Update the manifest with DL4MicEverywhere information #391
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| name: Update the manifest with DL4MicEverywhere information | |
| on: | |
| # At 05:30 AM of every day | |
| schedule: | |
| - cron: "30 5 * * *" | |
| workflow_dispatch: | |
| jobs: | |
| update_manifest: | |
| name: Update the manifest.bioimage.io.yaml with DL4MicEverywhere information | |
| outputs: | |
| matrix: ${{ steps.create_json.outputs.matrix }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Clone ZeroCostDL4Mic repository | |
| uses: actions/checkout@v4 | |
| with: | |
| path: ZeroCostDL4Mic | |
| - name: Clone DL4MicEverywhere repository | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: HenriquesLab/DL4MicEverywhere | |
| path: DL4MicEverywhere | |
| - name: Set up Python 3.9 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.9' | |
| - name: Install requirements | |
| working-directory: ./ZeroCostDL4Mic | |
| run: pip install -r Tools/CI_requirements.txt | |
| - name: Update the versioning on the manifest | |
| working-directory: ./ZeroCostDL4Mic | |
| run: python3 Tools/update_manifest_versioning.py | |
| - name: Update the DL4MicEverywhere information on the manifest | |
| working-directory: ./ZeroCostDL4Mic | |
| id: updated_notebooks | |
| run: | | |
| output=$(python3 Tools/update_manifest_dl4miceverywhere.py) | |
| echo "$output" | |
| echo "value=$output" >> $GITHUB_OUTPUT | |
| - if: ${{ steps.updated_notebooks.outputs.value != '' }} | |
| name: List and extract all notebook with new version | |
| id: create_json | |
| run: | | |
| echo "Start" | |
| files_json="{\"include\":[{\"notebook\":\"" | |
| echo "$files_json" | |
| first=true | |
| for file in ${{ steps.updated_notebooks.outputs.value }}; do | |
| echo "$file was changed" | |
| if [ "$first" = true ]; then | |
| files_json+=$file | |
| first=false | |
| else | |
| files_json+="\"},{\"notebook\":\""$file | |
| fi | |
| echo "$files_json" | |
| done | |
| files_json+="\"}]}" | |
| echo "$files_json" | |
| echo "matrix=$files_json" >> $GITHUB_OUTPUT | |
| echo "END" | |
| - name: Commit the changes | |
| uses: stefanzweifel/git-auto-commit-action@v5 | |
| with: | |
| repository: ./ZeroCostDL4Mic | |
| commit_message: GitHub Action - Update manifest with DL4MicEverywhere information | |
| config_matrix: | |
| if: ${{ needs.update_manifest.outputs.matrix != '' }} | |
| name: Call the building and pushing, and possible update configuration | |
| needs: update_manifest | |
| strategy: | |
| # put fail-fast as false if you want to see all results even if one fails, | |
| # fail-fast is true by default | |
| fail-fast: false | |
| matrix: ${{ fromJson(needs.update_manifest.outputs.matrix) }} | |
| uses: ./.github/workflows/export_notebook.yml # calls the one above ^ | |
| with: | |
| notebook_name: ${{ matrix.notebook }} | |
| secrets: inherit |