29 container image for tracking memory usage #157
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| name: Create Docker image and publish to GH Packages | |
| on: | |
| pull_request: | |
| branches: [ main ] # create a new version whenever we push to main | |
| env: | |
| DOCKER_REGISTRY: ghcr.io # where to register the image | |
| REPO_PATH: github.com/furrer-lab/abn.git | |
| # REPO_PATH: github.com:furrer-lab/abn.git # for private repo cloned via ssh | |
| # Set the path to the package where the DESCRIPTION file can be found | |
| PACKAGE_PATH: ${{ vars.PACKAGE_PATH || './' }} | |
| JAGS: JAGS-4.3.2 | |
| # this if for the valgrind container only | |
| DRMEMORY: "2.6.0" | |
| CHGLOG_RELEASE: git-chglog_0.15.4_linux_amd64 | |
| CHGLOG_PATH: https://github.com/git-chglog/git-chglog/releases/download/v0.15.4 | |
| jobs: | |
| increment-tag: | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: write | |
| outputs: | |
| VERSION: ${{ steps.version.outputs.version }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: '0' | |
| - name: Auto increment calver version | |
| uses: reecetech/version-increment@2023.10.1 | |
| id: version | |
| with: | |
| scheme: calver | |
| build-and-push: | |
| runs-on: ubuntu-latest | |
| needs: increment-tag | |
| env: | |
| CUSTOM_TAG: "${{ needs.increment-tag.outputs.VERSION }}" | |
| permissions: # for `GITHUB_TOKEN` | |
| contents: read | |
| packages: write | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| # NOTE: valgrind container is fedora, gcc, devel | |
| # see https://r-hub.github.io/containers/containers.html#valgrind | |
| # target-os: ['debian', 'fedora'] | |
| target-os: ['debian'] | |
| compiler: ['gcc', 'clang'] | |
| r-version: ['devel', 'release', 'patched'] | |
| exclude: | |
| - target-os: 'debian' | |
| # - target-os: 'fedora' | |
| # r-version: 'release' | |
| # - target-os: 'fedora' | |
| # r-version: 'patched' | |
| # - compiler: 'clang' | |
| # r-version: 'patched' | |
| # - compiler: 'clang' | |
| # r-version: 'release' | |
| include: | |
| - target-os: 'valgrind' | |
| compiler: 'gcc' | |
| r-version: 'devel' | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3 | |
| - name: Log in to the registry | |
| uses: docker/login-action@65b78e6e13532edd9afa3aa52ac7964289d1a9c1 | |
| with: | |
| registry: ${{ env.DOCKER_REGISTRY }} | |
| username: ${{ github.actor }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Extract tags and labels | |
| id: meta | |
| uses: docker/metadata-action@9ec57ed1fcdbf14dcef7dfbe97b2010124a938b7 | |
| with: | |
| # TODO: set a proper name of the image (same as in context below) | |
| images: ${{ env.DOCKER_REGISTRY}}/${{ format('{0}/{1}/{2}/{3}/abn', github.repository, matrix.target-os, matrix.compiler, matrix.r-version ) }} | |
| tags: | # set Docker tags to git tags | |
| type=raw,value=${{ env.CUSTOM_TAG }} | |
| type=raw,value=latest,enable=${{ github.ref == format('refs/heads/{0}', 'main') }} | |
| # For private repo cloned via ssh we need a deploy key | |
| # - name: Write the ssh key file | |
| # run: | | |
| # echo "${{ secrets.DEVEL_ABN_DEPLOY }}" >> ssh_key | |
| # shell: bash | |
| - name: Build and push | |
| uses: docker/build-push-action@f2a1d5e99d037542a71f64918e516c093c6f3fc4 | |
| with: | |
| context: ${{ format('./containers/{0}/', matrix.target-os ) }} | |
| push: true | |
| tags: ${{ steps.meta.outputs.tags }} | |
| labels: ${{ steps.meta.outputs.labels }} | |
| build-args: | | |
| TARGET_OS=${{ matrix.target-os }} | |
| COMPILER=${{ matrix.compiler }} | |
| R_VERSION=${{ matrix.r-version }} | |
| PACKAGE_PATH=${{ env.PACKAGE_PATH}} | |
| REPO_PATH=${{ env.REPO_PATH }} | |
| JAGS=${{ env.JAGS }} | |
| DRMEMORY=${{ env.DRMEMORY }} | |
| # For private repo cloned via ssh | |
| # secret-files: | | |
| # key=./ssh_key | |
| container-integrity-and-config: | |
| runs-on: ubuntu-22.04 | |
