Freesurfer r5 #157
Workflow file for this run
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| --- | |
| name: main | |
| on: | |
| push: | |
| pull_request: | |
| workflow_dispatch: | |
| # schedule: | |
| # - cron: "0 6 * * *" | |
| defaults: | |
| run: | |
| shell: bash | |
| jobs: | |
| containers: | |
| runs-on: ubuntu-22.04 | |
| strategy: | |
| matrix: | |
| package: ["FSL", "Freesurfer"] | |
| steps: | |
| - name: checkout | |
| uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 2 | |
| - name: skip if unchanged | |
| run: | | |
| set -euxo pipefail | |
| SKIP=0 | |
| if ! git diff --name-only HEAD^ | grep "software/${{ matrix.package }}" | grep -v README > /dev/null | |
| then | |
| SKIP=1 | |
| fi | |
| echo "SKIP=$SKIP" >> "$GITHUB_ENV" | |
| - name: Trivy Dockerfile misconfiguration check | |
| if: env.SKIP == '0' | |
| run: ./bin/trivy-misconfig-dockerfile.bash "software/${{ matrix.package }}/Dockerfile" | |
| - name: run hadolint | |
| if: env.SKIP == '0' | |
| run: ./bin/hadolint.bash "software/${{ matrix.package }}/Dockerfile" | |
| - name: Run jlumbroso/free-disk-space@main | |
| if: env.SKIP == '0' | |
| uses: jlumbroso/free-disk-space@main | |
| with: | |
| tool-cache: true | |
| - name: free disk space | |
| if: env.SKIP == '0' | |
| run: | | |
| set -euxo pipefail | |
| # From https://github.com/jlumbroso/free-disk-space/pull/24 | |
| sudo apt-get remove -y microsoft-edge-stable --fix-missing | |
| sudo apt-get remove -y snapd --fix-missing | |
| # Extras | |
| sudo rm -rf /usr/share/swift | |
| sudo rm -rf /opt/hostedtoolcache | |
| sudo rm -rf /usr/local/aws* | |
| sudo rm -rf /usr/local/julia* | |
| sudo rm -rf /usr/local/lib/R | |
| sudo rm -rf /usr/local/lib/node_modules | |
| sudo rm -rf /usr/local/share/chromium | |
| sudo rm -rf /usr/local/share/chromedriver-linux64 | |
| sudo rm -rf /usr/local/share/edge_driver | |
| sudo rm -rf /usr/local/share/gecko_driver | |
| sudo rm -rf /usr/share/java/selenium-server.jar | |
| sudo rm -rf /usr/local/share/ | |
| sudo rm -rf /opt/az | |
| sudo rm -rf /opt/mssql-tools | |
| sudo rm -rf /opt/microsoft | |
| df -h | |
| - name: build image | |
| if: env.SKIP == '0' | |
| run: | | |
| set -euxo pipefail | |
| package="${{ matrix.package }}" | |
| cd "software/$package" | |
| img="ghcr.io/smi/${package,,}" | |
| version="$(grep _VERSION= Dockerfile | cut -d'"' -f2)" | |
| image_revision="$(grep _IMAGE_REVISION= Dockerfile | cut -d'"' -f2)" | |
| tag="${version}-${image_revision}" | |
| docker build . --tag "$img:$tag" | |
| docker tag "$img:$tag" "$img:latest" | |
| echo "img=$img" >> "$GITHUB_ENV" | |
| echo "tag=$tag" >> "$GITHUB_ENV" | |
| - name: free disk space | |
| if: env.SKIP == '0' | |
| run: | | |
| set -euxo pipefail | |
| docker builder prune --all --force | |
| df -h | |
| - name: run trivy | |
| if: env.SKIP == '0' | |
| run: | | |
| set -euxo pipefail | |
| export reports_dir=$(mktemp -d) | |
| echo "reports_dir=$reports_dir" >> "$GITHUB_ENV" | |
| ./bin/trivy-image-scan.bash "$img:$tag" | |
| - name: upload trivy report | |
| if: env.SKIP == '0' && !cancelled() | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: 'trivy-reports-${{ matrix.package }}' | |
| path: '${{ env.reports_dir }}/' | |
| - name: push image | |
| if: env.SKIP == '0' && github.ref == 'refs/heads/main' | |
| run: | | |
| set -euxo pipefail | |
| echo "${{ secrets.GITHUB_TOKEN }}" | docker login ghcr.io -u $ --password-stdin | |
| docker push "$img:$tag" | |
| docker push "$img:latest" |