dsh-aris-panel 0.1.0
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.
- package/LICENSE +21 -0
- package/README.md +98 -0
- package/README_CN.md +87 -0
- package/dsh/checkout.patch.yml +38 -0
- package/dsh/client.js +634 -0
- package/dsh/cordis.patch.yml +44 -0
- package/dsh/index.mjs +76 -0
- package/dsh/run-status.mjs +182 -0
- package/dsh/scope-limits.mjs +50 -0
- package/dsh/workbench.mjs +291 -0
- package/mcp-servers/claude-review/README.md +93 -0
- package/mcp-servers/claude-review/run_with_claude_aws.sh +49 -0
- package/mcp-servers/claude-review/server.py +718 -0
- package/mcp-servers/codex-image2/README.md +65 -0
- package/mcp-servers/codex-image2/server.py +893 -0
- package/mcp-servers/feishu-bridge/requirements.txt +1 -0
- package/mcp-servers/feishu-bridge/server.py +240 -0
- package/mcp-servers/gemini-review/README.md +171 -0
- package/mcp-servers/gemini-review/server.py +1856 -0
- package/mcp-servers/llm-chat/requirements.txt +1 -0
- package/mcp-servers/llm-chat/server.py +664 -0
- package/mcp-servers/manual-review/README.md +133 -0
- package/mcp-servers/manual-review/server.py +910 -0
- package/mcp-servers/manual-review/ui.html +279 -0
- package/mcp-servers/minimax-chat/requirements.txt +1 -0
- package/mcp-servers/minimax-chat/server.py +381 -0
- package/package.json +51 -0
- package/skills/ablation-planner/SKILL.md +123 -0
- package/skills/alphaxiv/SKILL.md +196 -0
- package/skills/analyze-results/SKILL.md +46 -0
- package/skills/arxiv/SKILL.md +248 -0
- package/skills/auto-paper-improvement-loop/SKILL.md +651 -0
- package/skills/auto-review-loop/SKILL.md +1137 -0
- package/skills/auto-review-loop-llm/SKILL.md +259 -0
- package/skills/auto-review-loop-minimax/SKILL.md +302 -0
- package/skills/citation-audit/SKILL.md +502 -0
- package/skills/claims-drafting/SKILL.md +227 -0
- package/skills/comm-lit-review/SKILL.md +297 -0
- package/skills/deepxiv/SKILL.md +263 -0
- package/skills/dse-loop/SKILL.md +296 -0
- package/skills/embodiment-description/SKILL.md +129 -0
- package/skills/exa-search/SKILL.md +205 -0
- package/skills/experiment-audit/SKILL.md +311 -0
- package/skills/experiment-bridge/SKILL.md +376 -0
- package/skills/experiment-plan/SKILL.md +249 -0
- package/skills/experiment-queue/SKILL.md +431 -0
- package/skills/experiment-queue/scripts/build_manifest.py +142 -0
- package/skills/experiment-queue/scripts/queue_manager.py +433 -0
- package/skills/feishu-notify/SKILL.md +156 -0
- package/skills/figure-description/SKILL.md +138 -0
- package/skills/figure-spec/SKILL.md +262 -0
- package/skills/figure-spec/scripts/figure_renderer.py +799 -0
- package/skills/formula-derivation/SKILL.md +280 -0
- package/skills/gemini-search/SKILL.md +231 -0
- package/skills/grant-proposal/SKILL.md +698 -0
- package/skills/idea-creator/SKILL.md +542 -0
- package/skills/idea-discovery/SKILL.md +521 -0
- package/skills/idea-discovery-robot/SKILL.md +363 -0
- package/skills/integrity-forensics/SKILL.md +284 -0
- package/skills/interview-cheatsheet/SKILL.md +245 -0
- package/skills/invention-structuring/SKILL.md +188 -0
- package/skills/jurisdiction-format/SKILL.md +192 -0
- package/skills/kill-argument/SKILL.md +437 -0
- package/skills/mermaid-diagram/SKILL.md +419 -0
- package/skills/meta-apply/SKILL.md +141 -0
- package/skills/meta-optimize/SKILL.md +437 -0
- package/skills/monitor-experiment/SKILL.md +140 -0
- package/skills/novelty-check/SKILL.md +101 -0
- package/skills/openalex/SKILL.md +237 -0
- package/skills/overleaf-sync/SKILL.md +220 -0
- package/skills/paper-claim-audit/SKILL.md +348 -0
- package/skills/paper-compile/SKILL.md +266 -0
- package/skills/paper-figure/SKILL.md +312 -0
- package/skills/paper-illustration/SKILL.md +736 -0
- package/skills/paper-illustration-image2/SKILL.md +391 -0
- package/skills/paper-illustration-image2/scripts/paper_illustration_image2.py +255 -0
- package/skills/paper-plan/SKILL.md +386 -0
- package/skills/paper-poster/SKILL.md +19 -0
- package/skills/paper-poster-html/DESIGN_FINAL.md +176 -0
- package/skills/paper-poster-html/IMPLEMENTATION_CONVENTIONS.md +161 -0
- package/skills/paper-poster-html/LICENSES/posterly-MIT.txt +21 -0
- package/skills/paper-poster-html/NOTICE.md +57 -0
- package/skills/paper-poster-html/SKILL.md +323 -0
- package/skills/paper-poster-html/scripts/_posterly/__init__.py +0 -0
- package/skills/paper-poster-html/scripts/_posterly/canvas.py +200 -0
- package/skills/paper-poster-html/scripts/_posterly/measure.py +588 -0
- package/skills/paper-poster-html/scripts/_posterly/polish.py +498 -0
- package/skills/paper-poster-html/scripts/_posterly/preflight.py +489 -0
- package/skills/paper-poster-html/scripts/_posterly/render.py +215 -0
- package/skills/paper-poster-html/scripts/_posterly/textutil.py +16 -0
- package/skills/paper-poster-html/scripts/_posterly/verify_final.py +171 -0
- package/skills/paper-poster-html/scripts/asset_check.py +897 -0
- package/skills/paper-poster-html/scripts/extract_pdf_figures.py +666 -0
- package/skills/paper-poster-html/scripts/poster_check.py +251 -0
- package/skills/paper-poster-html/scripts/preprocess_figures.py +238 -0
- package/skills/paper-poster-html/scripts/render_preview.py +217 -0
- package/skills/paper-poster-html/scripts/run_gates.py +556 -0
- package/skills/paper-poster-html/scripts/style_check.py +1324 -0
- package/skills/paper-poster-html/templates/COMPONENTS.md +462 -0
- package/skills/paper-poster-html/templates/README.md +170 -0
- package/skills/paper-poster-html/templates/landscape_4col.html +1032 -0
- package/skills/paper-poster-html/templates/landscape_hero.html +1046 -0
- package/skills/paper-poster-html/templates/portrait_2col.html +947 -0
- package/skills/paper-poster-html/templates/tokens/acl.json +9 -0
- package/skills/paper-poster-html/templates/tokens/cvpr.json +9 -0
- package/skills/paper-poster-html/templates/tokens/generic.json +9 -0
- package/skills/paper-poster-html/templates/tokens/iclr.json +9 -0
- package/skills/paper-poster-html/templates/tokens/icml.json +9 -0
- package/skills/paper-poster-html/templates/tokens/neurips.json +9 -0
- package/skills/paper-slides/SKILL.md +635 -0
- package/skills/paper-talk/SKILL.md +381 -0
- package/skills/paper-write/SKILL.md +604 -0
- package/skills/paper-write/templates/IEEEtran.bst +2409 -0
- package/skills/paper-write/templates/IEEEtran.cls +6347 -0
- package/skills/paper-write/templates/iclr2026.tex +84 -0
- package/skills/paper-write/templates/icml2025.tex +87 -0
- package/skills/paper-write/templates/ieee_conference.tex +89 -0
- package/skills/paper-write/templates/ieee_journal.tex +93 -0
- package/skills/paper-write/templates/math_commands.tex +48 -0
- package/skills/paper-write/templates/neurips2025.tex +80 -0
- package/skills/paper-writing/SKILL.md +916 -0
- package/skills/patent-novelty-check/SKILL.md +153 -0
- package/skills/patent-pipeline/SKILL.md +344 -0
- package/skills/patent-review/SKILL.md +203 -0
- package/skills/pixel-art/SKILL.md +137 -0
- package/skills/prior-art-search/SKILL.md +146 -0
- package/skills/proof-checker/SKILL.md +866 -0
- package/skills/proof-orchestrator/NOTICE.md +24 -0
- package/skills/proof-orchestrator/SKILL.md +254 -0
- package/skills/proof-orchestrator/references/audit-output-contract.md +126 -0
- package/skills/proof-orchestrator/references/deepseek-routing.md +74 -0
- package/skills/proof-orchestrator/references/dispatch-prompts.md +227 -0
- package/skills/proof-orchestrator/references/notation-audit.md +135 -0
- package/skills/proof-orchestrator/references/proof-audit-rubric.md +70 -0
