@research-copilot/plugin 1.1.17 → 1.1.18

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (799) hide show
  1. package/dist/.claude-plugin/plugin.json +1 -1
  2. package/dist/.codex-plugin/plugin.toml +1 -1
  3. package/dist/.cursor-plugin/plugin.json +1 -1
  4. package/dist/.gemini-plugin/plugin.json +1 -1
  5. package/dist/.opencode-plugin/plugin.json +1 -1
  6. package/dist/.windsurf-plugin/plugin.json +1 -1
  7. package/dist/skills/ablation-planner/SKILL.md +126 -0
  8. package/dist/skills/alphaxiv/SKILL.md +186 -0
  9. package/dist/skills/analyze-results/SKILL.md +45 -0
  10. package/dist/skills/arxiv/SKILL.md +210 -0
  11. package/dist/skills/auto-paper-improvement-loop/SKILL.md +574 -0
  12. package/dist/skills/auto-review-loop/SKILL.md +370 -0
  13. package/dist/skills/auto-review-loop-llm/SKILL.md +247 -0
  14. package/dist/skills/auto-review-loop-minimax/SKILL.md +290 -0
  15. package/dist/skills/benchmark-paper-template/SKILL.md +142 -0
  16. package/dist/skills/benchmark-paper-template/references/benchmark-design.md +180 -0
  17. package/dist/skills/benchmark-paper-template/references/checklist.md +113 -0
  18. package/dist/skills/benchmark-paper-template/references/construction-pipeline.md +127 -0
  19. package/dist/skills/benchmark-paper-template/references/experiments.md +159 -0
  20. package/dist/skills/benchmark-paper-template/references/gap-analysis.md +86 -0
  21. package/dist/skills/benchmark-paper-template/references/instantiation-template.md +194 -0
  22. package/dist/skills/benchmark-paper-template/references/orchestrator-notes.md +96 -0
  23. package/dist/skills/benchmark-paper-template/references/paper-structure.md +209 -0
  24. package/dist/skills/citation-audit/SKILL.md +494 -0
  25. package/dist/skills/claims-drafting/SKILL.md +239 -0
  26. package/dist/skills/comm-lit-review/SKILL.md +299 -0
  27. package/dist/skills/comm-lit-review/references/domain-taxonomy.md +57 -0
  28. package/dist/skills/comm-lit-review/references/output-template.md +37 -0
  29. package/dist/skills/comm-lit-review/references/source-policy.md +99 -0
  30. package/dist/skills/comm-lit-review/references/venue-tiering.md +112 -0
  31. package/dist/skills/composer/SKILL.md +840 -0
  32. package/dist/skills/composer/references/section_guides.md +675 -0
  33. package/dist/skills/composer/references/writing_standards.md +629 -0
  34. package/dist/skills/composer/scripts/chapter_quality_check.py +470 -0
  35. package/dist/skills/composer/scripts/final_evaluation.py +550 -0
  36. package/dist/skills/deepxiv/SKILL.md +142 -0
  37. package/dist/skills/dse-loop/SKILL.md +277 -0
  38. package/dist/skills/embodiment-description/SKILL.md +129 -0
  39. package/dist/skills/exa-search/SKILL.md +192 -0
  40. package/dist/skills/experiment-audit/SKILL.md +262 -0
  41. package/dist/skills/experiment-bridge/SKILL.md +316 -0
  42. package/dist/skills/experiment-plan/SKILL.md +249 -0
  43. package/dist/skills/experiment-queue/SKILL.md +380 -0
  44. package/dist/skills/experiment-queue/scripts/build_manifest.py +142 -0
  45. package/dist/skills/experiment-queue/scripts/queue_manager.py +426 -0
  46. package/dist/skills/feishu-notify/SKILL.md +155 -0
  47. package/dist/skills/figure-description/SKILL.md +138 -0
  48. package/dist/skills/figure-designer/SKILL.md +207 -0
  49. package/dist/skills/figure-designer/references/design-rules.md +99 -0
  50. package/dist/skills/figure-designer/references/experimental-results.md +127 -0
  51. package/dist/skills/figure-designer/references/motivated-example.md +138 -0
  52. package/dist/skills/figure-designer/references/solution-overview.md +145 -0
  53. package/dist/skills/figure-designer/references/tools.md +124 -0
  54. package/dist/skills/figure-spec/SKILL.md +252 -0
  55. package/dist/skills/figure-spec/scripts/figure_renderer.py +799 -0
  56. package/dist/skills/formula-derivation/SKILL.md +280 -0
  57. package/dist/skills/gemini-search/SKILL.md +205 -0
  58. package/dist/skills/grant-proposal/SKILL.md +625 -0
  59. package/dist/skills/humanizer/AGENTS.md +25 -0
  60. package/dist/skills/humanizer/SKILL.md +621 -0
  61. package/dist/skills/idea-creator/SKILL.md +311 -0
  62. package/dist/skills/idea-discovery/SKILL.md +340 -0
  63. package/dist/skills/idea-discovery-robot/SKILL.md +362 -0
  64. package/dist/skills/idea-evaluator/SKILL.md +265 -0
  65. package/dist/skills/idea-evaluator/references/fatal-flaws.md +192 -0
  66. package/dist/skills/idea-evaluator/references/five-dimensions.md +251 -0
  67. package/dist/skills/idea-evaluator/references/lifecycle-capability-matching.md +177 -0
  68. package/dist/skills/idea-evaluator/references/paradigm-elephant.md +112 -0
  69. package/dist/skills/idea-evaluator/references/paradigm-examples.md +107 -0
  70. package/dist/skills/idea-evaluator/references/paradigm-first-principles.md +115 -0
  71. package/dist/skills/idea-evaluator/references/paradigm-hamming.md +137 -0
  72. package/dist/skills/idea-evaluator/references/paradigm-shift-probe.md +160 -0
  73. package/dist/skills/idea-evaluator/references/paradigm-technology-cycle.md +116 -0
  74. package/dist/skills/idea-evaluator/references/worked-examples.md +206 -0
  75. package/dist/skills/interview-cheatsheet/SKILL.md +245 -0
  76. package/dist/skills/intro-drafter/SKILL.md +250 -0
  77. package/dist/skills/intro-drafter/references/contribution-patterns.md +116 -0
  78. package/dist/skills/intro-drafter/references/flowchart.md +204 -0
  79. package/dist/skills/intro-drafter/references/paper-types.md +155 -0
