Deploy bbtools version 39.06 #346
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| ##### ------------------------------------------------------------------------------------------------ ##### | |
| ##### This caller workflow tests, builds, and pushes the image to Docker Hub and optionally Quay ##### | |
| ##### It also tests that a Singularity container can be run from the Docker image ##### | |
| ##### It takes manual input as to which tool, version, docker image tag, and repository name to deploy ##### | |
| ##### ------------------------------------------------------------------------------------------------ ##### | |
| name: Manual deploy | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| tool: | |
| description: "Tool to deploy. Must match filepath: /<tool>/version/Dockerfile" | |
| required: true | |
| version: | |
| description: "Version to deploy. Must match filepath: /tool/<version>/Dockerfile" | |
| required: true | |
| docker_image_tag: | |
| description: "Docker image tag to use: repository/tool:<tag> (Match version unless you require a custom tag)" | |
| required: true | |
| push_quay: | |
| description: "Deploy to Quay too? (repository must first exist on quay)" | |
| type: boolean | |
| default: true | |
| push_latest_tag: | |
| description: "Push and overwrite latest docker image tag? repository/tool:latest" | |
| default: true | |
| type: boolean | |
| repository_name: | |
| description: "Repository name. <repository>/tool:tag (Usually staphb)" | |
| default: "staphb" | |
| run-name: Deploy ${{ github.event.inputs.tool }} version ${{ github.event.inputs.version }} | |
| jobs: | |
| # This job calls a workflow to build the image to the 'test' stage | |
| build-to-test: | |
| uses: ./.github/workflows/build-to-test.yml | |
| with: | |
| path_to_context: "./${{ github.event.inputs.tool }}/${{ github.event.inputs.version }}" | |
| cache: ${{ github.event.inputs.tool }} | |
| # This job calls a workflow to build the image to the 'app' stage and pushes the image to Docker Hub | |
| build-to-deploy: | |
| needs: build-to-test | |
| uses: ./.github/workflows/build-to-deploy.yml | |
| secrets: # these are the secret login credientials for pushing the containers to the repository | |
| docker_username: ${{ secrets.DOCKER_HUB_USERNAME }} | |
| docker_access_token: ${{ secrets.DOCKER_HUB_ACCESS_TOKEN }} | |
| quay_username: ${{ secrets.quay_username }} | |
| quay_robot_token: ${{ secrets.quay_robot_token }} | |
| with: | |
| path_to_context: "./${{ github.event.inputs.tool }}/${{ github.event.inputs.version }}" | |
| repository_name: ${{ github.event.inputs.repository_name }} | |
| cache: ${{ github.event.inputs.tool }} | |
| container_name: ${{ github.event.inputs.tool }} | |
| tag: ${{ github.event.inputs.docker_image_tag }} | |
| push_quay: ${{ github.event.inputs.push_quay == 'true' }} | |
| push_latest_tag: ${{ github.event.inputs.push_latest_tag == 'true' }} | |
| # This job calls a workflow to pull the image from Docker Hub and test that it can be run as a Singularity container | |
| run-singularity: | |
| needs: build-to-deploy | |
| uses: ./.github/workflows/run-singularity.yml | |
| with: | |
| image_name: ${{ github.event.inputs.tool }}:${{ github.event.inputs.docker_image_tag }} | |
| repository_name: ${{ github.event.inputs.repository_name }} |