flonat-research 0.1.0 → 0.2.0
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/.claude/agents/artifact-coherence-auditor.md +192 -0
- package/.claude/agents/blindspot.md +271 -0
- package/.claude/agents/claim-verify.md +259 -0
- package/.claude/agents/code-paper-auditor.md +323 -0
- package/.claude/agents/code-review.md +322 -0
- package/.claude/agents/codex-research.md +141 -0
- package/.claude/agents/domain-reviewer.md +57 -7
- package/.claude/agents/fatal-error-check.md +223 -0
- package/.claude/agents/fixer.md +62 -6
- package/.claude/agents/gemini-research.md +103 -0
- package/.claude/agents/paper-critic.md +227 -114
- package/.claude/agents/peer-reviewer.md +109 -19
- package/.claude/agents/proposal-reviewer.md +60 -7
- package/.claude/agents/referee2-reviewer.md +267 -77
- package/.claude/agents/references/code-review/checklist-categories.md +111 -0
- package/.claude/agents/references/code-review/findings-schema.json +35 -0
- package/.claude/agents/references/code-review/persona-catalog.md +112 -0
- package/.claude/agents/references/code-review/quality-rubric.md +67 -0
- package/.claude/agents/references/code-review/subagent-template.md +54 -0
- package/.claude/agents/references/paper-critic/council-mode.md +53 -0
- package/.claude/agents/references/paper-critic/council-personas.md +3 -3
- package/.claude/agents/references/paper-critic/council-prompts.md +1 -1
- package/.claude/agents/references/paper-critic/json-schema.md +97 -0
- package/.claude/agents/references/paper-critic/report-format.md +81 -0
- package/.claude/agents/references/paper-critic/specialist-mode.md +80 -0
- package/.claude/agents/references/peer-reviewer/sa-prompts.md +55 -1
- package/.claude/agents/references/proposal-reviewer/sa-prompts.md +27 -0
- package/.claude/agents/references/referee2-reviewer/audit-checklists.md +21 -0
- package/.claude/agents/references/referee2-reviewer/council-mode.md +39 -0
- package/.claude/agents/references/referee2-reviewer/deep-mode.md +89 -0
- package/.claude/agents/references/referee2-reviewer/grounded-mode.md +146 -0
- package/.claude/agents/references/referee2-reviewer/json-schema.md +70 -0
- package/.claude/agents/references/referee2-reviewer/methods/causal-inference.md +62 -0
- package/.claude/agents/references/referee2-reviewer/methods/computational-simulation.md +58 -0
- package/.claude/agents/references/referee2-reviewer/methods/content-analysis.md +71 -0
- package/.claude/agents/references/referee2-reviewer/methods/cross-cutting.md +47 -0
- package/.claude/agents/references/referee2-reviewer/methods/experiments.md +58 -0
- package/.claude/agents/references/referee2-reviewer/methods/mcdm.md +83 -0
- package/.claude/agents/references/referee2-reviewer/methods/ml-nlp.md +70 -0
- package/.claude/agents/references/referee2-reviewer/methods/survey-psychometrics.md +66 -0
- package/.claude/agents/references/referee2-reviewer/report-template.md +14 -0
- package/.claude/agents/reproducibility-auditor.md +200 -0
- package/.claude/rules/audit-before-fix.md +49 -0
- package/.claude/rules/design-before-results.md +8 -0
- package/.claude/rules/doi-verification.md +69 -0
- package/.claude/rules/ignore-external-agent-files.md +23 -0
- package/.claude/rules/latex-hygiene.md +97 -0
- package/.claude/rules/lean-claude-md.md +6 -0
- package/.claude/rules/learn-tags.md +24 -24
- package/.claude/rules/mark-unverified.md +74 -0
- package/.claude/rules/no-hardcoded-results.md +45 -0
- package/.claude/rules/overleaf-separation.md +6 -0
- package/.claude/rules/paper-code-consistency.md +60 -0
- package/.claude/rules/plan-first.md +26 -102
- package/.claude/rules/python-uv.md +34 -0
- package/.claude/rules/read-docs-first.md +4 -0
- package/.claude/rules/scope-discipline.md +4 -0
- package/.claude/rules/severity-gradient.md +91 -0
- package/.claude/rules/spec-before-quality.md +53 -0
- package/.claude/rules/subagent-write-guard.md +75 -0
- package/.context/resources/claude-scientific-writer-review.md +2 -2
- package/.context/resources/coauthor-venues.md +165 -0
- package/.context/resources/cunningham-multi-analyst-agents.md +1 -1
- package/.context/resources/google-ai-co-scientist-review.md +2 -2
- package/.context/resources/pedro-santanna-takeaways.md +1 -1
- package/.context/resources/venue-rankings/ft50.csv +51 -0
- package/.context/resources/venue-rankings/scimagojr-2025.csv +32194 -0
- package/.context/resources/venue-rankings/wbs60.csv +61 -0
- package/.context/resources/venue-rankings.md +20 -28
- package/.scripts/README.md +43 -148
- package/.scripts/build_book_variant.py +204 -0
- package/.scripts/build_paperpile_filename_index.py +68 -0
- package/.scripts/check_pdf_availability.py +98 -0
- package/.scripts/check_sprint_contract.py +79 -0
- package/.scripts/count_inventory.py +49 -19
- package/.scripts/ensure-resources.sh +60 -0
- package/.scripts/gen_books_index.py +250 -0
- package/.scripts/gen_references_page.py +262 -0
- package/.scripts/mini-unlock +22 -0
- package/.scripts/myst_to_quarto.py +258 -0
- package/.scripts/paper-book-deploy.sh +104 -0
- package/.scripts/regen-resource-manifest.sh +51 -0
- package/.scripts/skill-health.py +1 -1
- package/.scripts/system_audit_facts.py +637 -0
- package/.scripts/update_atlas_book_url.py +73 -0
- package/.scripts/venue-metrics/backfill-venues.py +197 -0
- package/CLAUDE.md +30 -24
- package/README.md +48 -22
- package/docs/agents.md +11 -2
- package/docs/getting-started.md +26 -2
- package/docs/hooks.md +2 -1
- package/docs/rules.md +12 -3
- package/docs/setup/setup-overview/setup-overview.pdf +0 -0
- package/docs/skills.md +29 -6
- package/hooks/context-monitor.py +1 -1
- package/hooks/handoff-read.sh +35 -0
- package/hooks/precompact-autosave.py +3 -2
- package/hooks/startup-context-loader.sh +56 -4
- package/package.json +4 -4
- package/packages/cli-council/.claude/settings.local.json +158 -0
- package/packages/{llm-council → council-api}/README.md +53 -24
- package/packages/{llm-council → council-api}/pyproject.toml +9 -9
- package/packages/council-api/src/council_api/__init__.py +29 -0
- package/packages/{llm-council/src/llm_council → council-api/src/council_api}/__main__.py +11 -11
- package/packages/council-api/src/council_api/client.py +441 -0
- package/packages/{llm-council/src/llm_council → council-api/src/council_api}/config.py +2 -2
- package/packages/{llm-council/src/llm_council → council-api/src/council_api}/council.py +5 -5
- package/packages/council-cli/.claude/settings.local.json +158 -0
- package/packages/{cli-council → council-cli}/README.md +11 -11
- package/packages/{cli-council → council-cli}/pyproject.toml +5 -5
- package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/__init__.py +4 -4
- package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/__main__.py +4 -4
- package/packages/council-cli/src/council_cli/backends/__init__.py +8 -0
- package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/backends/base.py +1 -1
- package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/backends/claude.py +2 -2
- package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/backends/codex.py +2 -2
- package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/backends/gemini.py +2 -2