  80. package/dist/skills/intro-drafter/references/running-example.md +133 -0
  81. package/dist/skills/intro-drafter/references/worked-examples.md +161 -0
  82. package/dist/skills/invention-structuring/SKILL.md +188 -0
  83. package/dist/skills/jurisdiction-format/SKILL.md +192 -0
  84. package/dist/skills/kill-argument/SKILL.md +384 -0
  85. package/dist/skills/llm-wiki/.mise.toml +2 -0
  86. package/dist/skills/llm-wiki/.nvmrc +1 -0
  87. package/dist/skills/llm-wiki/AGENTS.md +132 -0
  88. package/dist/skills/llm-wiki/CHANGELOG.md +459 -0
  89. package/dist/skills/llm-wiki/CLAUDE.md +109 -0
  90. package/dist/skills/llm-wiki/HERMES.md +44 -0
  91. package/dist/skills/llm-wiki/SKILL.md +1133 -0
  92. package/dist/skills/llm-wiki/assets/graph-demo.gif +0 -0
  93. package/dist/skills/llm-wiki/assets/graph-preview.png +0 -0
  94. package/dist/skills/llm-wiki/deps/LICENSE-d3.txt +13 -0
  95. package/dist/skills/llm-wiki/deps/LICENSE-marked.txt +44 -0
  96. package/dist/skills/llm-wiki/deps/LICENSE-purify.txt +568 -0
  97. package/{LICENSE → dist/skills/llm-wiki/deps/LICENSE-roughjs.txt} +1 -1
  98. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/SKILL.md +261 -0
  99. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/references/config/first-time-setup.md +106 -0
  100. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/cdp.ts +179 -0
  101. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/constants.ts +13 -0
  102. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/defuddle-converter.ts +58 -0
  103. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/html-to-markdown.ts +135 -0
  104. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/legacy-converter.ts +629 -0
  105. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/main.ts +314 -0
  106. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/markdown-conversion-shared.ts +305 -0
  107. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/media-localizer.ts +317 -0
  108. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/package.json +14 -0
  109. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/paths.ts +29 -0
  110. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/vendor/baoyu-chrome-cdp/package.json +9 -0
  111. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/vendor/baoyu-chrome-cdp/src/index.test.ts +307 -0
  112. package/dist/skills/llm-wiki/deps/baoyu-url-to-markdown/scripts/vendor/baoyu-chrome-cdp/src/index.ts +523 -0
  113. package/dist/skills/llm-wiki/deps/d3.min.js +2 -0
  114. package/dist/skills/llm-wiki/deps/marked.min.js +6 -0
  115. package/dist/skills/llm-wiki/deps/purify.min.js +3 -0
  116. package/dist/skills/llm-wiki/deps/rough.min.js +7 -0
  117. package/dist/skills/llm-wiki/deps/youtube-transcript/SKILL.md +47 -0
  118. package/dist/skills/llm-wiki/deps/youtube-transcript/scripts/get_transcript.py +72 -0
  119. package/dist/skills/llm-wiki/docs/design/oriental-atlas/DESIGN.md +183 -0
  120. package/dist/skills/llm-wiki/docs/design/oriental-atlas/design-brief.md +170 -0
  121. package/dist/skills/llm-wiki/docs/design/oriental-atlas/oriental-editorial-atlas.html +1908 -0
  122. package/dist/skills/llm-wiki/docs/design/oriental-atlas/reviews/result-review.md +68 -0
  123. package/dist/skills/llm-wiki/docs/plans/2026-06-15-omp-tool-status-events-phased-plan.md +655 -0
  124. package/dist/skills/llm-wiki/docs/plans/2026-06-15-omp-tool-status-events-progress.json +913 -0
  125. package/dist/skills/llm-wiki/docs/spark/2026-06-15-omp-tool-status-events-design.md +174 -0
  126. package/dist/skills/llm-wiki/install.ps1 +87 -0
  127. package/dist/skills/llm-wiki/install.sh +722 -0
  128. package/dist/skills/llm-wiki/package-lock.json +10309 -0
  129. package/dist/skills/llm-wiki/package.json +24 -0
  130. package/dist/skills/llm-wiki/packages/graph-engine/package.json +33 -0
  131. package/dist/skills/llm-wiki/packages/graph-engine/src/anim/.gitkeep +1 -0
  132. package/dist/skills/llm-wiki/packages/graph-engine/src/anim/index.ts +179 -0
  133. package/dist/skills/llm-wiki/packages/graph-engine/src/diff.ts +121 -0
  134. package/dist/skills/llm-wiki/packages/graph-engine/src/graph-node.ts +37 -0
  135. package/dist/skills/llm-wiki/packages/graph-engine/src/index.ts +140 -0
  136. package/dist/skills/llm-wiki/packages/graph-engine/src/model/atlas.ts +18 -0
  137. package/dist/skills/llm-wiki/packages/graph-engine/src/model/index.ts +6 -0
  138. package/dist/skills/llm-wiki/packages/graph-engine/src/model/labels.ts +11 -0
  139. package/dist/skills/llm-wiki/packages/graph-engine/src/model/learning.ts +8 -0
  140. package/dist/skills/llm-wiki/packages/graph-engine/src/model/legacy-helpers.ts +1373 -0
  141. package/dist/skills/llm-wiki/packages/graph-engine/src/model/queue.ts +7 -0
  142. package/dist/skills/llm-wiki/packages/graph-engine/src/model/storage.ts +4 -0
  143. package/dist/skills/llm-wiki/packages/graph-engine/src/model/visibility.ts +9 -0
  144. package/dist/skills/llm-wiki/packages/graph-engine/src/render/.gitkeep +1 -0
  145. package/dist/skills/llm-wiki/packages/graph-engine/src/render/index.ts +59 -0
  146. package/dist/skills/llm-wiki/packages/graph-engine/src/render/legend.ts +25 -0
  147. package/dist/skills/llm-wiki/packages/graph-engine/src/render/model.ts +593 -0
  148. package/dist/skills/llm-wiki/packages/graph-engine/src/render/preview.ts +65 -0
  149. package/dist/skills/llm-wiki/packages/graph-engine/src/render/search.ts +48 -0
  150. package/dist/skills/llm-wiki/packages/graph-engine/src/render/static-renderer.ts +2783 -0
