refactor(guide): restructure guide/ into thematic subdirectories
Reorganize 22 guide files from a flat directory into 5 thematic subdirs: - core/ (architecture, methodologies, known-issues, claude-code-releases, visual-reference) - security/ (security-hardening, sandbox-isolation, sandbox-native, production-safety, data-privacy) - ecosystem/ (ai-ecosystem, mcp-servers-ecosystem, third-party-tools, remarkable-ai) - roles/ (ai-roles, adoption-approaches, learning-with-ai, agent-evaluation) - ops/ (devops-sre, observability, ai-traceability) All internal links updated across ~50 files (ultimate-guide.md, workflows/, diagrams/, README.md, docs/, tools/, examples/, machine-readable/). Also: merge search-tools-cheatsheet.md into cheatsheet.md, rewrite guide/README.md with H2 grouped sections, update CLAUDE.md repository structure. Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
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Florian BRUNIAUX
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@ -9,7 +9,7 @@ updated: "2026-02-26"
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# ════════════════════════════════════════════════════════════════
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# DEEP DIVE - Line numbers in guide/ultimate-guide.md
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# Usage: Read file at line N for detailed documentation on topic
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# For architecture internals, see guide/architecture.md
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# For architecture internals, see guide/core/architecture.md
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# ════════════════════════════════════════════════════════════════
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deep_dive:
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# Visual Diagrams Series (40 Mermaid diagrams)
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@ -22,11 +22,11 @@ deep_dive:
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exploration_workflow: "guide/workflows/exploration-workflow.md"
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script_generation: "guide/workflows/iterative-refinement.md:200"
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anti_anchoring_prompts: "examples/semantic-anchors/anchor-catalog.md:248"
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session_limits: "guide/architecture.md:442"
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session_limits: "guide/core/architecture.md:442"
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claudemd_sizing: 3054
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scope_success_rates: "guide/adoption-approaches.md:26"
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scope_success_rates: "guide/roles/adoption-approaches.md:26"
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# Claude Code Releases
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claude_code_releases: "guide/claude-code-releases.md"
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claude_code_releases: "guide/core/claude-code-releases.md"
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claude_code_releases_yaml: "machine-readable/claude-code-releases.yaml"
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# Code Review Automation (Pat Cullen, Jan 2026)
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review_pr_advanced: "examples/commands/review-pr.md:81"
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@ -58,29 +58,29 @@ deep_dive:
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team_ai_instructions_token_savings: "59% context token reduction (measured, 5-dev team)"
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team_ai_instructions_threshold: "Team 5+ devs with multiple AI tools"
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# Known Issues & Critical Bugs (verified community reports)
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known_issues: "guide/known-issues.md"
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known_issues_github_bug: "guide/known-issues.md:7" # GitHub auto-creation bug
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known_issues_token_consumption: "guide/known-issues.md:105" # Excessive token usage
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known_issues_model_quality_aug2025: "guide/known-issues.md:197" # Resolved: Aug 2025 degradation
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known_issues: "guide/core/known-issues.md"
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known_issues_github_bug: "guide/core/known-issues.md:7" # GitHub auto-creation bug
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known_issues_token_consumption: "guide/core/known-issues.md:105" # Excessive token usage
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known_issues_model_quality_aug2025: "guide/core/known-issues.md:197" # Resolved: Aug 2025 degradation
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# Template Installation
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install_templates_script: "scripts/install-templates.sh"
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# Session management
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session_search: "guide/observability.md:38"
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session_search: "guide/ops/observability.md:38"
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session_search_script: "examples/scripts/session-search.sh"
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cc_sessions_script: "examples/scripts/cc-sessions.py"
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session_resume_limitations: "guide/observability.md:126"
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session_cross_folder_migration: "guide/observability.md:126"
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session_migration_manual: "guide/observability.md:126"
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session_migration_risks: "guide/observability.md:126"
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session_migration_community_tool: "guide/observability.md:52"
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session_resume_limitations: "guide/ops/observability.md:126"
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session_cross_folder_migration: "guide/ops/observability.md:126"
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session_migration_manual: "guide/ops/observability.md:126"
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session_migration_risks: "guide/ops/observability.md:126"
