match format of others #16
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| name: 'Build & Push: bioconda-utils-build-env-cos7' | |
| on: | |
| push: | |
| branches: | |
| - main | |
| paths: | |
| - images/build-env/** | |
| - .github/workflows/build-env-image.yml | |
| pull_request: | |
| paths: | |
| - images/build-env/** | |
| - .github/workflows/build-env-image.yml | |
| jobs: | |
| build: | |
| name: Build & Push | |
| runs-on: ubuntu-22.04 | |
| env: | |
| # The base image is not intended to change often and should be used with | |
| # version tags or checksum IDs, but not via "latest". | |
| MAJOR_VERSION: 3 | |
| MINOR_VERSION: 1 | |
| IMAGE_NAME: bioconda-utils-build-env-cos7 | |
| steps: | |
| - name: Checkout bioconda-containers | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - name: Checkout bioconda-utils | |
| uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| repository: 'bioconda/bioconda-utils' | |
| path: 'bioconda-utils' | |
| - name: Set up QEMU | |
| uses: docker/setup-qemu-action@v2 | |
| with: | |
| platforms: arm64 | |
| - name: Build | |
| id: build | |
| run: | | |
| set -xeu | |
| cd 'images/${{ env.IMAGE_NAME }}' | |
| image_name='${{ env.IMAGE_NAME }}' | |
| tags=' | |
| ${{ env.MAJOR_VERSION }} | |
| ${{ env.MAJOR_VERSION }}.${{ env.MINOR_VERSION }} | |
| latest | |
| ' | |
| # Adds image and tags to outputs which can be used in later steps. | |
| printf %s\\n \ | |
| "image=${image_name}" \ | |
| "tags=$( echo ${tags} )" \ | |
| >> $GITHUB_OUTPUT | |
| # Create manifest (which is considered arch-independent) | |
| for tag in ${tags} ; do | |
| buildah manifest create "${image_name}:${tag}" | |
| done | |
| # Due to different nomenclature used by conda-forge and buildah, we | |
| # need to map archs to base images. | |
| for arch_and_image in \ | |
| "amd64=quay.io/condaforge/linux-anvil-cos7-x86_64" \ | |
| "arm64=quay.io/condaforge/linux-anvil-aarch64"; | |
| do | |
| # Unpack archs and base images | |
| arch=$(cut -f1 -d "=" $arch_and_image) | |
| base_image=$(cut -f2 -d "=" $arch_and_image) | |
| # --iidfile prints the built image ID to the specified file. This is | |
| # used so we can refer to the image in later steps. | |
| iidfile="$( mktemp )" | |
| buildah bud \ | |
| --arch="${arch}" \ | |
| --iidfile="${iidfile}" \ | |
| --build-arg=base_image="$base_image" \ | |
| image_id="$( cat "${iidfile}" )" | |
| rm "${iidfile}" | |
| # Extract various package info and version info to store as labels | |
| container="$( buildah from "${image_id}" )" | |
| run() { buildah run "${container}" "${@}" ; } | |
| deb_list="$( run cat /.deb.lst | tr '\n' '|' | sed 's/|$//' )" | |
| pkg_list="$( run cat /.pkg.lst | tr '\n' '|' | sed 's/|$//' )" | |
| glibc="$( run sh -c 'exec "$( find -xdev -name libc.so.6 -print -quit )"' | sed '1!d' )" | |
| bash="$( run bash --version | sed '1!d' )" | |
| bioconda_utils="$( run bioconda-utils --version )" | |
| buildah rm "${container}" | |
| # Store package/version info as labels for the image | |
| container="$( buildah from "${image_id}" )" | |
| buildah config \ | |
| --label=glibc="${glibc}" \ | |
| --label=bash="${bash}" \ | |
| --label=deb-list="${deb_list}" \ | |
| --label=pkg-list="${pkg_list}" \ | |