  151. package/dist/skills/llm-wiki/packages/graph-engine/src/render/toolbar.ts +40 -0
  152. package/dist/skills/llm-wiki/packages/graph-engine/src/render/viewport.ts +272 -0
  153. package/dist/skills/llm-wiki/packages/graph-engine/src/select/.gitkeep +1 -0
  154. package/dist/skills/llm-wiki/packages/graph-engine/src/select/index.ts +189 -0
  155. package/dist/skills/llm-wiki/packages/graph-engine/src/sim/index.ts +298 -0
  156. package/dist/skills/llm-wiki/packages/graph-engine/src/sim/pins.ts +96 -0
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  160. package/dist/skills/llm-wiki/packages/graph-engine/src/types.ts +313 -0
  161. package/dist/skills/llm-wiki/packages/graph-engine/test/anim.test.ts +100 -0
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  164. package/dist/skills/llm-wiki/packages/graph-engine/test/learning.test.ts +259 -0
  165. package/dist/skills/llm-wiki/packages/graph-engine/test/preview.test.ts +56 -0
  166. package/dist/skills/llm-wiki/packages/graph-engine/test/queue.test.ts +114 -0
  167. package/dist/skills/llm-wiki/packages/graph-engine/test/render-model.test.ts +322 -0
  168. package/dist/skills/llm-wiki/packages/graph-engine/test/runtime-state.test.ts +281 -0
  169. package/dist/skills/llm-wiki/packages/graph-engine/test/search-and-legend.test.ts +111 -0
  170. package/dist/skills/llm-wiki/packages/graph-engine/test/select.test.ts +168 -0
  171. package/dist/skills/llm-wiki/packages/graph-engine/test/sim.test.ts +123 -0
  172. package/dist/skills/llm-wiki/packages/graph-engine/test/themes.test.ts +62 -0
  173. package/dist/skills/llm-wiki/packages/graph-engine/test/toolbar.test.ts +64 -0
  174. package/dist/skills/llm-wiki/packages/graph-engine/test/viewport.test.ts +167 -0
  175. package/dist/skills/llm-wiki/packages/graph-engine/tsconfig.json +17 -0
  176. package/dist/skills/llm-wiki/packages/graph-engine/vite.config.ts +15 -0
  177. package/dist/skills/llm-wiki/platforms/claude/CLAUDE.md +37 -0
  178. package/dist/skills/llm-wiki/platforms/claude/companions/llm-wiki-upgrade/SKILL.md +95 -0
  179. package/dist/skills/llm-wiki/platforms/codex/AGENTS.md +23 -0
  180. package/dist/skills/llm-wiki/scripts/adapter-state.sh +424 -0
  181. package/dist/skills/llm-wiki/scripts/build-graph-data.sh +395 -0
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  191. package/dist/skills/llm-wiki/scripts/lint-runner.sh +217 -0
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@@ -0,0 +1,499 @@
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+ ---
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+ name: proof-checker
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+ description: Rigorous mathematical proof verification and fixing workflow. Reads a LaTeX proof, identifies gaps via cross-model review (Codex GPT-5.5 xhigh), fixes each gap with full derivations, re-reviews, and generates an audit report. Use when user says "检查证明", "verify proof", "proof check", "审证明", "check this proof", or wants rigorous mathematical verification of a theory paper.
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+ argument-hint: [path-to-tex-file or proof-description]
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+ allowed-tools: Bash(*), Read, Grep, Glob, Write, Edit
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+ ---
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+
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+ # Proof Checker: Rigorous Mathematical Verification & Fixing
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+
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+ Systematically verify a mathematical proof via cross-model adversarial review, fix identified gaps, re-review until convergence, and generate a detailed audit report with proof-obligation accounting.
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+
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+ ## Context: $ARGUMENTS
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+
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+ ## Constants
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+
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+ - MAX_REVIEW_ROUNDS = 3
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+ - REVIEWER_MODEL = `gpt-5.5` via Codex reviewer agent, reasoning effort always `xhigh`
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+ - **REVIEWER_BACKEND = `codex`** — Default: Codex reviewer agent (`spawn_agent`, xhigh). Override with `— reviewer: oracle-pro` for GPT-5.5 Pro via Oracle MCP. See `shared-references/reviewer-routing.md`.
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+ - AUDIT_DOC: `PROOF_AUDIT.md` at the paper directory root, alongside `main.tex` (cumulative log; when invoked via `/paper-writing`, this is `paper/PROOF_AUDIT.md`)
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+ - REPORT_TEX: `proof_audit_report.tex` (formal before/after PDF)
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+ - STATE_FILE: `PROOF_CHECK_STATE.json` (for recovery)
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+ - SKELETON_DOC: `PROOF_SKELETON.md` (micro-claim inventory)
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+ - **RENDER_HTML = true** — When `true` (default), auto-render `PROOF_AUDIT.md` to HTML at workflow end via `/render-html`. Uses **full review gate** (audit-class, math-heavy — render-fidelity check protects against MathJax breakage). Set `false` to skip, or pass `— render html: false`. **Non-blocking**: failures don't invalidate the proof audit.