- package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/council.py +7 -7
- package/packages/mcp-scholarly/EXPLAINER.md +392 -0
- package/packages/{mcp-bibliography → mcp-scholarly}/MEMORY.md +1 -1
- package/packages/mcp-scholarly/README.md +140 -0
- package/packages/mcp-scholarly/_app.py +235 -0
- package/packages/mcp-scholarly/cli.py +370 -0
- package/packages/mcp-scholarly/mcp_adapter.py +50 -0
- package/packages/mcp-scholarly/pyproject.toml +34 -0
- package/packages/mcp-scholarly/run.sh +17 -0
- package/packages/mcp-scholarly/server.py +54 -0
- package/packages/mcp-scholarly/tests/test_dual_cli_mcp.py +94 -0
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/__init__.py +2 -0
- package/packages/mcp-scholarly/tools/_models.py +54 -0
- package/packages/mcp-scholarly/tools/_registry.py +21 -0
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/altmetric.py +9 -10
- package/packages/mcp-scholarly/tools/arxiv.py +139 -0
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/core.py +9 -10
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/dblp.py +4 -5
- package/packages/mcp-scholarly/tools/exa.py +179 -0
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/openalex.py +19 -20
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/opencitations.py +7 -8
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/openreview.py +10 -11
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/orcid.py +10 -11
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/scholarly.py +24 -25
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/unpaywall.py +4 -5
- package/packages/{mcp-bibliography → mcp-scholarly}/tools/zenodo.py +7 -8
- package/packages/scholarly/EXPLAINER.md +392 -0
- package/packages/scholarly/MEMORY.md +31 -0
- package/packages/scholarly/README.md +140 -0
- package/packages/{mcp-bibliography → scholarly}/_app.py +17 -8
- package/packages/scholarly/cli.py +370 -0
- package/packages/scholarly/formatters.py +158 -0
- package/packages/scholarly/mcp_adapter.py +50 -0
- package/packages/scholarly/pyproject.toml +34 -0
- package/packages/scholarly/run.sh +17 -0
- package/packages/scholarly/scholarly_formatters.py +83 -0
- package/packages/scholarly/server.py +54 -0
- package/packages/scholarly/tests/test_dual_cli_mcp.py +94 -0
- package/packages/scholarly/tools/__init__.py +30 -0
- package/packages/scholarly/tools/_models.py +54 -0
- package/packages/scholarly/tools/_registry.py +21 -0
- package/packages/scholarly/tools/altmetric.py +106 -0
- package/packages/scholarly/tools/arxiv.py +139 -0
- package/packages/scholarly/tools/core.py +91 -0
- package/packages/scholarly/tools/dblp.py +51 -0
- package/packages/scholarly/tools/exa.py +179 -0
- package/packages/scholarly/tools/openalex.py +295 -0
- package/packages/scholarly/tools/opencitations.py +101 -0
- package/packages/scholarly/tools/openreview.py +178 -0
- package/packages/scholarly/tools/orcid.py +130 -0
- package/packages/scholarly/tools/scholarly.py +574 -0
- package/packages/scholarly/tools/unpaywall.py +62 -0
- package/packages/scholarly/tools/zenodo.py +122 -0
- package/skills/audit-paper-book/SKILL.md +184 -0
- package/skills/audit-paper-book/references/phase-1-diff-inventory.md +102 -0
- package/skills/audit-paper-book/references/phase-2-accessibility.md +12 -0
- package/skills/audit-paper-book/references/phase-4-apply-logic.md +55 -0
- package/skills/audit-paper-book/references/phase-5-verify-smoke-tests.md +33 -0
- package/skills/audit-paper-book/references/report-format-template.md +87 -0
- package/skills/audit-paper-book/scripts/batch_audit.py +667 -0
- package/skills/beamer-deck/SKILL.md +22 -10
- package/skills/beamer-deck/references/review-prompts.md +24 -0
- package/skills/bib-coverage/SKILL.md +121 -0
- package/skills/bib-filter/SKILL.md +110 -0
- package/skills/bib-parse/SKILL.md +274 -0
- package/skills/bib-validate/SKILL.md +83 -46
- package/skills/bib-validate/references/cli-recipes.md +77 -0
- package/skills/bib-validate/references/council-mode.md +3 -3
- package/skills/bib-validate/references/deep-verify-protocol.md +13 -0
- package/skills/bib-validate/references/deep-verify.md +36 -9
- package/skills/bib-validate/references/doi-verification.md +68 -0
- package/skills/bib-validate/references/fix-mode.md +9 -14
- package/skills/bib-validate/references/metadata-verification.md +13 -0
- package/skills/bib-validate/references/openalex-verification.md +9 -9
- package/skills/bib-validate/references/preprint-check.md +6 -3
- package/skills/bib-validate/references/ref-manager-crossref.md +18 -27
- package/skills/bib-validate/references/report-template.md +7 -8
- package/skills/causal-design/SKILL.md +242 -0
- package/skills/causal-design/references/causal-audit-prompt.md +107 -0
- package/skills/causal-design/references/design-decision-tree.md +164 -0
- package/skills/causal-design/references/strategy-memo-template.md +138 -0
- package/skills/code-review/SKILL.md +155 -162
- package/skills/code-review/references/checklist-categories.md +111 -0
- package/skills/code-review/references/findings-schema.json +35 -0
- package/skills/code-review/references/persona-catalog.md +112 -0
- package/skills/code-review/references/subagent-template.md +54 -0
- package/skills/devils-advocate/SKILL.md +2 -2
- package/skills/devils-advocate/references/competing-hypotheses.md +1 -1
- package/skills/docx/LICENSE.txt +30 -0
- package/skills/docx/SKILL.md +134 -0
- package/skills/docx/references/docx-js-patterns.md +312 -0
- package/skills/docx/references/xml-reference.md +128 -0
- package/skills/docx/scripts/__init__.py +1 -0
- package/skills/docx/scripts/accept_changes.py +135 -0
- package/skills/docx/scripts/comment.py +318 -0
- package/skills/docx/scripts/office/helpers/__init__.py +0 -0
- package/skills/docx/scripts/office/helpers/merge_runs.py +199 -0
- package/skills/docx/scripts/office/helpers/simplify_redlines.py +197 -0
- package/skills/docx/scripts/office/pack.py +159 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-chart.xsd +1499 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-chartDrawing.xsd +146 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-diagram.xsd +1085 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-lockedCanvas.xsd +11 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-main.xsd +3081 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-picture.xsd +23 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-spreadsheetDrawing.xsd +185 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-wordprocessingDrawing.xsd +287 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/pml.xsd +1676 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-additionalCharacteristics.xsd +28 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-bibliography.xsd +144 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-commonSimpleTypes.xsd +174 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-customXmlDataProperties.xsd +25 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-customXmlSchemaProperties.xsd +18 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesCustom.xsd +59 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesExtended.xsd +56 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesVariantTypes.xsd +195 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-math.xsd +582 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-relationshipReference.xsd +25 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/sml.xsd +4439 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-main.xsd +570 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-officeDrawing.xsd +509 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-presentationDrawing.xsd +12 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-spreadsheetDrawing.xsd +108 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-wordprocessingDrawing.xsd +96 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/wml.xsd +3646 -0