- package/skills/proof-orchestrator/references/stress-tests.md +38 -0
- package/skills/proof-writer/SKILL.md +223 -0
- package/skills/qzcli/SKILL.md +324 -0
- package/skills/rebuttal/SKILL.md +376 -0
- package/skills/render-html/SKILL.md +316 -0
- package/skills/render-html/scripts/render_html.py +1006 -0
- package/skills/render-html/scripts/templates/academic.html +703 -0
- package/skills/render-html/scripts/templates/dashboard.html +333 -0
- package/skills/research-lit/SKILL.md +756 -0
- package/skills/research-pipeline/SKILL.md +384 -0
- package/skills/research-refine/SKILL.md +770 -0
- package/skills/research-refine-pipeline/SKILL.md +186 -0
- package/skills/research-review/SKILL.md +198 -0
- package/skills/research-wiki/SKILL.md +461 -0
- package/skills/resubmit-pipeline/SKILL.md +447 -0
- package/skills/result-to-claim/SKILL.md +311 -0
- package/skills/run-experiment/SKILL.md +313 -0
- package/skills/semantic-scholar/SKILL.md +236 -0
- package/skills/serverless-modal/SKILL.md +335 -0
- package/skills/shared-references/acceptance-gate.md +324 -0
- package/skills/shared-references/assurance-contract.md +248 -0
- package/skills/shared-references/capture-antipatterns.md +78 -0
- package/skills/shared-references/citation-discipline.md +583 -0
- package/skills/shared-references/compute-env-contract.md +163 -0
- package/skills/shared-references/effort-contract.md +183 -0
- package/skills/shared-references/evidence-precheck.md +65 -0
- package/skills/shared-references/experiment-integrity.md +49 -0
- package/skills/shared-references/external-cadence.md +326 -0
- package/skills/shared-references/fan-out-pattern.md +366 -0
- package/skills/shared-references/injection-hygiene.md +127 -0
- package/skills/shared-references/integration-contract.md +461 -0
- package/skills/shared-references/output-composition.md +93 -0
- package/skills/shared-references/output-language.md +45 -0
- package/skills/shared-references/output-manifest.md +49 -0
- package/skills/shared-references/output-versioning.md +111 -0
- package/skills/shared-references/patent-format-cn.md +199 -0
- package/skills/shared-references/patent-format-ep.md +173 -0
- package/skills/shared-references/patent-format-us.md +161 -0
- package/skills/shared-references/patent-writing-principles.md +197 -0
- package/skills/shared-references/prior-art-databases.md +141 -0
- package/skills/shared-references/resumable-runs.md +109 -0
- package/skills/shared-references/review-scope-limits.md +81 -0
- package/skills/shared-references/review-tracing.md +391 -0
- package/skills/shared-references/reviewer-independence.md +79 -0
- package/skills/shared-references/reviewer-routing.md +852 -0
- package/skills/shared-references/skill-governance.md +104 -0
- package/skills/shared-references/taste-calibration.md +85 -0
- package/skills/shared-references/venue-checklists.md +114 -0
- package/skills/shared-references/wiki-helper-resolution.md +134 -0
- package/skills/shared-references/writing-principles.md +525 -0
- package/skills/skills-codex/README.md +102 -0
- package/skills/skills-codex/README_CN.md +100 -0
- package/skills/skills-codex/ablation-planner/SKILL.md +126 -0
- package/skills/skills-codex/alphaxiv/SKILL.md +186 -0
- package/skills/skills-codex/analyze-results/SKILL.md +45 -0
- package/skills/skills-codex/arxiv/SKILL.md +210 -0
- package/skills/skills-codex/auto-paper-improvement-loop/SKILL.md +574 -0
- package/skills/skills-codex/auto-review-loop/SKILL.md +500 -0
- package/skills/skills-codex/auto-review-loop-llm/SKILL.md +247 -0
- package/skills/skills-codex/auto-review-loop-minimax/SKILL.md +290 -0
- package/skills/skills-codex/citation-audit/SKILL.md +504 -0
- package/skills/skills-codex/claims-drafting/SKILL.md +239 -0
- package/skills/skills-codex/comm-lit-review/SKILL.md +299 -0
- package/skills/skills-codex/comm-lit-review/references/domain-taxonomy.md +57 -0
- package/skills/skills-codex/comm-lit-review/references/output-template.md +37 -0
- package/skills/skills-codex/comm-lit-review/references/source-policy.md +99 -0
- package/skills/skills-codex/comm-lit-review/references/venue-tiering.md +112 -0
- package/skills/skills-codex/deepxiv/SKILL.md +142 -0
- package/skills/skills-codex/dse-loop/SKILL.md +285 -0
- package/skills/skills-codex/embodiment-description/SKILL.md +129 -0
- package/skills/skills-codex/exa-search/SKILL.md +192 -0
- package/skills/skills-codex/experiment-audit/SKILL.md +286 -0
- package/skills/skills-codex/experiment-bridge/SKILL.md +356 -0
- package/skills/skills-codex/experiment-plan/SKILL.md +249 -0
- package/skills/skills-codex/experiment-queue/SKILL.md +401 -0
- package/skills/skills-codex/feishu-notify/SKILL.md +155 -0
- package/skills/skills-codex/figure-description/SKILL.md +138 -0
- package/skills/skills-codex/figure-spec/SKILL.md +252 -0
- package/skills/skills-codex/formula-derivation/SKILL.md +280 -0
- package/skills/skills-codex/gemini-search/SKILL.md +205 -0
- package/skills/skills-codex/grant-proposal/SKILL.md +626 -0
- package/skills/skills-codex/idea-creator/SKILL.md +405 -0
- package/skills/skills-codex/idea-discovery/SKILL.md +475 -0
- package/skills/skills-codex/idea-discovery-robot/SKILL.md +362 -0
- package/skills/skills-codex/integrity-forensics/SKILL.md +106 -0
- package/skills/skills-codex/interview-cheatsheet/SKILL.md +245 -0
- package/skills/skills-codex/invention-structuring/SKILL.md +188 -0
- package/skills/skills-codex/jurisdiction-format/SKILL.md +192 -0
- package/skills/skills-codex/kill-argument/SKILL.md +403 -0
- package/skills/skills-codex/mermaid-diagram/SKILL.md +379 -0
- package/skills/skills-codex/meta-apply/SKILL.md +154 -0
- package/skills/skills-codex/meta-optimize/SKILL.md +348 -0
- package/skills/skills-codex/monitor-experiment/SKILL.md +98 -0
- package/skills/skills-codex/novelty-check/SKILL.md +89 -0
- package/skills/skills-codex/openalex/SKILL.md +228 -0
- package/skills/skills-codex/overleaf-sync/SKILL.md +220 -0
- package/skills/skills-codex/paper-claim-audit/SKILL.md +350 -0
- package/skills/skills-codex/paper-compile/SKILL.md +253 -0
- package/skills/skills-codex/paper-figure/SKILL.md +311 -0
- package/skills/skills-codex/paper-illustration/SKILL.md +690 -0
- package/skills/skills-codex/paper-illustration-image2/SKILL.md +383 -0
- package/skills/skills-codex/paper-illustration-image2/scripts/paper_illustration_image2.py +255 -0
- package/skills/skills-codex/paper-plan/SKILL.md +278 -0
- package/skills/skills-codex/paper-poster/SKILL.md +19 -0
- package/skills/skills-codex/paper-poster-html/SKILL.md +377 -0
- package/skills/skills-codex/paper-slides/SKILL.md +571 -0
- package/skills/skills-codex/paper-talk/SKILL.md +381 -0
- package/skills/skills-codex/paper-write/SKILL.md +411 -0
- package/skills/skills-codex/paper-write/templates/IEEEtran.bst +2409 -0
- package/skills/skills-codex/paper-write/templates/IEEEtran.cls +6347 -0
- package/skills/skills-codex/paper-write/templates/aaai2026.bst +1493 -0
- package/skills/skills-codex/paper-write/templates/aaai2026.sty +315 -0
- package/skills/skills-codex/paper-write/templates/aaai2026.tex +952 -0
- package/skills/skills-codex/paper-write/templates/acl.sty +312 -0
- package/skills/skills-codex/paper-write/templates/acl2026.tex +377 -0
- package/skills/skills-codex/paper-write/templates/acl_natbib.bst +1940 -0
- package/skills/skills-codex/paper-write/templates/acm.bst +3081 -0
- package/skills/skills-codex/paper-write/templates/acm_mm2026.tex +204 -0
- package/skills/skills-codex/paper-write/templates/acmart.cls +3520 -0
