Refactor code to return interactions as sparse/dense Eigen matrices #666
Workflow file for this run
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| # Copyright (C) 2023 Roberto Rossini (roberros@uio.no) | |
| # SPDX-License-Identifier: MIT | |
| name: Build Dockerfile | |
| on: | |
| push: | |
| branches: [ main ] | |
| paths: | |
| - ".github/workflows/build-dockerfile.yml" | |
| - "cmake/**" | |
| - "external/**" | |
| - "src/**" | |
| - "test/**" | |
| - "CMakeLists.txt" | |
| - "Dockerfile" | |
| - "conanfile.py" | |
| tags: | |
| - 'v*.*.*' | |
| pull_request: | |
| paths: | |
| - ".github/workflows/build-dockerfile.yml" | |
| - "cmake/**" | |
| - "external/**" | |
| - "src/**" | |
| - "test/**" | |
| - "CMakeLists.txt" | |
| - "Dockerfile" | |
| - "conanfile.py" | |
| # https://stackoverflow.com/a/72408109 | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }} | |
| cancel-in-progress: true | |
| defaults: | |
| run: | |
| shell: bash | |
| jobs: | |
| cache-test-dataset: | |
| uses: paulsengroup/hictk/.github/workflows/cache-test-dataset.yml@main | |
| build-dockerfile: | |
| name: Build Dockerfile | |
| needs: cache-test-dataset | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: 'read' | |
| packages: 'write' | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Restore test dataset | |
| uses: actions/cache/restore@v4 | |
| with: | |
| key: ${{ needs.cache-test-dataset.outputs.cache-key }} | |
| path: test/data/hictk_test_data.tar.xz | |
| fail-on-cache-miss: true | |
| - name: Generate build args | |
| id: build-args | |
| run: | | |
| set -e | |
| set -u | |
| set -o pipefail | |
| OS_NAME='ubuntu' | |
| OS_VERSION='22.04' | |
| C_COMPILER='clang-18' | |
| CXX_COMPILER='clang++-18' | |
| BUILD_BASE_IMAGE="ghcr.io/paulsengroup/ci-docker-images/$OS_NAME-$OS_VERSION-cxx-$C_COMPILER:latest" | |
| TEST_BASE_IMAGE="$BUILD_BASE_IMAGE" | |
| FINAL_BASE_IMAGE="docker.io/library/$OS_NAME" | |
| FINAL_BASE_IMAGE_TAG="$OS_VERSION" | |
| sudo docker pull "$FINAL_BASE_IMAGE:$FINAL_BASE_IMAGE_TAG" | |
| FINAL_BASE_IMAGE_DIGEST="$(docker inspect --format='{{index .RepoDigests 0}}' "$FINAL_BASE_IMAGE:$FINAL_BASE_IMAGE_TAG" | grep -o '[[:alnum:]:]\+$')" | |
| GIT_HASH="$(git rev-parse HEAD)" | |
| GIT_SHORT_HASH="$(git rev-parse --short HEAD)" | |
| CREATION_DATE="$(date --iso-8601)" | |
| GIT_TAG="$(git for-each-ref 'refs/tags/v*.*.*' --count 1 --sort=-v:refname --format "%(refname:short)" --points-at HEAD)" | |
| if [ -z "$GIT_TAG" ]; then | |
| VERSION="sha-$GIT_SHORT_HASH" | |
| GIT_TAG=unknown | |
| else | |
| VERSION="$GIT_TAG" | |
| fi | |
| echo "C_COMPILER=$C_COMPILER" >> $GITHUB_OUTPUT | |
| echo "CXX_COMPILER=$CXX_COMPILER" >> $GITHUB_OUTPUT | |
| echo "FINAL_BASE_IMAGE=$FINAL_BASE_IMAGE" >> $GITHUB_OUTPUT | |
