matrix.platform}}-r.Dockerfile | |
| context: . | |
| push: false | |
| load: false | |
| provenance: false | |
| outputs: type=tar,dest=${{matrix.ubuntu}}-${{matrix.platform}}/r.tar | |
| tags: ${{ steps.meta.outputs.tags }}-r | |
| platforms: ${{ matrix.platform }} | |
| - name: Extract rversion | |
| id: versions | |
| run: | | |
| cd ${{matrix.ubuntu}}-${{matrix.platform}} | |
| tar -xvf r.tar | |
| echo rver=$(cat rver) >> $GITHUB_OUTPUT | |
| echo biocver=$(cat biocver) >> $GITHUB_OUTPUT | |
| echo osver=$(awk -F= '/VERSION_ID/ {gsub("\"", "", $2); print $2}' os-release) >> $GITHUB_OUTPUT | |
| BASEPREFIX="" | |
| if [ '${{matrix.branch}}' == 'devel' ]; then BASEPREFIX="devel-"; fi | |
| echo baseprefix=$BASEPREFIX >> $GITHUB_OUTPUT | |
| - name: Export digest by ubuntu and r versions | |
| run: | | |
| R_VER_EXPECTED=$(curl https://bioconductor.org/config.yaml | yq e '.r_ver_for_bioc_ver."${{steps.versions.outputs.biocver}}"') | |
| R_VER_FOUND="${{steps.versions.outputs.rver}}" | |
| R_FOUND_MAJOR_MINOR=${R_VER_FOUND%.*} | |
| if [ "$R_FOUND_MAJOR_MINOR" != "$R_VER_EXPECTED" ]; then | |
| echo "Mismatched versions found '$R_VER_FOUND' and expected '$R_VER_EXPECTED'" | |
| exit 1 | |
| fi | |
| digest="${{ steps.build.outputs.digest }}" | |
| mkdir -p /tmp/digests/${{steps.versions.outputs.baseprefix}}${{matrix.ubuntu}} | |
| touch "/tmp/digests/${{steps.versions.outputs.baseprefix}}${{matrix.ubuntu}}/${digest#sha256:}" | |
| mkdir -p /tmp/digests/${{steps.versions.outputs.baseprefix}}${{matrix.ubuntu}}-bioc-${{steps.versions.outputs.biocver}} | |
| touch "/tmp/digests/${{steps.versions.outputs.baseprefix}}${{matrix.ubuntu}}-bioc-${{steps.versions.outputs.biocver}}/${digest#sha256:}" | |
| mkdir -p /tmp/digests/${{steps.versions.outputs.baseprefix}}${{matrix.ubuntu}}-bioc-${{steps.versions.outputs.biocver}}-r-${{steps.versions.outputs.rver}} | |
| touch "/tmp/digests/${{steps.versions.outputs.baseprefix}}${{matrix.ubuntu}}-bioc-${{steps.versions.outputs.biocver}}-r-${{steps.versions.outputs.rver}}/${digest#sha256:}" | |
| mkdir -p /tmp/digests/${{steps.versions.outputs.baseprefix}}${{steps.versions.outputs.osver}} | |
| touch "/tmp/digests/${{steps.versions.outputs.baseprefix}}${{steps.versions.outputs.osver}}/${digest#sha256:}" | |
| mkdir -p /tmp/digests/${{steps.versions.outputs.baseprefix}}${{steps.versions.outputs.osver}}-bioc-${{steps.versions.outputs.biocver}} | |
| touch "/tmp/digests/${{steps.versions.outputs.baseprefix}}${{steps.versions.outputs.osver}}-bioc-${{steps.versions.outputs.biocver}}/${digest#sha256:}" | |
| mkdir -p /tmp/digests/${{steps.versions.outputs.baseprefix}}${{steps.versions.outputs.osver}}-bioc-${{steps.versions.outputs.biocver}}-r-${{steps.versions.outputs.rver}} | |
| touch "/tmp/digests/${{steps.versions.outputs.baseprefix}}${{steps.versions.outputs.osver}}-bioc-${{steps.versions.outputs.biocver}}-r-${{steps.versions.outputs.rver}}/${digest#sha256:}" | |
| - name: Upload digests | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: r2udigests-${{ github.run_id }} | |
| path: /tmp/digests/** | |
| if-no-files-found: error | |
| retention-days: 1 | |
| merge: | |
| runs-on: ubuntu-latest | |
| needs: | |
| - ghcrbuild | |
| if: always() | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| ubuntu: [jammy] | |
| steps: | |
| - name: Download digests | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: r2udigests-${{ github.run_id }} | |
| path: /tmp/digests | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v2 | |
| with: | |
| platforms: ${{matrix.platform}} | |
| - name: Login to GHCR | |
| uses: docker/login-action@v2 | |
| with: | |
| registry: ghcr.io | |
| username: ${{ github.repository_owner }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Extract metadata for container image | |
| id: meta | |
| uses: docker/metadata-action@v4 | |
| with: | |
| images: ghcr.io/${{ github.repository }} | |
| tags: | | |
| type=raw,value=${{ matrix.ubuntu }} | |
| - name: Extract container name without tag | |
| id: vars | |
| run: | | |
| echo container=$(echo '${{ steps.meta.outputs.tags }}' | awk -F':' '{print $1}') >> $GITHUB_OUTPUT | |
| - name: Create manifest list and push | |
| run: | | |
| cd /tmp/digests | |
| ls --hide=digestdirs > digestdirs | |
| cat digestdirs | xargs -i bash -c 'docker buildx imagetools create -t ${{steps.vars.outputs.container}}:{} $(for f in {}/*; do basename "$f"; done | xargs printf "${{steps.vars.outputs.container}}@sha256:%s ")' |