- package/skills/skills-codex/paper-write/templates/cvpr.bst +1448 -0
- package/skills/skills-codex/paper-write/templates/cvpr.sty +508 -0
- package/skills/skills-codex/paper-write/templates/cvpr2026.tex +63 -0
- package/skills/skills-codex/paper-write/templates/iclr2026.tex +84 -0
- package/skills/skills-codex/paper-write/templates/iclr2026_conference.bst +1440 -0
- package/skills/skills-codex/paper-write/templates/iclr2026_conference.sty +246 -0
- package/skills/skills-codex/paper-write/templates/icml2026.sty +767 -0
- package/skills/skills-codex/paper-write/templates/icml2026.tex +662 -0
- package/skills/skills-codex/paper-write/templates/ieee_conference.tex +89 -0
- package/skills/skills-codex/paper-write/templates/ieee_journal.tex +93 -0
- package/skills/skills-codex/paper-write/templates/math_commands.tex +48 -0
- package/skills/skills-codex/paper-write/templates/neurips2026.tex +493 -0
- package/skills/skills-codex/paper-write/templates/neurips_2026.sty +437 -0
- package/skills/skills-codex/paper-writing/SKILL.md +731 -0
- package/skills/skills-codex/patent-novelty-check/SKILL.md +153 -0
- package/skills/skills-codex/patent-pipeline/SKILL.md +344 -0
- package/skills/skills-codex/patent-review/SKILL.md +202 -0
- package/skills/skills-codex/pixel-art/SKILL.md +139 -0
- package/skills/skills-codex/prior-art-search/SKILL.md +146 -0
- package/skills/skills-codex/proof-checker/SKILL.md +554 -0
- package/skills/skills-codex/proof-orchestrator/SKILL.md +260 -0
- package/skills/skills-codex/proof-orchestrator/references/audit-output-contract.md +126 -0
- package/skills/skills-codex/proof-orchestrator/references/deepseek-routing.md +76 -0
- package/skills/skills-codex/proof-orchestrator/references/dispatch-prompts.md +227 -0
- package/skills/skills-codex/proof-orchestrator/references/notation-audit.md +135 -0
- package/skills/skills-codex/proof-orchestrator/references/proof-audit-rubric.md +70 -0
- package/skills/skills-codex/proof-orchestrator/references/stress-tests.md +38 -0
- package/skills/skills-codex/proof-writer/SKILL.md +222 -0
- package/skills/skills-codex/qzcli/SKILL.md +324 -0
- package/skills/skills-codex/rebuttal/SKILL.md +305 -0
- package/skills/skills-codex/render-html/SKILL.md +305 -0
- package/skills/skills-codex/render-html/scripts/__pycache__/render_html.cpython-314.pyc +0 -0
- package/skills/skills-codex/render-html/scripts/render_html.py +909 -0
- package/skills/skills-codex/render-html/scripts/templates/academic.html +342 -0
- package/skills/skills-codex/render-html/scripts/templates/dashboard.html +333 -0
- package/skills/skills-codex/research-lit/SKILL.md +464 -0
- package/skills/skills-codex/research-pipeline/SKILL.md +340 -0
- package/skills/skills-codex/research-refine/SKILL.md +721 -0
- package/skills/skills-codex/research-refine-pipeline/SKILL.md +186 -0
- package/skills/skills-codex/research-review/SKILL.md +135 -0
- package/skills/skills-codex/research-wiki/SKILL.md +421 -0
- package/skills/skills-codex/resubmit-pipeline/SKILL.md +444 -0
- package/skills/skills-codex/result-to-claim/SKILL.md +246 -0
- package/skills/skills-codex/run-experiment/SKILL.md +236 -0
- package/skills/skills-codex/semantic-scholar/SKILL.md +219 -0
- package/skills/skills-codex/serverless-modal/SKILL.md +335 -0
- package/skills/skills-codex/shared-references/acceptance-gate.md +336 -0
- package/skills/skills-codex/shared-references/assurance-contract.md +139 -0
- package/skills/skills-codex/shared-references/capture-antipatterns.md +84 -0
- package/skills/skills-codex/shared-references/citation-discipline.md +452 -0
- package/skills/skills-codex/shared-references/compute-env-contract.md +163 -0
- package/skills/skills-codex/shared-references/effort-contract.md +143 -0
- package/skills/skills-codex/shared-references/evidence-precheck.md +73 -0
- package/skills/skills-codex/shared-references/experiment-integrity.md +49 -0
- package/skills/skills-codex/shared-references/external-cadence.md +334 -0
- package/skills/skills-codex/shared-references/fan-out-pattern.md +375 -0
- package/skills/skills-codex/shared-references/injection-hygiene.md +132 -0
- package/skills/skills-codex/shared-references/integration-contract.md +372 -0
- package/skills/skills-codex/shared-references/output-composition.md +98 -0
- package/skills/skills-codex/shared-references/output-language.md +45 -0
- package/skills/skills-codex/shared-references/output-manifest.md +40 -0
- package/skills/skills-codex/shared-references/output-versioning.md +111 -0
- package/skills/skills-codex/shared-references/patent-format-cn.md +199 -0
- package/skills/skills-codex/shared-references/patent-format-ep.md +173 -0
- package/skills/skills-codex/shared-references/patent-format-us.md +161 -0
- package/skills/skills-codex/shared-references/patent-writing-principles.md +197 -0
- package/skills/skills-codex/shared-references/prior-art-databases.md +141 -0
- package/skills/skills-codex/shared-references/resumable-runs.md +125 -0
- package/skills/skills-codex/shared-references/review-scope-limits.md +81 -0
- package/skills/skills-codex/shared-references/review-tracing.md +144 -0
- package/skills/skills-codex/shared-references/reviewer-independence.md +66 -0
- package/skills/skills-codex/shared-references/reviewer-routing.md +128 -0
- package/skills/skills-codex/shared-references/skill-governance.md +119 -0
- package/skills/skills-codex/shared-references/taste-calibration.md +90 -0
- package/skills/skills-codex/shared-references/venue-checklists.md +73 -0
- package/skills/skills-codex/shared-references/wiki-helper-resolution.md +69 -0
- package/skills/skills-codex/shared-references/writing-principles.md +525 -0
- package/skills/skills-codex/slides-polish/SKILL.md +563 -0
- package/skills/skills-codex/specification-writing/SKILL.md +211 -0
- package/skills/skills-codex/system-profile/SKILL.md +103 -0
- package/skills/skills-codex/training-check/SKILL.md +83 -0
- package/skills/skills-codex/vast-gpu/SKILL.md +394 -0
- package/skills/skills-codex/web-debug-search/SKILL.md +334 -0
- package/skills/skills-codex/wiki-enrich/SKILL.md +255 -0
- package/skills/skills-codex/writing-systems-papers/SKILL.md +184 -0
- package/skills/skills-codex-claude-review/README.md +79 -0
- package/skills/skills-codex-claude-review/README_CN.md +78 -0
- package/skills/skills-codex-claude-review/auto-paper-improvement-loop/SKILL.md +581 -0
- package/skills/skills-codex-claude-review/auto-review-loop/SKILL.md +510 -0
- package/skills/skills-codex-claude-review/novelty-check/SKILL.md +102 -0
- package/skills/skills-codex-claude-review/paper-figure/SKILL.md +319 -0
- package/skills/skills-codex-claude-review/paper-plan/SKILL.md +287 -0
- package/skills/skills-codex-claude-review/paper-write/SKILL.md +420 -0
- package/skills/skills-codex-claude-review/research-refine/SKILL.md +732 -0
- package/skills/skills-codex-claude-review/research-review/SKILL.md +149 -0
- package/skills/skills-codex-gemini-review/README.md +176 -0
- package/skills/skills-codex-gemini-review/README_CN.md +175 -0
- package/skills/skills-codex-gemini-review/auto-paper-improvement-loop/SKILL.md +331 -0
- package/skills/skills-codex-gemini-review/auto-review-loop/SKILL.md +304 -0
- package/skills/skills-codex-gemini-review/grant-proposal/SKILL.md +630 -0
- package/skills/skills-codex-gemini-review/idea-creator/SKILL.md +263 -0
- package/skills/skills-codex-gemini-review/idea-discovery/SKILL.md +275 -0
- package/skills/skills-codex-gemini-review/idea-discovery-robot/SKILL.md +365 -0
- package/skills/skills-codex-gemini-review/novelty-check/SKILL.md +92 -0
