bog-v2-slide-03 — workgraph

Metadata

Status	done
Assigned	`agent-759`
Agent identity	`3577bc75d6ed4f1947509aa5c086c91ce7c997c7806dab6bf6affac647452647`
Created	2026-05-06T00:34:50.918653548+00:00
Started	2026-05-06T00:36:17.790285346+00:00
Completed	2026-05-06T00:40:34.322611529+00:00
Tags	`bog-slide`, `bog-this-week`, `eval-scheduled`
Eval score	0.94
└ blocking impact	0.95
└ completeness	0.95
└ constraint fidelity	0.70
└ coordination overhead	0.95
└ correctness	0.95
└ downstream usability	0.96
└ efficiency	0.90
└ intent fidelity	0.94
└ style adherence	0.95

Description

SHARED CONTEXT — BoG-this-week slide fanout. Lead author: Erik Garrison. Co-author: Andrea Guarracino. ANCHOR: paper_prep/synthesis/ABSTRACT.md. SUBSTRATE: end-to-end-report/ (Andrea 14-chapter report) + paper_prep/synthesis/CROSSWALK.md. EXISTING V1 DECK: slides/20260204_Subtelomics_overview_EG.summary.md (slide-by-slide ChatGPT extract — 240 lines, easiest entry) + slides/20260204_Subtelomics_overview_EG.pdf. TALK SLOT: 15 min. TOTAL SLIDES: 15. OUTPUT FILE: slides/v2/slide_NN_.md (NN = your slide number, slug short). FILE STRUCTURE (mandatory): ## Title (1 line) / ## Bullets (3-5, conference-style) / ## Primary figure (path if exists OR ggplot2/R generation script for any new annotation overlay; light R/ggplot2 work is OK inside agent worktree, no SBATCH) / ## Speaker notes (~150 words) / ## Time budget (target seconds matching the table) / ## Notes for synthesizer (cross-slide concerns, callbacks, what previous slide sets up). DO NOT modify v1 deck files. DO NOT touch other slide files in slides/v2/. Single output file. Single commit per task: "docs: BoG v2 slide NN — ".

THIS SLIDE: 03 — IMPG workflow + 12% Erdős-Rényi connectivity (keep v1 slide 3; major addition). v1: wfmash all-vs-all → indexed → interval forest per sequence; wave + dotplot + interval-tree stack. REQUIRED: (a) reframe slide title/subtitle to make explicit "this IS the implicit pangenome graph — no GFA, no explicit graph construction"; (b) ADD the ~12% Erdős-Rényi connectivity argument as bullet or callout: n=18,827 flanks → ER threshold p* = log(n)/n ≈ 5.21e-4; 12% is ~230× above → graph is densely connected, transitive closure reaches genome-wide; (c) cite https://github.com/pangenome/impg. Methods anchor — spend time. Time budget: 80s.

SHARED CONTEXT — BoG-this-week slide fanout. Lead author: Erik Garrison. Co-author: Andrea Guarracino. ANCHOR: paper_prep/synthesis/ABSTRACT.md. SUBSTRATE: end-to-end-report/ (Andrea 14-chapter report) + paper_prep/synthesis/CROSSWALK.md. EXISTING V1 DECK: slides/20260204_Subtelomics_overview_EG.summary.md (slide-by-slide ChatGPT extract — 240 lines, easiest entry) + slides/20260204_Subtelomics_overview_EG.pdf. TALK SLOT: 15 min. TOTAL SLIDES: 15. OUTPUT FILE: slides/v2/slide_NN_<slug>.md (NN = your slide number, slug short). FILE STRUCTURE (mandatory): ## Title (1 line) / ## Bullets (3-5, conference-style) / ## Primary figure (path if exists OR ggplot2/R generation script for any new annotation overlay; light R/ggplot2 work is OK inside agent worktree, no SBATCH) / ## Speaker notes (~150 words) / ## Time budget (target seconds matching the table) / ## Notes for synthesizer (cross-slide concerns, callbacks, what previous slide sets up). DO NOT modify v1 deck files. DO NOT touch other slide files in slides/v2/. Single output file. Single commit per task: "docs: BoG v2 slide NN — <slug>".

THIS SLIDE: 03 — IMPG workflow + 12% Erdős-Rényi connectivity (keep v1 slide 3; major addition).
v1: wfmash all-vs-all → indexed → interval forest per sequence; wave + dotplot + interval-tree stack.
REQUIRED: (a) reframe slide title/subtitle to make explicit "this IS the implicit pangenome graph — no GFA, no explicit graph construction"; (b) ADD the ~12% Erdős-Rényi connectivity argument as bullet or callout: n=18,827 flanks → ER threshold p* = log(n)/n ≈ 5.21e-4; 12% is ~230× above → graph is densely connected, transitive closure reaches genome-wide; (c) cite https://github.com/pangenome/impg. Methods anchor — spend time. Time budget: 80s.

Depends on

done .assign-bog-v2-slide-03

Required by

Log

2026-05-06T00:34:50.894604349+00:00 Task paused
2026-05-06T00:35:49.130008365+00:00 Task published
2026-05-06T00:36:14.048281298+00:00 Lightweight assignment: agent=random-agent-3577bc75 (3577bc75), exec_mode=full, context_scope=task, reason=Documenter role with verify-against-code tradeoff is ideal for synthesizing technical content (IMPG workflow, Erdős-Rényi connectivity) into structured slide format; will validate against referenced v1 deck, ABSTRACT.md, and end-to-end report.
2026-05-06T00:36:17.790289003+00:00 Spawned by coordinator --executor claude --model opus
2026-05-06T00:36:27.979752785+00:00 Starting slide 03 — IMPG workflow + ER connectivity
2026-05-06T00:38:30.131054659+00:00 Read v1 slide 3, ABSTRACT.md, CROSSWALK.md §7a/§7b. Drafting slide 03.
2026-05-06T00:39:29.302144347+00:00 Drafted slides/v2/slide_03_impg_workflow.md (title reframe + ER bullet + IMPG cite + R inset script). Verifying.
2026-05-06T00:40:26.907228259+00:00 Committed: d18c247 — pushed. Validated: file structure has all 6 required sections; speaker notes 149 words; ER math n=18827, p*=log(n)/n≈5.21e-4, 230× above threshold; cites github.com/pangenome/impg; title reframe asserts no-GFA/no-construction.
2026-05-06T00:40:34.322615577+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
2026-05-06T00:50:04.554193130+00:00 PendingEval → Done (evaluator passed; downstream unblocks)