ChIPSeq Template Created (#543) #56
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| # When updates are merged into main, propagate data model updates to various places: | |
| # 1. dcc-site uses assay, etc. for drop-down options; triggers a workflow in dcc-site that creates a PR to pull in new terms. | |
| # 2. The Synapse schema registry has schemas for the NF entities such as portal studies and datasets. Push updated JSON schemas to the Synapse registry. | |
| # | |
| # Highly related but to be handled by separate workflow: | |
| # Update data model version in DCA-prod for official releases (instead of every merge into main) | |
| name: Propagate data model updates | |
| on: | |
| push: | |
| branches: | |
| - main | |
| paths: | |
| - NF.jsonld | |
| env: | |
| REPO: nf-osi/dcc-site | |
| REF: refs/heads/main | |
| SYNAPSE_AUTH_TOKEN: ${{ secrets.DATA_MODEL_SERVICE }} | |
| jobs: | |
| trigger-sync: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Dispatch update workflow for dcc-site | |
| uses: benc-uk/workflow-dispatch@v1 | |
| with: | |
| workflow: Handle data model update | |
| repo: ${{ env.REPO }} | |
| ref: ${{ env.REF }} | |
| token: ${{ secrets.SERVICE_TOKEN }} | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 2 | |
| - name: Push to Synapse schema registry only JSON schemas that changed | |
| run: | | |
| CHANGED=$(git diff --name-only HEAD HEAD~1 registered-json-schemas) | |
| for FILE in $CHANGED | |
| do | |
| REQUEST_BODY=$(jq '. + { concreteType: "org.sagebionetworks.repo.model.schema.CreateSchemaRequest", dryRun: false }' $FILE) | |
| RESPONSE=$(curl -X POST https://repo-prod.prod.sagebase.org/repo/v1/schema/type/create/async/start \ | |
| -H "Authorization: Bearer $SYNAPSE_AUTH_TOKEN" \ | |
| -H "Content-Type: application/json" \ | |
| -d "$REQUEST_BODY") | |
| # Will error if token not within response | |
| TOKEN=$( echo $RESPONSE | jq -e -r '.token') | |
| sleep 1 | |
| STATUS=$(curl "https://repo-prod.prod.sagebase.org/repo/v1/schema/type/create/async/get/$TOKEN" \ | |
| -H "Authorization: Bearer $SYNAPSE_AUTH_TOKEN") | |
| echo $STATUS | jq -e '.newVersionInfo' | |
| done | |