survey-limitations-summary

Metadata

Status	done
Assigned	`agent-666`
Agent identity	`3184716484e6f0ea08bb13539daf07686ee79d440505f1fdf2de0357707034c3`
Created	2026-05-05T04:08:55.744769014+00:00
Started	2026-05-05T04:27:38.106544139+00:00
Completed	2026-05-05T04:36:04.946381697+00:00
Tags	`paper-prep,survey`, `eval-scheduled`
Eval score	0.85
└ blocking impact	0.90
└ completeness	0.83
└ coordination overhead	0.90
└ correctness	0.85
└ downstream usability	0.80
└ efficiency	0.88
└ intent fidelity	0.89
└ style adherence	0.82

Description

INPUTS: end-to-end-report/report/10_limitations.md, 11_summary.md, 12_literature.md (read all three). CONTEXT: Nature manuscript + 15-min talk. These three sections collectively define: (a) caveats/sample composition issues; (b) the 10 key biological findings with metrics that anchor the paper; (c) the 27 novel claims and confirmed-prior-literature claims and testable predictions. TASK: Extract from each file: (1) Key findings/claims (numbered with metrics) — distinguish 10_ vs 11_ vs 12_; (2) Existing figures (paths); (3) CSVs (paths); (4) For 12_: explicit list of (a) confirmed prior literature, (b) novel-to-this-paper contributions, (c) testable predictions; (5) Gaps for the manuscript; (6) Suggested figures including a master 'key findings' summary panel and a 'novel contributions' table; (7) Talk slide takeaways. OUTPUT: paper_prep/surveys/SURVEY_10_11_12_limits_summary_lit.md (7 sections, with 10/11/12 sub-sections inside section 1). ACCEPTANCE: File exists, distinguishes content from each input file, concrete paths cited.

INPUTS: end-to-end-report/report/10_limitations.md, 11_summary.md, 12_literature.md (read all three).
CONTEXT: Nature manuscript + 15-min talk. These three sections collectively define: (a) caveats/sample composition issues; (b) the 10 key biological findings with metrics that anchor the paper; (c) the 27 novel claims and confirmed-prior-literature claims and testable predictions.
TASK: Extract from each file: (1) Key findings/claims (numbered with metrics) — distinguish 10_ vs 11_ vs 12_; (2) Existing figures (paths); (3) CSVs (paths); (4) For 12_: explicit list of (a) confirmed prior literature, (b) novel-to-this-paper contributions, (c) testable predictions; (5) Gaps for the manuscript; (6) Suggested figures including a master 'key findings' summary panel and a 'novel contributions' table; (7) Talk slide takeaways.
OUTPUT: paper_prep/surveys/SURVEY_10_11_12_limits_summary_lit.md (7 sections, with 10/11/12 sub-sections inside section 1).
ACCEPTANCE: File exists, distinguishes content from each input file, concrete paths cited.

Depends on

done .assign-survey-limitations-summary

Required by

Log

2026-05-05T04:08:55.730614706+00:00 Task paused
2026-05-05T04:24:47.354166819+00:00 Task resumed
2026-05-05T04:27:38.106547536+00:00 Spawned by coordinator --executor claude --model opus
2026-05-05T04:28:08.637547683+00:00 Starting: reading three input files and an example existing survey for format reference
2026-05-05T04:28:52.504762678+00:00 Read all three input files (10_, 11_, 12_); reviewed format of SURVEY_06; writing output now
2026-05-05T04:35:33.979797688+00:00 Validated: file exists (650 lines, 7 ## sections); §1 has subsections 1.1/1.2/1.3 distinguishing 10_/11_/12_; §4 lists confirmed (12), novel (27), predictions (7); concrete paths cited (HPRCv2 scripts, mcool exclusion dirs, BED files); upstream survey paths cross-linked
2026-05-05T04:35:54.481114486+00:00 Committed: 49f9f7d — pushed to remote
2026-05-05T04:36:04.946385915+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
2026-05-05T04:40:15.056804421+00:00 PendingEval → Done (evaluator passed; downstream unblocks)