- package/skills/docx/scripts/office/schemas/ISO-IEC29500-4_2016/xml.xsd +116 -0
- package/skills/docx/scripts/office/schemas/ecma/fouth-edition/opc-contentTypes.xsd +42 -0
- package/skills/docx/scripts/office/schemas/ecma/fouth-edition/opc-coreProperties.xsd +50 -0
- package/skills/docx/scripts/office/schemas/ecma/fouth-edition/opc-digSig.xsd +49 -0
- package/skills/docx/scripts/office/schemas/ecma/fouth-edition/opc-relationships.xsd +33 -0
- package/skills/docx/scripts/office/schemas/mce/mc.xsd +75 -0
- package/skills/docx/scripts/office/schemas/microsoft/wml-2010.xsd +560 -0
- package/skills/docx/scripts/office/schemas/microsoft/wml-2012.xsd +67 -0
- package/skills/docx/scripts/office/schemas/microsoft/wml-2018.xsd +14 -0
- package/skills/docx/scripts/office/schemas/microsoft/wml-cex-2018.xsd +20 -0
- package/skills/docx/scripts/office/schemas/microsoft/wml-cid-2016.xsd +13 -0
- package/skills/docx/scripts/office/schemas/microsoft/wml-sdtdatahash-2020.xsd +4 -0
- package/skills/docx/scripts/office/schemas/microsoft/wml-symex-2015.xsd +8 -0
- package/skills/docx/scripts/office/soffice.py +183 -0
- package/skills/docx/scripts/office/unpack.py +132 -0
- package/skills/docx/scripts/office/validate.py +111 -0
- package/skills/docx/scripts/office/validators/__init__.py +15 -0
- package/skills/docx/scripts/office/validators/base.py +847 -0
- package/skills/docx/scripts/office/validators/docx.py +446 -0
- package/skills/docx/scripts/office/validators/pptx.py +275 -0
- package/skills/docx/scripts/office/validators/redlining.py +247 -0
- package/skills/docx/scripts/templates/comments.xml +3 -0
- package/skills/docx/scripts/templates/commentsExtended.xml +3 -0
- package/skills/docx/scripts/templates/commentsExtensible.xml +3 -0
- package/skills/docx/scripts/templates/commentsIds.xml +3 -0
- package/skills/docx/scripts/templates/people.xml +3 -0
- package/skills/experiment-design/SKILL.md +188 -0
- package/skills/experiment-design/references/identification-strategies.md +70 -0
- package/skills/experiment-design/references/known-scales-registry.md +112 -0
- package/skills/experiment-design/references/pap-template.md +138 -0
- package/skills/experiment-design/references/power-analysis-recipes.md +145 -0
- package/skills/experiment-design/references/qsf-parsing-guide.md +180 -0
- package/skills/experiment-design/references/survey-design-checklist.md +108 -0
- package/skills/handoff/SKILL.md +87 -0
- package/skills/init-paper-book/SKILL.md +179 -0
- package/skills/init-paper-book/references/intro-masthead-format.md +87 -0
- package/skills/init-paper-book/references/phase-1-read-plan.md +13 -0
- package/skills/init-paper-book/references/phase-2-scaffold.md +37 -0
- package/skills/init-paper-book/references/phase-3-chapter-scaffolding.md +25 -0
- package/skills/init-paper-book/references/phase-4-verify-chapters.md +55 -0
- package/skills/init-paper-book/references/phase-5-register.md +77 -0
- package/skills/init-paper-book/references/verify_chapters.py +279 -0
- package/skills/init-paper-book/references/visual_check.mjs +170 -0
- package/skills/init-paper-book/scripts/regenerate_intro.py +243 -0
- package/skills/init-project-course/{skill.md → SKILL.md} +3 -3
- package/skills/init-project-course/references/memory-and-settings.md +5 -5
- package/skills/init-project-course/references/organise-templates.md +2 -0
- package/skills/init-project-light/{skill.md → SKILL.md} +2 -2
- package/skills/init-project-research/SKILL.md +118 -223
- package/skills/init-project-research/references/atlas-schema.md +40 -28
- package/skills/init-project-research/references/atlas-sync.md +92 -0
- package/skills/init-project-research/references/confirmation-report.md +5 -5
- package/skills/init-project-research/references/github-release-repo.md +174 -0
- package/skills/init-project-research/references/literature-discovery.md +18 -8
- package/skills/init-project-research/references/paper-directory.md +109 -0
- package/skills/init-project-research/references/round-1-venue.md +26 -0
- package/skills/init-project-research/references/round-2-github.md +26 -0
- package/skills/init-project-research/references/round-2-hpc.md +46 -0
- package/skills/init-project-research/references/scaffold-details.md +27 -15
- package/skills/init-project-research/references/scaffold-tree.md +65 -0
- package/skills/init-project-research/references/task-mgmt-sync.md +57 -0
- package/skills/init-project-research/templates/field-calibration.md +1 -1
- package/skills/init-project-research/templates/seed-files.md +55 -11
- package/skills/insights-deck/SKILL.md +1 -1
- package/skills/interview-me/SKILL.md +0 -1
- package/skills/latex/SKILL.md +234 -80
- package/skills/latex/references/known-errors.md +183 -0
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- package/skills/literature/references/{cli-council-search.md → council-cli-search.md} +4 -4
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- package/skills/shared/external-audit-protocol.md +2 -2
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- package/skills/shared/learn-tag-routing.md +129 -0
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- package/skills/shared/mcp-degradation.md +7 -5
- package/skills/shared/method-fitness-gate.md +127 -0
- package/skills/shared/project-documentation-content.md +3 -3
- package/skills/shared/project-documentation-format.md +1 -1
- package/skills/shared/project-documentation.md +7 -7
- package/skills/shared/reference-resolution.md +69 -41
- package/skills/shared/skill-design-patterns.md +89 -4
- package/skills/shared/skill-index.md +62 -47
- package/skills/shared/sources-cache.md +120 -0
- package/skills/shared/system-documentation.md +7 -7
- package/skills/shared/tikz-rules.md +36 -1
- package/skills/shared/worker-critic-protocol.md +156 -0
- package/skills/skill-extract/SKILL.md +220 -0
- package/skills/skill-extract/scripts/validate_skill.py +265 -0
- package/skills/skill-preflight/SKILL.md +230 -0
- package/skills/split-pdf/SKILL.md +114 -59
- package/skills/strategic-revision/SKILL.md +198 -0
- package/skills/strategic-revision/references/dag-validation.md +172 -0
- package/skills/strategic-revision/references/phases.md +458 -0
- package/skills/strategic-revision/references/rr-routing.md +101 -0
- package/skills/strategic-revision/references/task-schema.md +148 -0
- package/skills/strategic-revision/scripts/dag_validator.py +505 -0
- package/skills/synthetic-data/SKILL.md +247 -0
- package/skills/synthetic-data/references/calibration-targets.md +483 -0
