hail search dataset version release #4
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| name: hail search dataset version release | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| reference_genome: | |
| type: choice | |
| description: Reference Genome | |
| options: | |
| - GRCh37 | |
| - GRCh38 | |
| required: true | |
| dataset_type: | |
| type: choice | |
| description: Dataset Type | |
| options: | |
| - SNV_INDEL | |
| - MITO | |
| - GCNV | |
| - SV | |
| required: true | |
| version: | |
| required: true | |
| jobs: | |
| helm_update: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Retrieve tgg-helm repo for broad seqr chart | |
| uses: actions/checkout@v3 | |
| with: | |
| repository: broadinstitute/tgg-helm | |
| token: ${{ secrets.SEQR_VERSION_UPDATE_TOKEN }} | |
| ref: main | |
| persist-credentials: false | |
| fetch-depth: 0 | |
| - name: update dataset version in the broad-seqr chart | |
| uses: mikefarah/yq@v4.22.1 | |
| with: | |
| cmd: > | |
| yq -i '.global.hail_search.datasetVersions.${{ inputs.reference_genome }}/${{ inputs.dataset_type }} = "${{ inputs.version }}"' charts/broad-seqr/values.yaml | |
| - name: Commit and Push changes | |
| uses: Andro999b/push@v1.3 | |
| with: | |
| repository: broadinstitute/tgg-helm | |
| branch: main | |
| github_token: ${{ secrets.SEQR_VERSION_UPDATE_TOKEN }} | |
| author_email: ${{ github.actor }}@users.noreply.github.com | |
| author_name: tgg-automation | |
| message: "Updating ${{ inputs.reference_genome }}/${{ inputs.dataset_type }} dataset version to ${{ inputs.version }}" |