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session_migration_community_tool: "guide/ops/observability.md:52"
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session_migration_issue: "https://github.com/anthropics/claude-code/issues/1516"
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session_migration_weller_skill: "https://github.com/jimweller/dotfiles/tree/main/dotfiles/claude-code/skills/claude-migrate-session"
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# Activity monitoring
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activity_monitoring: "guide/observability.md:467" # Tool call audit via JSONL
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activity_monitoring_queries: "guide/observability.md:467" # jq queries for audit
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activity_monitoring_alerts: "guide/observability.md:467" # Sensitive pattern detection
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external_monitoring_tools: "guide/observability.md:527" # ccusage, claude-code-otel, Akto, MLflow, ccboard
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proxying_claude_code: "guide/observability.md:699" # Proxyman, mitmproxy, ANTHROPIC_API_URL
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activity_monitoring: "guide/ops/observability.md:467" # Tool call audit via JSONL
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activity_monitoring_queries: "guide/ops/observability.md:467" # jq queries for audit
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activity_monitoring_alerts: "guide/ops/observability.md:467" # Sensitive pattern detection
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external_monitoring_tools: "guide/ops/observability.md:527" # ccusage, claude-code-otel, Akto, MLflow, ccboard
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proxying_claude_code: "guide/ops/observability.md:699" # Proxyman, mitmproxy, ANTHROPIC_API_URL
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ccboard_activity_plan: "docs/resource-evaluations/ccboard-activity-module-plan.md"
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# Cost optimization - Local execution bridge
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bridge_script: "examples/scripts/bridge.py"
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@ -91,7 +91,7 @@ deep_dive:
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rtk_website: "https://www.rtk-ai.app/"
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rtk_evaluation: "docs/resource-evaluations/rtk-evaluation.md"
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rtk_guide: "guide/ultimate-guide.md:14553"
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rtk_third_party: "guide/third-party-tools.md:7"
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rtk_third_party: "guide/ecosystem/third-party-tools.md:7"
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rtk_claude_md: "examples/claude-md/rtk-optimized.md"
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rtk_skill: "examples/skills/rtk-optimizer/SKILL.md"
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rtk_hook: "examples/hooks/bash/rtk-auto-wrapper.sh"
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@ -100,7 +100,7 @@ deep_dive:
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rtk_score: "5/5"
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rtk_installation: "cargo install rtk or brew install rtk-ai/tap/rtk"
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# Google Antigravity (Agent-First IDE)
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antigravity_guide: "guide/ai-ecosystem.md:1366"
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antigravity_guide: "guide/ecosystem/ai-ecosystem.md:1366"
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antigravity_evaluation: "docs/resource-evaluations/google-antigravity-evaluation.md"
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antigravity_proxy: "https://www.npmjs.com/package/antigravity-claude-proxy"
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antigravity_codelabs: "https://codelabs.developers.google.com/getting-started-google-antigravity"
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@ -125,35 +125,35 @@ deep_dive:
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talk_pipeline_patterns: "skill chaining + file-based state + tool permission scoping + human-in-the-loop gate + AI-to-AI handoff (Claude → Kimi)"
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talk_pipeline_checkpoint: "Stage 4 CHECKPOINT: user selects angle + title before script starts"
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talk_pipeline_kimi: "kimi.com (free) — copy-paste Stage 5 prompt for AI slide generation"
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# reMarkable 2 + AI (guide/remarkable-ai.md)
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remarkable_ai_guide: "guide/remarkable-ai.md"
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remarkable_mcp_server: "guide/remarkable-ai.md#1-remarkable-mcp--le-game-changer"
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# reMarkable 2 + AI (guide/ecosystem/remarkable-ai.md)
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remarkable_ai_guide: "guide/ecosystem/remarkable-ai.md"
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remarkable_mcp_server: "guide/ecosystem/remarkable-ai.md#1-remarkable-mcp--le-game-changer"
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remarkable_mcp_repo: "https://github.com/SamMorrowDrums/remarkable-mcp"
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remarkable_ghostwriter: "guide/remarkable-ai.md#2-ghostwriter--interface-vision-llm"
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remarkable_obsidian_sync: "guide/remarkable-ai.md#3-sync-remarkable--obsidian"
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remarkable_ocr_pipeline: "guide/remarkable-ai.md#4-ocr--ai-pipeline-custom"
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remarkable_ssh_tools: "guide/remarkable-ai.md#5-accès-ssh-et-outils-communautaires"
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remarkable_meeting_workflow: "guide/remarkable-ai.md#10-meeting-notes--ai-summary"
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remarkable_workflows_to_build: "guide/remarkable-ai.md#14-workflows-ai-augmentés-à-construire"
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remarkable_getting_started: "guide/remarkable-ai.md#15-par-où-commencer"
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remarkable_ghostwriter: "guide/ecosystem/remarkable-ai.md#2-ghostwriter--interface-vision-llm"
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remarkable_obsidian_sync: "guide/ecosystem/remarkable-ai.md#3-sync-remarkable--obsidian"
