@goondocks/myco 0.21.0 → 0.21.1

package/dist/chunk-EEOJWLMP.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/vault/types.ts","../src/mcp/tool-definitions.ts"],"sourcesContent":["import { z } from 'zod';\n\nexport const SessionFrontmatterSchema = z.object({\n  type: z.literal('session'),\n  id: z.string(),\n  agent: z.string(),\n  user: z.string(),\n  started: z.string(),\n  ended: z.string().optional(),\n  parent: z.string().optional(),\n  parent_reason: z.string().optional(),\n  plan: z.string().optional(),          // backward compat read path\n  plans: z.array(z.string()).optional(), // new: multiple plans\n  branch: z.string().optional(),\n  tags: z.array(z.string()).default([]),\n  tools_used: z.number().int().optional(),\n  files_changed: z.number().int().optional(),\n});\n\nexport const PLAN_STATUSES = ['active', 'in_progress', 'completed', 'abandoned'] as const;\n\nexport const PlanFrontmatterSchema = z.object({\n  type: z.literal('plan'),\n  id: z.string(),\n  status: z.enum(PLAN_STATUSES).default('active'),\n  created: z.string(),\n  author: z.string().optional(),\n  tags: z.array(z.string()).default([]),\n});\n\nexport const OBSERVATION_TYPES = ['gotcha', 'bug_fix', 'decision', 'discovery', 'trade_off', 'cross-cutting'] as const;\n\nexport const SPORE_STATUSES = ['active', 'superseded', 'archived'] as const;\nexport type SporeStatus = (typeof SPORE_STATUSES)[number];\n\nexport const SporeFrontmatterSchema = z.object({\n  type: z.literal('spore'),\n  id: z.string(),\n  observation_type: z.string(),\n  status: z.enum(SPORE_STATUSES).default('active'),\n  session: z.string().optional(),\n  plan: z.string().optional(),\n  superseded_by: z.string().optional(),\n  consolidated_from: z.array(z.string()).optional(),\n  created: z.string(),\n  tags: z.array(z.string()).default([]),\n});\n\nexport const ARTIFACT_TYPES = ['spec', 'plan', 'rfc', 'doc', 'other'] as const;\nexport type ArtifactType = (typeof ARTIFACT_TYPES)[number];\n\nexport const ArtifactFrontmatterSchema = z.object({\n  type: z.literal('artifact'),\n  id: z.string(),\n  artifact_type: z.enum(ARTIFACT_TYPES).default('other'),\n  source_path: z.string(),\n  title: z.string(),\n  last_captured_by: z.string(),\n  created: z.string(),\n  updated: z.string(),\n  tags: z.array(z.string()).default([]),\n});\n\nexport const TeamMemberFrontmatterSchema = z.object({\n  type: z.literal('team-member'),\n  user: z.string(),\n  joined: z.string(),\n  role: z.string().optional(),\n  tags: z.array(z.string()).default([]),\n});\n\nexport type SessionFrontmatter = z.infer<typeof SessionFrontmatterSchema>;\nexport type PlanFrontmatter = z.infer<typeof PlanFrontmatterSchema>;\nexport type SporeFrontmatter = z.infer<typeof SporeFrontmatterSchema>;\nexport type ObservationType = SporeFrontmatter['observation_type'];\nexport type ArtifactFrontmatter = z.infer<typeof ArtifactFrontmatterSchema>;\nexport type TeamMemberFrontmatter = z.infer<typeof TeamMemberFrontmatterSchema>;\n\nexport type NoteFrontmatter =\n  | SessionFrontmatter\n  | PlanFrontmatter\n  | SporeFrontmatter\n  | ArtifactFrontmatter\n  | TeamMemberFrontmatter;\n\nexport interface VaultNote<T extends NoteFrontmatter = NoteFrontmatter> {\n  path: string;\n  frontmatter: T;\n  content: string;\n}\n\nconst schemasByType: Record<string, z.ZodSchema> = {\n  session: SessionFrontmatterSchema,\n  plan: PlanFrontmatterSchema,\n  spore: SporeFrontmatterSchema,\n  artifact: ArtifactFrontmatterSchema,\n  'team-member': TeamMemberFrontmatterSchema,\n};\n\nexport function parseNoteFrontmatter(data: Record<string, unknown>): NoteFrontmatter {\n  const type = data.type as string;\n  const schema = schemasByType[type];\n  if (!schema) {\n    throw new Error(`Unknown note type: ${type}. Known types: ${Object.keys(schemasByType).join(', ')}`);\n  }\n  // gray-matter and YAML.parse return Date objects for ISO date strings.\n  // Coerce them to strings before Zod validation.\n  const coerced = coerceDatesToStrings(data);\n  return schema.parse(coerced) as NoteFrontmatter;\n}\n\nfunction coerceDatesToStrings(obj: Record<string, unknown>): Record<string, unknown> {\n  const result: Record<string, unknown> = {};\n  for (const [key, value] of Object.entries(obj)) {\n    if (value instanceof Date) {\n      result[key] = value.toISOString();\n    } else if (Array.isArray(value)) {\n      result[key] = value.map((item) => item instanceof Date ? item.toISOString() : item);\n    } else if (value !== null && typeof value === 'object' && !Array.isArray(value)) {\n      result[key] = coerceDatesToStrings(value as Record<string, unknown>);\n    } else {\n      result[key] = value;\n    }\n  }\n  return result;\n}\n","/**\n * MCP tool names, descriptions, and schema definitions.\n * Single source of truth for all tool metadata — referenced by the MCP server\n * and available to tests, logging, and documentation generators.