Update EBI index #17
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| name: Update EBI index | |
| on: | |
| release: | |
| types: [published] | |
| workflow_dispatch: | |
| jobs: | |
| update_ebi_index: | |
| runs-on: ubuntu-latest | |
| permissions: | |
| contents: write | |
| pull-requests: write | |
| steps: | |
| - name: Check out the repo | |
| uses: actions/checkout@v3 | |
| - name: Run python script to get new dates | |
| id: index_updater | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| RELEASE=$(gh release list -L 1 --json tagName --jq '.[0].tagName') | |
| RELEASE_DATE=$(gh release list -L 1 --json publishedAt --jq '.[0].publishedAt[:10]') | |
| echo "status=$(python EBI/update_index_json.py --release $RELEASE --release-date $RELEASE_DATE)" >> $GITHUB_OUTPUT | |
| - name: Push the changes on successful update | |
| if: ${{ steps.index_updater.outputs.status == 'updated' }} | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| FILE_TO_COMMIT: EBI/pathogens_portal_index.json | |
| DESTINATION_BRANCH: develop | |
| run: | | |
| export TODAY=$(date +%Y-%m-%d) | |
| export MESSAGE="Update EBI index - $TODAY" | |
| export SHA=$( git rev-parse $DESTINATION_BRANCH:$FILE_TO_COMMIT ) | |
| export CONTENT=$( base64 -i $FILE_TO_COMMIT ) | |
| gh api --method PUT /repos/:owner/:repo/contents/$FILE_TO_COMMIT \ | |
| --field message="$MESSAGE" \ | |
| --field content="$CONTENT" \ | |
| --field encoding="base64" \ | |
| --field branch="$DESTINATION_BRANCH" \ | |
| --field sha="$SHA" |