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+
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+ ### Acceptance Gate (objective, replaces subjective scoring)
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+
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+ The proof passes when ALL of the following hold:
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+ 1. Zero open FATAL or CRITICAL issues
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+ 2. Every theorem/lemma has: (i) explicit hypotheses, (ii) proof with all interchanges justified, (iii) every application discharges hypotheses in the ledger
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+ 3. All big-O/Θ/o statements have declared parameter dependence and uniformity scope
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+ 4. Counterexample pass executed on all key lemmas (log candidates even if none found)
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+
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+ ## Issue Taxonomy (20 categories, 4 groups)
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+
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+ ### Group A: Logic & Proof Structure
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+
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+ | Category | Description | Example |
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+ |----------|-------------|---------|
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+ | **UNJUSTIFIED_ASSERTION** | Claim stated without proof or reference | "The Hessian splits into Gram blocks" |
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+ | **UNPROVEN_SUBCLAIM** | "Clearly" / "it follows" hides a nontrivial lemma | "By symmetry, the cross-terms vanish" without checking |
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+ | **QUANTIFIER_ERROR** | Wrong order ∀/∃, missing "for sufficiently small κ" | "For all π, there exists ε" vs "there exists ε for all π" |
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+ | **IMPLICATION_REVERSAL** | Uses (A⇒B) as (B⇒A), or claims equivalence with only one direction | |
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+ | **CASE_INCOMPLETE** | Misses boundary/degenerate cases | Singular covariance, zero weight, non-unique argmin |
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+ | **CIRCULAR_DEPENDENCY** | Lemma uses theorem that depends on it | |
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+ | **LOGICAL_GAP** | A step is not justified by what precedes it | B=Θ(1) → β_K=0 without analyzing W |
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+
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+ ### Group B: Analysis & Measure Theory
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+
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+ | Category | Description | Example |
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+ |----------|-------------|---------|
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+ | **ILLEGAL_INTERCHANGE** | Swaps limit/expectation/derivative/integral without DCT/MCT/Fubini | Differentiating under E without domination |
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+ | **NONUNIFORM_CONVERGENCE** | Pointwise convergence used as uniform | sup and limit swapped |
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+ | **MISSING_DOMINATION** | DCT cited but no dominating function given | |
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+ | **INTEGRABILITY_GAP** | Uses E|X|^p without proving/assuming finite moments | |
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+ | **REGULARITY_GAP** | Differentiability/Lipschitz/convexity used but not established | |
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+ | **STOCHASTIC_MODE_CONFUSION** | Mixes a.s./in prob./in L²/in expectation | |
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+
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+ ### Group C: Model & Parameter Tracking
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+
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+ | Category | Description | Example |
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+ |----------|-------------|---------|
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+ | **MISSING_DERIVATION** | A quantity is used but never derived from the model | Risk functional with undefined B, W |
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+ | **HIDDEN_ASSUMPTION** | Proof silently uses a condition not in the theorem | Gaussianity assumed but not stated |
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+ | **INSUFFICIENT_ASSUMPTION** | Hypotheses too weak for proof (counterexample exists) | Moment conditions admitting 2-point distributions |
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+ | **DIMENSION_TRACKING** | Parameter dependence (d, n, K, ...) not explicit | d enters only through κ |
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+ | **NORMALIZATION_MISMATCH** | Coordinate/scaling conventions inconsistent | Rescaled vs raw coordinates |
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+ | **CONSTANT_DEPENDENCE_HIDDEN** | "C" depends on d,n,K but treated as universal | |
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+
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+ ### Group D: Scope & Claims
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+
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+ | Category | Description | Example |
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+ |----------|-------------|---------|
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+ | **SCOPE_OVERCLAIM** | Conclusion stated more broadly than proof supports | "β_K=0" with only generic overlap |
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+ | **REFERENCE_MISMATCH** | Cited theorem's hypotheses not verified at point of use | |
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+
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+ ## Two-Axis Severity System
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+
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+ ### Axis A — Proof Status (what is wrong)
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+
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+ | Status | Meaning |
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+ |--------|---------|
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+ | **INVALID** | Statement false as written (counterexample exists or contradiction) |
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+ | **UNJUSTIFIED** | Could be true, but current proof does not establish it |
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+ | **UNDERSTATED** | True only after strengthening assumptions |
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+ | **OVERSTATED** | True only after weakening conclusion / adding qualifiers |
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+ | **UNCLEAR** | Ambiguous notation / definition drift (not wrong per se) |
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+
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+ ### Axis B — Impact (how much breaks)
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+
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+ | Impact | Meaning |
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+ |--------|---------|
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+ | **GLOBAL** | Breaks main theorem or core dependency chain |
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+ | **LOCAL** | Affects a side result but not the main theorem |
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+ | **COSMETIC** | Exposition only |
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+
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+ ### Severity Labels (derived)
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+
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+ | Label | Definition |
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+ |-------|------------|
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+ | **FATAL** | INVALID + GLOBAL |
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+ | **CRITICAL** | (INVALID + LOCAL) or (UNJUSTIFIED + GLOBAL) |
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+ | **MAJOR** | (UNJUSTIFIED + LOCAL) or (UNDERSTATED/OVERSTATED + GLOBAL) |
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+ | **MINOR** | Clarity / notation / dimension bookkeeping that doesn't change claims |
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+
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+ ## Side-Condition Checklists for Common Theorems
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+
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+ When the proof invokes any of the following, require explicit verification of ALL listed conditions:
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+
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+ | Theorem | Required Conditions |
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+ |---------|-------------------|
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+ | **DCT** (Dominated Convergence) | Pointwise a.e. convergence + integrable dominating function |
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+ | **MCT** (Monotone Convergence) | Monotone increasing + non-negative |
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+ | **Fubini/Tonelli** | Product measurability + integrability (Fubini) or non-negative (Tonelli) |
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+ | **Leibniz integral rule** | Continuity of integrand + dominating function for derivative |
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+ | **Implicit Function Theorem** | Continuous differentiability + non-singular Jacobian |
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+ | **Taylor with remainder** | Sufficient differentiability + remainder form (Lagrange/integral) |
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+ | **Jensen's inequality** | Convexity of function + integrability |
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+ | **Cauchy-Schwarz** | Correct inner product space + integrability of both factors |
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+ | **Weyl/Davis-Kahan** | Symmetry/Hermiticity + perturbation bound conditions |
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+ | **Analytic continuation** | Domain connectivity + identity theorem conditions |
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+ | **WLOG reduction** | Invariance under claimed symmetry + reduction is reversible |
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+
123
+ ## Workflow
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+
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+ ### Phase 0: Preparation
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+
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+ 1. **Locate the proof**: Find the main `.tex` file(s).