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remarkable_ocr_pipeline: "guide/ecosystem/remarkable-ai.md#4-ocr--ai-pipeline-custom"
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remarkable_ssh_tools: "guide/ecosystem/remarkable-ai.md#5-accès-ssh-et-outils-communautaires"
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remarkable_meeting_workflow: "guide/ecosystem/remarkable-ai.md#10-meeting-notes--ai-summary"
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remarkable_workflows_to_build: "guide/ecosystem/remarkable-ai.md#14-workflows-ai-augmentés-à-construire"
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remarkable_getting_started: "guide/ecosystem/remarkable-ai.md#15-par-où-commencer"
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remarkable_community: "https://github.com/reHackable/awesome-reMarkable"
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# Whitepapers (FR + EN) — 9 focused whitepapers on Claude Code
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whitepapers_url: "https://www.florian.bruniaux.com/guides"
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whitepapers_fr: "whitepapers/fr/" # FR sources (Quarto .qmd)
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whitepapers_en: "whitepapers/en/" # EN sources (Quarto .qmd)
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whitepapers_topics: "foundations, prompting, customization, security, architecture, team, privacy, reference, agent-teams"
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# Learning with AI (guide/learning-with-ai.md)
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learning_quick_check: "guide/learning-with-ai.md:38"
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learning_uval_protocol: "guide/learning-with-ai.md:218"
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learning_claude_config: "guide/learning-with-ai.md:458"
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learning_breaking_dependency: "guide/learning-with-ai.md:575"
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learning_embracing_ai: "guide/learning-with-ai.md:623"
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learning_30day_plan: "guide/learning-with-ai.md:815"
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learning_red_flags: "guide/learning-with-ai.md:612"
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# Learning with AI (guide/roles/learning-with-ai.md)
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learning_quick_check: "guide/roles/learning-with-ai.md:38"
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learning_uval_protocol: "guide/roles/learning-with-ai.md:218"
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learning_claude_config: "guide/roles/learning-with-ai.md:458"
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learning_breaking_dependency: "guide/roles/learning-with-ai.md:575"
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learning_embracing_ai: "guide/roles/learning-with-ai.md:623"
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learning_30day_plan: "guide/roles/learning-with-ai.md:815"
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learning_red_flags: "guide/roles/learning-with-ai.md:612"
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# Productivity Research RCTs
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productivity_rct_metr: "guide/learning-with-ai.md:925" # METR 2025: experienced devs 19% slower on large codebases despite perceiving 20% faster
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productivity_rct_echoes: "guide/learning-with-ai.md:926" # Borg 2025: 30.7% faster (median), ~55.9% habitual users, no maintainability impact downstream
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productivity_maintainability_empirical: "guide/learning-with-ai.md:926" # Empirical data on "AI code is unmaintainable" claim — blind RCT shows no significant difference
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productivity_rct_metr: "guide/roles/learning-with-ai.md:925" # METR 2025: experienced devs 19% slower on large codebases despite perceiving 20% faster
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productivity_rct_echoes: "guide/roles/learning-with-ai.md:926" # Borg 2025: 30.7% faster (median), ~55.9% habitual users, no maintainability impact downstream
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productivity_maintainability_empirical: "guide/roles/learning-with-ai.md:926" # Empirical data on "AI code is unmaintainable" claim — blind RCT shows no significant difference
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trust_calibration_maintainability_nuance: "guide/ultimate-guide.md:1097" # Nuance: defect rates ≠ maintenance burden (Borg et al. 2025)
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learning_mode_template: "examples/claude-md/learning-mode.md"
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learn_quiz_command: "examples/commands/learn/quiz.md"
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@ -161,23 +161,23 @@ deep_dive:
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learn_alternatives_command: "examples/commands/learn/alternatives.md"
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learning_capture_hook: "examples/hooks/bash/learning-capture.sh"
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# Anti-patterns
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vibe_coding_trap: "guide/learning-with-ai.md:87"
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vibe_coding_trap: "guide/roles/learning-with-ai.md:87"
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vibe_coding_context_overload: 13097
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vibe_coding_context_overload_source: "Jens Rusitschka, 'Vibe Coding, Level 2' (Jan 2026)"
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vibe_coding_phased_strategy: 13097
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# AI Traceability & Attribution (guide/ai-traceability.md) - Added 2026-01-24
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ai_traceability_guide: "guide/ai-traceability.md"
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ai_traceability_why: "guide/ai-traceability.md:29"
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ai_traceability_disclosure_spectrum: "guide/ai-traceability.md:64"
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ai_traceability_co_authored_by: "guide/ai-traceability.md:98"
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ai_traceability_assisted_by: "guide/ai-traceability.md:120"
