Update Zenodo Record with New Version #16
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| name: Update Zenodo Record with New Version | |
| on: | |
| workflow_dispatch: | |
| jobs: | |
| update-zenodo-record: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout Repository | |
| uses: actions/checkout@v4 | |
| - name: Install curl and jq | |
| run: sudo apt-get install -y curl jq | |
| - name: Discard Current Draft | |
| run: | | |
| discard_response=$(curl -s -X POST -H "Authorization: Bearer ${{ secrets.ZENODO_ACCESS_TOKEN }}" \ | |
| "https://zenodo.org/api/deposit/depositions/${{ secrets.ZENODO_DEPOSITION_ID }}/actions/discard") | |
| echo "Discard Response: $discard_response" | |
| if echo "$discard_response" | grep -q '"status": 403'; then | |
| echo "Failed to discard the draft. The draft might be locked or in an invalid state." | |
| exit 1 | |
| fi | |
| - name: Create a New Version of the Deposition | |
| id: new_version | |
| run: | | |
| # Attempt to create a new version and capture the full response | |
| response=$(curl -s -X POST -H "Authorization: Bearer ${{ secrets.ZENODO_ACCESS_TOKEN }}" \ | |
| "https://zenodo.org/api/deposit/depositions/${{ secrets.ZENODO_DEPOSITION_ID }}/actions/newversion") | |
| echo "Response: $response" | |
| # Extract the latest draft URL from the response | |
| new_draft_url=$(echo "$response" | jq -r '.links.latest_draft') | |
| if [[ "$new_draft_url" == "null" || -z "$new_draft_url" ]]; then | |
| echo "Failed to retrieve the latest draft URL. Response was: $response" | |
| exit 1 | |
| fi | |
| # Fetch the new draft deposition details | |
| new_draft_response=$(curl -s -H "Authorization: Bearer ${{ secrets.ZENODO_ACCESS_TOKEN }}" "$new_draft_url") | |
| echo "New Draft Response: $new_draft_response" | |
| # Extract necessary information for the next steps | |
| new_deposition_id=$(echo "$new_draft_response" | jq -r '.id') | |
| new_bucket_url=$(echo "$new_draft_response" | jq -r '.links.bucket') | |
| if [[ "$new_deposition_id" == "null" || -z "$new_deposition_id" ]]; then | |
| echo "Failed to retrieve the new deposition ID. New draft response was: $new_draft_response" | |
| exit 1 | |
| fi | |
| echo "New Deposition ID: $new_deposition_id" | |
| echo "New Bucket URL: $new_bucket_url" | |
| echo "new_deposition_id=$new_deposition_id" >> $GITHUB_ENV | |
| echo "new_bucket_url=$new_bucket_url" >> $GITHUB_ENV | |
| - name: Debug New Bucket URL | |
| run: echo "$new_bucket_url" | |
| - name: Upload files to Zenodo | |
| run: | | |
| for file in data/*.ttl; do | |
| curl --progress-bar -H "Authorization: Bearer ${{ secrets.ZENODO_ACCESS_TOKEN }}" \ | |
| --upload-file $file "$new_bucket_url/$(basename $file)" | |
| done | |
| - name: Update Metadata for New Version | |
| run: | | |
| metadata=$(jq -n \ | |
| --arg title "Adverse Outcome Pathway Wiki RDF" \ | |
| --arg doi "10.5281/zenodo.***" \ | |
| --arg publication_date "2024-08-21" \ | |
| '{ | |
| metadata: { | |
| title: $title, | |
| doi: $doi, | |
| publication_date: $publication_date, | |
| } | |
| }' | |
| ) | |
| echo "$metadata" | |
| curl -H "Authorization: Bearer ${{ secrets.ZENODO_ACCESS_TOKEN }}" \ | |
| -H "Content-Type: application/json" \ | |
| -X PUT --data "$metadata" "https://zenodo.org/api/deposit/depositions/$new_deposition_id" | |
| - name: Publish Updated Zenodo Record | |
| run: | | |
| curl -H "Authorization: Bearer ${{ secrets.ZENODO_ACCESS_TOKEN }}" \ | |
| -H "Content-Type: application/json" \ | |
| -X POST "https://zenodo.org/api/deposit/depositions/$new_deposition_id/actions/publish" |