Review annotations to jasmonic acid terms #1056
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
| on: | |
| issues: | |
| types: [opened] # change to "locked"? | |
| jobs: | |
| run-direct-report-on-issue: | |
| if: contains(github.event.issue.labels.*.name, 'direct_ann_to_list_of_terms') | |
| runs-on: ubuntu-22.04 | |
| name: Add issue comment | |
| steps: | |
| - name: Proof of env | |
| env: | |
| NUMBER: ${{ github.event.issue.number }} | |
| run: | | |
| echo A comment on issue $NUMBER | |
| - name: Checkout this repo | |
| uses: actions/checkout@v2 | |
| with: | |
| ref: ${{ github.head_ref }} | |
| - name: Run main annotation script | |
| env: | |
| NUMBER: ${{ github.event.issue.number }} | |
| run: mkdir -p reports/$NUMBER && python3 ./scripts/annotation-review-report.py geneontology/go-annotation 7 --number $NUMBER --label direct_ann_to_list_of_terms --field annotation_class --output ./reports/$NUMBER --verbose | |
| - name: Run extensions annotation script | |
| env: | |
| NUMBER: ${{ github.event.issue.number }} | |
| run: mkdir -p reports/$NUMBER && python3 ./scripts/annotation-review-report.py geneontology/go-annotation 7 --number $NUMBER --label direct_ann_to_list_of_terms --field annotation_extension_class --output ./reports/$NUMBER --prefix extensions --verbose | |
| - name: Run evidence_with annotation script | |
| env: | |
| NUMBER: ${{ github.event.issue.number }} | |
| run: mkdir -p reports/$NUMBER && python3 ./scripts/annotation-review-report.py geneontology/go-annotation 7 --number $NUMBER --label direct_ann_to_list_of_terms --field evidence_with --output ./reports/$NUMBER --prefix ev_with --verbose | |
| - name: Run mapping hit script | |
| env: | |
| NUMBER: ${{ github.event.issue.number }} | |
| run: mkdir -p reports/$NUMBER && wget --recursive --no-parent http://snapshot.geneontology.org/ontology/external2go/ && rm -f snapshot.geneontology.org/ontology/external2go/README.md snapshot.geneontology.org/ontology/external2go/index.html snapshot.geneontology.org/ontology/external2go/pfam2go snapshot.geneontology.org/ontology/external2go/pirsf2go snapshot.geneontology.org/ontology/external2go/prints2go snapshot.geneontology.org/ontology/external2go/prodom2go snapshot.geneontology.org/ontology/external2go/prosite2go snapshot.geneontology.org/ontology/external2go/smart2go && python3 ./scripts/mapping-report.py geneontology/go-annotation 7 --number $NUMBER --label direct_ann_to_list_of_terms --input ./snapshot.geneontology.org/ontology/external2go/ --output ./reports/$NUMBER --verbose && rm -f snapshot.geneontology.org/ontology/external2go/*2go && rmdir snapshot.geneontology.org/ontology/external2go && rmdir snapshot.geneontology.org/ontology && rmdir snapshot.geneontology.org | |
| - name: Commit reports back to main | |
| uses: stefanzweifel/git-auto-commit-action@v4 | |
| with: | |
| commit_message: | | |
| Reports at https://github.com/geneontology/go-annotation/tree/master/reports/${{ github.event.issue.number }} for issue https://github.com/geneontology/go-annotation/issues/${{ github.event.issue.number }} | |
| commit_user_email: sjcarbon@lbl.gov | |
| # Please do the dirty check, don't skip | |
| skip_dirty_check: false |