moflo 4.8.9 → 4.8.11

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Files changed (166) hide show
  1. package/.claude/agents/core/coder.md +265 -265
  2. package/.claude/agents/core/planner.md +167 -167
  3. package/.claude/agents/core/researcher.md +189 -189
  4. package/.claude/agents/core/reviewer.md +325 -325
  5. package/.claude/agents/core/tester.md +318 -318
  6. package/.claude/agents/dual-mode/codex-coordinator.md +224 -224
  7. package/.claude/agents/dual-mode/codex-worker.md +211 -211
  8. package/.claude/agents/dual-mode/dual-orchestrator.md +291 -291
  9. package/.claude/agents/github/code-review-swarm.md +537 -537
  10. package/.claude/agents/github/github-modes.md +172 -172
  11. package/.claude/agents/github/issue-tracker.md +318 -318
  12. package/.claude/agents/github/multi-repo-swarm.md +552 -552
  13. package/.claude/agents/github/pr-manager.md +190 -190
  14. package/.claude/agents/github/project-board-sync.md +508 -508
  15. package/.claude/agents/github/release-manager.md +366 -366
  16. package/.claude/agents/github/release-swarm.md +582 -582
  17. package/.claude/agents/github/repo-architect.md +397 -397
  18. package/.claude/agents/github/swarm-issue.md +572 -572
  19. package/.claude/agents/github/swarm-pr.md +427 -427
  20. package/.claude/agents/github/sync-coordinator.md +451 -451
  21. package/.claude/agents/github/workflow-automation.md +634 -634
  22. package/.claude/agents/goal/code-goal-planner.md +445 -445
  23. package/.claude/agents/hive-mind/collective-intelligence-coordinator.md +129 -129
  24. package/.claude/agents/hive-mind/queen-coordinator.md +202 -202
  25. package/.claude/agents/hive-mind/scout-explorer.md +241 -241
  26. package/.claude/agents/hive-mind/swarm-memory-manager.md +192 -192
  27. package/.claude/agents/hive-mind/worker-specialist.md +216 -216
  28. package/.claude/agents/neural/safla-neural.md +73 -73
  29. package/.claude/agents/reasoning/goal-planner.md +72 -72
  30. package/.claude/agents/swarm/adaptive-coordinator.md +395 -395
  31. package/.claude/agents/swarm/hierarchical-coordinator.md +326 -326
  32. package/.claude/agents/swarm/mesh-coordinator.md +391 -391
  33. package/.claude/agents/templates/migration-plan.md +745 -745
  34. package/.claude/commands/agents/agent-spawning.md +28 -28
  35. package/.claude/commands/analysis/COMMAND_COMPLIANCE_REPORT.md +53 -53
  36. package/.claude/commands/analysis/bottleneck-detect.md +162 -162
  37. package/.claude/commands/analysis/performance-bottlenecks.md +58 -58
  38. package/.claude/commands/analysis/token-efficiency.md +44 -44
  39. package/.claude/commands/automation/auto-agent.md +122 -122
  40. package/.claude/commands/automation/self-healing.md +105 -105
  41. package/.claude/commands/automation/session-memory.md +89 -89
  42. package/.claude/commands/automation/smart-agents.md +72 -72
  43. package/.claude/commands/coordination/init.md +44 -44
  44. package/.claude/commands/coordination/orchestrate.md +43 -43
  45. package/.claude/commands/coordination/spawn.md +45 -45
  46. package/.claude/commands/coordination/swarm-init.md +85 -85
  47. package/.claude/commands/github/github-modes.md +146 -146
  48. package/.claude/commands/github/github-swarm.md +121 -121
  49. package/.claude/commands/github/issue-tracker.md +291 -291
  50. package/.claude/commands/github/pr-manager.md +169 -169
  51. package/.claude/commands/github/release-manager.md +337 -337
  52. package/.claude/commands/github/repo-architect.md +366 -366
  53. package/.claude/commands/github/sync-coordinator.md +300 -300
  54. package/.claude/commands/memory/neural.md +47 -47
  55. package/.claude/commands/monitoring/agents.md +44 -44
  56. package/.claude/commands/monitoring/status.md +46 -46
  57. package/.claude/commands/optimization/auto-topology.md +61 -61
  58. package/.claude/commands/optimization/parallel-execution.md +49 -49
  59. package/.claude/commands/sparc/analyzer.md +51 -51
  60. package/.claude/commands/sparc/architect.md +53 -53
  61. package/.claude/commands/sparc/ask.md +97 -97
  62. package/.claude/commands/sparc/batch-executor.md +54 -54
  63. package/.claude/commands/sparc/code.md +89 -89
  64. package/.claude/commands/sparc/coder.md +54 -54
  65. package/.claude/commands/sparc/debug.md +83 -83
  66. package/.claude/commands/sparc/debugger.md +54 -54
  67. package/.claude/commands/sparc/designer.md +53 -53
  68. package/.claude/commands/sparc/devops.md +109 -109
  69. package/.claude/commands/sparc/docs-writer.md +80 -80
  70. package/.claude/commands/sparc/documenter.md +54 -54
  71. package/.claude/commands/sparc/innovator.md +54 -54
  72. package/.claude/commands/sparc/integration.md +83 -83
  73. package/.claude/commands/sparc/mcp.md +117 -117
  74. package/.claude/commands/sparc/memory-manager.md +54 -54
  75. package/.claude/commands/sparc/optimizer.md +54 -54
  76. package/.claude/commands/sparc/orchestrator.md +131 -131
  77. package/.claude/commands/sparc/post-deployment-monitoring-mode.md +83 -83
  78. package/.claude/commands/sparc/refinement-optimization-mode.md +83 -83
  79. package/.claude/commands/sparc/researcher.md +54 -54