- package/skills/skills-codex-gemini-review/paper-figure/SKILL.md +289 -0
- package/skills/skills-codex-gemini-review/paper-plan/SKILL.md +265 -0
- package/skills/skills-codex-gemini-review/paper-poster-html/SKILL.md +102 -0
- package/skills/skills-codex-gemini-review/paper-slides/SKILL.md +582 -0
- package/skills/skills-codex-gemini-review/paper-write/SKILL.md +346 -0
- package/skills/skills-codex-gemini-review/paper-writing/SKILL.md +312 -0
- package/skills/skills-codex-gemini-review/research-refine/SKILL.md +674 -0
- package/skills/skills-codex-gemini-review/research-review/SKILL.md +112 -0
- package/skills/slides-polish/SKILL.md +565 -0
- package/skills/specification-writing/SKILL.md +211 -0
- package/skills/system-profile/SKILL.md +103 -0
- package/skills/training-check/SKILL.md +132 -0
- package/skills/vast-gpu/SKILL.md +394 -0
- package/skills/web-debug-search/SKILL.md +334 -0
- package/skills/wiki-enrich/SKILL.md +257 -0
- package/skills/writing-systems-papers/SKILL.md +184 -0
- package/templates/CLAUDE_MD_TEMPLATE.md +29 -0
- package/templates/EXPERIMENT_LOG_TEMPLATE.md +47 -0
- package/templates/EXPERIMENT_PLAN_TEMPLATE.md +51 -0
- package/templates/EXPERIMENT_PLAN_TEMPLATE_CN.md +53 -0
- package/templates/FINDINGS_TEMPLATE.md +52 -0
- package/templates/IDEA_CANDIDATES_TEMPLATE.md +47 -0
- package/templates/IDEA_CANDIDATES_TEMPLATE_CN.md +47 -0
- package/templates/INVENTION_BRIEF_TEMPLATE.md +87 -0
- package/templates/MANIFEST_TEMPLATE.md +7 -0
- package/templates/NARRATIVE_REPORT_TEMPLATE.md +49 -0
- package/templates/PAPER_PLAN_TEMPLATE.md +47 -0
- package/templates/PATENT_CLAIMS_TEMPLATE.md +78 -0
- package/templates/PATENT_SPECIFICATION_TEMPLATE.md +68 -0
- package/templates/README.md +57 -0
- package/templates/RESEARCH_BRIEF_TEMPLATE.md +35 -0
- package/templates/RESEARCH_BRIEF_TEMPLATE_CN.md +41 -0
- package/templates/RESEARCH_CONTRACT_TEMPLATE.md +60 -0
- package/templates/claude-hooks/corpus_write_guard.json +16 -0
- package/templates/claude-hooks/corpus_write_guard.py +85 -0
- package/templates/claude-hooks/meta_logging.json +74 -0
- package/templates/gitignore-trace.txt +3 -0
- package/tools/__pycache__/check_skills_inventory.cpython-314.pyc +0 -0
- package/tools/arxiv_fetch.py +311 -0
- package/tools/capture_filter.py +126 -0
- package/tools/check_skills_inventory.py +273 -0
- package/tools/convert_skills_to_llm_chat.py +282 -0
- package/tools/copilot_native_evidence.py +818 -0
- package/tools/deepxiv_fetch.py +213 -0
- package/tools/evidence_check.py +212 -0
- package/tools/exa_search.py +425 -0
- package/tools/experiment_queue/README.md +118 -0
- package/tools/experiment_queue/build_manifest.py +44 -0
- package/tools/experiment_queue/queue_manager.py +44 -0
- package/tools/extract_paper_style.py +560 -0
- package/tools/figure_renderer.py +69 -0
- package/tools/forensics_gate.py +669 -0
- package/tools/generate_codex_claude_review_overrides.py +299 -0
- package/tools/idea_discovery_gate.py +256 -0
- package/tools/install_aris.ps1 +1372 -0
- package/tools/install_aris.sh +1370 -0
- package/tools/install_aris_codex.sh +1023 -0
- package/tools/install_aris_copilot.sh +1052 -0
- package/tools/iteration_log.py +143 -0
- package/tools/lint_skills_helpers.sh +84 -0
- package/tools/meta_opt/check_ready.sh +80 -0
- package/tools/meta_opt/log_event.sh +91 -0
- package/tools/meta_opt/trigger_eval.py +280 -0
- package/tools/meta_opt/trigger_evals.sample.json +28 -0
- package/tools/openalex_fetch.py +326 -0
- package/tools/overleaf_audit.sh +104 -0
- package/tools/overleaf_setup.sh +150 -0
- package/tools/paper_illustration_image2.py +62 -0
- package/tools/provenance.py +294 -0
- package/tools/research_wiki.py +1720 -0
- package/tools/review_gate.py +502 -0
- package/tools/run_state.py +399 -0
- package/tools/save_trace.sh +477 -0
- package/tools/semantic_scholar_fetch.py +438 -0
- package/tools/skill-groups.tsv +116 -0
- package/tools/skill_picker.py +238 -0
- package/tools/smart_update.ps1 +521 -0
- package/tools/smart_update.sh +591 -0
- package/tools/smart_update_codex.sh +419 -0
- package/tools/smart_update_copilot.sh +605 -0
- package/tools/threat_scan.py +222 -0
- package/tools/verify_paper_audits.sh +487 -0
- package/tools/verify_papers.py +613 -0
- package/tools/verify_wiki_coverage.sh +176 -0
- package/tools/watchdog.py +485 -0
|
@@ -0,0 +1,348 @@
|
|
|
1
|
+
---
|
|
2
|
+
name: paper-claim-audit
|
|
3
|
+
description: "Zero-context verification that every number, comparison, and scope claim in the paper matches raw result files. Uses a fresh cross-model reviewer with NO prior context to prevent confirmation bias. Use when user says \"审查论文数据\", \"check paper claims\", \"verify numbers\", \"论文数字核对\", or before submission to ensure paper-to-evidence fidelity."
|
|
4
|
+
argument-hint: "[paper-directory]"
|
|
5
|
+
allowed-tools: Bash(*), Read, Write, Edit, Grep, Glob, mcp__codex__codex
|
|
6
|
+
---
|
|
7
|
+
|
|
8
|
+
# Paper Claim Audit: Zero-Context Evidence Verification
|
|
9
|
+
|
|
10
|
+
> 🔒 **Do not wrap this skill in `/loop`, `/schedule`, or `CronCreate`.** It is
|
|
11
|
+
> verdict-bearing — it judges paper-to-evidence fidelity with a deliberately
|
|
12
|
+
> zero-context fresh reviewer. Re-firing that verdict on a wall-clock timer adds
|
|
13
|
+
> no new signal (it changes only when the *paper or results* change). Schedule
|
|
14
|
+
> the *external wait that precedes it* — paper draft ready → then audit
|
|
15
|
+
> **once**. See
|
|
16
|
+
> [`shared-references/external-cadence.md`](../shared-references/external-cadence.md).
|
|
17
|
+
|
|
18
|
+
Verify that every claim in the paper matches raw evidence for: **$ARGUMENTS**
|
|
19
|
+
|
|
20
|
+
## Why This Exists
|
|
21
|
+
|
|
22
|
+
The executor writes experiments AND writes the paper. It "knows" what the results should be. This creates confirmation bias:
|
|
23
|
+
- Rounding 84.7% up to 85.3%
|
|
24
|
+
- Reporting best seed instead of average
|
|
25
|
+
- Citing metrics from a different experiment config
|
|
26
|
+
- Claiming "improves by 15%" when the delta is actually 12.8%
|
|
27
|
+
|
|
28
|
+
A **fresh reviewer with zero prior context** catches these because it has no expectations — it just compares paper text vs raw files.
|
|
29
|
+
|
|
30
|
+
## How This Differs From Other Audit Skills
|
|
31
|
+
|
|
32
|
+
| Skill | Question it answers |
|
|
33
|
+
|-------|-------------------|
|
|
34
|
+
| `/experiment-audit` | Is the experiment code honest? (fake GT, normalization fraud) |
|
|
35
|
+
| `/result-to-claim` | Does the data scientifically support this claim? |
|
|
36
|
+
| **`/paper-claim-audit`** | **Does the paper report the data truthfully and precisely?** |
|
|
37
|
+
|
|
38
|
+
## Core Principle
|
|
39
|
+
|
|
40
|
+
**Zero-context, fresh reviewer.** The auditor receives ONLY:
|
|
41
|
+
- Paper .tex files (the claims)
|
|
42
|
+
- Raw result files (the evidence)
|
|
43
|
+
|
|
44
|
+
It does NOT receive:
|
|
45
|
+
- ❌ EXPERIMENT_LOG.md
|
|
46
|
+
- ❌ EXPERIMENT_TRACKER.md
|
|
47
|
+
- ❌ AUTO_REVIEW.md
|
|
48
|
+
- ❌ NARRATIVE_REPORT.md
|
|
49
|
+
- ❌ Any executor summary or interpretation
|
|
50
|
+
- ❌ Any prior audit results
|
|
51
|
+
- ❌ Any conversation history
|
|
52
|
+
|
|
53
|
+
This is **stricter than reviewer-independence** — it's zero-context evidence audit.
|
|
54
|
+
|
|
55
|
+
## Workflow
|
|
56
|
+
|
|
57
|
+
### Step 1: Collect Files (Executor — Claude)
|
|
58
|
+
|
|
59
|
+
Locate paper and result files WITHOUT reading or interpreting them.