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+ 2. **Read the entire proof**: Extract list of all theorems/lemmas/propositions/corollaries/definitions/assumptions.
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+ 3. **Read reference materials**: Reference papers, prior results.
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+ 4. **Build a section map**: Structured list with line numbers and key claims.
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+ 5. **Identify the main theorem**: Central result, assumptions, claims.
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+
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+ ### Phase 0.5: Proof-Obligation Ledger
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+
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+ Build formal accounting artifacts. Save to `PROOF_SKELETON.md`:
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+
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+ #### 1. Dependency DAG
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+ Nodes = Definitions / Assumptions / Lemmas / Theorems. Edges = "uses". **Detect cycles** (including semantic circularity where Lemma A uses a corollary that quietly depends on A).
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+
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+ #### 2. Assumption Ledger
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+ For each theorem/lemma, list every hypothesis with WHERE each is verified (or mark "UNVERIFIED"). Track **usage-minimal assumption sets** — which assumptions were actually used vs merely stated.
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+
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+ #### 3. Typed Symbol Table
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+ Each symbol must have a **type signature**:
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+ ```
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+ κ : scalar ∈ (0,1), depends on (d, α_t, Σ, μ)
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+ u* : vector ∈ ℝ^d, u* = C^{-1}m
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+ B^even : matrix ∈ ℝ^{(L+1)×(L+1)}, symmetric PSD
149
+ Ψ_v : function ℝ → ℝ, analytic in (ζ,κ), parity determined by v
150
+ ```
151
+ Flag any symbol whose meaning changes or whose type is inconsistent across uses.
152
+
153
+ #### 4. Canonical Quantified Statements
154
+ For each theorem/lemma, rewrite the statement with **explicit quantifiers, domains, and limit order**:
155
+ ```
156
+ ∀K ≥ 3, ∀π ∈ Π_K^{ms,∘} \ E_K, ∃κ_0 > 0 such that ∀κ ∈ (0, κ_0):
157
+ h_act^{(K,π)} = Θ(κ^{α_K^act}) [uniform in π on compact subsets]
158
+ ```
159
+ If you cannot restate a theorem this precisely, mark it **UNCLEAR — needs disambiguation**.
160
+
161
+ #### 5. Micro-Claim Inventory
162
+ Every nontrivial step becomes a numbered micro-claim in **sequent form**:
163
+ ```
164
+ MC-17: Context: [Lemma 3.1, κ < κ_0, Z_κ has bounded moments up to order 2m+2]
165
+ ⊢ Goal: P̂_0 is positive definite
166
+ Rule: monomials linearly independent on support of continuous distribution
167
+ Side-conditions: positive density near origin ✓ (by GMM weak convergence)
168
+ ```
169
+ Each micro-claim has: justification rule name + required conditions + where conditions are proven.
170
+
171
+ #### 6. Limit-Order Map
172
+ Track every asymptotic statement's **limit order and uniformity scope**:
173
+ ```
174
+ h_act = Θ(κ^α) [as κ→0, uniform in π on compact subsets of Π_K, for fixed K]
175
+ τ_act ~ (b/a)n [as n→∞, for fixed κ,K,π with x_K ≪ 1]
176
+ ```
177
+ Flag any statement where limit order is ambiguous or uniformity is unclear.
178
+
179
+ ### Phase 1: First Review (Codex GPT-5.5 xhigh)
180
+
181
+ Submit the **complete proof content** with the following **mandatory reviewer checklist** in the prompt:
182
+
183
+ ```text
184
+ spawn_agent:
185
+ model: gpt-5.5
186
+ reasoning_effort: xhigh
187
+ message: |
188
+ You are performing a rigorous mathematical proof review. For EVERY theorem,
189
+ lemma, and proposition, check ALL of the following:
190
+
191
+ ## MANDATORY CHECKS
192
+
193
+ A. DEFINITIONS: List any symbol whose meaning is ambiguous or changes.
194
+ B. HYPOTHESIS DISCHARGE: For each lemma/theorem APPLICATION (not statement),
195
+ list each hypothesis and whether it was verified, with location.
196
+ C. INEQUALITY AUDIT: For each inequality chain, verify direction, missing
197
+ absolute values, missing conditions (convexity, PSD, integrability).
198
+ D. INTERCHANGE AUDIT: Flag every limit/derivative/expectation/integral
199
+ interchange. State which theorem justifies it (DCT/MCT/Fubini/Leibniz)
200
+ and which conditions are verified/missing.
201
+ E. PROBABILITY MODE: Track whether claims are a.s./in prob./in expectation/
202
+ w.h.p. Ensure transitions are justified.
203
+ F. UNIFORMITY & CONSTANTS: For every O(·), o(·), Θ(·), ≲, state whether
204
+ it is uniform over all parameters. List hidden parameter dependence.