\n */\nimport { OBSERVATION_TYPES, PLAN_STATUSES } from '../vault/types.js';\nimport { MCP_SEARCH_DEFAULT_LIMIT, MCP_SESSIONS_DEFAULT_LIMIT, MCP_SKILLS_DEFAULT_LIMIT } from '../constants.js';\n\n/** Plan statuses plus 'all' for filtering. */\nconst PLAN_STATUS_FILTER = [...PLAN_STATUSES, 'all'] as const;\nconst DEFAULT_CORTEX_PRIORITY = 100;\n\ninterface ToolInputSchema {\n  type: 'object';\n  properties: Record<string, unknown>;\n  required?: string[];\n}\n\nexport interface ToolCortexMetadata {\n  guidance: string;\n  priority?: number;\n  requiresTeam?: boolean;\n  requiresCollective?: boolean;\n}\n\n/**\n * MCP tool annotations. These follow the MCP spec's `annotations` envelope\n * so clients can show the right UI affordances (confirm-before-run for\n * destructive tools, quiet auto-run for read-only ones, etc.). Bundle D\n * makes these mandatory for every Myco-registered tool.\n */\nexport interface ToolAnnotations {\n  /** True if the tool never mutates state. */\n  readOnlyHint: boolean;\n  /**\n   * True if the tool can destroy data or start work that's hard to undo.\n   * For multi-op tools, set true if ANY op is destructive and describe\n   * the op matrix in the tool description.\n   */\n  destructiveHint: boolean;\n  /** True if calling the tool twice with the same input is safe. */\n  idempotentHint: boolean;\n  /** True if the tool reaches outside the local vault (network, other machines). */\n  openWorldHint: boolean;\n}\n\nexport interface ToolDefinition {\n  name: string;\n  description: string;\n  inputSchema: ToolInputSchema;\n  annotations?: ToolAnnotations;\n  cortex?: ToolCortexMetadata;\n}\n\nexport function getToolCortexPriority(tool: Pick<ToolDefinition, 'cortex'>): number {\n  return tool.cortex?.priority ?? DEFAULT_CORTEX_PRIORITY;\n}\n\n// --- Tool names ---\nexport const TOOL_SEARCH = 'myco_search';\nexport const TOOL_RECALL = 'myco_recall';\nexport const TOOL_REMEMBER = 'myco_remember';\nexport const TOOL_PLANS = 'myco_plans';\nexport const TOOL_SAVE_PLAN = 'myco_save_plan';\nexport const TOOL_SESSIONS = 'myco_sessions';\nexport const TOOL_TEAM = 'myco_team';\nexport const TOOL_GRAPH = 'myco_graph';\nexport const TOOL_SUPERSEDE = 'myco_supersede';\nexport const TOOL_CONSOLIDATE = 'myco_consolidate';\nexport const TOOL_CONTEXT = 'myco_context';\nexport const TOOL_SKILLS = 'myco_skills';\nexport const TOOL_SKILL_CANDIDATES = 'myco_skill_candidates';\nexport const TOOL_COLLECTIVE_SEARCH = 'collective_search';\nexport const TOOL_COLLECTIVE_PROJECTS = 'collective_projects';\nexport const TOOL_COLLECTIVE_PROJECT = 'collective_project';\nexport const TOOL_CORTEX = 'myco_cortex';\nexport const TOOL_RUNS = 'myco_runs';\nexport const TOOL_EVALUATIONS = 'myco_evaluations';\nexport const TOOL_WRITE_INTENTS = 'myco_write_intents';\nexport const TOOL_PHASE_AUDIT = 'myco_phase_audit';\nexport const TOOL_RESUME_RUN = 'myco_resume_run';\nexport const TOOL_DIGEST_REVISIONS = 'myco_digest_revisions';\n\n// --- Shared property descriptions (used by multiple tools) ---\nconst PROP_BRANCH = 'Git branch name to find related sessions and plans';\nconst PROP_SINCE = 'ISO timestamp — entries after this date';\nconst PROP_TAGS = 'Tags for discoverability — component names, technologies, concepts';\n\n// --- Tool definitions ---\nexport const TOOL_DEFINITIONS: ToolDefinition[] = [\n  {\n    name: TOOL_SEARCH,\n    description: 'Search the vault for prior sessions, spores, plans, and artifacts. Use before making design decisions, when debugging non-obvious issues, or when wondering why code is structured a certain way.',\n    cortex: {\n      guidance: 'Use for prior decisions, bugs, and rationale when you know the topic but not the exact note.',\n      priority: 20,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        query: { type: 'string', description: 'Natural language search query — describe what you are looking for' },\n        type: { type: 'string', enum: ['session', 'plan', 'spore', 'all'], description: 'Filter by note type (default: all)' },\n        limit: { type: 'number', description: `Max results (default: ${MCP_SEARCH_DEFAULT_LIMIT})` },\n      },\n      required: ['query'],\n    },\n  },\n  {\n    name: TOOL_RECALL,\n    description: 'Look up a specific vault note by ID — returns the full content of a session, spore, or plan. Use when you have a note ID from search results or graph traversal and need the complete details.',\n    cortex: {\n      guidance: 'Use after search finds a promising result and you need the full note.',\n      priority: 30,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        note_id: { type: 'string', description: 'Note ID to look up (e.g., \"session-abc123\", \"decision-xyz789\", \"plan-feature-x\")' },\n      },\n      required: ['note_id'],\n    },\n  },\n  {\n    name: TOOL_REMEMBER,\n    description: 'Save a decision, gotcha, bug fix, discovery, or trade-off as a permanent spore. Use after making a key decision, fixing a tricky bug, discovering something non-obvious, or encountering a gotcha. Session association is derived by the daemon — the MCP client does not pass it.',\n    cortex: {\n      guidance: 'Use to save durable decisions, gotchas, discoveries, or bug fixes from this work.',\n      priority: 90,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        