|
|
60
|
+
|
|
61
|
+
**Paper files** (claims) — paths shown relative to the shell's working
|
|
62
|
+
directory so you can find them with `ls`; when writing them into
|
|
63
|
+
`audited_input_hashes`, use paths relative to the paper dir (no `paper/`
|
|
64
|
+
prefix) per the "Submission Artifact Emission" section below:
|
|
65
|
+
```
|
|
66
|
+
paper/main.tex # → hash key: main.tex
|
|
67
|
+
paper/sections/*.tex # → hash key: sections/*.tex
|
|
68
|
+
paper/tables/*.tex (if separate) # → hash key: tables/*.tex
|
|
69
|
+
```
|
|
70
|
+
|
|
71
|
+
**Result files** (evidence):
|
|
72
|
+
```
|
|
73
|
+
results/*.json, results/*.jsonl, results/*.csv, results/*.tsv
|
|
74
|
+
outputs/*.json, outputs/*.csv
|
|
75
|
+
wandb-summary.json (if exists)
|
|
76
|
+
**/metrics.json, **/eval_results.json
|
|
77
|
+
**/config.yaml, **/args.json (experiment configs)
|
|
78
|
+
```
|
|
79
|
+
|
|
80
|
+
**Exclude** (no summaries, no interpretations):
|
|
81
|
+
```
|
|
82
|
+
EXPERIMENT_LOG.md, EXPERIMENT_TRACKER.md, AUTO_REVIEW*.md
|
|
83
|
+
NARRATIVE_REPORT.md, PAPER_PLAN.md, findings.md
|
|
84
|
+
Any .md file that is an executor-written summary
|
|
85
|
+
```
|
|
86
|
+
|
|
87
|
+
### Step 2: Fresh Reviewer Audit (GPT-5.6-Sol — NEW thread, no reply)
|
|
88
|
+
|
|
89
|
+
**CRITICAL: Use `mcp__codex__codex` (new thread), NEVER `mcp__codex__codex-reply`.** Every run must be a fresh context.
|
|
90
|
+
|
|
91
|
+
```
|
|
92
|
+
mcp__codex__codex:
|
|
93
|
+
model: gpt-5.6-sol
|
|
94
|
+
config: {"model_reasoning_effort": "ultra"}
|
|
95
|
+
prompt: |
|
|
96
|
+
You are a paper-to-evidence auditor. You have ZERO prior context about
|
|
97
|
+
this research. You will receive only paper source files and raw result
|
|
98
|
+
files. Your job is to verify that every number in the paper exactly
|
|
99
|
+
matches the raw evidence.
|
|
100
|
+
|
|
101
|
+
Paper files to read:
|
|
102
|
+
[list .tex file paths]
|
|
103
|
+
|
|
104
|
+
Result files to read:
|
|
105
|
+
[list .json/.csv/.yaml file paths]
|
|
106
|
+
|
|
107
|
+
## Audit Protocol
|
|
108
|
+
|
|
109
|
+
### A. Extract Every Quantitative Claim
|
|
110
|
+
For each number, percentage, comparison, or scope statement in the paper:
|
|
111
|
+
- Location (section, table, caption, or inline text)
|
|
112
|
+
- Exact claim text
|
|
113
|
+
- The number or comparison being made
|
|
114
|
+
|
|
115
|
+
### B. Trace Each Claim to Evidence
|
|
116
|
+
For each extracted claim, find the supporting raw data:
|
|
117
|
+
- Which result file contains this number?
|
|
118
|
+
- What is the EXACT value in that file?
|
|
119
|
+
- Match status: exact_match / rounding_ok / mismatch
|
|
120
|
+
|
|
121
|
+
### C. Check These Specific Failure Modes
|
|
122
|
+
|
|
123
|
+
1. **Number inflation**: Paper says 85.3%, raw file says 84.7%
|
|
124
|
+
Rule: only standard rounding to displayed precision is allowed
|
|
125
|
+
|
|
126
|
+
2. **Best-seed cherry-pick**: Paper says "achieves 90.2%" but
|
|
127
|
+
that's the best of 5 seeds; mean is 87.1%
|
|
128
|
+
Rule: check if paper specifies "average" / "best" / "median"
|
|
129
|
+
|
|
130
|
+
3. **Config mismatch**: Paper compares Method A vs Baseline B,
|
|
131
|
+
but they used different hyperparameters / datasets / splits
|
|
132
|
+
Rule: verify config files show same settings for compared methods
|
|
133
|
+
|
|
134
|
+
4. **Aggregation mismatch**: Paper says "average over 5 seeds"
|
|
135
|
+
but result files show only 3 runs
|
|
136
|
+
Rule: count actual runs vs claimed count
|
|
137
|
+
|
|
138
|
+
5. **Delta error**: Paper says "improves by 15%" but
|
|
139
|
+
actual delta is (85.3 - 73.1) / 73.1 = 16.7%
|
|
140
|
+
Rule: verify arithmetic of all relative improvements
|
|
141
|
+
|
|
142
|
+
6. **Caption-table mismatch**: Figure caption describes
|
|
143
|
+
something different from what the figure/table actually shows
|
|
144
|
+
Rule: cross-check every caption against its content
|
|
145
|
+
|
|
146
|
+
7. **Scope overclaim**: Paper says "consistently outperforms"
|
|
147
|
+
but only tested on 2 datasets
|
|
148
|
+
Rule: check if language matches actual evaluation scope
|
|
149
|
+
|
|
150
|
+
## Output Format (per claim)
|
|
151
|
+
For each claim, report:
|
|
152
|
+
- claim_id: sequential number
|
|
153
|
+
- location: section/table/figure
|
|
154
|
+
- paper_text: exact quote from paper
|
|
155
|
+
- paper_value: the number claimed
|
|
156
|
+
- evidence_file: which raw file
|
|
157
|
+
- evidence_value: the actual number
|
|
158
|
+
- status: exact_match | rounding_ok | ambiguous_mapping |
|
|
159
|
+
missing_evidence | config_mismatch | aggregation_mismatch |
|
|
160
|
+
number_mismatch | scope_overclaim | unsupported_claim
|
|
161
|
+
- details: explanation if not exact_match
|
|
162
|
+
|
|
163
|
+
Overall verdict: PASS | WARN | FAIL
|
|
164
|
+
```
|
|
165
|
+
|
|
166
|
+
### Step 3: Write Report (Executor — Claude)
|
|
167
|
+
|
|
168
|
+
Parse the reviewer's response and write `PAPER_CLAIM_AUDIT.md`:
|
|
169
|
+
|
|
170
|
+
```markdown
|
|
171
|
+
# Paper Claim Audit Report
|
|
172
|
+
|
|
173
|
+
**Date**: [today]
|
|
174
|
+
**Auditor**: GPT-5.6-Sol ultra (fresh zero-context thread)
|
|
175
|
+
**Paper**: [paper title from tex]
|
|
176
|
+
|
|
177
|
+
## Overall Verdict: [PASS | WARN | FAIL]
|
|
178
|
+
|
|
179
|
+
## Claims Verified: [N total]
|
|
180
|
+
- exact_match: [count]
|
|
181
|
+
- rounding_ok: [count]
|
|
182
|
+
- ambiguous_mapping: [count]
|
|
183
|
+
- missing_evidence: [count]
|
|
184
|
+
- mismatch: [count]
|
|
185
|
+
|
|
186
|
+
## Issues Found
|
|
187
|
+
|
|
188
|
+
### [FAIL/WARN] Claim #N: [description]
|
|
189
|
+
- **Location**: Section X / Table Y / Figure Z
|
|
190
|
+
- **Paper says**: "..."
|
|
191
|
+
- **Evidence shows**: ...
|
|
192
|
+
- **Status**: [status]
|
|
193
|
+
- **Fix**: [specific correction needed]
|
|
194
|
+
|
|
195
|
+
## All Claims (detailed)
|
|
196
|
+
|
|
197
|
+
| # | Location | Paper Value | Evidence Value | Status |
|
|
198
|
+
|---|----------|-------------|---------------|--------|
|
|
199
|
+
| 1 | Table 2 | 85.3% | 85.28% | rounding_ok |
|
|
200
|
+
| 2 | Abstract | "15% improvement" | 12.8% | number_mismatch |
|
|
201
|
+
| ... |
|
|
202
|
+
```
|
|
203
|
+
|
|
204
|
+
Also write `PAPER_CLAIM_AUDIT.json` for machine consumption.
|
|
205
|
+
|
|
206
|
+
### Step 4: Print Summary
|
|
207
|
+
|
|
208
|
+
```
|
|
209
|
+
📋 Paper Claim Audit Complete
|
|
210
|
+
|
|
211
|
+
Claims verified: 24
|
|
212
|
+
exact_match: 18
|
|
213
|
+
rounding_ok: 3
|
|
214
|
+
ambiguous: 1
|
|
215
|
+
⚠️ mismatch: 2
|
|
216
|
+
|
|
217
|
+
Overall: ⚠️ WARN
|
|
218
|
+
|
|
219
|
+
See PAPER_CLAIM_AUDIT.md for details.
