Develop action to update mtDCA config #45
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| name: Update CSV on Release | |
| on: | |
| pull_request: | |
| workflow_dispatch: | |
| release: | |
| types: [prereleased] | |
| jobs: | |
| make-config: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.9' | |
| - name: Install Schematic | |
| shell: bash | |
| run: | | |
| pip3 install poetry | |
| git clone --single-branch --branch main https://github.com/Sage-Bionetworks/schematic.git | |
| cd schematic | |
| poetry build | |
| pip3 install dist/schematicpy-*-py3-none-any.whl | |
| - name: Make config file from data model | |
| shell: bash | |
| run: | | |
| python .github/workflows/config_schema.py \ | |
| -c config.yml \ | |
| -s HTAN.model.jsonld \ | |
| --service_repo 'Sage-Bionetworks/schematic' \ | |
| --overwrite | |
| update-csv: | |
| runs-on: ubuntu-latest | |
| needs: make-config | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v2 | |
| - name: Fetch CSV file from target repository | |
| run: | | |
| # Replace `<target_owner>` with the username or organization name of the target repository owner | |
| # Replace `<target_repo>` with the name of the target repository | |
| # Replace `path/to/csv/file.csv` with the actual path to the CSV file in the target repository | |
| curl -H "Authorization: Bearer ${{ secrets.GITHUB_TOKEN }}" \ | |
| -H "Accept: application/vnd.github.v3.raw" \ | |
| -o dcc_config.csv \ | |
| -L "https://raw.githubusercontent.com/adamjtaylor/data_curator_config/main/dcc_config.csv" | |
| - name: Modify CSV file | |
| run: | | |
| # Replace `path/to/csv/file.csv` with the actual path to your CSV file | |
| # Replace `https://raw.githubusercontent.com/ncihtan/data-models/v23.6.2/HTAN.model.jsonld` with the string containing the version number to be replaced | |
| # The pattern in the regex assumes the version number has the format `vX.Y.Z` | |
| # If the format is different, adjust the regex pattern accordingly | |
| if [[ -n "${{ github.ref_name }}" && ! "${{ github.ref_name }}" == *"/"* ]]; then | |
| echo "Using github.ref: ${{ github.ref_name }}" | |
| sed -i "s|https://raw.githubusercontent.com/ncihtan/data-models/[^/]\+/HTAN.model.jsonld|https://raw.githubusercontent.com/ncihtan/data-models/${{ github.ref_name }}/HTAN.model.jsonld|" dcc_config.csv | |
| else | |
| echo "Using github.sha: ${{ github.sha }}" | |
| sed -i "s|https://raw.githubusercontent.com/ncihtan/data-models/[^/]\+/HTAN.model.jsonld|https://raw.githubusercontent.com/ncihtan/data-models/${{ github.sha }}/HTAN.model.jsonld|" dcc_config.csv | |
| fi | |
| - name: Commit and push changes to target repository | |
| run: | | |
| # Set up the GitHub token for authentication | |
| git config --global credential.helper store | |
| git config --global user.email "adam.taylor@sagebase.org" | |
| git config --global user.name "Adam Taylor" | |
| # Replace `<target_owner>` with the username or organization name of the target repository owner | |
| # Replace `<target_repo>` with the name of the target repository | |
| # Replace `update-csv` with the name of the branch you want to push the changes to | |
| git clone https://github.com/adamjtaylor/data_curator_config.git | |
| cd data_curator_config | |
| git checkout -b update-csv-${{ github.run_id }}-${{ github.run_attempt }} | |
| cp ../dcc_config.csv dcc_config.csv | |
| git add dcc_config.csv | |
| git commit -m "Update CSV with release tag" | |
| git remote set-url origin "https://${{ secrets.DCA_CONFIG_PAT }}@github.com/adamjtaylor/data_curator_config.git" | |
| git push --set-upstream origin update-csv-${{ github.run_id }}-${{ github.run_attempt }} | |
| - name: Create pull request | |
| run: | | |
| curl -X POST \ | |
| -H "Authorization: Bearer ${{ secrets.DCA_CONFIG_PAT }}" \ | |
| -H "Accept: application/vnd.github.v3+json" \ | |
| "https://api.github.com/repos/adamjtaylor/data_curator_config/pulls" \ | |
| -d "{ | |
| \"title\": \"Update dcc_config.csv with new data model\", | |
| \"head\": \"update-csv-${{ github.run_id }}-${{ github.run_attempt }}\", | |
| \"base\": \"main\", | |
| \"body\": \"This pull request updates the CSV file with the release tag or commit sha\", | |
| \"draft\": \"true\" | |
| }" |