- package/skills/synthetic-data/references/dgp-recipes-experimental.md +203 -0
- package/skills/synthetic-data/references/dgp-recipes-observational.md +162 -0
- package/skills/synthetic-data/references/dgp-recipes-survey-mediation.md +211 -0
- package/skills/synthetic-data/references/dgp-recipes.md +14 -0
- package/skills/system-audit/SKILL.md +123 -45
- package/skills/system-audit/references/sub-agent-prompts.md +14 -163
- package/skills/task-management/SKILL.md +2 -2
- package/skills/update-project-doc/SKILL.md +2 -2
- package/skills/voice-analyzer/SKILL.md +292 -0
- package/skills/voice-editor/SKILL.md +270 -0
- package/skills/voice-editor/references/common-problems.md +21 -0
- package/skills/voice-editor/references/editing-modes.md +29 -0
- package/skills/xlsx/LICENSE.txt +30 -0
- package/skills/xlsx/SKILL.md +293 -0
- package/skills/xlsx/scripts/office/helpers/__init__.py +0 -0
- package/skills/xlsx/scripts/office/helpers/merge_runs.py +199 -0
- package/skills/xlsx/scripts/office/helpers/simplify_redlines.py +197 -0
- package/skills/xlsx/scripts/office/pack.py +159 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-chart.xsd +1499 -0
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- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/dml-spreadsheetDrawing.xsd +185 -0
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- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/pml.xsd +1676 -0
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- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-bibliography.xsd +144 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-commonSimpleTypes.xsd +174 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-customXmlDataProperties.xsd +25 -0
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- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/shared-relationshipReference.xsd +25 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/sml.xsd +4439 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-main.xsd +570 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-officeDrawing.xsd +509 -0
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- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/vml-wordprocessingDrawing.xsd +96 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/wml.xsd +3646 -0
- package/skills/xlsx/scripts/office/schemas/ISO-IEC29500-4_2016/xml.xsd +116 -0
- package/skills/xlsx/scripts/office/schemas/ecma/fouth-edition/opc-contentTypes.xsd +42 -0
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- package/skills/xlsx/scripts/office/soffice.py +183 -0
- package/skills/xlsx/scripts/office/unpack.py +132 -0
- package/skills/xlsx/scripts/office/validate.py +111 -0
- package/skills/xlsx/scripts/office/validators/__init__.py +15 -0
- package/skills/xlsx/scripts/office/validators/base.py +847 -0
- package/skills/xlsx/scripts/office/validators/docx.py +446 -0
- package/skills/xlsx/scripts/office/validators/pptx.py +275 -0
- package/skills/xlsx/scripts/office/validators/redlining.py +247 -0
- package/skills/xlsx/scripts/recalc.py +184 -0
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- package/.scripts/conf +0 -445
- package/.scripts/config.py +0 -122
- package/.scripts/daily_digest.py +0 -288
- package/.scripts/done +0 -177
- package/.scripts/extract_meeting_actions.py +0 -223
- package/.scripts/generate-codex-agents-md.py +0 -217
- package/.scripts/inbox +0 -194
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- package/.scripts/papers +0 -227
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- package/.scripts/week +0 -206
- package/packages/cli-council/src/cli_council/backends/__init__.py +0 -8
- package/packages/llm-council/src/llm_council/__init__.py +0 -23
- package/packages/llm-council/src/llm_council/client.py +0 -253
- package/packages/mcp-bibliography/pyproject.toml +0 -15
- package/packages/mcp-bibliography/run.sh +0 -20
- package/packages/mcp-bibliography/server.py +0 -1857
- package/packages/mcp-bibliography/tools/_registry.py +0 -19
- package/skills/init-project-research/references/atlas-pipeline-sync.md +0 -70
- /package/packages/{cli-council → council-api}/.github/workflows/claude-code-review.yml +0 -0
- /package/packages/{cli-council → council-api}/.github/workflows/claude.yml +0 -0
- /package/packages/{llm-council/src/llm_council → council-api/src/council_api}/checkpoint.py +0 -0
- /package/packages/{llm-council/src/llm_council → council-api/src/council_api}/models.py +0 -0
- /package/packages/{llm-council → council-cli}/.github/workflows/claude-code-review.yml +0 -0
- /package/packages/{llm-council → council-cli}/.github/workflows/claude.yml +0 -0
- /package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/checkpoint.py +0 -0
- /package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/config.py +0 -0
- /package/packages/{cli-council/src/cli_council → council-cli/src/council_cli}/models.py +0 -0
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name: artifact-coherence-auditor
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fidelity: high
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oversight: high
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description: "Audits coherence between paper prose and replication outputs — catches hallucinated results, missing scripts, mismatched numbers, and unverifiable claims. Read-only with respect to project files; writes its own report at `reviews/artifact-coherence-auditor/<YYYY-MM-DD-HHMM>.md`. Complements code-paper-auditor (which maps numbers to code) by checking whether the replication package *actually produces* what the paper claims.\n\nExamples:\n\n- Example 1:\n user: \"Check if my paper claims match the replication outputs\"\n assistant: \"I'll launch the artifact-coherence-auditor to verify prose claims against replication outputs.\"\n <commentary>\n Paper-replication alignment check. Launch artifact-coherence-auditor.\n </commentary>\n\n- Example 2:\n user: \"Are there any hallucinated results in my paper?\"\n assistant: \"Let me launch the artifact-coherence-auditor to check for claims without supporting artifacts.\"\n <commentary>\n Hallucinated results check. Launch artifact-coherence-auditor.\n </commentary>\n\n- Example 3:\n user: \"Verify my replication package is complete\"\n assistant: \"I'll launch the artifact-coherence-auditor to check that every claim has a supporting script and output.\"\n <commentary>\n Replication completeness check. Launch artifact-coherence-auditor.\n </commentary>"
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---
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# Artifact Coherence Auditor
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You are the **Artifact Coherence Auditor** — an agent that verifies coherence between paper prose and the replication package. You are **read-only with respect to the author's project files** (paper, code, data — never edit those). You **DO write your own report** to `reviews/artifact-coherence-auditor/<YYYY-MM-DD-HHMM>.md` — that's the audit's deliverable; skipping the Write call leaves the orchestrator with nothing on disk to stamp. You check whether what the paper *claims* can actually be *produced* by the scripts and data in the repo.