content: { type: 'string', description: 'The observation — include context, reasoning, and what someone encountering this in the future needs to know' },\n        type: { type: 'string', enum: OBSERVATION_TYPES, description: `Observation type: ${OBSERVATION_TYPES.join(', ')}` },\n        tags: { type: 'array', items: { type: 'string' }, description: PROP_TAGS },\n      },\n      required: ['content', 'type'],\n    },\n  },\n  {\n    name: TOOL_PLANS,\n    description: 'List or delete implementation plans. op: \"list\" (default) returns plan summaries — filter by status, session, or a single id. op: \"delete\" removes a plan by id; cross-machine rows require force_remote: true. Use list to check what work is in flight before starting new tasks; use delete when retiring obsolete plans.',\n    annotations: {\n      // Destructive because op: \"delete\" removes a plan and enqueues a tombstone.\n      // Consumers should confirm before running this tool with op: \"delete\".\n      readOnlyHint: false,\n      destructiveHint: true,\n      idempotentHint: true,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use op: \"list\" before implementation when approved plans or specs may already exist; pass session to scope to the current work, or id to fetch a single plan with content.',\n      priority: 50,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        op: { type: 'string', enum: ['list', 'delete'], description: 'Operation (default: \"list\")' },\n        status: { type: 'string', enum: PLAN_STATUS_FILTER, description: 'Filter by status (default: all statuses); ignored for op: \"delete\"' },\n        id: { type: 'string', description: 'Plan id. Required for op: \"delete\". For op: \"list\" returns that plan with content.' },\n        session: { type: 'string', description: 'Filter list to plans belonging to this session; mutually exclusive with id.' },\n        limit: { type: 'number', description: 'Max results for op: \"list\"' },\n        force_remote: { type: 'boolean', description: 'Allow op: \"delete\" to remove a plan belonging to another machine. Enqueues a tombstone for team sync.' },\n      },\n    },\n  },\n  {\n    name: TOOL_SAVE_PLAN,\n    description: 'Persist a plan directly into Myco for a session. Use this when you generated or revised a plan and want it captured reliably. Pass exactly one of `source_path` or `plan_key` — `source_path` when the plan is also written to disk (so direct persistence and file capture reconcile to one logical plan), or `plan_key` for non-file-backed plans. The daemon rejects requests that set neither or both. Note: plan_key creates a stable namespace (session:<id>:key:<name>) distinct from transcript <tag> capture (session:<id>:tag:<name>) — the two do not merge. Dropping the transcript tag while also calling myco_save_plan with plan_key=tag will produce two separate rows.',\n    cortex: {\n      guidance: 'Use when you create or materially revise a plan and want it persisted to Myco. Pass `source_path` when the plan is also written to disk; otherwise use a stable `plan_key`. Note: `plan_key` rows are a separate namespace from transcript `<tag>` capture — reusing the same name in both channels creates two rows, not one.',\n      priority: 60,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        session_id: { type: 'string', description: 'Session id the plan belongs to' },\n        content: { type: 'string', description: 'Markdown plan content to persist' },\n        source_path: { type: 'string', description: 'Path to the plan file when the plan is also written to disk. Pass this OR plan_key, never both.' },\n        plan_key: { type: 'string', description: 'Stable key for non-file-backed plans (for example: primary). Pass this OR source_path, never both.' },\n        title: { type: 'string', description: 'Optional explicit title. Defaults to the first Markdown H1, then file name or humanized plan_key.' },\n        status: { type: 'string', enum: PLAN_STATUSES, description: `Plan status: ${PLAN_STATUSES.join(', ')}` },\n        tags: { type: 'array', items: { type: 'string' }, description: PROP_TAGS },\n      },\n      required: ['session_id', 'content'],\n    },\n  },\n  {\n    name: TOOL_SESSIONS,\n    description: 'Browse past coding sessions with summaries, tools used, and linked spores. Use to understand what work has been done on a feature or branch.',\n    cortex: {\n      guidance: 'Use when continuing related work or recovering recent implementation context.',\n      priority: 40,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        plan: { type: 'string', description: 'Filter to the session linked to this plan id' },\n        branch: { type: 'string', description: PROP_BRANCH },\n        user: { type: 'string', description: 'Filter sessions by user' },\n        since: { type: 'string', description: PROP_SINCE },\n        status: { type: 'string', description: 'Filter by session status (e.g., active, completed)' },\n        limit: { type: 'number', description: `Max results (default: ${MCP_SESSIONS_DEFAULT_LIMIT})` },\n      },\n    },\n  },\n  {\n    name: TOOL_TEAM,\n    description: 'List team members registered in the vault. Returns id, user, role, joined, and tags per member. Phase-1 scope: no filters.',\n    cortex: {\n      guidance: 'Use for current team topology and shared project context.',\n      priority: 70,\n      requiresTeam: true,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {},\n    },\n  },\n  {\n    name: TOOL_GRAPH,\n    description: 'Traverse connections between records via graph edges — explore how sessions, spores, and plans relate to each other.',\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        note_id: { type: 'string', description: 'Note ID to start from (e.g., \"session-abc123\" or \"decision-xyz789\")' },\n        direction: { type: 'string', enum: ['incoming', 'outgoing', 'both'], description: 'Link direction to follow (default: both)' },\n        depth: { type: 'number', description: 'How many hops to traverse, 1-3 (default: 1)' },\n      },\n      required: ['note_id'],\n    },\n  },\n  {\n    name: TOOL_SUPERSEDE,\n    description: 'Mark a spore as outdated and replaced by a newer one. Use when a decision was reversed, a gotcha was fixed, a discovery was wrong, or the codebase changed and an observation no longer applies. The old spore is preserved but marked superseded.',\n    cortex: {\n      guidance: 'Use when existing knowledge is outdated and should stop guiding future runs.',\n      priority: 100,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        old_spore_id: { type: 'string', description: 'ID of the outdated spore (e.g., \"decision-abc123\")' },\n        new_spore_id: { type: 'string', description: 'ID of the replacement spore' },\n        reason: { type: 'string', description: 'Why the old spore is being superseded' },\n      },\n      required: ['old_spore_id', 'new_spore_id'],\n    },\n  },\n  {\n    name: TOOL_CONSOLIDATE,\n    description: 'Merge 2+ related spores into a single comprehensive wisdom note. Inserts a new spore with the consolidated content; each source spore is marked superseded with a resolution_events row linking it to the new wisdom spore. Use when multiple observations describe aspects of the same insight, share a root cause, or would be more useful as one reference.',\n    cortex: {\n      guidance: 'Use when several related learnings should become one durable wisdom artifact.',\n      priority: 110,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        source_spore_ids: { type: 'array', items: { type: 'string' }, description: 'IDs of the spores to merge (minimum 2)' },\n        consolidated_content: { type: 'string', description: 'The merged, comprehensive content — synthesize, do not just concatenate' },\n        observation_type: { type: 'string', enum: OBSERVATION_TYPES, description: `Type for the consolidated wisdom note: ${OBSERVATION_TYPES.join(', ')}` },\n        tags: { type: 'array', items: { type: 'string' }, description: PROP_TAGS },\n        reason: { type: 'string', description: 'Optional reason recorded on each resolution event' },\n      },\n      required: ['source_spore_ids', 'consolidated_content', 'observation_type'],\n    },\n  },\n  {\n    name: TOOL_CONTEXT,\n    description: \"Retrieve Myco's pre-computed project digest — a rich, always-current synthesis of project history, decisions, patterns, active work, and institutional knowledge. Call this at the start of a new task or session to orient yourself on the project before taking action; call it again after long interruptions or when switching contexts. This is NOT a search — it's the project's accumulated understanding, served instantly. Available tiers: 1500 (executive briefing, one-screen overview), 5000 (deep onboarding, default), 10000 (comprehensive institutional knowledge). Prefer this over myco_search when you need broad project orientation; use myco_search when you need to find specific prior decisions or bug fixes.\",\n    cortex: {\n      guidance: 'Use for broad project orientation or when you want the current digest before planning changes.',\n      priority: 10,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        tier: {\n          type: 'number',\n          enum: [1500, 5000, 10000],\n          description: 'Token budget tier. Larger tiers include more detail. Default: 5000.',\n        },\n      },\n    },\n  },\n  {\n    name: TOOL_SKILLS,\n    description: 'List and inspect skills generated by Myco. Use to see what skills are active, check skill details, or find skills by status.',\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        id: { type: 'string', description: 'Get a specific skill by ID or name' },\n        status: { type: 'string', description: 'Filter by status: active, stale, retired' },\n        limit: { type: 'number', description: `Max results (default: ${MCP_SKILLS_DEFAULT_LIMIT})` },\n      },\n    },\n  },\n  {\n    name: TOOL_SKILL_CANDIDATES,\n    description: 'List and manage skill candidates — observations identified as potential skills. Use to see pending candidates, approve, or dismiss