| needs: [ 'increment-tag', 'build-and-push'] | |
| permissions: | |
| contents: write | |
| packages: read | |
| container: | |
| image: ${{ vars.CONTAINER_SOURCE }}/${{ matrix.target-os }}/${{ matrix.compiler }}/${{ matrix.r-version }}/abn:${{ needs.increment-tag.outputs.VERSION }} | |
| options: --user 1001 | |
| credentials: | |
| username: ${{ github.actor }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| strategy: | |
| matrix: | |
| # target-os: ['debian', 'fedora'] | |
| target-os: ['debian'] | |
| compiler: ['gcc', 'clang'] | |
| r-version: ['devel', 'release', 'patched'] | |
| exclude: | |
| - target-os: 'debian' | |
| # - target-os: 'fedora' | |
| # r-version: 'release' | |
| # - target-os: 'fedora' | |
| # r-version: 'patched' | |
| # - compiler: 'clang' | |
| # r-version: 'patched' | |
| # - compiler: 'clang' | |
| # r-version: 'release' | |
| include: | |
| - target-os: 'valgrind' | |
| compiler: 'gcc' | |
| r-version: 'devel' | |
| fail-fast: false | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: '0' | |
| - name: Install knitr | |
| run: | | |
| dir.create(Sys.getenv("R_LIBS_USER"), recursive = TRUE) | |
| .libPaths(Sys.getenv("R_LIBS_USER")) | |
| install.packages("knitr") | |
| shell: Rscript {0} | |
| - name: Write out configuration | |
| run: | | |
| Rscript -e 'args<-commandArgs(TRUE);knitr::knit_hooks$set(output = function(x, options){gsub("##", ">\n> ", x)});knitr::knit("src/release_info.tpl", sprintf("info/%s-%s-%s-%s.md", args[1], args[2], args[3], args[4]))' ${{ matrix.target-os}} ${{ matrix.compiler }} ${{ matrix.r-version }} abn | |
| - name: Save config as artifact | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: info-artifact-${{ matrix.target-os }}_${{ matrix.compiler }}_${{ matrix.r-version }} | |
| path: info/${{ matrix.target-os }}-${{ matrix.compiler }}-${{ matrix.r-version }}-abn.md | |
| update-container-info: | |
| runs-on: ubuntu-latest | |
| needs: [ 'increment-tag', 'container-integrity-and-config' ] | |
| permissions: | |
| contents: write | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: '0' | |
| - name: Getting artifacts | |
| uses: actions/download-artifact@v4 | |
| with: | |
| pattern: "info-artifact-*" | |
| path: info/ | |
| merge-multiple: true | |
| - name: Update the archive | |
| run: | | |
| mkdir -p info/archive/${{ needs.increment-tag.outputs.VERSION }} | |
| cp info/*.md info/archive/${{ needs.increment-tag.outputs.VERSION }}/ | |
| - name: Commit config for container | |
| uses: EndBug/add-and-commit@v9 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| pull: '--rebase --autostash' | |
| push: true | |
| default_author: github_actions | |
| message: "auto-update: container info for release ${{ needs.increment-tag.outputs.VERSION }}" | |
| add: "info/" | |
| auto-update-and-publish-tag: | |
| runs-on: ubuntu-latest | |
| needs: [ 'increment-tag', 'update-container-info'] | |
| permissions: | |
| contents: write | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: '0' | |
| - name: Get git-chglog and update CHANGELOG | |
| run: | | |
| wget ${{ env.CHGLOG_PATH }}/${{ env.CHGLOG_RELEASE}}.tar.gz # get the binary for the chglog | |
| tar --extract --file=${{ env.CHGLOG_RELEASE}}.tar.gz git-chglog | |
| git config user.email "actions@github.com" | |
| git config user.name "github_actions" | |
| git tag -a ${{ needs.increment-tag.outputs.VERSION }} -m 'interim tag for changelog' | |
| ./git-chglog -o CHANGELOG.md # update the changelog file | |
| git tag -d ${{ needs.increment-tag.outputs.VERSION }} # remove the tag again | |
| - name: Commit CHANGELOG.md update | |
| uses: EndBug/add-and-commit@v9 | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| pull: '--rebase --autostash' | |
| default_author: github_actions | |
| message: "auto-update: CHANGELOG.md" | |
| add: 'CHANGELOG.md' | |
| tag: "${{ needs.increment-tag.outputs.VERSION }}" |