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- **Hallucinated results** — numbers, tables, or figures mentioned in the paper with no generating script
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**Paper:** [main .tex filename]
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**Date:** YYYY-MM-DD
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**Auditor:** artifact-coherence-auditor (independent agent)
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## Verdict: [GREEN / YELLOW / RED]
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[One-line rationale]
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## Summary
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- Claims checked: X
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- Fully verified: Y
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- Unverifiable: Z
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- Discrepancies: W
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- Orphaned artifacts: V
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## Findings
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### Blockers
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[numbered list with file paths, exact quotes, and suggested fix]
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### Major
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[numbered list]
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### Minor
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[numbered list]
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## Artifact Map
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[Table: Paper claim → Script → Output file → Status]
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## Follow-on Issues
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[Proposed GitHub issue titles and bodies for remediation — prefer new issues over expanding existing PR scope]
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## Recommendations
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[Prioritised list of what to fix before submission]
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```
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---
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## Rules
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### DO
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- Read every script and output file — trace the full pipeline
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- Quote exact text from the paper when flagging claims
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- Distinguish "not found" (searched, absent) from "not checked" (out of scope)
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- Prefer opening **follow-on issues** for remediation rather than expanding scope
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### DO NOT
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- Modify the paper, bibliography, code, or any project file — you are **read-only with respect to the author's project files**, but you DO write your own report at `reviews/artifact-coherence-auditor/<YYYY-MM-DD-HHMM>.md` (that's the audit's deliverable; skipping the Write call leaves the orchestrator with nothing on disk to stamp)
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- Run code or execute scripts — you audit by reading
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- Skip claims because "they look right" — verify everything
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- Modify `data/raw/` — it is read-only
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- Confuse your role with `code-paper-auditor` (they do number-level tracing; you do structural coherence)
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+
|
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---
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+
|
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## Relationship with Other Agents
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| Task | Use |
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|------|-----|
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| Trace individual numbers from paper to code lines | `code-paper-auditor` |
|
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155
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+
| Check math derivations and theory | `domain-reviewer` |
|
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156
|
+
| Adversarial academic review | `referee2-reviewer` |
|
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|
+
| Check if someone else can rerun the pipeline | `reproducibility-auditor` |
|
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| **Verify paper claims have supporting artifacts** | **This agent** |
|
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+
|
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160
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+
---
|
|
161
|
+
|
|
162
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## Final Step — Emit Stamp Directive
|
|
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+
|
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You do NOT call any bash command. Write your `.md` report via Write, then end your final response with a `review-state-stamp` fenced block in **strict YAML format** (no JSON). The orchestrator parses this block and runs the stamping helper.
|
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+
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**Read `skills/_shared/stamp-directive-spec.md` for the full format, BAD examples, and field rules.**
|
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+
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+
Your agent-specific values:
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+
|
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- **check**: `artifact-coherence-auditor` (always)
|
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- **verdict**: exactly `PASS` or `GAPS FOUND`. PASS if every paper claim maps to a supporting artifact (script/output/data); GAPS FOUND otherwise.
|
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+
- **report**: `reviews/artifact-coherence-auditor/<YYYY-MM-DD-HHMM>.md`
|
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+
- **score**: this agent does not produce a numeric score — use `—` (em-dash)
|
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|
+
- **open_issues**: claims without supporting artifacts / total claims checked (e.g. `5/23`)
|
|
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|
+
|
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|
+
Concrete example for this agent:
|
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+
|
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+
````
|
|
179
|
+
```review-state-stamp
|
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|
+
check: artifact-coherence-auditor
|
|
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|
+
paper: paper-eaamo
|
|
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+
verdict: GAPS FOUND
|
|
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|
+
score: —
|
|
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|
+
open_issues: 5/23
|
|
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|
+
report: reviews/artifact-coherence-auditor/2026-05-19-1437.md
|
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|
+
notes: 3 hallucinated results in §4; 2 missing scripts (table-3.R, fig-2.py)
|
|
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|
+
```
|
|
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|
+
````
|
|
189
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+
|
|
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|
+
**Exit criterion:** the directive block is the LAST thing in your response. Nothing after the closing fence.
|
|
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|
+
|
|
192
|
+
Launch this agent alongside `code-paper-auditor` for maximum coverage: they check different dimensions of paper-code alignment.
|
|
@@ -0,0 +1,271 @@
|
|
|
1
|
+
---
|
|
2
|
+
name: blindspot
|
|
3
|
+
fidelity: balanced
|
|
4
|
+
oversight: high
|
|
5
|
+
description: "Peripheral vision audit for empirical output. Finds what the author cannot see — problems hiding in plain sight (vices) and opportunities being overlooked (virtues). Use when output exists and interpretation is about to happen. Inspired by Viktor Shklovsky's defamiliarization and a Jason Fletcher observation on Scott Cunningham's Substack. Read-only with respect to project files; writes its own report at `reviews/blindspot/<YYYY-MM-DD-HHMM>.md`. Launched as a fresh-context agent because by definition the producing context cannot see its own blind spots.\n\nExamples:\n\n- Example 1:\n user: \"Run a blindspot audit on this figure before I write it up\"\n assistant: \"Launching the blindspot agent for a fresh-eyes audit before interpretation.\"\n <commentary>\n Defamiliarization audit. Launch blindspot agent — same context that produced the figure cannot reliably find what it overlooked.\n </commentary>\n\n- Example 2:\n user: \"What am I missing in these results?\"\n assistant: \"I'll launch the blindspot agent to work through vices and virtues with fresh eyes.\"\n <commentary>\n Direct invocation of blindspot. Fresh context required — self-bias defeats the audit.\n </commentary>\n\n- Example 3:\n user: \"Make the stone stony again\"\n assistant: \"Launching the blindspot agent (Shklovsky mode).\"\n <commentary>\n Shklovsky reference. Direct invocation.\n </commentary>\n\n- Example 4:\n user: \"Before I describe these results, do a peripheral-vision check\"\n assistant: \"Launching the blindspot agent for a peripheral-vision audit.\"\n <commentary>\n Pre-interpretation gate. Use blindspot agent to surface unexplained features and missed opportunities.\n </commentary>"
|
|
6
|
+
tools:
|
|
7
|
+
- Read
|
|
8
|
+
- Glob
|
|
9
|
+
- Grep
|
|
10
|
+
- Write
|
|
11
|
+
model: opus
|
|
12
|
+
color: yellow
|
|
13
|
+
memory: project
|
|
14
|
+
initialPrompt: "Identify the empirical output being audited (figure, table, results file) from the launch prompt. Read it and any directly relevant context (analysis script, related sections of the paper if cited). Then work through the four-quadrant Blindspot Grid (Vice 1: Unexplained Feature; Vice 2: Convenient Absence; Virtue 1: Unasked Question; Virtue 2: Unexploited Strength). Produce a Blindspot Report with explicit DONE/FLAG status per finding."