| echo "FINAL_BASE_IMAGE_TAG=$FINAL_BASE_IMAGE_TAG" >> $GITHUB_OUTPUT | |
| echo "BUILD_BASE_IMAGE=$BUILD_BASE_IMAGE" >> $GITHUB_OUTPUT | |
| echo "TEST_BASE_IMAGE=$TEST_BASE_IMAGE" >> $GITHUB_OUTPUT | |
| echo "FINAL_BASE_IMAGE_DIGEST=$FINAL_BASE_IMAGE_DIGEST" >> $GITHUB_OUTPUT | |
| echo "GIT_HASH=$GIT_HASH" >> $GITHUB_OUTPUT | |
| echo "GIT_SHORT_HASH=$GIT_SHORT_HASH" >> $GITHUB_OUTPUT | |
| echo "CREATION_DATE=$CREATION_DATE" >> $GITHUB_OUTPUT | |
| echo "GIT_TAG=$GIT_TAG" >> $GITHUB_OUTPUT | |
| echo "VERSION=$VERSION" >> $GITHUB_OUTPUT | |
| - name: Docker meta | |
| id: meta | |
| uses: docker/metadata-action@v5 | |
| with: | |
| images: ${{ github.repository }},ghcr.io/${{ github.repository }} | |
| flavor: | | |
| latest=true | |
| tags: | | |
| type=semver,priority=1000,pattern={{version}} | |
| type=sha,priority=900 | |
| type=ref,priority=700,event=branch | |
| type=ref,priority=600,event=pr | |
| - name: Login to DockerHub | |
| if: github.event_name != 'pull_request' | |
| uses: docker/login-action@v3 | |
| with: | |
| username: ${{ secrets.DOCKERHUB_USERNAME }} | |
| password: ${{ secrets.DOCKERHUB_TOKEN }} | |
| - name: Login to GitHub Container Registry | |
| uses: docker/login-action@v3 | |
| with: | |
| registry: ghcr.io | |
| username: ${{ github.repository_owner }} | |
| password: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v3 | |
| with: | |
| platforms: linux/amd64,linux/arm64 | |
| - name: Set up QEMU | |
| uses: docker/setup-qemu-action@v3 | |
| with: | |
| platforms: arm64 | |
| - name: Build Docker image (x86) | |
| uses: docker/build-push-action@v5 | |
| with: | |
| context: ${{ github.workspace }} | |
| load: true | |
| push: false | |
| cache-from: type=gha,scope=build-dockerfile | |
| cache-to: type=gha,mode=max,scope=build-dockerfile | |
| tags: hictk:test | |
| platforms: linux/amd64 | |
| build-args: | | |
| C_COMPILER=${{ steps.build-args.outputs.C_COMPILER }} | |
| CXX_COMPILER=${{ steps.build-args.outputs.CXX_COMPILER }} | |
| BUILD_BASE_IMAGE=${{ steps.build-args.outputs.BUILD_BASE_IMAGE }} | |
| TEST_BASE_IMAGE=${{ steps.build-args.outputs.TEST_BASE_IMAGE }} | |
| FINAL_BASE_IMAGE=${{ steps.build-args.outputs.FINAL_BASE_IMAGE }} | |
| FINAL_BASE_IMAGE_TAG=${{ steps.build-args.outputs.FINAL_BASE_IMAGE_TAG }} | |
| FINAL_BASE_IMAGE_DIGEST=${{ steps.build-args.outputs.FINAL_BASE_IMAGE_DIGEST }} | |
| GIT_HASH=${{ steps.build-args.outputs.GIT_HASH }} | |
| GIT_SHORT_HASH=${{ steps.build-args.outputs.GIT_SHORT_HASH }} | |
| CREATION_DATE=${{ steps.build-args.outputs.CREATION_DATE }} | |
| GIT_TAG=${{ steps.build-args.outputs.GIT_TAG }} | |
| GIT_IS_DIRTY=false | |
| VERSION=${{ steps.build-args.outputs.VERSION }} | |
| - name: Test Docker image (x86) | |
| run: | | |