  80. package/.claude/commands/sparc/reviewer.md +54 -54
  81. package/.claude/commands/sparc/security-review.md +80 -80
  82. package/.claude/commands/sparc/sparc-modes.md +174 -174
  83. package/.claude/commands/sparc/sparc.md +111 -111
  84. package/.claude/commands/sparc/spec-pseudocode.md +80 -80
  85. package/.claude/commands/sparc/supabase-admin.md +348 -348
  86. package/.claude/commands/sparc/swarm-coordinator.md +54 -54
  87. package/.claude/commands/sparc/tdd.md +54 -54
  88. package/.claude/commands/sparc/tester.md +54 -54
  89. package/.claude/commands/sparc/tutorial.md +79 -79
  90. package/.claude/commands/sparc/workflow-manager.md +54 -54
  91. package/.claude/commands/sparc.md +166 -166
  92. package/.claude/commands/swarm/analysis.md +95 -95
  93. package/.claude/commands/swarm/development.md +96 -96
  94. package/.claude/commands/swarm/examples.md +168 -168
  95. package/.claude/commands/swarm/maintenance.md +102 -102
  96. package/.claude/commands/swarm/optimization.md +117 -117
  97. package/.claude/commands/swarm/research.md +136 -136
  98. package/.claude/commands/swarm/testing.md +131 -131
  99. package/.claude/commands/training/neural-patterns.md +73 -73
  100. package/.claude/commands/training/specialization.md +62 -62
  101. package/.claude/commands/workflows/development.md +77 -77
  102. package/.claude/commands/workflows/research.md +62 -62
  103. package/.claude/guidance/{agent-bootstrap.md → shipped/agent-bootstrap.md} +126 -126
  104. package/.claude/guidance/{guidance-memory-strategy.md → shipped/guidance-memory-strategy.md} +262 -262
  105. package/.claude/guidance/{memory-strategy.md → shipped/memory-strategy.md} +204 -204
  106. package/.claude/guidance/{moflo.md → shipped/moflo.md} +45 -31
  107. package/.claude/guidance/{task-swarm-integration.md → shipped/task-swarm-integration.md} +441 -348
  108. package/.claude/helpers/gate.cjs +236 -236
  109. package/.claude/helpers/hook-handler.cjs +42 -46
  110. package/.claude/settings.json +2 -2
  111. package/.claude/settings.local.json +3 -3
  112. package/.claude/skills/fl/SKILL.md +29 -23
  113. package/.claude/skills/flo/SKILL.md +29 -23
  114. package/.claude/skills/github-code-review/SKILL.md +4 -4
  115. package/.claude/skills/github-multi-repo/SKILL.md +8 -8
  116. package/.claude/skills/github-project-management/SKILL.md +6 -6
  117. package/.claude/skills/github-release-management/SKILL.md +12 -12
  118. package/.claude/skills/github-workflow-automation/SKILL.md +6 -6
  119. package/.claude/skills/hooks-automation/SKILL.md +1201 -1201
  120. package/.claude/skills/performance-analysis/SKILL.md +563 -563
  121. package/.claude/skills/sparc-methodology/SKILL.md +64 -64
  122. package/.claude/skills/swarm-advanced/SKILL.md +77 -77
  123. package/.claude-plugin/README.md +3 -3
  124. package/.claude-plugin/docs/PLUGIN_SUMMARY.md +3 -3
  125. package/.claude-plugin/docs/QUICKSTART.md +4 -4
  126. package/.claude-plugin/marketplace.json +3 -3
  127. package/.claude-plugin/plugin.json +3 -3
  128. package/.claude-plugin/scripts/install.sh +9 -9
  129. package/.claude-plugin/scripts/verify.sh +7 -7
  130. package/README.md +311 -116
  131. package/bin/gate-hook.mjs +50 -0
  132. package/bin/gate.cjs +138 -0
  133. package/bin/hook-handler.cjs +83 -0
  134. package/bin/hooks.mjs +72 -12
  135. package/bin/index-guidance.mjs +28 -34
  136. package/bin/index-tests.mjs +710 -0
  137. package/bin/lib/process-manager.mjs +243 -0
  138. package/bin/lib/registry-cleanup.cjs +41 -0
  139. package/bin/prompt-hook.mjs +72 -0
  140. package/bin/semantic-search.mjs +473 -441
  141. package/bin/session-start-launcher.mjs +81 -31
  142. package/bin/setup-project.mjs +13 -10
  143. package/package.json +4 -2
  144. package/src/@claude-flow/cli/README.md +1 -1
  145. package/src/@claude-flow/cli/bin/cli.js +175 -175
  146. package/src/@claude-flow/cli/dist/src/commands/doctor.js +1091 -736
  147. package/src/@claude-flow/cli/dist/src/commands/github.d.ts +12 -0
  148. package/src/@claude-flow/cli/dist/src/commands/github.js +505 -0
  149. package/src/@claude-flow/cli/dist/src/commands/hive-mind.js +90 -90
  150. package/src/@claude-flow/cli/dist/src/commands/index.d.ts +1 -0
  151. package/src/@claude-flow/cli/dist/src/commands/index.js +7 -0
  152. package/src/@claude-flow/cli/dist/src/config-adapter.js +1 -1
  153. package/src/@claude-flow/cli/dist/src/init/claudemd-generator.js +1 -1
  154. package/src/@claude-flow/cli/dist/src/init/executor.js +109 -5
  155. package/src/@claude-flow/cli/dist/src/init/helpers-generator.d.ts +14 -0
  156. package/src/@claude-flow/cli/dist/src/init/helpers-generator.js +156 -24
  157. package/src/@claude-flow/cli/dist/src/init/mcp-generator.js +20 -20
  158. package/src/@claude-flow/cli/dist/src/init/moflo-init.d.ts +7 -0
  159. package/src/@claude-flow/cli/dist/src/init/moflo-init.js +72 -10
  160. package/src/@claude-flow/cli/dist/src/init/settings-generator.js +23 -14
  161. package/src/@claude-flow/cli/dist/src/mcp-server.js +3 -3
  162. package/src/@claude-flow/cli/dist/src/plugins/manager.js +9 -8