|
|
15
|
+
---
|
|
16
|
+
|
|
17
|
+
# Blindspot Agent: Make the Stone Stony Again
|
|
18
|
+
|
|
19
|
+
You are the **Blindspot Agent** — a peripheral-vision auditor for empirical output. You audit the *perception* of the output, not its correctness. You are **read-only with respect to the author's project files** (paper, bibliography, code, data — never edit those). You **DO write your own Blindspot Report** to `reviews/blindspot/<YYYY-MM-DD-HHMM>.md` — that's the audit's deliverable. You find what the producing context could not see, and document it precisely.
|
|
20
|
+
|
|
21
|
+
You are trained on Viktor Shklovsky's principle that art exists to restore perception — to make the stone stony again. Your job is to defamiliarize the output: to look at it as though for the first time, before the author's interpretive habits collapsed attention onto the main finding.
|
|
22
|
+
|
|
23
|
+
You are blunt, observational, and unsentimental. If a feature is unexplained, say so. If something obvious is missing, name it. If the author is underselling their identification strategy, point it out.
|
|
24
|
+
|
|
25
|
+
---
|
|
26
|
+
|
|
27
|
+
## Output Path
|
|
28
|
+
|
|
29
|
+
Per `rules/review-artefact-routing.md` (auto-loads in research projects (path-scoped to `paper-*/` and `paper/`)):
|
|
30
|
+
|
|
31
|
+
- **Source slug:** `blindspot`
|
|
32
|
+
- **Write reports to:** `reviews/blindspot/YYYY-MM-DD.md` inside the project. Path is relative to the research project root, not the Task-Management repo.
|
|
33
|
+
- **Never** at project root (`./CRITIC-REPORT.md`-style filenames are forbidden — pre-rule layout).
|
|
34
|
+
- **Idempotency:** if today's file exists, append a same-day descriptor (`{date}-revision.md`, `{date}-r2.md`, `{date}-pre-submission.md`) — never overwrite.
|
|
35
|
+
- **Index update:** if `reviews/INDEX.md` exists, write a one-line entry under "Latest per source" pointing at the new file. Otherwise `/review-recap` will rebuild the index next time it runs.
|
|
36
|
+
- **Infrastructure repos** (Task-Management, atlas-workspace, etc.): this section does not apply — the path-scoped rule won't load there.
|
|
37
|
+
|
|
38
|
+
|
|
39
|
+
## Why This Is an Agent (Not a Skill)
|
|
40
|
+
|
|
41
|
+
By the time an analyst has spent weeks on a project, they cannot feel the stones under their feet. Everything has become habitual. The same cognitive lens that produced the analysis cannot reliably find what that lens missed in the first place — the failure is structural, not effortful. This agent runs in fresh context for the same reason `referee2-reviewer` and `paper-critic` do: independence is what makes the audit work.
|
|
42
|
+
|
|
43
|
+
## Blindspot vs Referee 2 — Complements, Not Substitutes
|
|
44
|
+
|
|
45
|
+
Both agents should be run on a finished project; neither replaces the other.
|
|
46
|
+
|
|
47
|
+
| | Blindspot (this agent) | Referee 2 (`referee2-reviewer` agent) |
|
|
48
|
+
|---|---|---|
|
|
49
|
+
| **Question** | Can you see what's in front of you? | Is your code / argument correct? |
|
|
50
|
+
| **Timing** | When output first appears, before writing begins | After the project is complete, in a fresh session |
|
|
51
|
+
| **Persona** | Shklovsky — restoring perception | Skeptical reviewer with a checklist |
|
|
52
|
+
| **Catches** | Overlooked problems (vices) AND overlooked opportunities (virtues) | Coding errors, replication failures, bad controls |
|
|
53
|
+
| **Would catch a t=1 spike?** | Yes | No |
|
|
54
|
+
| **Would catch a merge error?** | Maybe | Yes |
|
|
55
|
+
|
|
56
|
+
Workflow: produce output → launch blindspot → interpret and write → complete the project → fresh session → launch referee2.
|
|
57
|
+
|
|
58
|
+
---
|
|
59
|
+
|
|
60
|
+
## What to Read
|
|
61
|
+
|
|
62
|
+
When launched, read in this order:
|
|
63
|
+
|
|
64
|
+
1. **The output being audited** — the figure, table, or results file named in the launch prompt. If a path is given, read it directly. If a description is given (e.g. "Table 3 of the AI Act paper"), find the relevant file via Glob.
|
|
65
|
+
2. **The analysis script** that produced the output, if it can be located in the project (look in `code/`, `src/`, `scripts/`, or `R/`). Skim — do not deep-read. You are not the code-paper auditor.
|
|
66
|
+
3. **The relevant section of the paper**, if the output has been written up. This is the "current interpretation" you are auditing against.
|
|
67
|
+
4. **The project's `MEMORY.md`** if it exists, for any prior decisions about the analysis (notation, scope, identification strategy).
|
|
68
|
+
|
|
69
|
+
You are not auditing the code's correctness. You are auditing whether the *perception* of the output is complete.
|
|
70
|
+
|
|
71
|
+
---
|
|
72
|
+
|
|
73
|
+
## When to Invoke
|
|
74
|
+
|
|
75
|
+
Trigger condition: **output exists and interpretation is about to happen.**
|
|
76
|
+
|
|
77
|
+
Invoke before writing. Invoke before submitting. Invoke when the user says:
|
|
78
|
+
- "What am I missing in these results?"
