generating yaml file #37
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| # Generates linkml yaml schema from metadata in googlesheets using schemasheets | |
| name: generating yaml file | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| model: | |
| description: 'model name' | |
| required: true | |
| type: string | |
| jobs: | |
| generate_libgen_yaml: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout this repository | |
| uses: actions/checkout@v3 | |
| - name: Set up Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: 3.9 | |
| - name: Install the required python packages | |
| run: | | |
| python -m pip install .[test] | |
| pip install git+https://github.com/brain-bican/bkbit.git | |
| pip install git+https://github.com/linkml/schemasheets.git@649af7e1 | |
| - name: Other installations | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y build-essential git wget curl | |
| # Check if download-dir exists; if not, create it | |
| - name: Check if download-dir exists | |
| run: | | |
| if [ ! -d "linkml-schema/source_${{ inputs.model }}/gsheet_output" ]; then | |
| echo "Directory does not exist. Making directory" | |
| mkdir -p linkml-schema/source_${{ inputs.model }}/gsheet_output | |
| fi | |
| # Check if gsheet.yaml exists | |
| - name: Check if gsheet.yaml exists | |
| run: | | |
| if [ ! -f "linkml-schema/source_${{ inputs.model }}/gsheet.yaml" ]; then | |
| echo "gsheet.yaml does not exist. Exiting" | |
| exit 1 | |
| fi | |
| # Generate yaml model | |
| - name: Generate yaml model | |
| run: | | |
| cd linkml-schema | |
| bkbit schema2model -o ${{ inputs.model }}.yaml --gsheet --gsheet-download-dir source_${{ inputs.model }}/gsheet_output source_${{ inputs.model }}/gsheet.yaml --no-inlined | |
| cd .. | |
| # Generate unique branch name | |
| - name: Generate unique branch name | |
| run: | | |
| BRANCH_NAME="autogenerated-yaml-$(date +%Y%m%d%H%M%S)" | |
| echo "Branch created: $BRANCH_NAME" | |
| echo "BRANCH_NAME=$BRANCH_NAME" >> $GITHUB_ENV | |
| # Create a pull request | |
| - name: Create a Pull Request | |
| uses: peter-evans/create-pull-request@v4 | |
| with: | |
| token: ${{ secrets.PERSONAL_ACCESS_TOKEN }} | |
| commit-message: "Generate new version of the linkml model for ${{ inputs.model }}" | |
| branch: ${{ env.BRANCH_NAME }} | |
| title: "Auto PR: ${{ inputs.model }}.yaml generated from google spreadsheets using schemasheets" | |
| body: "This PR adds a autogenerated ${{ inputs.model }}.yaml file." | |
| base: main |