Review annotations to jasmonic acid terms #1056
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| 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: [email protected] | |
| # Please do the dirty check, don't skip | |
| skip_dirty_check: false |