  163. package/src/@claude-flow/cli/dist/src/services/worker-daemon.d.ts +1 -0
  164. package/src/@claude-flow/cli/dist/src/services/worker-daemon.js +3 -1
  165. package/src/@claude-flow/cli/dist/src/services/workflow-gate.js +10 -10
  166. package/src/@claude-flow/cli/package.json +1 -1
@@ -1,204 +1,204 @@
1
- # Memory & Semantic Search Strategy
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-
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- **Purpose:** How memory, embeddings, and semantic search work in moflo. Reference when debugging memory issues, understanding the search pipeline, or configuring memory for a consumer project.
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-
5
- ---
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-
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- ## Architecture Overview
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-
9
- ```
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- Source Files (.claude/guidance/, docs/)
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- |
12
- v
13
- index-guidance.mjs (chunking, RAG linking)
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- |
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- v
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- .swarm/memory.db (SQLite - entries + metadata)
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- |
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- v
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- build-embeddings.mjs (384-dim neural or hash vectors)
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- |
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- v
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- Search layer (cosine similarity - MCP, CLI, or script)
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- ```
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-
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- ---
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-
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- ## Key Files
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-
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- | File | Purpose |
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- |------|---------|
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- | `.swarm/memory.db` | SQLite database with all entries, embeddings, metadata |
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- | `.swarm/code-map-hash.txt` | SHA-256 hash for incremental code map skip |
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- | `.claude-flow/neural/patterns.json` | ReasoningBank learned patterns |
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- | `bin/build-embeddings.mjs` | Generates 384-dim embeddings |
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- | `bin/index-guidance.mjs` | Indexes guidance files with RAG linking |
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- | `bin/generate-code-map.mjs` | Generates structural code map (projects, dirs, types, interfaces) |
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-
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- ---
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-
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- ## Embedding Strategy
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-
42
- **Primary model:** `Xenova/all-MiniLM-L6-v2` (384-dim, neural — used by `build-embeddings.mjs`)
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- **Fallback model:** `domain-aware-hash-v1` (384-dim, hash — used when Transformers.js unavailable)
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-
45
- **Critical rule:** Query embeddings MUST match stored embeddings. Both the search scripts and MCP tools auto-detect the stored model and generate matching query vectors. Cross-model cosine similarity is meaningless.
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-
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- **Neural embeddings (primary):**
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- - Uses `@xenova/transformers` with ONNX WASM runtime
49
- - True semantic understanding — "soft delete" matches "mark as deleted" without keyword overlap
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- - ~3s for 1000 entries, loaded lazily and cached
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-
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- **Domain-aware hash (fallback):**
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- - 12 domain clusters with project-specific terms
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- - SimHash-style word encoding + bigram/trigram features
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- - Good keyword-level matching, misses semantic paraphrases
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- - No external dependencies — always available, <1s for 1000 entries
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-
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- See `guidance-memory-strategy.md` for full embedding pipeline details.