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ai_traceability_git_ai: "guide/ai-traceability.md:170"
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ai_traceability_llvm_policy: "guide/ai-traceability.md:201"
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ai_traceability_ghostty_policy: "guide/ai-traceability.md:236"
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ai_traceability_fedora_policy: "guide/ai-traceability.md:261"
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ai_traceability_promptpwnd: "guide/ai-traceability.md:501"
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ai_traceability_implementation: "guide/ai-traceability.md:566"
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ai_traceability_templates: "guide/ai-traceability.md:648"
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# AI Traceability & Attribution (guide/ops/ai-traceability.md) - Added 2026-01-24
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ai_traceability_guide: "guide/ops/ai-traceability.md"
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ai_traceability_why: "guide/ops/ai-traceability.md:29"
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ai_traceability_disclosure_spectrum: "guide/ops/ai-traceability.md:64"
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ai_traceability_co_authored_by: "guide/ops/ai-traceability.md:98"
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ai_traceability_assisted_by: "guide/ops/ai-traceability.md:120"
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ai_traceability_git_ai: "guide/ops/ai-traceability.md:170"
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ai_traceability_llvm_policy: "guide/ops/ai-traceability.md:201"
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ai_traceability_ghostty_policy: "guide/ops/ai-traceability.md:236"
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ai_traceability_fedora_policy: "guide/ops/ai-traceability.md:261"
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ai_traceability_promptpwnd: "guide/ops/ai-traceability.md:501"
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ai_traceability_implementation: "guide/ops/ai-traceability.md:566"
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ai_traceability_templates: "guide/ops/ai-traceability.md:648"
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# AI Disclosure Templates
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ai_disclosure_contributing: "examples/config/CONTRIBUTING-ai-disclosure.md"
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ai_disclosure_pr_template: "examples/config/PULL_REQUEST_TEMPLATE-ai.md"
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@ -187,15 +187,15 @@ deep_dive:
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tts_voice_catalog: "examples/integrations/agent-vibes/voice-catalog.md"
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tts_troubleshooting: "examples/integrations/agent-vibes/troubleshooting.md"
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tts_workflow: "guide/workflows/tts-setup.md"
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tts_ai_ecosystem: "guide/ai-ecosystem.md:1124"
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tts_ai_ecosystem: "guide/ecosystem/ai-ecosystem.md:1124"
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tts_hook_example: "examples/hooks/bash/tts-selective.sh"
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tts_claude_md_template: "examples/claude-md/tts-enabled.md"
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# Sandbox Isolation for Coding Agents (guide/sandbox-isolation.md) - Added 2026-01-31
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sandbox_isolation_guide: "guide/sandbox-isolation.md"
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sandbox_isolation_decision_tree: "guide/sandbox-isolation.md:7"
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sandbox_docker_sandboxes: "guide/sandbox-isolation.md:67"
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sandbox_docker_network: "guide/sandbox-isolation.md:121"
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sandbox_docker_templates: "guide/sandbox-isolation.md:165"
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# Sandbox Isolation for Coding Agents (guide/security/sandbox-isolation.md) - Added 2026-01-31
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sandbox_isolation_guide: "guide/security/sandbox-isolation.md"
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sandbox_isolation_decision_tree: "guide/security/sandbox-isolation.md:7"
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sandbox_docker_sandboxes: "guide/security/sandbox-isolation.md:67"
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sandbox_docker_network: "guide/security/sandbox-isolation.md:121"
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sandbox_docker_templates: "guide/security/sandbox-isolation.md:165"
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sandbox_docker_docs: "https://docs.docker.com/ai/sandboxes/"
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sandbox_docker_claude_config: "https://docs.docker.com/ai/sandboxes/claude-code/"
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sandbox_docker_network_docs: "https://docs.docker.com/ai/sandboxes/network-policies/"
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@ -204,26 +204,26 @@ deep_dive:
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sandbox_cloudflare_sdk: "https://developers.cloudflare.com/sandbox/tutorials/claude-code/"
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sandbox_vercel: "https://vercel.com/docs/vercel-sandbox/"
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sandbox_e2b: "https://e2b.dev"
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sandbox_native_cc: "guide/architecture.md:606"
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sandbox_native_cc: "guide/core/architecture.md:606"
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# Native Claude Code Sandbox (Official docs, v2.1.0+) - Added 2026-02-02
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sandbox_native_guide: "guide/sandbox-native.md"
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sandbox_native_why: "guide/sandbox-native.md:47" # Why Native Sandboxing
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sandbox_native_os_primitives: "guide/sandbox-native.md:68" # Seatbelt vs bubblewrap
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sandbox_native_filesystem: "guide/sandbox-native.md:178" # Filesystem isolation
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sandbox_native_network: "guide/sandbox-native.md:221" # Network proxy architecture