| --label=bioconda-utils="${bioconda_utils}" \ | |
| "${container}" | |
| # Store the new image (now with labels) | |
| image_id="$( buildah commit "${container}" )" | |
| buildah rm "${container}" | |
| # image tag includes arch; then added to manifest which does not include arch | |
| for tag in ${tags} ; do | |
| buildah tag \ | |
| "${image_id}" \ | |
| "${image_name}:${tag}-${arch}" | |
| buildah manifest add \ | |
| "${image_name}:${tag}" \ | |
| "${image_id}" | |
| done | |
| done | |
| - name: Test | |
| run: | | |
| image='${{ steps.build.outputs.image }}' | |
| # Extract image ids from manifest to test. | |
| ids="$( | |
| for tag in ${{ steps.build.outputs.tags }} ; do | |
| buildah manifest inspect "${image}:${tag}" \ | |
| | jq -r '.manifests[]|.digest' \ | |
| | while read id ; do | |
| buildah images --format '{{.ID}}{{.Digest}}' \ | |
| | sed -n "s/${id}//p" | |
| done | |
| done | |
| )" | |
| # See Dockerfile.test for actual tests run | |
| ids="$( printf %s "${ids}" | sort -u )" | |
| for id in ${ids} ; do | |
| podman history "${id}" | |
| buildah bud \ | |
| --build-arg=base="${id}" \ | |
| --file=Dockerfile.test \ | |
| "images/${image}" | |
| done | |
| buildah rmi --prune || true | |
| - name: Check Tags | |
| run: | | |
| # FIX upstream: Quay.io does not support immutable images currently. | |
| # => Try to use the REST API to check for duplicate tags and exit if they exist | |
| response="$( | |
| curl -sL \ | |
| 'https://quay.io/api/v1/repository/bioconda/${{ steps.build.outputs.image }}/tag/' | |
| )" | |
| existing_tags="$( | |
| printf %s "${response}" \ | |
| | jq -r '.tags[]|select(.end_ts == null or .end_ts >= now)|.name' | |
| )" \ | |
| || { | |
| printf %s\\n \ | |
| 'Could not get list of image tags.' \ | |
| 'Does the repository exist on Quay.io?' \ | |
| 'Quay.io REST API response was:' \ | |
| "${response}" | |
| exit 1 | |
| } | |
| for tag in ${{ steps.build.outputs.tags }} ; do | |
| case "${tag}" in | |
| latest | '${{ env.MAJOR_VERSION }}' ) ;; | |
| * ) | |
| if printf %s "${existing_tags}" | grep -qxF "${tag}" ; then | |
| printf 'Tag %s already exists!\n' "${tag}" | |
| exit 1 | |
| fi | |
| esac | |
| done | |
| - if: ${{ github.ref == 'refs/heads/main' }} | |
| name: Push | |
| uses: redhat-actions/push-to-registry@v2 | |
| with: | |
| image: ${{ steps.build.outputs.image }} | |
| tags: ${{ steps.build.outputs.tags }} | |
| registry: ${{ secrets.QUAY_BIOCONDA_REPO }} | |
| username: ${{ secrets.QUAY_BIOCONDA_USERNAME }} | |
| password: ${{ secrets.QUAY_BIOCONDA_TOKEN }} | |
| - if: ${{ github.ref == 'refs/heads/main' }} | |
| name: Test Pushed | |
| run: | | |
| image='${{ env.IMAGE_NAME }}' | |
| ids="$( | |
| for tag in ${{ steps.build.outputs.tags }} ; do | |
| buildah manifest inspect "${image}:${tag}" \ | |
| | jq -r '.manifests[]|.digest' \ | |
| | while read id ; do | |
| buildah images --format '{{.ID}}{{.Digest}}' \ | |
| | sed -n "s/${id}//p" | |
| done | |
| done | |
| )" | |
| ids="$( printf %s "${ids}" | sort -u )" | |
| for id in ${ids} ; do | |
| podman history "${id}" | |
| buildah bud \ | |
| --build-arg=base="${id}" \ | |
| --file=Dockerfile.test \ | |
| "images/${image}" | |
| done | |
| buildah rmi --prune || true |