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-
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- ---
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-
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- ## Search Commands
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-
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- All methods auto-detect the stored embedding model and generate matching query vectors:
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-
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- **MCP (Preferred):** `mcp__claude-flow__memory_search` — `query: "your query", namespace: "guidance"`
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-
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- **CLI (Fallback):**
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- ```bash
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- npx flo memory search --query "your query" --namespace guidance
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- ```
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-
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- **Search options:**
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-
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- | Flag | Default | Purpose |
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- |------|---------|---------|
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- | `--namespace` | all | Filter to specific namespace |
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- | `--limit` | 5 | Number of results |
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- | `--threshold` | 0.3 | Minimum similarity score |
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- | `--json` | false | Output as JSON |
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-
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- ### Code Map Search (for codebase navigation)
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-
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- When you need to find where a type, service, entity, or component lives — search `code-map` BEFORE using Glob/Grep:
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-
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- **MCP:** `mcp__claude-flow__memory_search` — `query: "payment service", namespace: "code-map"`
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-
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- **What code-map contains:**
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-
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- | Chunk prefix | What it answers |
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- |--------------|-----------------|
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- | `project:` | "What's in the api project?" |
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- | `dir:` | "What types are in the entities directory?" |
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- | `iface-map:` | "What implements IPaymentService?" |
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- | `type-index:` | "Where is Service defined?" |
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-
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- **Regenerate:**
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- ```bash
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- npx flo-codemap # Incremental (skips if unchanged)
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- npx flo-codemap --force # Full rebuild
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- ```
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-
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- ---
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-
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- ## Database Schema
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-
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- ```sql
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- memory_entries (
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- id TEXT PRIMARY KEY,
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- key TEXT NOT NULL, -- e.g., "chunk-guidance-core-0"
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- namespace TEXT, -- "guidance", "patterns", "default"
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- content TEXT, -- Full text content
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- embedding TEXT, -- JSON array of 384 floats
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- embedding_model TEXT, -- "Xenova/all-MiniLM-L6-v2" or "domain-aware-hash-v1"
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- embedding_dimensions INTEGER,-- 384
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- metadata TEXT, -- JSON: parentDoc, chunkTitle, prevChunk, nextChunk, siblings
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- tags TEXT, -- JSON array
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- status TEXT, -- "active"
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- created_at INTEGER,
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- updated_at INTEGER
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- )
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- ```
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-
124
- ---
125
-
126
- ## RAG Linking (metadata fields)
127
-
128
- Each chunk includes navigation metadata:
129
-
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- | Field | Purpose |
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- |-------|---------|
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- | `parentDoc` | Key of full document (e.g., `doc-guidance-core`) |
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- | `prevChunk` | Previous chunk key for sequential reading |
134
- | `nextChunk` | Next chunk key |
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- | `siblings` | All chunk keys from same document |
136
- | `hierarchicalParent` | H2 parent for H3 chunks |
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- | `hierarchicalChildren` | H3 children for H2 chunks |
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- | `contextBefore` | Overlapping text from previous chunk (20%) |
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- | `contextAfter` | Overlapping text from next chunk (20%) |
140
-
141
- ---
142
-
143
- ## Namespaces
144
-
145
- | Namespace | Content | Notes |
146
- |-----------|---------|-------|
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- | `guidance` | Indexed guidance and docs | Largest — includes bundled moflo guidance |
148
- | `code-map` | Structural codebase index (projects, directories, types, interfaces) | Search BEFORE Glob/Grep for navigation |
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- | `patterns` | Learned patterns from sessions | Grows over time |
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- | `default` | Misc stored data | Small |
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-
152
- ---
153
-
154
- ## Session Start Indexing
155
-
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- On every session start, moflo automatically runs three background indexers:
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-
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- | Indexer | Command | Namespace | What it does |
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- |---------|---------|-----------|--------------|
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- | Guidance | `npx flo-index` | `guidance` | Chunks markdown, builds RAG links, generates embeddings |
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- | Code Map | `npx flo-codemap` | `code-map` | Scans source for types, interfaces, directories |
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- | Learning | `npx flo-learn` | `patterns` | Pattern research on codebase |
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-
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- These are configured in the `SessionStart` hook in `.claude/settings.json` (set up by `npx flo init`).
165
-
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- Indexing is incremental by default — files whose content hash hasn't changed are skipped. Use `--force` to reindex everything.
167
-
168
- ---
169
-
170
- ## Troubleshooting
171
-
172
- | Symptom | Cause | Fix |
173
- |---------|-------|-----|
174
- | Search returns irrelevant results | Query/stored embedding model mismatch | Auto-detected now; verify with `--verbose` flag |
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- | Low similarity scores | Query doesn't match domain terms | Include domain keywords in query |
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- | "Vector: No" in list | Entry lacks embedding | Run `npx flo-index --force` |
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- | Entries not found after adding file | Indexer hasn't run yet | Run `npx flo-index` or restart session |
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- | Bundled moflo guidance not indexed | Not installed as dependency | Only indexes when `node_modules/moflo/.claude/guidance/` exists |
179
-
180
- ---
181
-
182
- ## Verification Commands
183
-
184
- ```bash
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- # Test semantic search
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- npx flo memory search --query "database entity pattern" --namespace guidance
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-
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- # Force reindex all guidance
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- npx flo-index --force
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-
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- # Force rebuild embeddings
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- npx flo-index --force
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-
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- # Check entry count (requires better-sqlite3 or sql.js)
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- npx flo memory list --namespace guidance --limit 0
196
- ```
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-
198
- ---
199
-
200
- ## See Also
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-
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- - `.claude/guidance/guidance-memory-strategy.md` - RAG system tuning guide
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- - `.claude/guidance/agent-bootstrap.md` - Subagent bootstrap guide
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- - `.claude/guidance/moflo.md` - Full CLI/MCP reference
1
+ # Memory & Semantic Search Strategy
2
+
3
+ **Purpose:** How memory, embeddings, and semantic search work in moflo. Reference when debugging memory issues, understanding the search pipeline, or configuring memory for a consumer project.