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sandbox_native_modes: "guide/sandbox-native.md:7" # Auto-allow vs Regular
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sandbox_native_escape_hatch: "guide/sandbox-native.md:341" # dangerouslyDisableSandbox
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sandbox_native_security_limits: "guide/sandbox-native.md:396" # Domain fronting, Unix sockets
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sandbox_native_opensource: "guide/sandbox-native.md:481" # Open-source runtime
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sandbox_native_platforms: "guide/sandbox-native.md:505" # Platform support
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sandbox_native_decision_tree: "guide/sandbox-native.md:517" # Native vs Docker
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sandbox_native_config_examples: "guide/sandbox-native.md:564" # Configuration examples
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sandbox_native_best_practices: "guide/sandbox-native.md:637" # Best practices
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sandbox_native_troubleshooting: "guide/sandbox-native.md:650" # Troubleshooting
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sandbox_native_guide: "guide/security/sandbox-native.md"
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sandbox_native_why: "guide/security/sandbox-native.md:47" # Why Native Sandboxing
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sandbox_native_os_primitives: "guide/security/sandbox-native.md:68" # Seatbelt vs bubblewrap
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sandbox_native_filesystem: "guide/security/sandbox-native.md:178" # Filesystem isolation
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sandbox_native_network: "guide/security/sandbox-native.md:221" # Network proxy architecture
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sandbox_native_modes: "guide/security/sandbox-native.md:7" # Auto-allow vs Regular
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sandbox_native_escape_hatch: "guide/security/sandbox-native.md:341" # dangerouslyDisableSandbox
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sandbox_native_security_limits: "guide/security/sandbox-native.md:396" # Domain fronting, Unix sockets
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sandbox_native_opensource: "guide/security/sandbox-native.md:481" # Open-source runtime
|
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sandbox_native_platforms: "guide/security/sandbox-native.md:505" # Platform support
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sandbox_native_decision_tree: "guide/security/sandbox-native.md:517" # Native vs Docker
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sandbox_native_config_examples: "guide/security/sandbox-native.md:564" # Configuration examples
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sandbox_native_best_practices: "guide/security/sandbox-native.md:637" # Best practices
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sandbox_native_troubleshooting: "guide/security/sandbox-native.md:650" # Troubleshooting
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sandbox_runtime_oss: "https://github.com/anthropic-experimental/sandbox-runtime"
|
||||
sandbox_runtime_npm: "https://www.npmjs.com/package/@anthropic-ai/sandbox-runtime"
|
||||
sandbox_official_docs: "https://code.claude.com/docs/en/sandboxing"
|
||||
sandbox_comparison_native_docker: "guide/sandbox-isolation.md:238" # Section 4 Native CC
|
||||
sandbox_comparison_native_docker: "guide/security/sandbox-isolation.md:238" # Section 4 Native CC
|
||||
sandbox_native_evaluation: "docs/resource-evaluations/native-sandbox-official-docs.md"
|
||||
sandbox_native_score: "5/5"
|
||||
# Templates (Added 2026-02-02)
|
||||
|
|
@ -232,19 +232,19 @@ deep_dive:
|
|||
sandbox_validation_hook: "examples/hooks/bash/sandbox-validation.sh"
|
||||
# Docker Sandboxes (existing)
|
||||
sandbox_evaluation: "docs/resource-evaluations/docker-sandboxes-isolation.md"
|
||||
sandbox_safe_autonomy: "guide/sandbox-isolation.md:496" # Safe Autonomy Workflows
|
||||
sandbox_anti_patterns: "guide/sandbox-isolation.md:546" # Anti-Patterns
|
||||
sandbox_comparison_matrix: "guide/sandbox-isolation.md:477" # Comparison Matrix
|
||||
sandbox_safe_autonomy: "guide/security/sandbox-isolation.md:496" # Safe Autonomy Workflows
|
||||
sandbox_anti_patterns: "guide/security/sandbox-isolation.md:546" # Anti-Patterns
|
||||
sandbox_comparison_matrix: "guide/security/sandbox-isolation.md:477" # Comparison Matrix
|
||||
sandbox_score: "4/5"
|
||||
# Third-Party Tools (guide/third-party-tools.md) - Added 2026-02-01
|
||||
third_party_tools_guide: "guide/third-party-tools.md"
|
||||
third_party_tools_cost_tracking: "guide/third-party-tools.md:42"
|
||||
third_party_tools_rtk: "guide/third-party-tools.md:7"
|
||||
third_party_tools_session_mgmt: "guide/third-party-tools.md:126"
|
||||
third_party_tools_config_mgmt: "guide/third-party-tools.md:214"
|
||||
third_party_tools_alternative_uis: "guide/third-party-tools.md:259"
|
||||
third_party_tools_known_gaps: "guide/third-party-tools.md:375"
|
||||
third_party_tools_recommendations: "guide/third-party-tools.md:391"
|
||||
# Third-Party Tools (guide/ecosystem/third-party-tools.md) - Added 2026-02-01
|
||||
third_party_tools_guide: "guide/ecosystem/third-party-tools.md"
|
||||
third_party_tools_cost_tracking: "guide/ecosystem/third-party-tools.md:42"
|
||||
third_party_tools_rtk: "guide/ecosystem/third-party-tools.md:7"
|
||||
third_party_tools_session_mgmt: "guide/ecosystem/third-party-tools.md:126"
|
||||
third_party_tools_config_mgmt: "guide/ecosystem/third-party-tools.md:214"
|
||||
third_party_tools_alternative_uis: "guide/ecosystem/third-party-tools.md:259"
|
||||
third_party_tools_known_gaps: "guide/ecosystem/third-party-tools.md:375"
|
||||
third_party_tools_recommendations: "guide/ecosystem/third-party-tools.md:391"
|
||||
third_party_ccusage: "https://www.npmjs.com/package/ccusage"
|
||||
third_party_ccusage_site: "https://ccusage.com"
|
||||
third_party_ccburn: "https://github.com/JuanjoFuchs/ccburn"
|
||||
|
|
@ -291,18 +291,18 @@ deep_dive:
|
|||
permissions_deny_known_limitation: "background indexing may expose via system reminders before checks — GitHub #4160"
|
||||
permissions_deny_defense_in_depth: "store secrets outside project dir for guaranteed protection"
|
||||
# Visual Reference (ASCII diagrams)
|
||||
visual_reference: "guide/visual-reference.md"
|
||||
# Architecture internals (guide/architecture.md)
|
||||
architecture_visual_overview: "guide/architecture.md:51"
|
||||
visual_reference: "guide/core/visual-reference.md"