205
+ G. EDGE/DEGENERATE CASES: Attempt to break each key lemma with a 1D,
206
+ low-rank, or extreme-parameter construction.
207
+ H. DEPENDENCY CONSISTENCY: Detect cycles or forward references to unproven
208
+ results.
209
+
210
+ ## OUTPUT FORMAT (per issue)
211
+ For each issue found, provide:
212
+ - id: sequential number
213
+ - status: INVALID / UNJUSTIFIED / UNDERSTATED / OVERSTATED / UNCLEAR
214
+ - impact: GLOBAL / LOCAL / COSMETIC
215
+ - category: [from taxonomy]
216
+ - location: section/equation/line
217
+ - statement: what the proof claims
218
+ - why_invalid: why this is wrong or unjustified
219
+ - counterexample: YES (describe) / NO / CANDIDATE (describe attempt)
220
+ - affects: which downstream results break if this is wrong
221
+ - minimal_fix: how to fix it
222
+
223
+ [FULL PROOF CONTENT HERE]
224
+ ```
225
+
226
+ **Save the reviewer `agent_id`.** Parse into structured issue list. Write to `PROOF_AUDIT.md`.
227
+
228
+ ### Phase 1.5: Counterexample Red Team
229
+
230
+ For each CRITICAL or MAJOR issue, and for every key lemma that introduces:
231
+ - a new inequality bound
232
+ - an identifiability/uniqueness claim
233
+ - a curvature/PSD/strong convexity assertion
234
+ - a uniform-in-parameter claim
235
+ - a convergence mode upgrade (pointwise → uniform, in prob → w.h.p.)
236
+
237
+ Systematically attempt to construct counterexamples using:
238
+
239
+ | Strategy | Description |
240
+ |----------|-------------|
241
+ | **Dimensional collapse** | Set d=1 or 2, K=2, n small |
242
+ | **Degeneracy** | Singular covariance, tiny weight, overlapping means, identical components |
243
+ | **Extremal distributions** | Two-point ±a, bounded non-subGaussian, heavy tails |
244
+ | **Adversarial parameter scaling** | Pick parameters making neglected terms dominate |
245
+ | **Numeric falsification** | Translate lemma to a function, brute-force optimize over small domain |
246
+
247
+ **Rule**: Label "counterexample found" ONLY if algebraically verified. Otherwise log as "candidate counterexample — needs verification."
248
+
249
+ Record all attempts (successful or not) in `PROOF_AUDIT.md`.
250
+
251
+ ### Phase 2: Fix Implementation
252
+
253
+ For each issue, ordered by severity (FATAL → CRITICAL → MAJOR → MINOR):
254
+
255
+ #### Step 2a: Choose fix strategy
256
+ For each issue, explicitly choose one of:
257
+ - **ADD_DERIVATION**: Write missing proof steps
258
+ - **STRENGTHEN_ASSUMPTION**: Add conditions to theorem statement
259
+ - **WEAKEN_CLAIM**: Reduce conclusion scope
260
+ - **ADD_REFERENCE**: Cite known result + verify its conditions apply
261
+
262
+ Log this choice — it is a scope-changing decision when it alters theorem statements.
263
+
264
+ #### Step 2b: Derive the fix mathematically
265
+ - Complete mathematical derivation, not just a claim
266
+ - If new proposition/lemma needed, write in full theorem-proof style
267
+
268
+ #### Step 2c: Implement in LaTeX
269
+ - Edit the `.tex` file
270
+ - Preserve existing `\label` references where possible
271
+
272
+ #### Step 2d: Record the fix
273
+ ```markdown
274
+ ### Fix N: [SHORT TITLE]
275
+ **Issue**: [id] [CATEGORY] — [description]
276
+ **Severity**: FATAL / CRITICAL / MAJOR / MINOR
277
+ **Status**: INVALID / UNJUSTIFIED / UNDERSTATED / OVERSTATED
278
+ **Impact**: GLOBAL / LOCAL / COSMETIC
279
+ **Fix strategy**: ADD_DERIVATION / STRENGTHEN_ASSUMPTION / WEAKEN_CLAIM / ADD_REFERENCE
280
+ **Location**: Section X, Lines Y-Z
281
+
282
+ **BEFORE**: [what the proof originally did]
283
+ **WHY WRONG**: [mathematical problem, with counterexample if applicable]
284
+ **AFTER**: [what the fix does]
285
+ **KEY EQUATION**: [central new equation]
286
+ **PROOF OBLIGATIONS ADDED**: [new conditions/lemmas introduced]
287
+ **DOWNSTREAM EFFECTS**: [which results now need re-checking]
288
+ ```
289
+
290
+ #### Step 2e: Compile check
291
+ ```bash
292
+ pdflatex -interaction=nonstopmode <file>.tex 2>&1 | grep -E "Error|Warning|undefined"
293
+ ```
294
+
295
+ ### Phase 3: Re-Review (Codex GPT-5.5 xhigh)
296
+
297
+ Launch a fresh reviewer agent for the next review round. Do not use `send_input` here; proof-checker keeps each round independent. Request the same mandatory checklist.
298
+
299
+ Check acceptance gate. If not met, repeat Phases 2-3 (up to MAX_REVIEW_ROUNDS).
300
+
301
+ ### Phase 3.5: Global Closure & Independent Verification
302
+
303
+ #### Global closure checks
304
+ After all fixes, verify the proof as a whole:
305
+ - **Statement–conclusion match**: Does the proof end with EXACTLY what the theorem claims (quantifiers, constants, uniformity)?
306
+ - **All obligations discharged**: Every node in the obligation DAG is proven or explicitly assumed (and the theorem statement includes it).
307
+ - **Case analysis coverage**: Cases partition the domain AND include boundary/degenerate cases.