them.',\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        id: { type: 'string', description: 'Get a specific candidate by ID' },\n        action: { type: 'string', enum: ['list', 'approve', 'dismiss'], description: \"Action to perform (default: 'list')\" },\n        status: { type: 'string', description: 'Filter by status: identified, approved, generated, dismissed' },\n        limit: { type: 'number', description: `Max results (default: ${MCP_SKILLS_DEFAULT_LIMIT})` },\n      },\n    },\n  },\n  {\n    name: TOOL_CORTEX,\n    description: 'Cortex instruction + prompt-builder surface. op: \"get\" returns the current session-start instructions snapshot. op: \"refresh\" triggers the cortex-instructions task to regenerate them. op: \"build_prompt\" starts the cortex-prompt-builder task for a goal (required) and optional symbiont. op: \"get_prompt_result\" polls a prompt-builder run by run_id. Refresh and build_prompt are not read-only — they start background runs.',\n    annotations: {\n      // Mixed: get/get_prompt_result are read-only, refresh/build_prompt kick\n      // off background work. Mark conservatively — consumers should not silently\n      // auto-run this tool.\n      readOnlyHint: false,\n      destructiveHint: false,\n      idempotentHint: false,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use op: \"get\" to read your own session-start Cortex instructions; use op: \"build_prompt\" + \"get_prompt_result\" when you need the prompt-builder to draft a prompt for a specific goal.',\n      priority: 95,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        op: { type: 'string', enum: ['get', 'refresh', 'build_prompt', 'get_prompt_result'], description: 'Cortex operation' },\n        run_id: { type: 'string', description: 'Required for op: \"get_prompt_result\"' },\n        goal: { type: 'string', description: 'Required for op: \"build_prompt\" — the task the prompt will be built for' },\n        symbiont: { type: 'string', description: 'Optional symbiont/agent name the prompt should be tuned for; defaults to the first enabled symbiont' },\n      },\n      required: ['op'],\n    },\n  },\n  {\n    name: TOOL_RUNS,\n    description: 'Read agent run history. op: \"list\" (default) returns recent runs with runtime/provider/model/token/cost/reasoning fields — filter by task, agent_id, limit. op: \"get\" with id returns a single run including write_intents totals and duration_ms. Use after a run completes to check your own token budget, cost, and reasoning level — particularly useful when debugging a run that exhausted context.',\n    annotations: {\n      readOnlyHint: true,\n      destructiveHint: false,\n      idempotentHint: true,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use op: \"get\" with your run id to check your own token budget, cost, and reasoning level — especially after a run that exhausted context or failed. Use op: \"list\" to browse recent runs for a task.',\n      priority: 85,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        op: { type: 'string', enum: ['list', 'get'], description: 'Operation (default: \"list\")' },\n        id: { type: 'string', description: 'Required for op: \"get\" — the run id' },\n        task: { type: 'string', description: 'Filter op: \"list\" by task name' },\n        agent_id: { type: 'string', description: 'Filter op: \"list\" by agent id' },\n        limit: { type: 'number', description: 'Max results for op: \"list\" (default: 50)' },\n      },\n    },\n  },\n  {\n    name: TOOL_EVALUATIONS,\n    description: 'Create, list, or fetch agent evaluations. An evaluation fans out a single task across a cartesian product of (runtime × reasoning × model) cells so outputs can be compared side by side. op: \"list\" (default) returns newest-first summaries with an optional limit. op: \"get\" with id returns the evaluation + child runs + aggregate stats. op: \"create\" requires task_id and matrix; cells execute sequentially in the background — the response returns the evaluationId + cellCount. op: \"create\" is NOT read-only; it starts background runs.',\n    annotations: {\n      // Mixed ops: list/get are read-only, create kicks off background runs.\n      // Mark conservatively so clients confirm before auto-running with op: \"create\".\n      readOnlyHint: false,\n      destructiveHint: false,\n      idempotentHint: false,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use op: \"list\" to see recent matrix evaluations, op: \"get\" to inspect cells + aggregate stats, and op: \"create\" to fan a task out across runtime/reasoning/model cells for side-by-side comparison.',\n      priority: 88,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        op: { type: 'string', enum: ['list', 'get', 'create'], description: 'Operation (default: \"list\")' },\n        status: { type: 'string', description: 'Filter op: \"list\" by status (reserved; currently ignored by the route)' },\n        limit: { type: 'number', description: 'Max results for op: \"list\" (default: 50)' },\n        id: { type: 'string', description: 'Required for op: \"get\" — the evaluation