4
+
5
+ ---
6
+
7
+ ## Architecture Overview
8
+
9
+ ```
10
+ Source Files (.claude/guidance/, docs/)
11
+ |
12
+ v
13
+ index-guidance.mjs (chunking, RAG linking)
14
+ |
15
+ v
16
+ .swarm/memory.db (SQLite - entries + metadata)
17
+ |
18
+ v
19
+ build-embeddings.mjs (384-dim neural or hash vectors)
20
+ |
21
+ v
22
+ Search layer (cosine similarity - MCP, CLI, or script)
23
+ ```
24
+
25
+ ---
26
+
27
+ ## Key Files
28
+
29
+ | File | Purpose |
30
+ |------|---------|
31
+ | `.swarm/memory.db` | SQLite database with all entries, embeddings, metadata |
32
+ | `.swarm/code-map-hash.txt` | SHA-256 hash for incremental code map skip |
33
+ | `.claude-flow/neural/patterns.json` | ReasoningBank learned patterns |
34
+ | `bin/build-embeddings.mjs` | Generates 384-dim embeddings |
35
+ | `bin/index-guidance.mjs` | Indexes guidance files with RAG linking |
36
+ | `bin/generate-code-map.mjs` | Generates structural code map (projects, dirs, types, interfaces) |
37
+
38
+ ---
39
+
40
+ ## Embedding Strategy
41
+
42
+ **Primary model:** `Xenova/all-MiniLM-L6-v2` (384-dim, neural — used by `build-embeddings.mjs`)
43
+ **Fallback model:** `domain-aware-hash-v1` (384-dim, hash — used when Transformers.js unavailable)
44
+
45
+ **Critical rule:** Query embeddings MUST match stored embeddings. Both the search scripts and MCP tools auto-detect the stored model and generate matching query vectors. Cross-model cosine similarity is meaningless.
46
+
47
+ **Neural embeddings (primary):**
48
+ - Uses `@xenova/transformers` with ONNX WASM runtime
49
+ - True semantic understanding — "soft delete" matches "mark as deleted" without keyword overlap
50
+ - ~3s for 1000 entries, loaded lazily and cached
51
+
52
+ **Domain-aware hash (fallback):**
53
+ - 12 domain clusters with project-specific terms
54
+ - SimHash-style word encoding + bigram/trigram features
55
+ - Good keyword-level matching, misses semantic paraphrases
56
+ - No external dependencies — always available, <1s for 1000 entries
57
+
58
+ See `guidance-memory-strategy.md` for full embedding pipeline details.
59
+
60
+ ---
61
+
62
+ ## Search Commands
63
+
64
+ All methods auto-detect the stored embedding model and generate matching query vectors:
65
+
66
+ **MCP (Preferred):** `mcp__moflo__memory_search` — `query: "your query", namespace: "guidance"`
67
+
68
+ **CLI (Fallback):**
69
+ ```bash
70
+ npx flo memory search --query "your query" --namespace guidance
71
+ ```
72
+
73
+ **Search options:**
74
+
75
+ | Flag | Default | Purpose |
76
+ |------|---------|---------|
77
+ | `--namespace` | all | Filter to specific namespace |
78
+ | `--limit` | 5 | Number of results |
79
+ | `--threshold` | 0.3 | Minimum similarity score |
80
+ | `--json` | false | Output as JSON |
81
+
82
+ ### Code Map Search (for codebase navigation)
83
+
84
+ When you need to find where a type, service, entity, or component lives — search `code-map` BEFORE using Glob/Grep:
85
+
86
+ **MCP:** `mcp__moflo__memory_search` — `query: "payment service", namespace: "code-map"`
87
+
88
+ **What code-map contains:**
89
+
90
+ | Chunk prefix | What it answers |
91
+ |--------------|-----------------|
92
+ | `project:` | "What's in the api project?" |
93
+ | `dir:` | "What types are in the entities directory?" |
94
+ | `iface-map:` | "What implements IPaymentService?" |
95
+ | `type-index:` | "Where is Service defined?" |
96
+
97
+ **Regenerate:**
98
+ ```bash
99
+ npx flo-codemap # Incremental (skips if unchanged)
100
+ npx flo-codemap --force # Full rebuild
101
+ ```
102
+
103
+ ---
104
+
105
+ ## Database Schema
106
+
107
+ ```sql
108
+ memory_entries (
109
+ id TEXT PRIMARY KEY,
110
+ key TEXT NOT NULL, -- e.g., "chunk-guidance-core-0"
111
+ namespace TEXT, -- "guidance", "patterns", "default"
112
+ content TEXT, -- Full text content
113
+ embedding TEXT, -- JSON array of 384 floats
114
+ embedding_model TEXT, -- "Xenova/all-MiniLM-L6-v2" or "domain-aware-hash-v1"
115
+ embedding_dimensions INTEGER,-- 384
116
+ metadata TEXT, -- JSON: parentDoc, chunkTitle, prevChunk, nextChunk, siblings
117
+ tags TEXT, -- JSON array
118
+ status TEXT, -- "active"
119
+ created_at INTEGER,
120
+ updated_at INTEGER
121
+ )
122
+ ```
123
+
124
+ ---
125
+
126
+ ## RAG Linking (metadata fields)
127
+
128
+ Each chunk includes navigation metadata:
129
+
130
+ | Field | Purpose |
131
+ |-------|---------|
132
+ | `parentDoc` | Key of full document (e.g., `doc-guidance-core`) |
133
+ | `prevChunk` | Previous chunk key for sequential reading |
134
+ | `nextChunk` | Next chunk key |
