review-zoom-v6-pggb-graph-black

Metadata

Status	done
Assigned	`agent-1099`
Agent identity	`46f6237a65ec4f1002c4d3fb201dc8633638d0947c276be7008c227e1051ba5e`
Created	2026-05-07T18:13:55.449078821+00:00
Started	2026-05-07T18:26:15.862225256+00:00
Completed	2026-05-07T18:40:47.933556112+00:00
Tags	`review-zoom`, `review-zoom-v6`, `pggb`, `graph-viz`, `readability`, `eval-scheduled`
Eval score	0.97
└ blocking impact	0.97
└ completeness	0.97
└ constraint fidelity	0.85
└ coordination overhead	0.96
└ correctness	0.98
└ downstream usability	0.98
└ efficiency	0.94
└ intent fidelity	0.89
└ style adherence	0.97

Description

Re-render or recolor the PGGB graph visualization in the current review-zoom deck so it uses black/dark graph coloring instead of the current blue styling.

User intent:

The PGGB graph render is useful/fun, but the blue coloring is hard to read in presentation.
Make the graph black/dark on a light background, with enough contrast for projection.
Keep the existing main-component/full-graph decision and provenance from the prior PGGB graph task.

Starting point:

Start after review-zoom-v6-dipc-validation-slides so this does not race the active v6 deck edits.
Use the latest review-zoom Typst source and PDF available at task start.
Prior graph assets are under slides/v2-review-zoom/_revision_assets/v5/pggb_graph_odgi/ and/or documented by review-zoom-v5-pggb-gfalook-2d-render.

Implementation guidance:

Prefer editing the existing graph asset generation/crop pipeline rather than rerunning expensive full layout work.
If the current asset was generated by ODGI/gfalook, find the color option or post-process the rendered image to black/dark while preserving useful structure.
If post-processing is used, document the exact command and avoid destroying detail; a threshold/contrast adjustment is fine if it remains faithful to the graph structure.
Use a dark neutral palette, e.g. black/charcoal graph marks on white/transparent/light background.
If heavy graph extraction/layout/rendering is required, use SLURM on tux nodes as in the previous PGGB graph task. Lightweight image post-processing and Typst edits can run locally.
Update the slide that contains the PGGB graph visualization; do not otherwise redesign the deck.

Deliverables:

Updated graph asset, e.g. slides/v2-review-zoom/_revision_assets/v6/pggb_graph_black/pggb_graph_2d_black.png or equivalent.
Reproducible recolor/render script and README under slides/v2-review-zoom/_revision_assets/v6/pggb_graph_black/.
Updated review-zoom PDF using the black graph asset. Use the current v6 PDF/source as base if v6 exists; otherwise update the latest current version available.
Revision note entry documenting the color/readability change.

Validation:

Graph asset exists, is nonblank, and uses black/dark coloring rather than blue.
The graph slide in the deck uses the black/dark asset.
Projection/readability is improved: sufficient contrast, no tiny blue-only strokes.
Source/provenance from prior PGGB graph task is preserved.
PDF renders and changed slide PNG export is nonblank.
git diff --check passes.

Re-render or recolor the PGGB graph visualization in the current review-zoom deck so it uses black/dark graph coloring instead of the current blue styling.

User intent:
- The PGGB graph render is useful/fun, but the blue coloring is hard to read in presentation.
- Make the graph black/dark on a light background, with enough contrast for projection.
- Keep the existing main-component/full-graph decision and provenance from the prior PGGB graph task.

Starting point:
- Start after `review-zoom-v6-dipc-validation-slides` so this does not race the active v6 deck edits.
- Use the latest review-zoom Typst source and PDF available at task start.
- Prior graph assets are under `slides/v2-review-zoom/_revision_assets/v5/pggb_graph_odgi/` and/or documented by `review-zoom-v5-pggb-gfalook-2d-render`.