|
|
220
|
+
```
|
|
221
|
+
|
|
222
|
+
## When to Run
|
|
223
|
+
|
|
224
|
+
1. **After `/paper-write`** — first check before improvement loop
|
|
225
|
+
2. **After `/auto-paper-improvement-loop`** — recheck if improvement loop changed numbers
|
|
226
|
+
3. **Before submission** — final verification
|
|
227
|
+
|
|
228
|
+
## Integration with Other Skills
|
|
229
|
+
|
|
230
|
+
### Read by `/auto-paper-improvement-loop` (if exists)
|
|
231
|
+
|
|
232
|
+
```
|
|
233
|
+
if PAPER_CLAIM_AUDIT.json exists:
|
|
234
|
+
read mismatched claims
|
|
235
|
+
fix them as priority items in the improvement round
|
|
236
|
+
```
|
|
237
|
+
|
|
238
|
+
### Advisory, Never Blocking
|
|
239
|
+
|
|
240
|
+
Same pattern as `/experiment-audit`:
|
|
241
|
+
- `PASS` → continue normally
|
|
242
|
+
- `WARN` → print warning, continue, flag draft as "check numbers before submission"
|
|
243
|
+
- `FAIL` → print alert, continue, but do NOT mark as submission-ready
|
|
244
|
+
|
|
245
|
+
## Render HTML view (auto, when `RENDER_HTML = true`, default)
|
|
246
|
+
|
|
247
|
+
After writing `paper/PAPER_CLAIM_AUDIT.md` and `paper/PAPER_CLAIM_AUDIT.json`, invoke `/render-html` on the audit report so the user has a readable HTML view of the verdict + per-claim breakdown:
|
|
248
|
+
|
|
249
|
+
```
|
|
250
|
+
/render-html "paper/PAPER_CLAIM_AUDIT.md" --json "paper/PAPER_CLAIM_AUDIT.json"
|
|
251
|
+
```
|
|
252
|
+
|
|
253
|
+
Uses **full Codex review gate** (audit-class artifact — render-fidelity check matches the skill's existing zero-context cross-model audit invariant). Output lands at `paper/PAPER_CLAIM_AUDIT.html` with embedded source SHA256 and a `.review.json` sidecar carrying the render verdict.
|
|
254
|
+
|
|
255
|
+
**Non-blocking**: if `/render-html` fails (helper missing, Codex MCP unavailable, file write error), log the failure and treat the skill as complete — the JSON + MD verdict files are the canonical outputs; the HTML view is a convenience for human readers.
|
|
256
|
+
|
|
257
|
+
Skip if `RENDER_HTML = false` is set in the project's `CLAUDE.md` or passed as `— render html: false`.
|
|
258
|
+
|
|
259
|
+
## Key Rules
|
|
260
|
+
|
|
261
|
+
- **Fresh thread EVERY run.** Never use `codex-reply`. Never carry context.
|
|
262
|
+
- **Zero executor interpretation.** Only file paths. No summaries.
|
|
263
|
+
- **Only raw results.** No EXPERIMENT_LOG, no AUTO_REVIEW, no human summaries.
|
|
264
|
+
- **Rounding rule.** Only standard rounding to displayed precision. 84.7% → 84.7% or 85% is OK. 84.7% → 85.3% is NOT OK.
|
|
265
|
+
- **Cross-model.** Reviewer must be a different model family from executor.
|
|
266
|
+
|
|
267
|
+
## Review Tracing
|
|
268
|
+
|
|
269
|
+
After each `mcp__codex__codex` or `mcp__codex__codex-reply` reviewer call, save the trace following `shared-references/review-tracing.md` (Policy C — forensic; never silently skip). Use `save_trace.sh` (resolved per the chain in `shared-references/integration-contract.md` §2) or write files directly to `.aris/traces/<skill>/<date>_run<NN>/`. Respect the `--- trace:` parameter (default: `full`).
|
|
270
|
+
|
|
271
|
+
## Submission Artifact Emission
|
|
272
|
+
|
|
273
|
+
This skill **always** writes `paper/PAPER_CLAIM_AUDIT.json`, regardless of
|
|
274
|
+
caller or detector outcome. A detector-negative run (paper has no numeric
|
|
275
|
+
claims) emits verdict `NOT_APPLICABLE`; a paper-with-numeric-claims-but-no-
|
|
276
|
+
raw-results run emits `BLOCKED`. Silent skip is forbidden — `paper-writing`
|
|
277
|
+
Phase 6 and `verify_paper_audits.sh` both rely on this artifact
|
|
278
|
+
existing at a predictable path.
|
|
279
|
+
|
|
280
|
+
The artifact conforms to the schema in `shared-references/assurance-contract.md`:
|
|
281
|
+
|
|
282
|
+
```json
|
|
283
|
+
{
|
|
284
|
+
"audit_skill": "paper-claim-audit",
|
|
285
|
+
"verdict": "PASS | WARN | FAIL | NOT_APPLICABLE | BLOCKED | ERROR",
|
|
286
|
+
"reason_code": "all_numbers_match | rounding_drift | missing_raw_results | ...",
|
|
287
|
+
"summary": "One-line human-readable verdict summary.",
|
|
288
|
+
"audited_input_hashes": {
|
|
289
|
+
"main.tex": "sha256:...",
|
|
290
|
+
"sections/5.evidence.tex": "sha256:...",
|
|
291
|
+
"/abs/path/to/results/run_2026_04_19.json": "sha256:..."
|
|
292
|
+
},
|
|
293
|
+
"trace_path": ".aris/traces/paper-claim-audit/<date>_run<NN>/",
|
|
294
|
+
"thread_id": "<codex mcp thread id>",
|
|
295
|
+
"reviewer_model": "<resolved — the model that actually ran (target: gpt-5.6-sol)>",
|
|
296
|
+
"reviewer_reasoning": "<resolved — the effort that actually ran (target: ultra)>",
|
|
297
|
+
"generated_at": "<UTC ISO-8601>",
|
|
298
|
+
"details": {
|
|
299
|
+
"total_claims": <int>,
|
|
300
|
+
"mismatches": [ ... per-claim issue records ... ],
|
|
301
|
+
"result_files": [ ... raw files consulted ... ]
|
|
302
|
+
}
|
|
303
|
+
}
|
|
304
|
+
```
|
|
305
|
+
|
|
306
|
+
### `audited_input_hashes` scope
|
|
307
|
+
|
|
308
|
+
Hash the **declared input set** passed into this audit invocation — i.e. the
|
|
309
|
+
exact `.tex` files and raw result / config files this run read — not a
|
|
310
|
+
repo-wide union and not the reviewer's self-reported subset. If a caller
|
|
311
|
+
passed only `main.tex` + a single result file, hash those two files and no
|
|
312
|
+
others. The external verifier rehashes these entries; any mismatch flags
|
|
313
|
+
`STALE`.
|
|
314
|
+
|
|
315
|
+
**Path convention** (must match what `verify_paper_audits.sh`
|
|
316
|
+
expects): keys are **paths relative to the paper directory** (the arg
|
|
317
|
+
passed to the verifier) for in-paper files — so `main.tex`, not
|
|
318
|
+
`paper/main.tex` — and **absolute paths** for out-of-paper files such as
|
|
319
|
+
external `results/` dirs. The verifier resolves relative entries via
|
|
320
|
+
`os.path.join(paper_dir, key)`; prefixing with `paper/` produces
|
|
321
|
+
`paper/paper/main.tex` and false-fails as STALE.
|
|
322
|
+
|
|
323
|
+
### Verdict decision table
|
|
324
|
+
|
|
325
|
+
| Input state | Verdict | `reason_code` example |
|
|
326
|
+
|-------------------------------------------------------|------------------|-----------------------|
|
|
327
|
+
| No numeric claims detected in paper | `NOT_APPLICABLE` | `no_numeric_claims` |
|
|
328
|
+
| Numeric claims detected, no raw result files found | `BLOCKED` | `no_raw_evidence` |
|
|
329
|
+
| All claims reconcile to raw data | `PASS` | `all_numbers_match` |
|
|
330
|
+
| Minor rounding drift only, no material mismatch | `WARN` | `rounding_drift` |
|
|
331
|
+
| Any material mismatch (wrong number, config mismatch) | `FAIL` | `claim_mismatch` |
|
|
332
|
+
| Reviewer invocation failed (network / malformed) | `ERROR` | `reviewer_error` |
|
|
333
|
+
|
|
334
|
+
### Thread independence
|
|
335
|
+
|
|
336
|
+
Every invocation uses a fresh `mcp__codex__codex` thread. Never
|
|
337
|
+
`codex-reply`. Do not accept prior audit outputs (PROOF_AUDIT, CITATION_AUDIT,
|
|
338
|
+
EXPERIMENT_LOG, AUTO_REVIEW summaries) as input to this audit — the fresh
|
|
339
|
+
thread preserves reviewer independence per
|
|
340
|
+
`shared-references/reviewer-independence.md`.