308
+ - **Induction correctness** (if applicable): Base case, inductive step, correct use of IH, induction measure strictly decreases.
309
+ - **WLOG reductions**: Each "without loss of generality" spawns a micro-claim proving the reduction is lossless.
310
+ - **No silent assumption strengthening**: Any fix that strengthened assumptions has propagated to the main theorem statement.
311
+
312
+ #### Independent second review for FATAL/CRITICAL fixes
313
+ For any fix that resolved a FATAL or CRITICAL issue, submit the **fixed section alone** (without showing the previous critique) to a **fresh Codex thread**:
314
+
315
+ ```text
316
+ spawn_agent:
317
+ model: gpt-5.5
318
+ reasoning_effort: xhigh
319
+ message: |
320
+ Blind review of the following proof section. You have NOT seen any prior
321
+ review or discussion. Check every step for correctness, hidden assumptions,
322
+ illegal interchanges, and counterexamples.
323
+ [FIXED SECTION ONLY]
324
+ ```
325
+
326
+ If the blind reviewer finds new issues, re-enter Phase 2.
327
+
328
+ #### Regression proof-audit
329
+ After fixes, re-run:
330
+ - DAG acyclicity check (no new cycles introduced)
331
+ - Counterexample suite on all DOWNSTREAM lemmas of modified results
332
+ - Assumption-delta report: what became stronger/weaker due to fixes?
333
+
334
+ ### Phase 3.9: Unrecoverable Proof Protocol
335
+
336
+ If acceptance gate is not met after MAX_REVIEW_ROUNDS, output a **Proof Unrecoverable Report**:
337
+ 1. Minimal set of blocking FATAL/CRITICAL issues that could not be resolved
338
+ 2. Salvage options ranked: (a) weaken claim, (b) strengthen assumptions, (c) add missing lemmas, (d) restructure argument
339
+ 3. Which parts of the proof are likely still reusable
340
+ 4. Recommended next steps for the author
341
+
342
+ Do NOT silently declare success. The report must be honest.
343
+
344
+ ### Phase 4: Audit Report Generation
345
+
346
+ Generate `proof_audit_report.tex` with:
347
+
348
+ 1. **Overview table**: All issues with two-axis severity, category, fix strategy, status
349
+ 2. **Before/After logic chain**: Red (BEFORE) → Green (AFTER) comparison
350
+ 3. **For each fix**: original proof → why wrong → counterexample (if any) → complete derivation → remaining subtleties
351
+ 4. **Proof-obligation diff**: What was unverified before, what is verified now
352
+ 5. **Summary**: Now proven / still assumed / open problems
353
+ 6. **Colored boxes**: BEFORE (red), AFTER (green), WHY WRONG (orange), KEY INSIGHT (blue), WARNING (yellow)
354
+
355
+ Compile: `pdflatex proof_audit_report.tex && pdflatex proof_audit_report.tex`
356
+
357
+ ### Phase 5: State Persistence
358
+
359
+ Write `PROOF_CHECK_STATE.json`:
360
+ ```json
361
+ {
362
+ "status": "completed",
363
+ "rounds": 2,
364
+ "review_agent_ids": ["..."],
365
+ "fatal_fixed": 0,
366
+ "critical_fixed": 3,
367
+ "major_fixed": 2,
368
+ "minor_fixed": 1,
369
+ "counterexamples_found": 1,
370
+ "counterexample_candidates": 2,
371
+ "acceptance_gate": "PASS",
372
+ "timestamp": "..."
373
+ }
374
+ ```
375
+
376
+ ## Key Rules
377
+
378
+ ### Mathematical rigor
379
+ - **Never accept a proof step on faith**. "Clearly" / "it follows" / "by standard arguments" are red flags — each must spawn a micro-claim.
380
+ - **Hypothesis discharge**: Every time a lemma is APPLIED, verify EACH of its hypotheses at that point. Use the side-condition checklists above.
381
+ - **Interchange discipline**: Every swap of limit/expectation/derivative/integral must cite a theorem (DCT/MCT/Fubini/Leibniz) and verify its conditions with explicit dominating function or integrability proof.
382
+ - **Uniformity discipline**: Every O(·)/Θ(·) must declare what parameters it is uniform over. "O(1)" that secretly depends on d,n,K is a CONSTANT_DEPENDENCE_HIDDEN issue.
383
+ - **Quantifier discipline**: Check ∀/∃ order. "For sufficiently small κ" must specify: does κ₀ depend on K? On π? On d?
384
+ - **Counterexample-first**: Before trying to fix a gap, first try to break it.
385
+ - **WLOG prohibition**: Every "without loss of generality" must have an explicit micro-claim proving the reduction. No free WLOGs.
386
+ - **No silent assumption strengthening**: Any fix that adds conditions must propagate to the theorem statement.
387
+
388
+ ### Cross-model protocol
389
+ - **Claude analyzes, Codex reviews**: Claude reads proof, formulates questions, implements fixes. Codex provides adversarial review.
390
+ - **Codex reasoning always xhigh**: Never downgrade.
391
+ - **Send full content**: Don't summarize — send actual math for line-by-line checking.
392
+ - **Fresh reviewer agents**: Save each returned `agent_id` for traceability, but launch a new `spawn_agent` for each review round. Do not use `send_input` across proof-checker rounds.
393
+
394
+ ### Fix quality
395
+ - **Minimal fixes**: Fix exactly what's broken, nothing more.
396
+ - **Full derivation**: Every fix includes complete mathematical argument.
397
+ - **Explicit scope decisions**: Each fix is tagged ADD_DERIVATION / STRENGTHEN_ASSUMPTION / WEAKEN_CLAIM / ADD_REFERENCE.
398
+ - **Compile after each fix**: LaTeX must compile cleanly.
399
+
400
+ ### Scope honesty
401
+ - **Don't overclaim**: If a fix makes a result conditional, say so.
