Replace /bin/sh with a wrapper to /bin/bash #137
Workflow file for this run
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| name: 'Build & Push: create-env' | |
| on: | |
| push: | |
| branches: | |
| - main | |
| paths: | |
| - images/create-env/* | |
| - .github/workflows/create-env.yaml | |
| pull_request: | |
| paths: | |
| - images/create-env/* | |
| - .github/workflows/create-env.yaml | |
| jobs: | |
| build: | |
| name: Build & Push | |
| runs-on: ubuntu-22.04 | |
| env: | |
| MAJOR_VERSION: 3 | |
| MINOR_VERSION: 1 | |
| IMAGE_NAME: create-env | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Set up QEMU | |
| uses: docker/setup-qemu-action@v2 | |
| with: | |
| platforms: arm64 | |
| - name: Prepare | |
| id: prepare | |
| run: | | |
| curl -sSL \ | |
| 'https://raw.githubusercontent.com/bioconda/bioconda-common/master/common.sh' \ | |
| | sed -n \ | |
| 's/BIOCONDA_UTILS_TAG=v/bioconda_utils_version=/p' \ | |
| >> $GITHUB_OUTPUT | |
| - name: Build | |
| id: build | |
| uses: redhat-actions/buildah-build@v2 | |
| with: | |
| image: ${{ env.IMAGE_NAME }} | |
| tags: >- | |
| latest | |
| ${{ env.MAJOR_VERSION }} | |
| ${{ env.MAJOR_VERSION }}.${{ env.MINOR_VERSION }} | |
| archs: amd64,arm64 | |
| context: ./images/${{ env.IMAGE_NAME }} | |
| containerfiles: | | |
| ./images/${{ env.IMAGE_NAME }}/Dockerfile | |
| build-args: | | |
| bioconda_utils_version=${{ steps.prepare.outputs.bioconda_utils_version }} | |
| - name: Test | |
| run: | | |
| set -x | |
| image='${{ steps.build.outputs.image }}' | |
| for tag in ${{ steps.build.outputs.tags }} ; do | |
| buildah manifest inspect \ | |
| "${image}:${tag}" \ | |
| | jq '.manifests|{([.[].digest]|sort|join("+")): [.[]|["'"${tag}"'", .platform.architecture, .digest]|join(" ")]}' | |
| done \ | |
| | jq -rs 'add|add[]' \ | |
| | while read tag arch digest ; do | |
| podman images --format='{{.ID}}|{{.Digest}}|{{.RepoDigests}}' \ | |
| | sed -n "/${digest}/{s/|.*//p;q}" \ | |
| | xargs -n1 -- \ | |
| sh -xc \ | |
| 'podman history "${1}" ; podman inspect "${1}"' -- | |
| buildah bud \ | |
| --arch="${arch}" \ | |
| --build-arg=base="${image}:${tag}" \ | |
| --file=Dockerfile.test \ | |
| "images/${image}" | |
| done | |
| buildah rmi --prune || true | |
| - name: Check Tags | |
| run: | | |
| # FIX upstream: Quay.io does not support immutable images currently. | |
| # => Try to use the REST API to check for duplicate tags. | |
| response="$( | |
| 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: ${{ github.ref == 'refs/heads/main' }} | |
| name: Test Pushed | |
| run: | | |
| set -x | |
| image='${{ steps.build.outputs.image }}' | |
| for tag in ${{ steps.build.outputs.tags }} ; do | |
| buildah manifest inspect \ | |
| "${image}:${tag}" \ | |
| | jq '.manifests|{([.[].digest]|sort|join("+")): [.[]|["'"${tag}"'", .platform.architecture, .digest]|join(" ")]}' | |
| done \ | |
| | jq -rs 'add|add[]' \ | |
| | while read tag arch digest ; do | |
| podman images --format='{{.ID}}|{{.Digest}}|{{.RepoDigests}}' \ | |
| | sed -n "/${digest}/{s/|.*//p;q}" \ | |
| | xargs -n1 -- \ | |
| sh -xc \ | |
| 'podman history "${1}" ; podman inspect "${1}"' -- | |
| buildah bud \ | |
| --arch="${arch}" \ | |
| --build-arg=base="${image}:${tag}" \ | |
| --file=Dockerfile.test \ | |
| "images/${image}" | |
| done | |
| buildah rmi --prune || true |