Lk pd 2432 bgzip snaptools #27
Workflow file for this run
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| name: SnapATAC 2 CI | |
| # Controls when the workflow will run | |
| on: | |
| # Triggers the workflow on push or pull request events but only for the "develop" and "master" branch | |
| pull_request: | |
| branches: [ "develop", "master" ] | |
| paths: | |
| - '3rd-party-tools/snapatac2/**' | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| inputs: | |
| image_tag: | |
| description: 'Docker Image Tag (default: branch_name)' | |
| env: | |
| PROJECT_NAME: WARP 3rd Party Tools | |
| # Github repo name | |
| REPOSITORY_NAME: ${{ github.event.repository.name }} | |
| # Region-specific Google Docker repository where GOOGLE_PROJECT/REPOSITORY_NAME can be found | |
| DOCKER_REGISTRY: us.gcr.io | |
| GCR_PATH: broad-gotc-prod/snapatac2 | |
| ACR_PATH: snapatac2 | |
| TAG: ${{ github.event.inputs.image_tag || github.head_ref || github.ref_name }} | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| jobs: | |
| # The job that builds our container | |
| build-for-gcr: | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| working-directory: 3rd-party-tools/snapatac2 | |
| # Map a step output to a job output | |
| outputs: | |
| imagePath: ${{ steps.saveImagePath.outputs.url }} | |
| steps: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - uses: actions/checkout@v3 | |
| - name: Build the Docker image | |
| run: docker build . --file Dockerfile --tag ${DOCKER_REGISTRY}/${GCR_PATH}:${TAG} | |
| - name: Check working directory' | |
| run: | | |
| echo "Current directory: " | |
| pwd | |
| ls -lht | |
| # Save the image path to an output | |
| - id: 'saveImagePath' | |
| run: echo "url=${DOCKER_REGISTRY}/${GCR_PATH}:${TAG}" >> $GITHUB_OUTPUT | |
| # Log into the Google Docker registry | |
| - id: 'Auth' | |
| name: Login to GCR | |
| uses: docker/login-action@v2 | |
| with: | |
| registry: ${{ env.DOCKER_REGISTRY }} | |
| username: _json_key | |
| password: ${{ secrets.GCR_CI_KEY }} | |
| # Push the image to the Google Docker registry | |
| - name: Push image | |
| run: "docker push ${DOCKER_REGISTRY}/${GCR_PATH}:${TAG}" | |
| build-for-acr: | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| working-directory: 3rd-party-tools/snapatac2 | |
| steps: | |
| # checkout the repo | |
| - name: 'Checkout GitHub Action' | |
| uses: actions/checkout@v3 | |
| - name: 'Login via Azure CLI' | |
| uses: azure/login@v1 | |
| with: | |
| creds: ${{ secrets.AZURE_CREDENTIALS }} | |
| - name: 'Build and push image' | |
| uses: azure/docker-login@v1 | |
| with: | |
| login-server: ${{ secrets.REGISTRY_LOGIN_SERVER }} | |
| username: ${{ secrets.REGISTRY_USERNAME }} | |
| password: ${{ secrets.REGISTRY_PASSWORD }} | |
| - run: | | |
| docker build . -t ${{ secrets.REGISTRY_LOGIN_SERVER }}/${ACR_PATH}:${TAG} | |
| docker push ${{ secrets.REGISTRY_LOGIN_SERVER }}/${ACR_PATH}:${TAG} |