402
+ - **Separate "proven" from "assumed"**: The audit report has an explicit section for this.
403
+ - **Log open problems**: Issues requiring future work are listed, not hidden.
404
+
405
+ ## Output Files
406
+
407
+ | File | Content | When |
408
+ |------|---------|------|
409
+ | `PROOF_SKELETON.md` | Dependency DAG + assumption ledger + micro-claims | Phase 0.5 |
410
+ | `PROOF_AUDIT.md` | Cumulative round-by-round audit log | Updated each round |
411
+ | `PROOF_AUDIT.json` | Machine-readable submission verdict (see below) | Always emitted |
412
+ | `proof_audit_report.tex/.pdf` | Formal before/after report | Phase 4 |
413
+ | `PROOF_CHECK_STATE.json` | State for recovery | Phase 5 |
414
+ | `PROOF_AUDIT.html` (+ `.review.json` sidecar) | Single-file HTML view auto-rendered via `/render-html "PROOF_AUDIT.md" --json "PROOF_AUDIT.json"`. **Non-blocking** — if `/render-html` fails the audit still counts as complete. | Workflow end (when `RENDER_HTML = true`, default) |
415
+
416
+ ## Submission Artifact Emission
417
+
418
+ This skill **always** writes `PROOF_AUDIT.json` at the paper directory
419
+ root (i.e. `paper/PROOF_AUDIT.json` when invoked from `/paper-writing`
420
+ with paper-dir `paper/`; `<your-paper-dir>/PROOF_AUDIT.json` when invoked
421
+ standalone), regardless of caller or whether the paper contains theorems.
422
+ A paper with no `\begin{theorem}` / `\begin{lemma}` / `\begin{proof}` emits
423
+ verdict `NOT_APPLICABLE`; silent skip is forbidden. `paper-writing`
424
+ Phase 6 and `verify_paper_audits.sh` both rely on this artifact
425
+ existing at `<paper-dir>/PROOF_AUDIT.json`.
426
+
427
+ The artifact conforms to the schema in `shared-references/assurance-contract.md`:
428
+
429
+ ```json
430
+ {
431
+ "audit_skill": "proof-checker",
432
+ "verdict": "PASS | WARN | FAIL | NOT_APPLICABLE | BLOCKED | ERROR",
433
+ "reason_code": "all_proofs_complete | minor_gaps | critical_gap | no_theorems | ...",
434
+ "summary": "One-line human-readable verdict summary.",
435
+ "audited_input_hashes": {
436
+ "main.tex": "sha256:...",
437
+ "sections/4.theory.tex": "sha256:..."
438
+ },
439
+ "trace_path": ".aris/traces/proof-checker/<date>_run<NN>/",
440
+ "thread_id": "<codex mcp thread id>",
441
+ "reviewer_model": "gpt-5.5",
442
+ "reviewer_reasoning": "xhigh",
443
+ "generated_at": "<UTC ISO-8601>",
444
+ "details": {
445
+ "theorems_audited": <int>,
446
+ "issues": [ { "id": "T1-H3", "severity": "FATAL|CRITICAL|MAJOR|MINOR",
447
+ "category": "quantifier|domination|...",
448
+ "location": "sections/4.theory.tex:L182",
449
+ "note": "..." }, ... ]
450
+ }
451
+ }
452
+ ```
453
+
454
+ ### `audited_input_hashes` scope
455
+
456
+ Hash the **declared input set** actually reviewed — the theorem-bearing
457
+ `.tex` files passed into this invocation — not a repo-wide union and not
458
+ the reviewer's self-reported opened subset. The external verifier rehashes
459
+ these entries; any mismatch flags `STALE`.
460
+
461
+ **Path convention** (must match `verify_paper_audits.sh`): keys are
462
+ **paths relative to the paper directory** (no `paper/` prefix — the
463
+ verifier resolves relative to the paper dir; prefixing produces
464
+ `paper/paper/...` and false-fails as STALE). Use **absolute paths** for
465
+ files outside the paper dir.
466
+
467
+ ### Verdict decision table
468
+
469
+ | Input state | Verdict | `reason_code` example |
470
+ |-------------------------------------------------------|------------------|-----------------------|
471
+ | No theorems / lemmas / proofs in paper | `NOT_APPLICABLE` | `no_theorems` |
472
+ | Theorems present but referenced files unreadable | `BLOCKED` | `source_unreadable` |
473
+ | All proof obligations discharged, no gaps | `PASS` | `all_proofs_complete` |
474
+ | Only MINOR issues (notation / exposition) | `WARN` | `minor_gaps` |
475
+ | Any FATAL or CRITICAL issue (logic gap, wrong claim) | `FAIL` | `critical_gap` |
476
+ | Reviewer invocation failed (network / malformed) | `ERROR` | `reviewer_error` |
477
+
478
+ MAJOR issues alone map to `WARN` or `FAIL` at the reviewer's discretion and
479
+ must carry an explicit justification in `summary` + `details.issues`.
480
+
481
+ ### Thread independence
482
+
483
+ Every invocation uses a fresh reviewer agent. Never use `send_input` across
484
+ proof-checker runs. Do not accept prior audit outputs
485
+ (PAPER_CLAIM_AUDIT, CITATION_AUDIT, EXPERIMENT_LOG) as input — the fresh
486
+ thread preserves reviewer independence per
487
+ `shared-references/reviewer-independence.md`.
488
+
489
+ This skill never blocks by itself; `paper-writing` Phase 6 plus the
490
+ verifier decide whether the verdict blocks finalization based on the
491
+ `assurance` level.
492
+
493
+ ## Example Invocations
494
+
495
+ ```
496
+ /proof-checker "neurips_2025.tex"
497
+ /proof-checker "check the GMM generalization proof, focus on dimension dependence"
498
+ /proof-checker "verify proof in paper.tex — difficulty: nightmare"
499
+ ```