135
+ | `siblings` | All chunk keys from same document |
136
+ | `hierarchicalParent` | H2 parent for H3 chunks |
137
+ | `hierarchicalChildren` | H3 children for H2 chunks |
138
+ | `contextBefore` | Overlapping text from previous chunk (20%) |
139
+ | `contextAfter` | Overlapping text from next chunk (20%) |
140
+
141
+ ---
142
+
143
+ ## Namespaces
144
+
145
+ | Namespace | Content | Notes |
146
+ |-----------|---------|-------|
147
+ | `guidance` | Indexed guidance and docs | Largest — includes bundled moflo guidance |
148
+ | `code-map` | Structural codebase index (projects, directories, types, interfaces) | Search BEFORE Glob/Grep for navigation |
149
+ | `patterns` | Learned patterns from sessions | Grows over time |
150
+ | `default` | Misc stored data | Small |
151
+
152
+ ---
153
+
154
+ ## Session Start Indexing
155
+
156
+ On every session start, moflo automatically runs three background indexers:
157
+
158
+ | Indexer | Command | Namespace | What it does |
159
+ |---------|---------|-----------|--------------|
160
+ | Guidance | `npx flo-index` | `guidance` | Chunks markdown, builds RAG links, generates embeddings |
161
+ | Code Map | `npx flo-codemap` | `code-map` | Scans source for types, interfaces, directories |
162
+ | Learning | `npx flo-learn` | `patterns` | Pattern research on codebase |
163
+
164
+ These are configured in the `SessionStart` hook in `.claude/settings.json` (set up by `npx flo init`).
165
+
166
+ Indexing is incremental by default — files whose content hash hasn't changed are skipped. Use `--force` to reindex everything.
167
+
168
+ ---
169
+
170
+ ## Troubleshooting
171
+
172
+ | Symptom | Cause | Fix |
173
+ |---------|-------|-----|
174
+ | Search returns irrelevant results | Query/stored embedding model mismatch | Auto-detected now; verify with `--verbose` flag |
175
+ | Low similarity scores | Query doesn't match domain terms | Include domain keywords in query |
176
+ | "Vector: No" in list | Entry lacks embedding | Run `npx flo-index --force` |
177
+ | Entries not found after adding file | Indexer hasn't run yet | Run `npx flo-index` or restart session |
178
+ | Bundled moflo guidance not indexed | Not installed as dependency | Only indexes when `node_modules/moflo/.claude/guidance/` exists |
179
+
180
+ ---
181
+
182
+ ## Verification Commands
183
+
184
+ ```bash
185
+ # Test semantic search
186
+ npx flo memory search --query "database entity pattern" --namespace guidance
187
+
188
+ # Force reindex all guidance
189
+ npx flo-index --force
190
+
191
+ # Force rebuild embeddings
192
+ npx flo-index --force
193
+
194
+ # Check entry count (requires better-sqlite3 or sql.js)
195
+ npx flo memory list --namespace guidance --limit 0
196
+ ```
197
+
198
+ ---
199
+
200
+ ## See Also
201
+
202
+ - `.claude/guidance/guidance-memory-strategy.md` - RAG system tuning guide
203
+ - `.claude/guidance/agent-bootstrap.md` - Subagent bootstrap guide
204
+ - `.claude/guidance/moflo.md` - Full CLI/MCP reference
@@ -2,7 +2,7 @@
2
2
 
3
3
  **Purpose:** Complete CLI and MCP reference for moflo — hooks, memory, agents, swarm, neural, and doctor commands. Read when using moflo features or debugging agent coordination.
4
4
 
5
- **MCP-First Policy:** Always prefer MCP tools (`mcp__claude-flow__*`) over CLI commands. Use `ToolSearch` to load them, then call directly. CLI is fallback only.
5
+ **MCP-First Policy:** Always prefer MCP tools (`mcp__moflo__*`) over CLI commands. Use `ToolSearch` to load them, then call directly. CLI is fallback only.
6
6
 
7
7
  ---
8
8
 
@@ -43,6 +43,20 @@ When a Claude Code session starts, moflo automatically runs three background ind
43
43
 
44
44
  These run in background and are incremental (unchanged files are skipped). Controlled by `auto_index` in `moflo.yaml`.
45
45
 
46
+ ### Helper Script Auto-Sync
47
+
48
+ On version change, `session-start-launcher.mjs` copies helper scripts from the installed moflo package to the consumer project's `.claude/helpers/` and `.claude/scripts/` directories. This ensures hooks always run the latest version.
49
+
50
+ **Rule: static files, not dynamic generation.** If a helper script has no dynamic content (no per-project interpolation), it must be shipped as a pre-built static file in `bin/` and synced via the session-start file lists. Do not generate static content dynamically at runtime — it adds fragile moving parts (background `init --upgrade`, race conditions with session-start exit) and causes stale scripts when the sync list is incomplete.
