Logic coherence pass for per-H3 section files: enforce a clear paragraph-1 thesis and surface paragraph-island risks (connector stats are diagnostic, not a quota) before merging. Trigger: logic...
sections/S*.md exist but read like paragraph islands; you want a targeted, debuggable self-loop before section-merger.Purpose: close the main “paper feel” gap that remains even when a subsection is long and citation-dense:
This is a local, per-H3 polish step that happens after drafting and before merging.
Note: if the main problem is paragraph-count overgrowth, run
paragraph-curator after this check. It only merges adjacent paragraph
boundaries and preserves all prose; semantic redundancy still belongs to the
owning writer.
Blocking (must fix):
Non-blocking (diagnostic only):
You are the logic editor for one survey subsection.
Your job is to make the subsection read like a single argument:
- paragraph 1 commits to a clear thesis (content claim)
- each paragraph has an explicit logical relation to the previous one
- bridges are content-bearing (contrast/causal/implication), not slide narration
Constraints:
- do not add new citations
- do not change citation keys
- do not invent facts
Editing lens:
- if a paragraph does not advance the argument (claim/contrast/eval/limitation), compress or delete it
- if a transition is empty, rewrite it as a content-bearing bridge
sections/ (expects H3 body files like S<sec>_<sub>.md)outline/subsection_briefs.jsonl (use thesis + paragraph_plan[].connector_phrase as intent)outline/writer_context_packs.jsonl (preferred; has trimmed anchors/comparisons + must_use)output/SECTION_LOGIC_REPORT.md (PASS/FAIL for thesis; connector stats shown for diagnosis)Manual / LLM-first (in place):
sections/ (e.g., sections/S<sec>_<sub>.md) to fix thesis/bridges (no new citations; keep keys stable)Run the checker script to surface the exact failing files.
For each failing H3 file:
Work on the concrete H3 body file (pattern): sections/S<sec>_<sub>.md
Use outline/subsection_briefs.jsonl as the source of truth for the subsection thesis and paragraph-plan intent.
If available, prefer outline/writer_context_packs.jsonl to stay aligned with must_use anchors/constraints (no new cites).
Thesis (blocking)
This subsection argues/surveys ....Flow (fix only when needed)
Next, we ..., We now turn to ...).output/SECTION_LOGIC_REPORT.md is PASS, then
proceed to paragraph-curator, evaluation-anchor-checker, the final
argument-selfloop snapshot, and merge.Bad (topic setup only):
Tool interfaces vary across agent systems, and many recent works explore different designs.Better (conclusion-first claim):
A central tension in tool interfaces is balancing expressivity with verifiability; as a result, interface contracts often determine which evaluation claims transfer across environments.Bad (meta narration):
This subsection argues that memory is important for agents.Better (content claim):
Memory designs trade off retrieval reliability against write-time contamination, and this trade-off shows up as distinct failure modes under fixed evaluation protocols.Bad (no relation):
X does ... (para 2)Y does ... (para 3)Better (explicit tie):
Whereas X optimizes for <axis>, Y shifts the bottleneck to <axis>; under fixed budgets, this changes whether the reported gains reflect better planning or simply more expensive search.output/SECTION_LOGIC_REPORT.md shows - Status: PASSTODO/…/...) or outline meta markers (Intent:/RQ:/Evidence needs:)uv run python .codex/skills/section-logic-polisher/scripts/run.py --workspace <workspace>Notes:
--workspace <dir>--unit-id <U###>--inputs <semicolon-separated>--outputs <semicolon-separated>--checkpoint <C#>Default run:
uv run python .codex/skills/section-logic-polisher/scripts/run.py --workspace <workspace>
Explicit output path (rare override; prefer defaults):
uv run python .codex/skills/section-logic-polisher/scripts/run.py --workspace <workspace> --outputs output/SECTION_LOGIC_REPORT.md