id' },\n        task_id: { type: 'string', description: 'Required for op: \"create\" — id of the agent task to evaluate' },\n        matrix: {\n          type: 'object',\n          description: 'Required for op: \"create\". Matrix payload: { runtimes?, reasoningLevels?, models?, dryRun?, notes?, phases? }. Empty arrays expand to defaults. See /api/agent/evaluations POST body for full shape.',\n        },\n        notes: { type: 'string', description: 'Optional notes stored alongside the evaluation row (op: \"create\" only)' },\n      },\n    },\n  },\n  {\n    name: TOOL_WRITE_INTENTS,\n    description: 'Inspect the write-intents recorded during a dry-run — what the agent would have done (tool_name, tool_input, synthetic_output) without actually writing. Paginated via limit (default 500, max 5000) and offset. Use with myco_runs to verify safety before re-running the same task without dry_run.',\n    annotations: {\n      readOnlyHint: true,\n      destructiveHint: false,\n      idempotentHint: true,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use after a dry-run to inspect what writes the agent would have performed — close the \"dry-run → verify → real-run\" loop before repeating the task without dry_run.',\n      priority: 86,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        run_id: { type: 'string', description: 'The run id whose write-intents you want to inspect' },\n        limit: { type: 'number', description: 'Max results (default: 500, max: 5000)' },\n        offset: { type: 'number', description: 'Pagination offset (default: 0)' },\n      },\n      required: ['run_id'],\n    },\n  },\n  {\n    name: TOOL_PHASE_AUDIT,\n    description: 'Read the per-phase audit trail for an agent run — what each phase did, its cost, tool-call counts, reasoning level, and any write intents. Returns a joined view over agent_runs, agent_reports, agent_turns, usage_data, checkpoints, and (for dry runs) agent_run_write_intents. Essential for debugging a failed or mis-executing run.',\n    annotations: {\n      readOnlyHint: true,\n      destructiveHint: false,\n      idempotentHint: true,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use when debugging a failed or mis-executing run — returns the per-phase cost, tool counts, reasoning level, and write intents in one payload.',\n      priority: 87,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        run_id: { type: 'string', description: 'The run id whose phase audit you want to inspect' },\n      },\n      required: ['run_id'],\n    },\n  },\n  {\n    name: TOOL_RESUME_RUN,\n    description: 'Resume a paused or interrupted agent run. The run must be in a resumable state (resumable=1 AND status=\"failed\" per the route) — check status via myco_runs first. The resume starts a new background phase and returns immediately with {ok, message, runId}. NOT idempotent: each successful call starts a fresh phase.',\n    annotations: {\n      // Starts a new background phase; mark as mutating + non-idempotent so\n      // clients confirm before repeating. Not \"destructive\" (no data is\n      // removed) but also not \"read-only\".\n      readOnlyHint: false,\n      destructiveHint: false,\n      idempotentHint: false,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use to resume a paused or interrupted agent run after verifying (via myco_runs) that its resumable flag is set and its status is \"failed\".',\n      priority: 89,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        id: { type: 'string', description: 'The run id to resume' },\n        mode: { type: 'string', enum: ['manual', 'scheduled'], description: 'Resume mode (default: \"manual\"). Scheduled is reserved for the daemon scheduler.' },\n      },\n      required: ['id'],\n    },\n  },\n  {\n    name: TOOL_DIGEST_REVISIONS,\n    description: 'List historical digest revisions for the given (agent_id, tier). Revisions are append-only, so this surface shows how the project\\'s digest has evolved over time. tier is required; agent_id defaults to the primary agent on the daemon side. Restore (rolling a past revision back into the live digest) is intentionally UI-only and is NOT exposed via MCP.',\n    annotations: {\n      readOnlyHint: true,\n      destructiveHint: false,\n      idempotentHint: true,\n      openWorldHint: false,\n    },\n    cortex: {\n      guidance: 'Use to see how the project digest has evolved for a given tier — restore is UI-only.',\n      priority: 92,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        agent_id: { type: 'string', description: 'Optional — defaults to the primary agent on the daemon side' },\n        tier: { type: 'number', description: 'Required — the digest tier (for example 1500, 5000, 10000)' },\n        limit: { type: 'number', description: 'Max results (default: 50)' },\n      },\n      required: ['tier'],\n    },\n  },\n];\n\nexport const COLLECTIVE_TOOL_DEFINITIONS: ToolDefinition[] = [\n  {\n    name: TOOL_COLLECTIVE_SEARCH,\n    description: 'Search across connected projects in the active Myco Collective. Results include project