|
|
341
|
+
|
|
342
|
+
### Human-readable sibling
|
|
343
|
+
|
|
344
|
+
`paper/PAPER_CLAIM_AUDIT.md` is written alongside the JSON for readers.
|
|
345
|
+
The JSON is authoritative for `verify_paper_audits.sh`; the Markdown
|
|
346
|
+
is for humans. The parent skill (`paper-writing` Phase 6) plus the verifier
|
|
347
|
+
decide whether the verdict blocks finalization — this skill itself never
|
|
348
|
+
blocks; it only emits.
|
|
@@ -0,0 +1,266 @@
|
|
|
1
|
+
---
|
|
2
|
+
name: paper-compile
|
|
3
|
+
description: "Compile LaTeX paper to PDF, fix errors, and verify output. Use when user says \"编译论文\", \"compile paper\", \"build PDF\", \"生成PDF\", or wants to compile LaTeX into a submission-ready PDF."
|
|
4
|
+
argument-hint: "[paper-directory]"
|
|
5
|
+
allowed-tools: Bash(*), Read, Write, Edit, Grep, Glob
|
|
6
|
+
---
|
|
7
|
+
|
|
8
|
+
# Paper Compile: LaTeX to Submission-Ready PDF
|
|
9
|
+
|
|
10
|
+
Compile the LaTeX paper and fix any issues: **$ARGUMENTS**
|
|
11
|
+
|
|
12
|
+
## Constants
|
|
13
|
+
|
|
14
|
+
- **COMPILER = `latexmk`** — LaTeX build tool. Handles multi-pass compilation automatically.
|
|
15
|
+
- **ENGINE = `pdflatex`** — LaTeX engine. Options: `pdflatex` (default), `xelatex` (for CJK/custom fonts), `lualatex`.
|
|
16
|
+
- **MAX_COMPILE_ATTEMPTS = 3** — Maximum attempts to fix errors and recompile.
|
|
17
|
+
- **PAPER_DIR = `paper/`** — Directory containing LaTeX source files.
|
|
18
|
+
- **MAX_PAGES** — Page limit. ML conferences: main body to Conclusion end (excluding references & appendix). ICLR=9, NeurIPS=9, ICML=8. **IEEE venues: references ARE included in page count.** IEEE journal ≈ 12-14 pages, IEEE conference ≈ 5-8 pages (all inclusive).
|
|
19
|
+
|
|
20
|
+
## Workflow
|
|
21
|
+
|
|
22
|
+
### Step 1: Verify Prerequisites
|
|
23
|
+
|
|
24
|
+
Check that the compilation environment is ready:
|
|
25
|
+
|
|
26
|
+
```bash
|
|
27
|
+
# Check LaTeX installation
|
|
28
|
+
which pdflatex && which latexmk && which bibtex
|
|
29
|
+
|
|
30
|
+
# If not installed, provide instructions:
|
|
31
|
+
# macOS: brew install --cask mactex-no-gui
|
|
32
|
+
# Ubuntu: sudo apt-get install texlive-full
|
|
33
|
+
# Server: conda install -c conda-forge texlive-core
|
|
34
|
+
```
|
|
35
|
+
|
|
36
|
+
Verify all required files exist:
|
|
37
|
+
|
|
38
|
+
```bash
|
|
39
|
+
# Must exist
|
|
40
|
+
ls $PAPER_DIR/main.tex
|
|
41
|
+
|
|
42
|
+
# Should exist
|
|
43
|
+
ls $PAPER_DIR/references.bib
|
|
44
|
+
ls $PAPER_DIR/sections/*.tex
|
|
45
|
+
ls $PAPER_DIR/figures/*.pdf 2>/dev/null || ls $PAPER_DIR/figures/*.png 2>/dev/null
|
|
46
|
+
```
|
|
47
|
+
|
|
48
|
+
### Step 2: First Compilation Attempt
|
|
49
|
+
|
|
50
|
+
```bash
|
|
51
|
+
cd $PAPER_DIR
|
|
52
|
+
|
|
53
|
+
# Clean previous build artifacts
|
|
54
|
+
latexmk -C
|
|
55
|
+
|
|
56
|
+
# Full compilation (pdflatex + bibtex + pdflatex × 2)
|
|
57
|
+
latexmk -pdf -interaction=nonstopmode -halt-on-error main.tex 2>&1 | tee compile.log
|
|
58
|
+
```
|
|
59
|
+
|
|
60
|
+
### Step 3: Error Diagnosis and Auto-Fix
|
|
61
|
+
|
|
62
|
+
If compilation fails, read `compile.log` and fix common errors:
|
|
63
|
+
|
|
64
|
+
**Missing packages:**
|
|
65
|
+
```
|
|
66
|
+
! LaTeX Error: File `somepackage.sty' not found.
|
|
67
|
+
```
|
|
68
|
+
→ Install via `tlmgr install somepackage` or remove the `\usepackage` if unused.
|
|
69
|
+
|
|
70
|
+
**Undefined references:**
|
|
71
|
+
```
|
|
72
|
+
LaTeX Warning: Reference `fig:xyz' on page 3 undefined
|
|
73
|
+
```
|
|
74
|
+
→ Check `\label{fig:xyz}` exists in the correct figure environment.
|
|
75
|
+
|
|
76
|
+
**Missing figures:**
|
|
77
|
+
```
|
|
78
|
+
! LaTeX Error: File `figures/fig1.pdf' not found.
|
|
79
|
+
```
|
|
80
|
+
→ Check if the file exists with a different extension (.png vs .pdf). Update the `\includegraphics` path.
|
|
81
|
+
|
|
82
|
+
**Citation undefined:**
|
|
83
|
+
```
|
|
84
|
+
LaTeX Warning: Citation `smith2024' undefined
|
|
85
|
+
```
|
|
86
|
+
→ Add the missing entry to `references.bib` or fix the citation key.
|
|
87
|
+
|
|
88
|
+
**`[VERIFY]` markers in text:**
|
|
89
|
+
→ Search for `[VERIFY]` markers left by `/paper-write`. These indicate unverified citations or facts. Search for the correct information or flag to the user.
|
|
90
|
+
|
|
91
|
+
**Overfull hbox:**
|
|
92
|
+
```
|
|
93
|
+
Overfull \hbox (12.5pt too wide) in paragraph at lines 42--45
|
|
94
|
+
```
|
|
95
|
+
→ Minor: usually ignorable. If severe (>20pt), rephrase the text or adjust figure width.
|
|
96
|
+
|
|
97
|
+
**BibTeX errors:**
|
|
98
|
+
```
|
|
99
|
+
I was expecting a `,' or a `}'---line 15 of references.bib
|
|
100
|
+
```
|
|
101
|
+
→ Fix BibTeX syntax (missing comma, unmatched braces, special characters in title).
|
|
102
|
+
|
|
103
|
+
**`\crefname` undefined for custom theorem types:**
|
|
104
|
+
→ Ensure `\crefname{assumption}{Assumption}{Assumptions}` and similar are in the preamble after `\newtheorem{assumption}`.
|
|
105
|
+
|
|
106
|
+
### Step 4: Iterative Fix Loop
|
|
107
|
+
|
|
108
|
+
```
|
|
109
|
+
for attempt in 1..MAX_COMPILE_ATTEMPTS:
|
|
110
|
+
compile()
|
|
111
|
+
if success:
|
|
112
|
+
break
|
|
113
|
+
parse_errors()
|
|
114
|
+
auto_fix()
|
|
115
|
+
```
|
|
116
|
+
|
|
117
|
+
For each error:
|
|
118
|
+
1. Read the error message from `compile.log`
|
|
119
|
+
2. Locate the source file and line number
|
|
120
|
+
3. Apply the fix
|
|
121
|
+
4. Recompile
|
|
122
|
+
|
|
123
|
+
**Stuck after 2 attempts?** If Codex plugin is installed, invoke `/codex:rescue` — Codex can independently read the LaTeX source and `compile.log` to spot issues Claude missed (e.g., conflicting packages, encoding problems, subtle macro errors). If not installed, continue with Claude's own diagnosis.
|
|
124
|
+
|
|
125
|
+
### Step 5: Post-Compilation Checks
|
|
126
|
+
|
|
127
|
+
After successful compilation, verify the output:
|
|
128
|
+
|
|
129
|
+
```bash
|
|
130
|
+
# Check PDF exists and has content
|
|
131
|
+
ls -la main.pdf
|
|
132
|
+
# Check page count
|
|
133
|
+
pdfinfo main.pdf | grep Pages
|
|
134
|
+
|
|
135
|
+
# macOS: open for visual inspection
|
|
136
|
+
# open main.pdf
|
|
137
|
+
```
|
|
138
|
+
|
|
139
|
+
**Visual review (automated):**
|
|
140
|
+
If the compiled PDF exists, read it directly to check visual presentation:
|
|
141
|
+
- Figure quality: readable labels, legible text, distinguishable colors
|
|
142
|
+
- Layout: no orphaned section headers, no awkward page breaks
|
|
143
|
+
- Figures appear near their first text reference (not pages away)
|
|
144
|
+
- Tables: aligned columns, consistent decimal precision
|
|
145
|
+
- No overfull content visibly extending past margins
|
|
146
|
+
|
|
147
|
+
This is a quick visual scan, not a full review — the improvement loop does deeper visual review.