|
||||
# Architecture internals (guide/core/architecture.md)
|
||||
architecture_visual_overview: "guide/core/architecture.md:51"
|
||||
architecture_visual_source: "https://www.linkedin.com/posts/mohamed-ali-ben-salem-2b777b9a_en-ce-moment-je-vois-passer-des-posts-du-activity-7420592149110362112-eY5a"
|
||||
architecture_master_loop: "guide/architecture.md:82"
|
||||
architecture_tools: "guide/architecture.md:219"
|
||||
architecture_context: "guide/architecture.md:312"
|
||||
architecture_subagents: "guide/architecture.md:471"
|
||||
architecture_permissions: "guide/architecture.md:541"
|
||||
architecture_mcp: "guide/architecture.md:746"
|
||||
architecture_master_loop: "guide/core/architecture.md:82"
|
||||
architecture_tools: "guide/core/architecture.md:219"
|
||||
architecture_context: "guide/core/architecture.md:312"
|
||||
architecture_subagents: "guide/core/architecture.md:471"
|
||||
architecture_permissions: "guide/core/architecture.md:541"
|
||||
architecture_mcp: "guide/core/architecture.md:746"
|
||||
architecture_mcp_visual: "guide/images/mcp-architecture-diagram.svg"
|
||||
architecture_philosophy: "guide/architecture.md:1205"
|
||||
architecture_philosophy: "guide/core/architecture.md:1205"
|
||||
# Official LLM-Optimized Documentation - Added 2026-02-25
|
||||
official_llms_index: "https://code.claude.com/docs/llms.txt" # Index ~65 pages, ~15-20K tokens — use first for discovery
|
||||
official_llms_full: "https://code.claude.com/docs/llms-full.txt" # Full doc ~98KB, ~25-30K tokens — source de vérité officielle
|
||||
|
|
@ -310,9 +310,9 @@ deep_dive:
|
|||
system_prompts_official: "https://platform.claude.com/docs/en/release-notes/system-prompts"
|
||||
system_prompts_willison_analysis: "https://simonwillison.net/2025/May/25/claude-4-system-prompt/"
|
||||
system_prompts_prompthub: "https://www.prompthub.us/blog/an-analysis-of-the-claude-4-system-prompt"
|
||||
system_prompts_architecture: "guide/architecture.md:360"
|
||||
system_prompts_architecture: "guide/core/architecture.md:360"
|
||||
# MCP Apps Extension (SEP-1865) - Added 2026-01-27
|
||||
mcp_apps_architecture: "guide/architecture.md:753"
|
||||
mcp_apps_architecture: "guide/core/architecture.md:753"
|
||||
mcp_apps_evolution: "guide/ultimate-guide.md:9252"
|
||||
mcp_apps_spec: "https://github.com/modelcontextprotocol/ext-apps"
|
||||
mcp_apps_blog_mcp: "https://blog.modelcontextprotocol.io/posts/2026-01-26-mcp-apps/"
|
||||
|
|
@ -534,16 +534,16 @@ deep_dive:
|
|||
- "Linear MCP: ~9.5k installs (issue tracking)"
|
||||
plugins_awesome_list: "https://github.com/hesreallyhim/awesome-claude-code"
|
||||
plugins_awesome_list_stars: "20k+"
|
||||
chain_of_verification: "guide/methodologies.md:230"
|
||||
chain_of_verification: "guide/core/methodologies.md:230"
|
||||
chain_of_verification_paper: "https://arxiv.org/abs/2309.11495"
|
||||
chain_of_verification_acl: "https://aclanthology.org/2024.findings-acl.212/"
|
||||
# Verification Loops & Eval Harness (added 2026-01-23)
|
||||
verification_loops: "guide/methodologies.md:245"
|
||||
verification_loops: "guide/core/methodologies.md:245"
|
||||
verification_loops_source: "https://www.anthropic.com/engineering/claude-code-best-practices"
|
||||
eval_harness: "guide/methodologies.md:289"
|
||||
eval_harness: "guide/core/methodologies.md:289"
|
||||
eval_harness_source: "https://www.anthropic.com/engineering/demystifying-evals-for-ai-agents"
|
||||
# GSD (Get Shit Done) methodology (added 2026-01-25)
|
||||
gsd_methodology: "guide/methodologies.md:53"
|
||||
gsd_methodology: "guide/core/methodologies.md:53"
|
||||
gsd_evaluation: "docs/resource-evaluations/gsd-evaluation.md"
|
||||
gsd_source: "https://github.com/glittercowboy/get-shit-done"
|
||||
gsd_note: "Overlap with existing patterns (Ralph Loop, Gas Town, BMAD)"
|
||||
|
|
@ -572,35 +572,35 @@ deep_dive:
|
|||
audit_agents_skills_industry_context: "29.5% deploy without evaluation (LangChain 2026), 18% cite agent bugs as top challenge"
|
||||
audit_agents_skills_guide_refs: "guide/ultimate-guide.md:4951 (after Agent Validation Checklist), guide/ultimate-guide.md:5495 (after Skill Validation)"
|
||||
# Practitioner Insights (external validation)
|
||||
practitioner_insights: "guide/ai-ecosystem.md:2170"
|
||||
practitioner_dave_van_veen: "guide/ai-ecosystem.md:2174"
|
||||
practitioner_matteo_collina: "guide/ai-ecosystem.md:2203"
|
||||
practitioner_insights: "guide/ecosystem/ai-ecosystem.md:2170"
|
||||
practitioner_dave_van_veen: "guide/ecosystem/ai-ecosystem.md:2174"
|
||||
practitioner_matteo_collina: "guide/ecosystem/ai-ecosystem.md:2203"
|
||||
# Outcome Engineering (o16g) - Emerging manifesto (2026-02-13)
|
||||
outcome_engineering_o16g: "guide/ai-ecosystem.md:2366"
|
||||
outcome_engineering_o16g: "guide/ecosystem/ai-ecosystem.md:2366"
|
||||
outcome_engineering_url: "https://o16g.com/"
|
||||
outcome_engineering_author: "Cory Ondrejka (CTO Onebrief, co-creator Second Life, ex-VP Google/Meta)"
|
||||
outcome_engineering_status: "Emerging - on watch list for community adoption"
|
||||
practitioner_collina_source: "https://adventures.nodeland.dev/archive/the-human-in-the-loop/"
|
||||
practitioner_steinberger: "guide/ai-ecosystem.md:2242"
|
||||
practitioner_steinberger: "guide/ecosystem/ai-ecosystem.md:2242"
|
||||
practitioner_steinberger_source: "https://steipete.me/posts/2025/shipping-at-inference-speed"
|
||||
practitioner_addy_osmani: "guide/ai-ecosystem.md:2269"
|
||||
practitioner_addy_osmani: "guide/ecosystem/ai-ecosystem.md:2269"
|
||||
practitioner_osmani_source: "https://addyo.substack.com/p/the-80-problem-in-agentic-coding"
|
||||
practitioner_alan: "guide/ai-ecosystem.md:2299"
|
||||
practitioner_alan: "guide/ecosystem/ai-ecosystem.md:2299"
|
||||
practitioner_alan_source: "https://www.linkedin.com/pulse/le-principe-de-la-tour-eiffel-et-ralph-wiggum-maxime-le-bras-psmxe/"
|
||||
verification_paradox: "guide/production-safety.md:639"
|
||||
verification_paradox: "guide/security/production-safety.md:639"
|
||||
verification_paradox_source: "https://www.linkedin.com/pulse/le-principe-de-la-tour-eiffel-et-ralph-wiggum-maxime-le-bras-psmxe/"
|
||||
eighty_percent_problem: "guide/ai-ecosystem.md:2269"
|
||||
comprehension_debt_secondary: "guide/ai-ecosystem.md:2269" # See also: vibe_coding_trap (primary)
|
||||
# DevOps/SRE Guide (guide/devops-sre.md)
|
||||
devops_sre_guide: "guide/devops-sre.md"
|
||||
devops_fire_framework: "guide/devops-sre.md:46"
|
||||
devops_k8s_troubleshooting: "guide/devops-sre.md:129"
|
||||
devops_k8s_prompts: "guide/devops-sre.md:151"
|
||||
devops_incident_response: "guide/devops-sre.md:333"
|
||||
devops_iac_patterns: "guide/devops-sre.md:504"
|
||||
