Metadata
| Status | done |
|---|---|
| Assigned | agent-2685 |
| Agent identity | 46f6237a65ec4f1002c4d3fb201dc8633638d0947c276be7008c227e1051ba5e |
| Created | 2026-06-23T08:50:01.024184214+00:00 |
| Started | 2026-06-23T08:51:31.229913350+00:00 |
| Completed | 2026-06-23T09:27:01.418985+00:00 |
| Tags | fig5, sweepga, slurm, eval-scheduled |
| Eval score | 0.86 |
| └ blocking impact | 0.88 |
| └ completeness | 0.86 |
| └ coordination overhead | 0.84 |
| └ correctness | 0.87 |
| └ downstream usability | 0.86 |
| └ efficiency | 0.84 |
| └ intent fidelity | 0.83 |
| └ style adherence | 0.87 |
Description
Generate corrected raw-FASTA f16 Fig5 candidate panels from whole-genome chopped-then-filtered PAFs. Compare chop lengths 2kb/5kb/10kb and filtering modes no-merge ANI, no-merge log-length-ANI, 50kb scaffold/merge ANI, and 50kb scaffold/merge log-length-ANI. Plot absolute query chromosome coordinates, fix legend, summarize chr3 survival, and commit/push outputs on main.
Depends on
Required by
Log
- 2026-06-23T08:50:39.208139129+00:00 Lightweight assignment: agent=random-agent-46f6237a (46f6237a), exec_mode=full, context_scope=task, reason=The task is a concrete figure-generation and workflow operation job with slurm/pipeline elements, so the Pipeline Operator best matches the needed execution style.
- 2026-06-23T08:50:46.304395022+00:00 Started correction: current committed 2kb panel filtered after query-window extraction. New run will use full whole-genome chopped PAFs, apply filters genome-wide, then subset candidate windows only for plotting; axes will show absolute query chromosome coordinates.
- 2026-06-23T08:51:31.229917909+00:00 Spawned by coordinator --executor codex --model gpt-5.5
- 2026-06-23T08:51:41.820313581+00:00 Starting task: inspecting messages, worktree state, and existing Fig5 pipeline.
- 2026-06-23T08:56:43.765968849+00:00 Added sensitivity panel pipeline files; running whole-genome chopped PAF filter/summarize step now.
- 2026-06-23T09:26:19.901259229+00:00 Completed on main as commit b79bbdc. Generated corrected whole-genome chopped-then-filtered Fig5 sensitivity panels for chop lengths 10kb/5kb/2kb and filter modes no-merge ANI, no-merge log-length ANI, 50kb merge ANI, 50kb merge log-length ANI. Slurm array 1705844 completed all 18 tasks on tux05. Outputs pushed under paper_prep/_brainstorming/fig5_raw_fasta_sweepga_f16_chop_filter_sensitivity_panels/.
- 2026-06-23T09:27:01.418991292+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
- 2026-06-23T09:33:45.454169702+00:00 PendingEval → Done (evaluator passed; downstream unblocks)
- 2026-06-23T11:19:19.256743314+00:00 Completed full 2kb/5kb/10kb x 4-mode whole-genome chopped PAF filtering; rendering panel outputs.
- 2026-06-23T11:21:17.760932364+00:00 Validated sensitivity outputs: 24 summary rows, 3835 segment rows, all chr3 survival statuses yes; heavy PAFs remain ignored.
- 2026-06-23T11:22:32.960955623+00:00 Committed and pushed faeaaba: feat: fig5 raw fasta f16 sensitivity panels (agent-2685).