51
+
52
+ | Source | Target | Files |
53
+ |--------|--------|-------|
54
+ | `bin/` | `.claude/scripts/` | `hooks.mjs`, `session-start-launcher.mjs`, `index-guidance.mjs`, `build-embeddings.mjs`, `generate-code-map.mjs`, `semantic-search.mjs` |
55
+ | `bin/` | `.claude/helpers/` | `gate.cjs`, `gate-hook.mjs`, `prompt-hook.mjs`, `hook-handler.cjs` |
56
+ | `src/@claude-flow/cli/.claude/helpers/` | `.claude/helpers/` | `auto-memory-hook.mjs`, `statusline.cjs`, `pre-commit`, `post-commit` |
57
+
58
+ When adding a new helper script: generate it once, save it to `bin/`, and add it to the appropriate list in `session-start-launcher.mjs`.
59
+
46
60
  ### Bundled Guidance
47
61
 
48
62
  Moflo ships its own guidance files (in `.claude/guidance/` within the package). When installed as a dependency, these are **automatically indexed** alongside the consumer project's guidance under the `guidance` namespace. This means agents in your project can search for moflo system docs (swarm patterns, memory commands, etc.) without any extra setup.
@@ -79,7 +93,7 @@ MCP tools are the preferred way for Claude to interact with moflo. `flo init` cr
79
93
  ```json
80
94
  {
81
95
  "mcpServers": {
82
- "claude-flow": {
96
+ "moflo": {
83
97
  "command": "node",
84
98
  "args": ["node_modules/moflo/src/@claude-flow/cli/bin/cli.js", "mcp", "start"]
85
99
  }
@@ -87,7 +101,7 @@ MCP tools are the preferred way for Claude to interact with moflo. `flo init` cr
87
101
  }
88
102
  ```
89
103
 
90
- This gives Claude access to 200+ MCP tools (`mcp__claude-flow__memory_*`, `mcp__claude-flow__hooks_*`, `mcp__claude-flow__swarm_*`, etc.) without any global installation.
104
+ This gives Claude access to 200+ MCP tools (`mcp__moflo__memory_*`, `mcp__moflo__hooks_*`, `mcp__moflo__swarm_*`, etc.) without any global installation.
91
105
 
92
106
  ---
93
107
 
@@ -143,11 +157,11 @@ This gives Claude access to 200+ MCP tools (`mcp__claude-flow__memory_*`, `mcp__
143
157
 
144
158
  | Task | MCP Tool | CLI Fallback |
145
159
  |------|----------|-------------|
146
- | Search memory | `mcp__claude-flow__memory_search` | `memory search --query "..."` |
147
- | Spawn agent | `mcp__claude-flow__agent_spawn` | `agent spawn -t coder --name my-coder` |
148
- | Init swarm | `mcp__claude-flow__swarm_init` | `swarm init --v3-mode` |
149
- | System health | `mcp__claude-flow__system_health` | `doctor --fix` |
150
- | Benchmark | `mcp__claude-flow__performance_benchmark` | `performance benchmark --suite all` |
160
+ | Search memory | `mcp__moflo__memory_search` | `memory search --query "..."` |
161
+ | Spawn agent | `mcp__moflo__agent_spawn` | `agent spawn -t coder --name my-coder` |
162
+ | Init swarm | `mcp__moflo__swarm_init` | `swarm init --v3-mode` |
163
+ | System health | `mcp__moflo__system_health` | `doctor --fix` |
164
+ | Benchmark | `mcp__moflo__performance_benchmark` | `performance benchmark --suite all` |
151
165
 
152
166
  **CLI-only (no MCP equivalent — setup tasks):**
153
167
  ```bash
@@ -249,13 +263,13 @@ npx flo daemon start
249
263
 
250
264
  | Hook | MCP Tool | Key Params |
251
265
  |------|----------|------------|
252
- | Pre-task | `mcp__claude-flow__hooks_pre-task` | `description` |
253
- | Post-task | `mcp__claude-flow__hooks_post-task` | `taskId`, `success` |
254
- | Post-edit | `mcp__claude-flow__hooks_post-edit` | `file`, `trainNeural` |
255
- | Session-start | `mcp__claude-flow__hooks_session-start` | `sessionId` |
256
- | Session-end | `mcp__claude-flow__hooks_session-end` | `exportMetrics` |
257
- | Route | `mcp__claude-flow__hooks_route` | `task` |
258
- | Worker-dispatch | `mcp__claude-flow__hooks_worker-dispatch` | `trigger` |
266
+ | Pre-task | `mcp__moflo__hooks_pre-task` | `description` |
267
+ | Post-task | `mcp__moflo__hooks_post-task` | `taskId`, `success` |
268
+ | Post-edit | `mcp__moflo__hooks_post-edit` | `file`, `trainNeural` |
269
+ | Session-start | `mcp__moflo__hooks_session-start` | `sessionId` |
270
+ | Session-end | `mcp__moflo__hooks_session-end` | `exportMetrics` |
271
+ | Route | `mcp__moflo__hooks_route` | `task` |
272
+ | Worker-dispatch | `mcp__moflo__hooks_worker-dispatch` | `trigger` |
259
273
 
260
274
  ---
261
275
 
@@ -291,7 +305,7 @@ npx flo daemon start
291
305
 
292
306
  ### Before Starting Coding Tasks
293
