bronchus should be part of lung as well as part of tracheobronchial tree #619
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| name: Create new pull request | |
| on: | |
| workflow_dispatch: | |
| issues: | |
| types: [ opened, edited ] | |
| jobs: | |
| check: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| phraseExists: ${{ steps.check-body.outputs.result }} | |
| steps: | |
| - name: Check if issue body contains 'Hey ontobot' | |
| id: check-body | |
| uses: actions/github-script@v6 | |
| with: | |
| script: | | |
| const issue = await github.rest.issues.get({ | |
| owner: context.repo.owner, | |
| repo: context.repo.repo, | |
| issue_number: context.issue.number | |
| }); | |
| if (!issue.data.body) { | |
| console.log('Issue body is empty or null'); | |
| return false; | |
| } | |
| return issue.data.body.toLowerCase().includes('hey ontobot'); | |
| build: | |
| needs: check | |
| if: needs.check.outputs.phraseExists == 'true' | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| python-version: ["3.9"] | |
| os: [ ubuntu-latest ] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v3 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Return issue number | |
| id: gh-script-issue | |
| uses: actions/github-script@v6 | |
| with: | |
| github-token: ${{ secrets.ONTOBOT_TOKEN }} | |
| script: | | |
| const issue_number = context.issue.number | |
| const repo = context.repo.owner+"/"+context.repo.repo | |
| return issue_number | |
| - name: Return repository name | |
| id: gh-script-repo | |
| uses: actions/github-script@v6 | |
| with: | |
| github-token: ${{ secrets.ONTOBOT_TOKEN }} | |
| script: | | |
| const repo = context.repo.owner+"/"+context.repo.repo | |
| return repo | |
| - name: Set branch name | |
| id: vars | |
| run: | | |
| echo "branch-name=ochange_automation_"${{ steps.gh-script-issue.outputs.result }} >> $GITHUB_ENV | |
| echo "resource=src/ontology/uberon-edit.obo" >> $GITHUB_ENV | |
| - name: Install dependencies | |
| run: | | |
| pip install ontobot-change-agent | |
| - name: Run ochange | |
| id: ochange | |
| run: | | |
| ochange process-issue ${{ env.resource }} \ | |
| -r ${{ steps.gh-script-repo.outputs.result }} \ | |
| -n ${{ steps.gh-script-issue.outputs.result }} \ | |
| -g ${{ secrets.ONTOBOT_TOKEN }} \ | |
| -p UBERON | |
| - name: Create Pull Request | |
| uses: peter-evans/create-pull-request@v4 | |
| if: ${{ env.PR_TITLE}} | |
| with: | |
| branch-suffix: short-commit-hash | |
| labels: Automated | |
| body: ${{ env.PR_BODY }} | |
| title: ${{ env.PR_TITLE }} | |
| author: ${{ env.ISSUE_CREATOR }} <${{ env.ISSUE_CREATOR }}@users.noreply.github.com> | |
| committer: ${{ env.ISSUE_CREATOR }} <${{ env.ISSUE_CREATOR }}@users.noreply.github.com> | |
| base: ${{ github.head_ref }} | |
| branch: ${{ env.branch-name }} | |
| token: ${{ secrets.ONTOBOT_TOKEN }} |