| utils/devel/test_docker_image.sh hictk:test | |
| - name: Build Docker image (arm64) | |
| uses: docker/build-push-action@v5 | |
| if: github.event_name != 'pull_request' | |
| with: | |
| context: ${{ github.workspace }} | |
| load: true | |
| push: false | |
| cache-from: type=gha,scope=build-dockerfile | |
| cache-to: type=gha,mode=max,scope=build-dockerfile | |
| tags: hictk:test | |
| platforms: linux/arm64 | |
| build-args: | | |
| C_COMPILER=${{ steps.build-args.outputs.C_COMPILER }} | |
| CXX_COMPILER=${{ steps.build-args.outputs.CXX_COMPILER }} | |
| BUILD_BASE_IMAGE=${{ steps.build-args.outputs.BUILD_BASE_IMAGE }} | |
| TEST_BASE_IMAGE=${{ steps.build-args.outputs.TEST_BASE_IMAGE }} | |
| FINAL_BASE_IMAGE=${{ steps.build-args.outputs.FINAL_BASE_IMAGE }} | |
| FINAL_BASE_IMAGE_TAG=${{ steps.build-args.outputs.FINAL_BASE_IMAGE_TAG }} | |
| FINAL_BASE_IMAGE_DIGEST=${{ steps.build-args.outputs.FINAL_BASE_IMAGE_DIGEST }} | |
| GIT_HASH=${{ steps.build-args.outputs.GIT_HASH }} | |
| GIT_SHORT_HASH=${{ steps.build-args.outputs.GIT_SHORT_HASH }} | |
| CREATION_DATE=${{ steps.build-args.outputs.CREATION_DATE }} | |
| GIT_TAG=${{ steps.build-args.outputs.GIT_TAG }} | |
| GIT_IS_DIRTY=false | |
| VERSION=${{ steps.build-args.outputs.VERSION }} | |
| - name: Push image to registries | |
| if: github.event_name != 'pull_request' | |
| uses: docker/build-push-action@v5 | |
| with: | |
| context: ${{ github.workspace }} | |
| push: true | |
| cache-from: type=gha,scope=build-dockerfile | |
| cache-to: type=gha,mode=max,scope=build-dockerfile | |
| tags: ${{ steps.meta.outputs.tags }} | |
| platforms: linux/amd64,linux/arm64 | |
| build-args: | | |
| C_COMPILER=${{ steps.build-args.outputs.C_COMPILER }} | |
| CXX_COMPILER=${{ steps.build-args.outputs.CXX_COMPILER }} | |
| BUILD_BASE_IMAGE=${{ steps.build-args.outputs.BUILD_BASE_IMAGE }} | |
| TEST_BASE_IMAGE=${{ steps.build-args.outputs.TEST_BASE_IMAGE }} | |
| FINAL_BASE_IMAGE=${{ steps.build-args.outputs.FINAL_BASE_IMAGE }} | |
| FINAL_BASE_IMAGE_TAG=${{ steps.build-args.outputs.FINAL_BASE_IMAGE_TAG }} | |
| FINAL_BASE_IMAGE_DIGEST=${{ steps.build-args.outputs.FINAL_BASE_IMAGE_DIGEST }} | |
| GIT_HASH=${{ steps.build-args.outputs.GIT_HASH }} | |
| GIT_SHORT_HASH=${{ steps.build-args.outputs.GIT_SHORT_HASH }} | |
| CREATION_DATE=${{ steps.build-args.outputs.CREATION_DATE }} | |
| GIT_TAG=${{ steps.build-args.outputs.GIT_TAG }} | |
| GIT_IS_DIRTY=false | |
| VERSION=${{ steps.build-args.outputs.VERSION }} | |
| build-dockerfile-status-check: | |
| name: Status Check (Build Dockerfile) | |
| if: ${{ always() }} | |
| runs-on: ubuntu-latest | |
| needs: | |
| - build-dockerfile | |
| steps: | |
| - name: Collect job results | |
| if: | | |
| needs.build-dockerfile.result != 'success' | |
| run: exit 1 |