devops_guardrails: "guide/devops-sre.md:687"
|
||||
devops_limitations: "guide/devops-sre.md:297"
|
||||
devops_quick_reference: "guide/devops-sre.md:794"
|
||||
eighty_percent_problem: "guide/ecosystem/ai-ecosystem.md:2269"
|
||||
comprehension_debt_secondary: "guide/ecosystem/ai-ecosystem.md:2269" # See also: vibe_coding_trap (primary)
|
||||
# DevOps/SRE Guide (guide/ops/devops-sre.md)
|
||||
devops_sre_guide: "guide/ops/devops-sre.md"
|
||||
devops_fire_framework: "guide/ops/devops-sre.md:46"
|
||||
devops_k8s_troubleshooting: "guide/ops/devops-sre.md:129"
|
||||
devops_k8s_prompts: "guide/ops/devops-sre.md:151"
|
||||
devops_incident_response: "guide/ops/devops-sre.md:333"
|
||||
devops_iac_patterns: "guide/ops/devops-sre.md:504"
|
||||
devops_guardrails: "guide/ops/devops-sre.md:687"
|
||||
devops_limitations: "guide/ops/devops-sre.md:297"
|
||||
devops_quick_reference: "guide/ops/devops-sre.md:794"
|
||||
devops_agent: "examples/agents/devops-sre.md"
|
||||
devops_claude_md: "examples/claude-md/devops-sre.md"
|
||||
# Product Designer (design-to-code workflow)
|
||||
|
|
@ -691,19 +691,19 @@ deep_dive:
|
|||
author: "Steve Yegge"
|
||||
description: "Multi-agent workspace manager using Claude Code instances"
|
||||
status: "Experimental (Jan 2026)"
|
||||
guide_section: "guide/ai-ecosystem.md:850"
|
||||
guide_section: "guide/ecosystem/ai-ecosystem.md:850"
|
||||
multiclaude:
|
||||
repo: "https://github.com/dlorenc/multiclaude"
|
||||
author: "dlorenc"
|
||||
description: "Self-hosted multi-agent Claude Code spawner (tmux + git worktrees)"
|
||||
status: "Active development (Jan 2026, 383 stars)"
|
||||
guide_section: "guide/ai-ecosystem.md:850"
|
||||
guide_section: "guide/ecosystem/ai-ecosystem.md:850"
|
||||
agent_chat:
|
||||
repo: "https://github.com/justinabrahms/agent-chat"
|
||||
author: "Justin Abrahms"
|
||||
description: "Real-time monitoring UI for Gas Town and multiclaude (SSE + SQLite)"
|
||||
status: "Early preview (Jan 2026, v0.2.0)"
|
||||
guide_section: "guide/ai-ecosystem.md:850"
|
||||
guide_section: "guide/ecosystem/ai-ecosystem.md:850"
|
||||
# External research & alignment tools
|
||||
external_research:
|
||||
claude_constitution:
|
||||
|
|
@ -713,7 +713,7 @@ deep_dive:
|
|||
description: "Claude's Constitutional AI framework - value hierarchy (safety > ethics > compliance > utility)"
|
||||
license: "CC0 1.0 (public domain)"
|
||||
published: "2026-01-21"
|
||||
guide_section: "guide/data-privacy.md:296"
|
||||
guide_section: "guide/security/data-privacy.md:296"
|
||||
petri_v2:
|
||||
repo: "https://github.com/safety-research/petri"
|
||||
blog: "https://alignment.anthropic.com/2026/petri-v2/"
|
||||
|
|
@ -830,7 +830,7 @@ deep_dive:
|
|||
spec_osmani_score: "4/5"
|
||||
spec_task_granularity: "guide/workflows/spec-first.md:62" # Vertical slices + PRD checklist (Allan Hill, Feb 2026)
|
||||
spec_prd_checklist: "guide/workflows/spec-first.md:68" # 6-dimension PRD quality checklist
|
||||
atdd_with_agents: "guide/methodologies.md:161" # ATDD + Gherkin for agentic workflows
|
||||
atdd_with_agents: "guide/core/methodologies.md:161" # ATDD + Gherkin for agentic workflows
|
||||
commands_table: 47
|
||||
shortcuts_table: 368
|
||||
troubleshooting: 11311
|
||||
|
|
@ -842,23 +842,23 @@ deep_dive:
|
|||
ai_ecosystem_tool_matrix: 20031
|
||||
ai_ecosystem_workflows: 20166
|
||||
ai_ecosystem_integration: 20294
|
||||
ai_ecosystem_detailed: "guide/ai-ecosystem.md"
|
||||
ai_ecosystem_goose: "guide/ai-ecosystem.md:2074"
|
||||
ai_ecosystem_goose_comparison: "guide/ai-ecosystem.md:2090"
|
||||
ai_ecosystem_context_packing: "guide/ai-ecosystem.md:2533"
|
||||
ai_ecosystem_multi_ide_sync: "guide/ai-ecosystem.md:1282"
|
||||
agents_md_support_status: "guide/ai-ecosystem.md:1348"
|
||||
ai_ecosystem_build_vs_use: "guide/ai-ecosystem.md:2399" # Section 11.3 - When to Build vs Use (ADK, LangChain, Vercel AI SDK)
|
||||
ai_ecosystem_detailed: "guide/ecosystem/ai-ecosystem.md"
|
||||
ai_ecosystem_goose: "guide/ecosystem/ai-ecosystem.md:2074"
|
||||
ai_ecosystem_goose_comparison: "guide/ecosystem/ai-ecosystem.md:2090"
|
||||
ai_ecosystem_context_packing: "guide/ecosystem/ai-ecosystem.md:2533"
|
||||
ai_ecosystem_multi_ide_sync: "guide/ecosystem/ai-ecosystem.md:1282"
|
||||
agents_md_support_status: "guide/ecosystem/ai-ecosystem.md:1348"
|
||||
ai_ecosystem_build_vs_use: "guide/ecosystem/ai-ecosystem.md:2399" # Section 11.3 - When to Build vs Use (ADK, LangChain, Vercel AI SDK)
|
||||
# Architecture Diagrams as Context (advanced pattern) - Added 2026-01-25
|
||||
architecture_diagrams_input: "guide/ai-ecosystem.md:2567"
|
||||
architecture_diagrams_input: "guide/ecosystem/ai-ecosystem.md:2567"
|
||||
architecture_diagrams_mcp_tools:
|
||||
- "Archy MCP: https://www.pulsemcp.com/servers/phxdev1-archy"
|
||||
- "Mermaid MCP: 61.4K users"
|
||||
- "Blueprint MCP (ArcadeAI)"
|
||||
llm_oop_research: "https://dl.acm.org/doi/10.1145/3639474.3640052"
|
||||
architecture_diagrams_source: "https://www.linkedin.com/posts/tigraff_uml-claude-wibecoding-activity-7420595633826258944-gGO5"
|
||||
ai_ecosystem_voice_to_text: "guide/ai-ecosystem.md:1066"
|
||||
ai_ecosystem_alternative_providers: "guide/ai-ecosystem.md:2639"
|
||||
ai_ecosystem_voice_to_text: "guide/ecosystem/ai-ecosystem.md:1066"
|
||||
ai_ecosystem_alternative_providers: "guide/ecosystem/ai-ecosystem.md:2639"
|
||||
voice_refine_skill: "examples/skills/voice-refine/SKILL.md"
|
||||
# Cowork documentation (v1.0 - migrated to dedicated repo)
|
||||
cowork_reference: "machine-readable/cowork-reference.yaml" # Dedicated YAML index (kept local)
|
||||
|
|
@ -874,7 +874,7 @@ deep_dive:
|
|||
cowork_faq: "https://github.com/FlorianBruniaux/claude-cowork-guide/blob/main/reference/faq.md"
|
||||
cowork_prompts: "https://github.com/FlorianBruniaux/claude-cowork-guide/tree/main/prompts"
|
||||
cowork_workflows: "https://github.com/FlorianBruniaux/claude-cowork-guide/tree/main/workflows"
|
||||
cowork_section: "guide/ai-ecosystem.md:1809"
|
||||
cowork_section: "guide/ecosystem/ai-ecosystem.md:1809"
|
||||
cowork_ultimate_guide: 20348
|
||||
# Experimental Features
|
||||
teammatetool: 3976
|
||||
|
|
@ -914,25 +914,25 @@ deep_dive:
|
|||
workflow: 58 # Workflow (9 steps)
|
||||
fix: 11948 # Troubleshooting section
|
||||
architecture: 919 # Architecture internals
|
||||
production_safety: "guide/production-safety.md" # Production safety rules
|
||||
security_hardening: "guide/security-hardening.md" # Security best practices
|
||||
security_cve_summary: "guide/security-hardening.md:15" # Decision Matrix + CVEs
|
||||
security_supply_chain_stats: "guide/security-hardening.md:137" # Agent Skills Supply Chain Risks
|
||||
