Metadata
| Status | done |
|---|---|
| Assigned | agent-658 |
| Agent identity | 3577bc75d6ed4f1947509aa5c086c91ce7c997c7806dab6bf6affac647452647 |
| Created | 2026-05-05T04:06:46.051897710+00:00 |
| Started | 2026-05-05T04:22:47.305518174+00:00 |
| Completed | 2026-05-05T04:36:00.709391040+00:00 |
| Tags | paper-prep,survey, eval-scheduled |
| Eval score | 0.88 |
| └ blocking impact | 0.85 |
| └ completeness | 0.95 |
| └ coordination overhead | 0.92 |
| └ correctness | 0.95 |
| └ downstream usability | 0.92 |
| └ efficiency | 0.85 |
| └ intent fidelity | 0.95 |
| └ style adherence | 0.90 |
Description
INPUT: end-to-end-report/report/14_pedigree_recombination.md (read fully). CONTEXT: Nature manuscript + 15-min talk. Subtelomeric recombination in two pedigrees (WashU 3-gen, CEPH1463 4-gen), inter-chromosomal exchange in PHR regions, NAHR/gene conversion events, cross-assembler validation (hifiasm vs verkko), transmission across generations. TASK: Extract: (1) Key findings with metrics (event counts, transmission rates); (2) Existing figures and pedigree-plots (paths — note end-to-end-report/pedigree-plots/ exists); (3) Existing CSVs (paths); (4) Methods; (5) Gaps; (6) Suggested figures (produced-vs-todo); (7) Talk slide takeaways. OUTPUT: paper_prep/surveys/SURVEY_14_pedigree_recombination.md (7 numbered sections). ACCEPTANCE: File exists, all 7 sections present, concrete paths cited.
Depends on
Required by
Log
- 2026-05-05T04:06:46.037458148+00:00 Task paused
- 2026-05-05T04:22:15.106102540+00:00 Task resumed
- 2026-05-05T04:22:44.499905495+00:00 Lightweight assignment: agent=random-agent-3577bc75 (3577bc75), exec_mode=full, context_scope=task, reason=Documenter role is designed for structured documentation creation; 'verify-against-code-not-just-docs' tradeoff ensures rigorous verification against the source report; prior experience on 11 similar documentation tasks
- 2026-05-05T04:22:47.305521661+00:00 Spawned by coordinator --executor claude --model opus
- 2026-05-05T04:22:55.119694805+00:00 Starting survey of 14_pedigree_recombination.md
- 2026-05-05T04:30:40.126939434+00:00 Mapped sources: report/14_pedigree_recombination.md, pedigree-plots/{washu,ceph1463-hifiasm,ceph1463-verkko}/, all_pedigrees_patches.tsv, per-pairing recombination TSVs, scripts at /moosefs/guarracino/HPRCv2/scripts/pedigree/. Writing SURVEY now.
- 2026-05-05T04:35:35.147332649+00:00 Validated: file exists at paper_prep/surveys/SURVEY_14_pedigree_recombination.md (28 KB), all 7 numbered sections present (## 1.–## 7.), concrete paths cited (washu/hifiasm/verkko pedigree-plots, all_pedigrees_patches.tsv, per-pairing recombination TSVs, scripts under /moosefs/guarracino/HPRCv2/scripts/pedigree/, Leiden assignments TSV).
- 2026-05-05T04:35:53.459254533+00:00 Committed: 2d488a5 — pushed to remote (wg/agent-658/survey-pedigree-recombination)
- 2026-05-05T04:36:00.709394797+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
- 2026-05-05T04:40:15.057218862+00:00 PendingEval → Done (evaluator passed; downstream unblocks)