Metadata
| Status | done |
|---|---|
| Assigned | agent-2688 |
| Agent identity | 46f6237a65ec4f1002c4d3fb201dc8633638d0947c276be7008c227e1051ba5e |
| Created | 2026-06-23T10:55:58.004618847+00:00 |
| Started | 2026-06-23T10:57:27.283624081+00:00 |
| Completed | 2026-06-23T11:12:27.636159839+00:00 |
| Tags | fig5, sweepga, slurm, eval-scheduled |
| Eval score | 0.87 |
| └ blocking impact | 0.92 |
| └ completeness | 0.88 |
| └ coordination overhead | 0.85 |
| └ correctness | 0.89 |
| └ downstream usability | 0.86 |
| └ efficiency | 0.82 |
| └ intent fidelity | 0.84 |
| └ style adherence | 0.89 |
Description
Generate Fig5 candidate evidence panels directly from raw whole-genome f16 many:many PAFs without pafchop. Compare raw no-chop 1:1 no-merge ANI vs raw no-chop 1:1 50kb scaffold merging with ANI and log-length-ANI scoring. Plot absolute query chromosome coordinates and summarize chr3 survival.
Depends on
Required by
Log
- 2026-06-23T10:56:34.831602081+00:00 Lightweight assignment: agent=random-agent-46f6237a (46f6237a), exec_mode=full, context_scope=task, reason=Pipeline Operator is the closest fit for a SLURM-backed figure-generation task that needs concrete data handling and panel production from raw PAFs.
- 2026-06-23T10:57:27.283627658+00:00 Spawned by coordinator --executor codex --model gpt-5.5
- 2026-06-23T10:57:48.181225873+00:00 Starting direct implementation: inspect existing Fig5 sweepga artifacts and raw f16 PAF inputs.
- 2026-06-23T10:59:08.760976031+00:00 Started no-chop merge test: raw whole-genome f16 many:many PAFs will be filtered directly with SweepGA 1:1, comparing no-merge ANI vs 50kb merge ANI/log-length-ANI; plotting will subset only after genome-wide filtering.
- 2026-06-23T11:03:22.735047806+00:00 Added no-chop merge panel package scripts/configs; validating script syntax before running raw filters.
- 2026-06-23T11:12:19.821221676+00:00 Completed direct no-chop raw f16 merge comparison; committed/pushed panel package as 98e9c8a with PDF/SVG/PNG, manifests, summaries, and scripts.
- 2026-06-23T11:12:27.636166041+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
- 2026-06-23T11:19:58.558071855+00:00 PendingEval → Done (evaluator passed; downstream unblocks)
- 2026-06-23T11:24:10.547413413+00:00 Validated no-chop panel package: validate_outputs.sh passed; chr3 survival summarized across no_merge_ani, merge50k_ani, merge50k_log_length_ani.
- 2026-06-23T11:24:42.594097796+00:00 Validated no-chop panel package: validate_outputs.sh passed; chr3 survival summarized across no_merge_ani, merge50k_ani, merge50k_log_length_ani.
- 2026-06-23T11:26:08.071788721+00:00 Committed and pushed: 6f0b9e3 — feat: fig5 raw fasta f16 no-chop merge panels (agent-2688). Validation: py_compile and validate_outputs.sh passed.