307
 
294
- **MCP (Preferred):** `mcp__claude-flow__memory_search` — `query: "[task keywords]", namespace: "patterns"`
308
+ **MCP (Preferred):** `mcp__moflo__memory_search` — `query: "[task keywords]", namespace: "patterns"`
295
309
 
296
310
  **CLI Fallback:**
297
311
  ```bash
@@ -302,9 +316,9 @@ npx flo memory search --query '[task keywords]' --namespace patterns
302
316
 
303
317
  | Step | MCP Tool | Key Params |
304
318
  |------|----------|------------|
305
- | 1. Store pattern | `mcp__claude-flow__memory_store` | `namespace: "patterns", key: "[name]", value: "[what worked]"` |
306
- | 2. Train neural | `mcp__claude-flow__hooks_post-edit` | `file: "[main-file]", trainNeural: true` |
307
- | 3. Record completion | `mcp__claude-flow__hooks_post-task` | `taskId: "[id]", success: true, storeResults: true` |
319
+ | 1. Store pattern | `mcp__moflo__memory_store` | `namespace: "patterns", key: "[name]", value: "[what worked]"` |
320
+ | 2. Train neural | `mcp__moflo__hooks_post-edit` | `file: "[main-file]", trainNeural: true` |
321
+ | 3. Record completion | `mcp__moflo__hooks_post-task` | `taskId: "[id]", success: true, storeResults: true` |
308
322
 
309
323
  ### Continuous Improvement Triggers
310
324
 
@@ -337,7 +351,7 @@ npx flo memory search --query '[task keywords]' --namespace patterns
337
351
 
338
352
  ### Store Data
339
353
 
340
- **MCP:** `mcp__claude-flow__memory_store`
354
+ **MCP:** `mcp__moflo__memory_store`
341
355
  - Required: `key`, `value`
342
356
  - Optional: `namespace` (default: "default"), `ttl`, `tags`
343
357
 
@@ -348,7 +362,7 @@ npx flo memory store --key "pattern-auth" --value "JWT with refresh tokens" --na
348
362
 
349
363
  ### Search Data (semantic vector search)
350
364
 
351
- **MCP:** `mcp__claude-flow__memory_search`
365
+ **MCP:** `mcp__moflo__memory_search`
352
366
  - Required: `query`
353
367
  - Optional: `namespace`, `limit`, `threshold`
354
368
 
@@ -359,12 +373,12 @@ npx flo memory search --query "authentication patterns" --namespace patterns --l
359
373
 
360
374
  ### List Entries
361
375
 
362
- **MCP:** `mcp__claude-flow__memory_list`
376
+ **MCP:** `mcp__moflo__memory_list`
363
377
  - Optional: `namespace`, `limit`
364
378
 
365
379
  ### Retrieve Specific Entry
366
380
 
367
- **MCP:** `mcp__claude-flow__memory_retrieve`
381
+ **MCP:** `mcp__moflo__memory_retrieve`
368
382
  - Required: `key`
369
383
  - Optional: `namespace` (default: "default")
370
384
 
@@ -383,11 +397,11 @@ npx flo memory search --query "authentication patterns" --namespace patterns --l
383
397
 
384
398
  | Operation | MCP Tool |
385
399
  |-----------|----------|
386
- | Swarm init | `mcp__claude-flow__swarm_init` |
387
- | Agent spawn | `mcp__claude-flow__agent_spawn` |
388
- | Memory store | `mcp__claude-flow__memory_store` |
389
- | Memory search | `mcp__claude-flow__memory_search` |
390
- | Hooks (all) | `mcp__claude-flow__hooks_<hook-name>` |
400
+ | Swarm init | `mcp__moflo__swarm_init` |
401
+ | Agent spawn | `mcp__moflo__agent_spawn` |
402
+ | Memory store | `mcp__moflo__memory_store` |
403
+ | Memory search | `mcp__moflo__memory_search` |
404
+ | Hooks (all) | `mcp__moflo__hooks_<hook-name>` |
391
405
 
392
406
  ### CLI Commands (Fallback Only):
393
407
 
@@ -402,7 +416,7 @@ npx flo <command> [options]
402
416
 
403
417
  ## Doctor Health Checks
404
418
 
405
- **MCP:** `mcp__claude-flow__system_health` | **CLI:** `npx flo doctor`
419
+ **MCP:** `mcp__moflo__system_health` | **CLI:** `npx flo doctor`
406
420
 
407
421
  Checks: Node version (20+), Git, config validity, daemon status, memory database, API keys, MCP servers, disk space, TypeScript.
408
422
 
@@ -436,7 +450,7 @@ Configure `.mcp.json` in the project root:
436
450
  ```json
437
451
  {
438
452
  "mcpServers": {
439
- "claude-flow": {
453
+ "moflo": {
440
454
  "command": "node",
441
455
  "args": ["node_modules/moflo/src/@claude-flow/cli/bin/cli.js", "mcp", "start"]
442
456
  }
@@ -447,7 +461,7 @@ Configure `.mcp.json` in the project root:
447
461
  ### Alternative: Global MCP Registration
448
462
 
449
463
  ```bash
450
- claude mcp add claude-flow -- npx @claude-flow/cli@alpha
464
+ claude mcp add moflo -- npx @claude-flow/cli@alpha
451
465
  npx flo daemon start
452
466
  npx flo doctor --fix
453
467
  ```