Implementation guidance:
- Prefer editing the existing graph asset generation/crop pipeline rather than rerunning expensive full layout work.
- If the current asset was generated by ODGI/gfalook, find the color option or post-process the rendered image to black/dark while preserving useful structure.
- If post-processing is used, document the exact command and avoid destroying detail; a threshold/contrast adjustment is fine if it remains faithful to the graph structure.
- Use a dark neutral palette, e.g. black/charcoal graph marks on white/transparent/light background.
- If heavy graph extraction/layout/rendering is required, use SLURM on tux nodes as in the previous PGGB graph task. Lightweight image post-processing and Typst edits can run locally.
- Update the slide that contains the PGGB graph visualization; do not otherwise redesign the deck.

Deliverables:
- Updated graph asset, e.g. `slides/v2-review-zoom/_revision_assets/v6/pggb_graph_black/pggb_graph_2d_black.png` or equivalent.
- Reproducible recolor/render script and README under `slides/v2-review-zoom/_revision_assets/v6/pggb_graph_black/`.
- Updated review-zoom PDF using the black graph asset. Use the current v6 PDF/source as base if v6 exists; otherwise update the latest current version available.
- Revision note entry documenting the color/readability change.

Validation:
- [ ] Graph asset exists, is nonblank, and uses black/dark coloring rather than blue.
- [ ] The graph slide in the deck uses the black/dark asset.
- [ ] Projection/readability is improved: sufficient contrast, no tiny blue-only strokes.
- [ ] Source/provenance from prior PGGB graph task is preserved.
- [ ] PDF renders and changed slide PNG export is nonblank.
- [ ] `git diff --check` passes.

Depends on

Required by

Log

2026-05-07T18:13:55.348312956+00:00 Task paused
2026-05-07T18:14:26.872481460+00:00 Task published
2026-05-07T18:15:01.962031332+00:00 Lightweight assignment: agent=random-agent-46f6237a (46f6237a), exec_mode=full, context_scope=graph, reason=Pipeline Operator is the closest fit because this task is primarily a reproducible asset/render pipeline change with cross-file deck updates and validation, which benefits from concrete command-driven execution.
2026-05-07T18:26:15.862229264+00:00 Spawned by coordinator --executor codex --model gpt-5.5
2026-05-07T18:26:35.548680551+00:00 Starting implementation: inspect current v6 deck, prior PGGB graph assets, and existing worktree state.
2026-05-07T18:29:49.599333055+00:00 Created v6 PGGB graph black render pipeline; generating dark graph PNG from existing component-8 ODGI layout TSV.
2026-05-07T18:31:05.596125534+00:00 Wired slide 07j.1 to v6 black PGGB graph asset and documented retained component-8 provenance in REVISION_NOTES_V6.md.
2026-05-07T18:38:56.694287497+00:00 Validated: graph asset regenerated at 1920x1080, nonblank, dark/charcoal on white, with 0 saturated-blue and 0 blue-dominant pixels in the asset RGB scan.
2026-05-07T18:38:56.809397222+00:00 Validated: Typst PDF and PNG export pass; v6 PDF has 42 pages at /MediaBox [0 0 959.76 540], page-13.png is 1920x1080 RGBA and nonblank.
2026-05-07T18:38:56.932058576+00:00 Validated: slide 07j.1 references _revision_assets/v6/pggb_graph_black/pggb_graph_2d_black.png; page-13 graph-region crop has 0 saturated-blue/blue-dominant pixels; git diff --check passes.
2026-05-07T18:38:57.049524607+00:00 Validated: no Cargo.toml present; project-equivalent checks were R asset regeneration, Typst PDF render, PNG page export, source reference audit, pixel scan, and git diff --check.
2026-05-07T18:40:26.220658909+00:00 Committed: 2abe88f — pushed to remote branch wg/agent-1099/review-zoom-v6-pggb-graph-black
2026-05-07T18:40:47.933564057+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
2026-05-07T18:43:18.314284578+00:00 PendingEval → Done (evaluator passed; downstream unblocks)