security_mcp_scan_tool: "guide/security-hardening.md:32" # MCP Vetting Workflow
|
||||
security_malicious_extensions: "guide/security-hardening.md:252" # .claude/ attack surface (§1.5)
|
||||
security_kill_switch: "guide/security-hardening.md:630" # AI Kill Switch & Containment Architecture (§3.5)
|
||||
security_claude_folder_audit: "guide/security-hardening.md:228" # Repository Pre-Scan (§1.4)
|
||||
production_safety: "guide/security/production-safety.md" # Production safety rules
|
||||
security_hardening: "guide/security/security-hardening.md" # Security best practices
|
||||
security_cve_summary: "guide/security/security-hardening.md:15" # Decision Matrix + CVEs
|
||||
security_supply_chain_stats: "guide/security/security-hardening.md:137" # Agent Skills Supply Chain Risks
|
||||
security_mcp_scan_tool: "guide/security/security-hardening.md:32" # MCP Vetting Workflow
|
||||
security_malicious_extensions: "guide/security/security-hardening.md:252" # .claude/ attack surface (§1.5)
|
||||
security_kill_switch: "guide/security/security-hardening.md:630" # AI Kill Switch & Containment Architecture (§3.5)
|
||||
security_claude_folder_audit: "guide/security/security-hardening.md:228" # Repository Pre-Scan (§1.4)
|
||||
security_toxicskills_evaluation: "docs/resource-evaluations/snyk-toxicskills-evaluation.md"
|
||||
security_check_command: "examples/commands/security-check.md" # Quick config check vs known threats
|
||||
security_audit_command: "examples/commands/security-audit.md" # Full 6-phase security audit (score /100)
|
||||
security_threat_db: "examples/commands/resources/threat-db.yaml" # Threat intelligence database (authors, skills, CVEs, patterns)
|
||||
security_update_threat_db: "examples/commands/update-threat-db.md" # /update-threat-db — research & update threat database
|
||||
security_cc_scanner: "guide/security-hardening.md:780" # Claude Code Security (research preview) — Anthropic native vuln scanner, adversarial validation, patch suggestions
|
||||
security_cc_scanner: "guide/security/security-hardening.md:780" # Claude Code Security (research preview) — Anthropic native vuln scanner, adversarial validation, patch suggestions
|
||||
security_patcher_agent: "examples/agents/security-patcher.md" # Agent: applies patches from security-auditor findings, human approval gate, Write/Edit tools
|
||||
security_gate_hook: "examples/hooks/bash/security-gate.sh" # PreToolUse hook: blocks 7 vuln patterns at write time (SQLi, XSS, hardcoded secrets, eval, weak hash, cmd injection, path traversal)
|
||||
security_pr_review_workflow: "guide/security-hardening.md:712" # PR security review workflow — 3-agent pipeline, git hook integration
|
||||
security_pr_review_workflow: "guide/security/security-hardening.md:712" # PR security review workflow — 3-agent pipeline, git hook integration
|
||||
agent_validation_checklist: 5744 # Agent validation section in ultimate-guide.md
|
||||
git_mcp_guide: "guide/mcp-servers-ecosystem.md:113" # Git MCP server documentation
|
||||
git_mcp_guide: "guide/ecosystem/mcp-servers-ecosystem.md:113" # Git MCP server documentation
|
||||
|
||||
# ════════════════════════════════════════════════════════════════
|
||||
# DECISION TREE (most important - en premier)
|
||||
|
|
@ -1102,10 +1102,10 @@ mcp:
|
|||
playwright: "browser automation / E2E"
|
||||
figma: "design file access, tokens, structure (official)"
|
||||
git_mcp: "version control automation (official Anthropic) - 12 tools for commits, branches, diffs, logs"
|
||||
git_mcp_guide: "guide/mcp-servers-ecosystem.md:102"
|
||||
git_mcp_guide: "guide/ecosystem/mcp-servers-ecosystem.md:102"
|
||||
git_mcp_tools: "git_status, git_log, git_diff, git_commit, git_add, git_reset, git_branch, git_create_branch, git_checkout, git_show, git_diff_unstaged, git_diff_staged"
|
||||
git_mcp_install: "uvx mcp-server-git --repository /path/to/repo"
|
||||
git_mcp_decision_matrix: "guide/mcp-servers-ecosystem.md:212" # Git MCP vs GitHub MCP vs Bash tool
|
||||
git_mcp_decision_matrix: "guide/ecosystem/mcp-servers-ecosystem.md:212" # Git MCP vs GitHub MCP vs Bash tool
|
||||
git_mcp_repo: "https://github.com/modelcontextprotocol/servers/tree/main/src/git"
|
||||
git_mcp_score: "8.5/10"
|
||||
git_mcp_status: "Early development (API subject to change)"
|
||||
|
|
@ -1120,7 +1120,7 @@ mcp:
|
|||
search_decision_tree: "grep (text) | ast-grep (structure) | Serena (symbols) | grepai (semantic)"
|
||||
search_tools_comparison: "guide/ultimate-guide.md:9845"
|
||||
search_tools_mastery_workflow: "guide/workflows/search-tools-mastery.md"
|
||||
grep_vs_rag_history: "guide/architecture.md:232"
|
||||
grep_vs_rag_history: "guide/core/architecture.md:232"
|
||||
ripgrep_native: "Grep tool (Claude Code built-in, ~20ms)"
|
||||
grepai_semantic: "Semantic search + call graph (Ollama-based, ~500ms)"
|
||||
grepai_benchmark:
|
||||
|
|
@ -1136,10 +1136,10 @@ mcp:
|
|||
config: "~/.claude.json (mcpServers field) or .mcp.json (project root)"
|
||||
tool_search: "lazy loading MCP tools (v2.1.7+) - 85% token reduction - auto:N threshold config"
|
||||
tool_search_config: "ENABLE_TOOL_SEARCH=auto|auto:N|true|false"
|
||||
tool_search_deep_dive: "guide/architecture.md:284"
|
||||
tool_search_deep_dive: "guide/core/architecture.md:284"
|
||||
|
||||
# ════════════════════════════════════════════════════════════════
|
||||
# ARCHITECTURE INTERNALS - see guide/architecture.md
|
||||
# ARCHITECTURE INTERNALS - see guide/core/architecture.md
|
||||
# ════════════════════════════════════════════════════════════════
|
||||
architecture:
|
||||
master_loop: "while(tool_call) - no DAG, no classifier, no RAG"
|
||||
|
|
@ -1150,7 +1150,7 @@ architecture:
|
|||
philosophy: "less scaffolding, more model - trust Claude's reasoning"
|
||||
mcp_protocol: "JSON-RPC 2.0, treated as native tools"
|
||||
permissions: "interactive prompts + allow/deny rules + hooks"
|
||||
deep_dive: "guide/architecture.md"
|
||||
deep_dive: "guide/core/architecture.md"
|
||||
|
||||
# ════════════════════════════════════════════════════════════════
|
||||
# COST OPTIMIZATION - see deep_dive.cost_optimization
|
||||
|
|
@ -1346,7 +1346,7 @@ ecosystem:
|
|||
focus: "Production-grade agentic coding guardrails (TDD, worktrees, manual commits)"
|
||||
academic: "Co-author 'Agentic Systems in Radiology' (ArXiv 2025)"
|
||||
alignment: "Validates patterns already documented in this guide"
|
||||
guide_section: "guide/ai-ecosystem.md:1209"
|
||||
guide_section: "guide/ecosystem/ai-ecosystem.md:1209"
|
||||
install_templates: "scripts/install-templates.sh"
|
||||
cowork:
|
||||
description: "Claude Code for non-developers (desktop app)"
|
||||
|
|
|
|||
Loading…
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