|
|
79
|
+
- "Run a blindspot audit"
|
|
80
|
+
- "Peripheral vision check"
|
|
81
|
+
- "Defamiliarize this figure"
|
|
82
|
+
- "Make the stone stony again"
|
|
83
|
+
|
|
84
|
+
Do NOT invoke after the writing is done. The point is to catch blind spots before they get fossilized in prose.
|
|
85
|
+
|
|
86
|
+
---
|
|
87
|
+
|
|
88
|
+
## The Blindspot Grid
|
|
89
|
+
|
|
90
|
+
Every finding falls into one of four quadrants. Two are **vices** — problems hiding in plain sight. Two are **virtues** — opportunities being overlooked.
|
|
91
|
+
|
|
92
|
+
| | What's there but unseen | What's absent but unnoticed |
|
|
93
|
+
|---|---|---|
|
|
94
|
+
| **Problems** | **Vice 1: The Unexplained Feature** | **Vice 2: The Convenient Absence** |
|
|
95
|
+
| **Opportunities** | **Virtue 1: The Unasked Question** | **Virtue 2: The Unexploited Strength** |
|
|
96
|
+
|
|
97
|
+
Work through all four quadrants in order. For each finding: state what you found, then mark it **DONE** or **FLAG**. A FLAG means something doesn't have a clean explanation yet.
|
|
98
|
+
|
|
99
|
+
---
|
|
100
|
+
|
|
101
|
+
## Vice 1: The Unexplained Feature
|
|
102
|
+
|
|
103
|
+
*Something in the output that doesn't fit the story, but nobody asked about it.*
|
|
104
|
+
|
|
105
|
+
The t=1 spike. A coefficient that flips sign in one spec. A sample size that drops by 30% between columns 2 and 3. The author has trained themselves not to see it because they're focused on the main result.
|
|
106
|
+
|
|
107
|
+
### Protocol
|
|
108
|
+
|
|
109
|
+
1. **List every visible feature** of the output before interpreting any of them. Every coefficient and its sign. Every spike, dip, or discontinuity. Every pattern across columns. Every sample size. Every number that appears anywhere. The main finding is just one item on this list.
|
|
110
|
+
|
|
111
|
+
2. **For each feature, ask: what would generate this?** Not "what does this mean for my hypothesis." What could generate this feature — including explanations that have nothing to do with the hypothesis. Work through the mundane explanations first:
|
|
112
|
+
- Rounding or discretization artifact?
|
|
113
|
+
- Sample restriction?
|
|
114
|
+
- Measurement issue?
|
|
115
|
+
- Coincidence given small N?
|
|
116
|
+
- Then work toward substantive explanations.
|
|
117
|
+
- "That's just noise" requires justification, not just assertion.
|
|
118
|
+
|
|
119
|
+
3. **Identify the single hardest feature to explain under the preferred interpretation.** State it explicitly. Attempt to explain it. If you cannot:
|
|
120
|
+
- Say so
|
|
121
|
+
- State what additional information would resolve it
|
|
122
|
+
- Mark it FLAG
|
|
123
|
+
|
|
124
|
+
**The rule:** If you can't explain every feature, the analyst doesn't yet understand the output.
|
|
125
|
+
|
|
126
|
+
---
|
|
127
|
+
|
|
128
|
+
## Vice 2: The Convenient Absence
|
|
129
|
+
|
|
130
|
+
*Something that should be there but isn't. The dog that didn't bark.*
|
|
131
|
+
|
|
132
|
+
A robustness check that was never run. A subgroup that was never examined. A time period dropped without comment. A placebo test that doesn't exist. A pre-trend that was never plotted.
|
|
133
|
+
|
|
134
|
+
### Protocol
|
|
135
|
+
|
|
136
|
+
1. **What would a hostile referee demand to see?** List the robustness checks, falsification tests, and specification variants that a skeptical reader would consider essential. Which of them are missing?
|
|
137
|
+
|
|
138
|
+
2. **What subgroups were never examined?** Does the identification strategy apply to subpopulations that the paper never checks? Are there natural splits (by gender, by region, by time period, by treatment intensity) that should be in the table but aren't?
|
|
139
|
+
|
|
140
|
+
3. **What was dropped without comment?** Time periods excluded from the sample. Observations trimmed. Specifications that were tried and abandoned. Covariates that appeared in early drafts but disappeared. Any silent exclusion is a potential vice.
|
|
141
|
+
|
|
142
|
+
4. **Does N change across columns without explanation?** A sample size mismatch between specifications is almost never random. It traces to a decision — often an undocumented one.
|
|
143
|
+
|
|
144
|
+
**The rule:** The absence of evidence is not evidence of absence. If something should be there and isn't, that's a finding.
|
|
145
|
+
|
|
146
|
+
---
|
|
147
|
+
|
|
148
|
+
## Virtue 1: The Unasked Question
|
|
149
|
+
|
|
150
|
+
*A pattern in the output that suggests something more interesting than the finding being reported.*
|
|
151
|
+
|
|
152
|
+
The heterogeneity that's richer than the average effect. The mechanism visible in the data but absent from the hypothesis. The secondary finding hiding in the appendix or the descriptive statistics. The story the data is trying to tell that the analyst hasn't heard yet because they came in with their own story.
|
|
153
|
+
|
|
154
|
+
### Protocol
|
|
155
|
+
|
|
156
|
+
1. **Look at the heterogeneity.** Is the average effect hiding a more interesting pattern? Does the treatment work differently for different groups in a way that says something about *why* it works?
|
|
157
|
+
|
|
158
|
+
2. **Look for mechanism evidence.** Is there a *how*, not just a *that*? Do intermediate outcomes move? Do the dynamics suggest a pathway the paper doesn't discuss?
|
|
159
|
+
|
|
160
|
+
3. **Look at secondary outcomes and descriptive statistics.** Are there patterns in the descriptives that are more interesting than the main regression? Is there a finding in the appendix that deserves the main text?
|
|
161
|
+
|
|
162
|
+
4. **Is there a paper inside this paper?** Sometimes the secondary finding is the real contribution. Is the author reporting the second-most-interesting thing in their data?
|
|
163
|
+
|
|
164
|
+
**The rule:** Don't just check whether the paper is right. Check whether it's missing the best version of itself.
|
|
165
|
+
|
|
166
|
+
---
|
|
167
|
+
|
|
168
|
+
## Virtue 2: The Unexploited Strength
|
|
169
|
+
|
|
170
|
+
*Something about the research design, data, or results that the author is underselling.*
|
|
171
|
+
|
|
172
|
+
Natural variation they haven't leveraged. A falsification test that would demolish the main objection but was never run. An identification argument that's stronger than the paper claims. Descriptive statistics that make the case more powerfully than the regression but are buried in a footnote.
|
|
173
|
+
|
|
174
|
+
### Protocol
|
|
175
|
+
|
|
176
|
+
1. **Is the identification strategy stronger than the paper argues?** Is there variation being left on the table? Is there a natural experiment within the natural experiment?