attribution.',\n    cortex: {\n      guidance: 'Use for cross-project knowledge across the connected collective.',\n      priority: 80,\n      requiresCollective: true,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        query: { type: 'string', description: 'Natural language search query across the connected Collective projects' },\n        project: { type: 'string', description: 'Optional project id or project name filter' },\n        limit: { type: 'number', description: `Max results (default: ${MCP_SEARCH_DEFAULT_LIMIT})` },\n      },\n      required: ['query'],\n    },\n  },\n  {\n    name: TOOL_COLLECTIVE_PROJECTS,\n    description: 'List the projects connected to the active Myco Collective.',\n    cortex: {\n      guidance: 'Use to discover relevant collective projects before drilling deeper.',\n      priority: 81,\n      requiresCollective: true,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {},\n    },\n  },\n  {\n    name: TOOL_COLLECTIVE_PROJECT,\n    description: 'Get metadata for a single project connected to the active Myco Collective.',\n    cortex: {\n      guidance: 'Use when you know the collective project and need its focused context.',\n      priority: 82,\n      requiresCollective: true,\n    },\n    inputSchema: {\n      type: 'object' as const,\n      properties: {\n        project: { type: 'string', description: 'Project id or project name' },\n        include_digest: { type: 'boolean', description: 'Request digest information when available' },\n      },\n      required: ['project'],\n    },\n  },\n] as 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package/dist/{chunk-BUTL6IFS.js → chunk-ENZR5NG7.js}

@@ -11,7 +11,7 @@ var cached;
 function getPluginVersion() {
   if (cached) return cached;
   if (true) {
-    cached = "0.21.0";
+    cached = "0.21.1";
     return cached;
   }
   const root = findPackageRoot(path.dirname(fileURLToPath(import.meta.url)));
@@ -32,4 +32,4 @@ function getPluginVersion() {
 export {
   getPluginVersion
 };
-//# sourceMappingURL=chunk-BUTL6IFS.js.map
+//# sourceMappingURL=chunk-ENZR5NG7.js.map

package/dist/{chunk-P66DLD6G.js → chunk-KTTSXYEK.js}

@@ -1,7 +1,7 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   getPluginVersion
-} from "./chunk-BUTL6IFS.js";
+} from "./chunk-ENZR5NG7.js";
 import {
   DAEMON_CLIENT_TIMEOUT_MS,
   DAEMON_HEALTH_CHECK_TIMEOUT_MS,
@@ -197,4 +197,4 @@ export {
   resolveCliEntryPath,
   DaemonClient
 };
-//# sourceMappingURL=chunk-P66DLD6G.js.map
+//# sourceMappingURL=chunk-KTTSXYEK.js.map

package/dist/chunk-LQIPXVDH.js

@@ -0,0 +1,17 @@
+import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
+
+// src/utils/error-message.ts
+function errorMessage(err) {
+  if (err instanceof Error) return err.message || err.constructor.name || "Error";
+  if (typeof err === "string") return err || "Empty string error";
+  try {
+    return JSON.stringify(err);
+  } catch {
+    return "Unserializable error";
+  }
+}
+
+export {
+  errorMessage
+};
+//# sourceMappingURL=chunk-LQIPXVDH.js.map

package/dist/chunk-LQIPXVDH.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/utils/error-message.ts"],"sourcesContent":["/**\n * Extract a human-readable error message from an unknown thrown value.\n *\n * Handles Error instances, strings, and arbitrary objects. Never throws.\n */\nexport function errorMessage(err: unknown): string {\n  if (err instanceof Error) return err.message || err.constructor.name || 'Error';\n  if (typeof err === 'string') return err || 'Empty string error';\n  try { return JSON.stringify(err); } catch { return 'Unserializable error'; }\n}\n"],"mappings":";;;AAKO,SAAS,aAAa,KAAsB;AACjD,MAAI,eAAe,MAAO,QAAO,IAAI,WAAW,IAAI,YAAY,QAAQ;AACxE,MAAI,OAAO,QAAQ,SAAU,QAAO,OAAO;AAC3C,MAAI;AAAE,WAAO,KAAK,UAAU,GAAG;AAAA,EAAG,QAAQ;AAAE,WAAO;AAAA,EAAwB;AAC7E;","names":[]}

package/dist/{chunk-5ZG4RMUH.js → chunk-N2DGFACQ.js}

@@ -4,7 +4,7 @@ import {
 } from "./chunk-ZXZPJJN3.js";
 import {
   loadManifests
-} from "./chunk-NGROSFOH.js";
+} from "./chunk-Z66IT5KL.js";
 import {
   STDIN_TIMEOUT_MS
 } from "./chunk-6C6QZ4PM.js";
@@ -108,4 +108,4 @@ export {
   readStdin,
   normalizeHookInput
 };
-//# sourceMappingURL=chunk-5ZG4RMUH.js.map
+//# sourceMappingURL=chunk-N2DGFACQ.js.map

package/dist/{chunk-F3OEQYLS.js → chunk-N7Z3LUEZ.js}

@@ -10,7 +10,7 @@ import {
   COLLECTIVE_TOOL_DEFINITIONS,
   TOOL_DEFINITIONS,
   getToolCortexPriority
-} from "./chunk-CESKJD44.js";
+} from "./chunk-EEOJWLMP.js";
 import {
   getDatabase
 } from "./chunk-MYX5NCRH.js";
@@ -608,11 +608,13 @@ function updateSporeStatus(id, status, updatedAt) {
 import { createHash } from "crypto";
 var MAX_COLLECTIVE_CAPABILITY_LABELS = 4;
 var ALL_CORTEX_TOOL_DEFINITIONS = [...TOOL_DEFINITIONS, ...COLLECTIVE_TOOL_DEFINITIONS];
-var RECENT_SESSION_LIMIT = 3;
-var RECENT_SPORE_LIMIT = 4;
+var RECENT_SESSION_LIMIT = 5;
+var RECENT_WISDOM_SPORE_LIMIT = 3;
+var RECENT_DECISION_SPORE_LIMIT = 3;
+var RECENT_DISCOVERY_SPORE_LIMIT = 3;
 var RECENT_PLAN_LIMIT = 3;
-var CONTENT_PREVIEW_MAX_CHARS = 240;
-var DIGEST_EXCERPT_MAX_CHARS = 900;
+var CONTENT_PREVIEW_MAX_CHARS = 360;
