Uberon PRs by dragon-ai-agent - Summary

Overview

• Repository: obophenotype/uberon
• Agent: dragon-ai-agent
• Analysis Date: 2025-12-20
• Total PRs: 14
• Merged: 14 (100%)
• Not Merged: 0

Success Rate

Effective Success Rate: While all PRs eventually merged, only 42.9% were accepted on first submission without requiring changes.

PRs Requiring Modifications (Checklist)

These PRs required changes after initial submission:

• PR #3573 - Fix esophagus and esophageal artery partonomy

  • Status: merged_with_mods
  • Issue: Required #gogoeditdiff bot runs to verify changes

• PR #3603 - Add occlusal surface of tooth (UBERON:8600149)

  • Status: merged_with_mods
  • Issue: Modifications made after initial submission

• PR #3609 - Add new term: ileocecal fold (UBERON:9900001)

  • Status: merged_with_mods
  • Issue: Used temporary ID that required replacement; review was DISMISSED then re-approved
  • Required commits: 2 post-review

• PR #3619 - Fix tracheal mucosa logical definition

  • Status: merged_with_mods
  • Issue: Triggered "Large scale logical changes" bot warning; required CHANGES_REQUESTED approval override
  • Required commits: 1 post-review; 5 total reviews

• PR #3620 - Add sixth lumbar dorsal root ganglion (UBERON:9900001)

  • Status: merged_with_mods
  • Issue: Wrong contributor name (Sarah vs Stan Laulederkind)

• PR #3630 - Add term: carotid artery intima-media region

  • Status: merged_with_mods
  • Issue: Modifications needed after initial submission

• PR #3633 - Update occlusal surface of tooth term

  • Status: merged_with_mods
  • Issue: Follow-up to PR #3603

• PR #3638 - Add uterine fundus (UBERON:9900001)

  • Status: merged_with_mods
  • Issue: Agent incorrectly questioned valid PMIDs as "out of range"

PRs Merged Without Issues

• PR #3560 - Fix dorsolateral prefrontal cortex hierarchy
• PR #3607 - Add kidney interpolar region term
• PR #3608 - Add bivalve adductor muscle
• PR #3616 - Fix typos in UBERON:0009548/0009549
• PR #3626 - Remove DHBA:12869 xref from vestibular nerve
• PR #3628 - Remove incorrect DHBA xrefs from 5 terms

Key Failure Modes Identified

1. PMID Validation Error (PR #3638): Agent incorrectly rejected valid PMIDs claiming they were "beyond current range"
2. Contributor Attribution Error (PR #3620): Used wrong person's name/ORCID
3. Temporary ID Usage (PR #3609): Used placeholder IDs requiring manual replacement
4. Logical Definition Impact Awareness (PR #3619): Changes triggered large-scale inference changes

Recommendations

See training-plan.md for detailed training instructions to address these failure modes.

Start with the issue body and the referenced training-plan.md, then review the listed PRs and their recorded failure modes. The issue provides a summary of agent performance but does not define a concrete documentation change or completion criteria; a contributor would need maintainer guidance before starting.