generating yaml file #29
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # 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 |