|
|
148
|
+
|
|
149
|
+
**Automated checks:**
|
|
150
|
+
|
|
151
|
+
- [ ] PDF file exists and is > 100KB (not empty/corrupt)
|
|
152
|
+
- [ ] Total page count is reasonable (MAX_PAGES + appendix + references)
|
|
153
|
+
- [ ] No "??" in the PDF (undefined references — grep the log)
|
|
154
|
+
- [ ] No "[?]" in the PDF (undefined citations — grep the log)
|
|
155
|
+
- [ ] Figures are rendered (not missing image placeholders)
|
|
156
|
+
|
|
157
|
+
```bash
|
|
158
|
+
# Check for undefined references
|
|
159
|
+
grep -c "LaTeX Warning.*undefined" compile.log
|
|
160
|
+
|
|
161
|
+
# Check for missing citations
|
|
162
|
+
grep -c "Citation.*undefined" compile.log
|
|
163
|
+
```
|
|
164
|
+
|
|
165
|
+
### Step 6: Page Count Verification
|
|
166
|
+
|
|
167
|
+
**CRITICAL**: Verify paper fits within MAX_PAGES.
|
|
168
|
+
|
|
169
|
+
**For ML conferences (ICLR/NeurIPS/ICML/CVPR/ACL/AAAI):** Main body = first page through end of Conclusion section (not necessarily §5 — could be §6, §7, or §8 depending on structure). References and appendix are NOT counted.
|
|
170
|
+
|
|
171
|
+
**For IEEE venues:** The TOTAL page count (including references) must fit within the limit. There is no separate "main body" counting — everything up to and including the references counts.
|
|
172
|
+
|
|
173
|
+
**Precise check using `pdftotext`:**
|
|
174
|
+
```bash
|
|
175
|
+
# Extract text and find where Conclusion ends vs References begin
|
|
176
|
+
pdftotext main.pdf - | python3 -c "
|
|
177
|
+
import sys
|
|
178
|
+
text = sys.stdin.read()
|
|
179
|
+
pages = text.split('\f')
|
|
180
|
+
for i, page in enumerate(pages):
|
|
181
|
+
if 'Ethics Statement' in page or 'Reproducibility' in page:
|
|
182
|
+
print(f'Conclusion ends on page {i+1}')
|
|
183
|
+
if any(w in page for w in ['References', 'Bibliography']):
|
|
184
|
+
lines = [l for l in page.split('\n') if l.strip()]
|
|
185
|
+
for l in lines[:3]:
|
|
186
|
+
if 'References' in l or 'Bibliography' in l:
|
|
187
|
+
print(f'References start on page {i+1}')
|
|
188
|
+
break
|
|
189
|
+
"
|
|
190
|
+
```
|
|
191
|
+
|
|
192
|
+
If Conclusion ends mid-page and References start on the same page, the main body is that page number (e.g., if both are on page 9, main body = ~8.5 pages, which is fine for a 9-page limit since it leaves room for the References header).
|
|
193
|
+
|
|
194
|
+
If over limit:
|
|
195
|
+
- Identify which sections are longest
|
|
196
|
+
- Suggest specific cuts (move proofs to appendix, compress tables, tighten writing)
|
|
197
|
+
- Report: "Main body is X pages (limit: MAX_PAGES). Suggestion: move [specific content] to appendix."
|
|
198
|
+
|
|
199
|
+
### Step 6.5: Stale File Detection
|
|
200
|
+
|
|
201
|
+
Check for orphaned section files not referenced by `main.tex`:
|
|
202
|
+
|
|
203
|
+
```bash
|
|
204
|
+
# Find all .tex files in sections/ and check which are \input'ed by main.tex
|
|
205
|
+
for f in paper/sections/*.tex; do
|
|
206
|
+
base=$(basename "$f")
|
|
207
|
+
if ! grep -q "$base" paper/main.tex; then
|
|
208
|
+
echo "WARNING: $f is not referenced by main.tex — consider removing"
|
|
209
|
+
fi
|
|
210
|
+
done
|
|
211
|
+
```
|
|
212
|
+
|
|
213
|
+
This prevents confusion from leftover files when section structure changes (e.g., old `5_conclusion.tex` left behind after restructuring to 7 sections).
|
|
214
|
+
|
|
215
|
+
### Step 7: Submission Readiness
|
|
216
|
+
|
|
217
|
+
For conference submission, additional checks:
|
|
218
|
+
|
|
219
|
+
- [ ] **Anonymous**: no author names, affiliations, or self-citations that reveal identity
|
|
220
|
+
- [ ] **Page limit**: main body within MAX_PAGES (to end of Conclusion)
|
|
221
|
+
- [ ] **Font embedding**: all fonts embedded in PDF
|
|
222
|
+
```bash
|
|
223
|
+
pdffonts main.pdf | grep -v "yes" # should return nothing (or only header)
|
|
224
|
+
```
|
|
225
|
+
- [ ] **No supplementary mixed in**: appendix clearly after `\newpage\appendix`
|
|
226
|
+
- [ ] **File size**: reasonable (< 50MB for most venues, < 10MB preferred)
|
|
227
|
+
- [ ] **No `[VERIFY]` markers**: search the PDF text for leftover markers
|
|
228
|
+
|
|
229
|
+
### Step 8: Output Summary
|
|
230
|
+
|
|
231
|
+
```markdown
|
|
232
|
+
## Compilation Report
|
|
233
|
+
|
|
234
|
+
- **Status**: SUCCESS / FAILED
|
|
235
|
+
- **PDF**: paper/main.pdf
|
|
236
|
+
- **Pages**: X (main body to Conclusion) + Y (references) + Z (appendix)
|
|
237
|
+
- **Within page limit**: YES/NO (MAX_PAGES = N)
|
|
238
|
+
- **Errors fixed**: [list of auto-fixed issues]
|
|
239
|
+
- **Warnings remaining**: [list of non-critical warnings]
|
|
240
|
+
- **Undefined references**: 0
|
|
241
|
+
- **Undefined citations**: 0
|
|
242
|
+
|
|
243
|
+
### Next Steps
|
|
244
|
+
- [ ] Visual inspection of PDF
|
|
245
|
+
- [ ] Run `/paper-write` to fix any content issues
|
|
246
|
+
- [ ] Submit to [venue] via OpenReview / CMT / HotCRP
|
|
247
|
+
```
|
|
248
|
+
|
|
249
|
+
## Key Rules
|
|
250
|
+
|
|
251
|
+
- **Never delete the user's source files** — only modify to fix errors
|
|
252
|
+
- **Keep compile.log** — useful for debugging
|
|
253
|
+
- **Don't suppress warnings** — report them, let the user decide
|
|
254
|
+
- **If LaTeX is not installed**, provide clear installation instructions rather than failing silently
|
|
255
|
+
- **Font embedding is critical** — some venues reject PDFs with non-embedded fonts
|
|
256
|
+
- **Page count rules differ by venue** — ML conferences: main body to Conclusion (refs excluded). **IEEE venues: total pages including references.**
|
|
257
|
+
|
|
258
|
+
## Common Venue Requirements
|
|
259
|
+
|
|
260
|
+
| Venue | Style File | Citation | Page Limit | Refs in limit? | Submission |
|
|
261
|
+
|-------|-----------|----------|------------|----------------|------------|
|
|
262
|
+
| ICLR 2026 | `iclr2026_conference.sty` | `natbib` (`\citep`/`\citet`) | 9 pages (to Conclusion end) | No | OpenReview |
|
|
263
|
+
| NeurIPS 2025 | `neurips_2025.sty` | `natbib` (`\citep`/`\citet`) | 9 pages (to Conclusion end) | No | OpenReview |
|
|
264
|
+
| ICML 2025 | `icml2025.sty` | `natbib` (`\citep`/`\citet`) | 8 pages (to Conclusion end) | No | OpenReview |
|
|
265
|
+
| IEEE Journal | `IEEEtran.cls` [journal] | `cite` (`\cite{}`, numeric) | ~12-14 pages (Transactions) / ~4-5 (Letters) | **Yes** | IEEE Author Portal / ScholarOne |
|
|
266
|
+
| IEEE Conference | `IEEEtran.cls` [conference] | `cite` (`\cite{}`, numeric) | 5-8 pages (varies by conf) | **Yes** | EDAS / IEEE Author Portal |
|