update vulnerable dependencies #96
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| name: build development images | |
| on: | |
| push: | |
| branches: | |
| - dev | |
| env: | |
| REGISTRY_USERNAME: ${{ secrets.DOCKER_USERNAME }} | |
| REGISTRY_TOKEN: ${{ secrets.DOCKER_TOKEN }} | |
| DOCKER_REGISTRY_LOGIN: "dockerhub.ebi.ac.uk" | |
| SINGULARITY_REGISTRY_LOGIN: "oras://dockerhub.ebi.ac.uk" | |
| DOCKER_REGISTRY: "dockerhub.ebi.ac.uk/gdp-public/pgscatalog_utils" | |
| SINGULARITY_REGISTRY: "oras://dockerhub.ebi.ac.uk/gdp-public/pgscatalog_utils/singularity" | |
| SINGULARITY_VERSION: "3.8.3" | |
| jobs: | |
| build_docker_dev: | |
| name: build docker development image | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out pipeline code | |
| uses: actions/checkout@v3 | |
| - name: Set up QEMU | |
| uses: docker/setup-qemu-action@v2 | |
| with: | |
| platforms: arm64 | |
| - name: Set up Docker Buildx | |
| uses: docker/setup-buildx-action@v2 | |
| - name: Login to Docker Hub | |
| uses: docker/login-action@v2 | |
| with: | |
| registry: ${{ env.DOCKER_REGISTRY_LOGIN }} | |
| username: ${{ env.REGISTRY_USERNAME }} | |
| password: ${{ env.REGISTRY_TOKEN }} | |
| - name: Build and push | |
| uses: docker/build-push-action@v3 | |
| with: | |
| push: true | |
| platforms: "linux/amd64,linux/arm64" | |
| tags: ${{ env.DOCKER_REGISTRY }}/pgscatalog_utils:dev | |
| build_singularity_dev: | |
| needs: build_docker_dev | |
| name: build singularity development image | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out pipeline code | |
| uses: actions/checkout@v3 | |
| - name: Cache singularity setup | |
| id: cache-singularity | |
| uses: actions/cache@v3 | |
| with: | |
| path: /opt/hostedtoolcache/singularity/${{ env.SINGULARITY_VERSION }}/x64 | |
| key: ${{ runner.os }}-singularity-${{ env.SINGULARITY_VERSION }} | |
| - name: Set up Singularity | |
| uses: eWaterCycle/setup-singularity@v7 | |
| if: steps.cache-singularity.outputs.cache-hit != 'true' | |
| with: | |
| singularity-version: ${{ env.SINGULARITY_VERSION }} | |
| - name: Add singularity to path | |
| if: steps.cache-singularity.outputs.cache-hit == 'true' | |
| run: | | |
| echo "/opt/hostedtoolcache/singularity/${{ env.SINGULARITY_VERSION }}/x64/bin" >> $GITHUB_PATH | |
| - name: Build singularity image | |
| run: singularity build img.sif "docker://${DOCKER_REGISTRY}/pgscatalog_utils:dev" | |
| - name: Push singularity image | |
| run: | | |
| echo "$REGISTRY_TOKEN" | singularity remote login -u "$REGISTRY_USERNAME" --password-stdin "$SINGULARITY_REGISTRY_LOGIN" | |
| singularity push img.sif "${SINGULARITY_REGISTRY}/pgscatalog_utils:dev" |