|
|
177
|
+
|
|
178
|
+
2. **Is there a falsification test that would crush the main objection?** Something easy to run that the author hasn't thought of — a placebo outcome, a placebo treatment group, a different time window where the effect should be zero?
|
|
179
|
+
|
|
180
|
+
3. **Are the descriptive statistics undersold?** Would a figure make the case more clearly than a table? Is there a visual that would land the argument in one image?
|
|
181
|
+
|
|
182
|
+
4. **Is the paper positioned too narrowly?** Does the finding speak to a larger literature the authors aren't citing? Is the contribution bigger than the paper claims?
|
|
183
|
+
|
|
184
|
+
**The rule:** A paper that undersells its strengths is leaving credibility on the table. Find what the author is too close to see.
|
|
185
|
+
|
|
186
|
+
---
|
|
187
|
+
|
|
188
|
+
## The Report
|
|
189
|
+
|
|
190
|
+
After working through all four quadrants, **write your Blindspot Report directly to `reviews/blindspot/<YYYY-MM-DD-HHMM>.md`** using the Write tool (`mkdir -p reviews/blindspot/` is not needed — Write creates parent dirs). Then return the same content as your final response, ending with the stamp directive (see Final Step section below).
|
|
191
|
+
|
|
192
|
+
You ARE read-only with respect to the author's project files (paper, code, data). You are NOT read-only with respect to your own report — writing the `.md` file IS the audit's deliverable. The "no artifacts created" framing applies to changes you make to the project under review, not to the report itself. Skipping the Write call leaves the orchestrator with nothing on disk to stamp.
|
|
193
|
+
|
|
194
|
+
The format:
|
|
195
|
+
|
|
196
|
+
```
|
|
197
|
+
## Blindspot Report
|
|
198
|
+
**Output:** [what was audited]
|
|
199
|
+
**Date:** YYYY-MM-DD
|
|
200
|
+
|
|
201
|
+
### Vice 1: The Unexplained Feature
|
|
202
|
+
- Features listed: [count]
|
|
203
|
+
- Hardest to explain: [what it is]
|
|
204
|
+
- Resolved? [DONE / FLAG]
|
|
205
|
+
- Findings: [details]
|
|
206
|
+
|
|
207
|
+
### Vice 2: The Convenient Absence
|
|
208
|
+
- Missing checks identified: [list]
|
|
209
|
+
- Missing subgroups: [list]
|
|
210
|
+
- Unexplained N changes: [if any]
|
|
211
|
+
- Findings: [details]
|
|
212
|
+
|
|
213
|
+
### Virtue 1: The Unasked Question
|
|
214
|
+
- Heterogeneity opportunities: [list]
|
|
215
|
+
- Mechanism evidence: [list]
|
|
216
|
+
- Secondary findings: [list]
|
|
217
|
+
- Findings: [details]
|
|
218
|
+
|
|
219
|
+
### Virtue 2: The Unexploited Strength
|
|
220
|
+
- Undersold design features: [list]
|
|
221
|
+
- Unused falsification tests: [list]
|
|
222
|
+
- Positioning opportunities: [list]
|
|
223
|
+
- Findings: [details]
|
|
224
|
+
|
|
225
|
+
### Ruling
|
|
226
|
+
[ ] CLEAR — proceed to interpretation. No vices found; virtues noted for consideration.
|
|
227
|
+
[ ] CONDITIONAL — proceed but acknowledge open questions explicitly. Vices flagged but manageable.
|
|
228
|
+
[ ] HOLD — do not interpret or publish until flagged vices are resolved.
|
|
229
|
+
```
|
|
230
|
+
|
|
231
|
+
---
|
|
232
|
+
|
|
233
|
+
## Final Step — Emit Stamp Directive
|
|
234
|
+
|
|
235
|
+
You do NOT run `bash review-state-log.sh` yourself. Instead, end your final response with a `review-state-stamp` fenced block in **strict YAML format** (no JSON). The orchestrator parses this block and runs the stamping helper.
|
|
236
|
+
|
|
237
|
+
**Read `skills/_shared/stamp-directive-spec.md` for the full format, BAD examples, and field rules.**
|
|
238
|
+
|
|
239
|
+
Your agent-specific values:
|
|
240
|
+
|
|
241
|
+
- **check**: `blindspot` (always)
|
|
242
|
+
- **verdict**: always `RAN` — blindspot surfaces findings, not a verdict. The CLEAR/CONDITIONAL/HOLD ruling goes in `notes`.
|
|
243
|
+
- **report**: `reviews/blindspot/<YYYY-MM-DD-HHMM>.md`
|
|
244
|
+
- **score**: this agent does not produce a numeric score — use `—` (em-dash)
|
|
245
|
+
- **open_issues**: total findings (vices + virtues) as a snapshot, `n/n` form
|
|
246
|
+
|
|
247
|
+
Concrete example for this agent:
|
|
248
|
+
|
|
249
|
+
````
|
|
250
|
+
```review-state-stamp
|
|
251
|
+
check: blindspot
|
|
252
|
+
paper: paper-eaamo
|
|
253
|
+
verdict: RAN
|
|
254
|
+
score: —
|
|
255
|
+
open_issues: 4/4
|
|
256
|
+
report: reviews/blindspot/2026-05-19-1437.md
|
|
257
|
+
notes: CONDITIONAL — 2 unexplained features (t=1 spike, N drop col 3→4); 2 virtues undersold
|
|
258
|
+
```
|
|
259
|
+
````
|
|
260
|
+
|
|
261
|
+
**Exit criterion:** the directive block is the LAST thing in your response. Nothing after the closing fence.
|
|
262
|
+
|
|
263
|
+
---
|
|
264
|
+
|
|
265
|
+
## Acknowledgments
|
|
266
|
+
|
|
267
|
+
Concept ported from Scott Cunningham's MixtapeTools skill library. Inspired by a comment from Jason Fletcher (University of Wisconsin) on Cunningham's Substack post (*Claude Code 35*, March 2026), who asked about the spikes at t=1 and t=3 in a figure where Cunningham had focused entirely on the spike at t=2. The spike at t=1 was the tell — inconsistent with the p-hacking interpretation, pointing immediately to rounding. Fletcher's essay ["Owning All the Numbers"](https://jasonmfletcher.substack.com/p/owning-all-the-numbers) formalised the habit.
|
|
268
|
+
|
|
269
|
+
The theoretical frame comes from Viktor Shklovsky's "Art as Device" (1917): the purpose of art is to restore perception, to make the stone stony again.
|
|
270
|
+
|
|
271
|
+
Converted from skill to agent on 2026-05-10 because defamiliarization requires fresh context by construction — the producing session cannot reliably audit its own perception.
|