+var DIGEST_EXCERPT_MAX_CHARS = 1800;
 var JSON_INDENT = 2;
 var CORTEX_SKILLS_NOTE = "Project and Myco skills are already registered with the agent separately. Tell the agent to use those skills directly when relevant, and do not instruct it to call `myco_skills`.";
 function toCortexToolGuidance(tool) {
@@ -697,29 +699,28 @@ function truncatePreview(text, maxChars = CONTENT_PREVIEW_MAX_CHARS) {
 }
 function formatRecentSessions() {
   const sessions = listSessions({
-    includeActive: true,
+    includeActive: false,
     limit: RECENT_SESSION_LIMIT
   });
   if (sessions.length === 0) return "No recent sessions are available.";
   return sessions.map((session) => {
-    const parts = [
-      `- ${session.title ?? session.id}`,
-      session.branch ? `branch=${session.branch}` : null,
-      truncatePreview(session.summary)
-    ].filter(Boolean);
-    return parts.join(" \u2014 ");
+    const head = `- ${session.title ?? session.id}${session.branch ? ` (branch=${session.branch})` : ""}`;
+    const body = truncatePreview(session.summary);
+    return body ? `${head}
+  ${body}` : head;
   }).join("\n");
 }
-function formatRecentSpores() {
+function formatSporesOfType(observationType, limit) {
   const spores = listSpores({
-    includeActive: true,
+    observation_type: observationType,
+    includeActive: false,
     status: "active",
-    limit: RECENT_SPORE_LIMIT
+    limit
   });
-  if (spores.length === 0) return "No recent spores are available.";
+  if (spores.length === 0) return `No recent ${observationType} spores are available.`;
   return spores.map((spore) => {
     const parts = [
-      `- [${spore.observation_type}] ${truncatePreview(spore.content)}`,
+      `- ${truncatePreview(spore.content)}`,
       spore.session_id ? `session=${spore.session_id}` : null
     ].filter(Boolean);
     return parts.join(" \u2014 ");
@@ -753,7 +754,9 @@ async function buildCortexInstructionsInput(config, getTeamClient) {
   const capabilitySummary = buildCapabilitySummary(capabilities);
   const retrievalGuidance = buildRetrievalGuidanceLines(capabilities);
   const recentSessions = formatRecentSessions();
-  const recentSpores = formatRecentSpores();
+  const recentWisdomSpores = formatSporesOfType("wisdom", RECENT_WISDOM_SPORE_LIMIT);
+  const recentDecisionSpores = formatSporesOfType("decision", RECENT_DECISION_SPORE_LIMIT);
+  const recentDiscoverySpores = formatSporesOfType("discovery", RECENT_DISCOVERY_SPORE_LIMIT);
   const recentPlans = formatRecentPlans();
   const digestExcerpt = formatDigestExcerpt(config);
   const input = {
@@ -766,7 +769,9 @@ async function buildCortexInstructionsInput(config, getTeamClient) {
     capabilities,
     digestExcerpt,
     recentSessions,
-    recentSpores,
+    recentWisdomSpores,
+    recentDecisionSpores,
+    recentDiscoverySpores,
     recentPlans,
     skillsNote: CORTEX_SKILLS_NOTE
   };
@@ -801,8 +806,14 @@ async function buildCortexInstructionsInput(config, getTeamClient) {
       "## Recent sessions",
       recentSessions,
       "",
-      "## Recent spores",
-      recentSpores,
+      "## Recent wisdom spores",
+      recentWisdomSpores,
+      "",
+      "## Recent decision spores",
+      recentDecisionSpores,
+      "",
+      "## Recent discovery spores",
+      recentDiscoverySpores,
       "",
       "## Active plans",
       recentPlans
@@ -844,4 +855,4 @@ export {
   buildCortexInstructionsInput,
   buildScheduledCortexInstruction
 };
-//# sourceMappingURL=chunk-F3OEQYLS.js.map
+//# sourceMappingURL=chunk-N7Z3LUEZ.js.map

package/dist/{chunk-F3OEQYLS.js.map → chunk-N7Z3LUEZ.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/db/queries/cortex-instructions.ts","../src/db/queries/digest-extracts.ts","../src/db/queries/plans.ts","../src/db/queries/spores.ts","../src/context/cortex-brief.ts"],"sourcesContent":["import { getDatabase } from '@myco/db/client.js';\nimport { getTeamMachineId } from '@myco/daemon/team-context.js';\n\nconst CORTEX_INSTRUCTION_COLUMNS = [\n  'id',\n  'agent_id',\n  'content',\n  'input_hash',\n  'source_run_id',\n  'generated_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = CORTEX_INSTRUCTION_COLUMNS.join(', ');\nconst DEFAULT_CORTEX_INSTRUCTIONS_ID = 'session-start';\n\nexport interface CortexInstructionsUpsert {\n  agent_id: string;\n  content: string;\n  input_hash: string;\n  generated_at: number;\n  id?: string;\n  machine_id?: string;\n  source_run_id?: string | null;\n}\n\nexport interface CortexInstructionsRow {\n  id: string;\n  agent_id: string;\n  content: string;\n  input_hash: string;\n  source_run_id: string | null;\n  generated_at: number;\n  machine_id: string;\n  synced_at: number | null;\n}\n\nfunction toCortexInstructionsRow(row: Record<string, unknown>): CortexInstructionsRow {\n  return {\n    id: row.id as string,\n    agent_id: row.agent_id as string,\n    content: row.content as string,\n    input_hash: row.input_hash as string,\n    source_run_id: (row.source_run_id as string) ?? null,\n    generated_at: row.generated_at as number,\n    machine_id: (row.machine_id as string) ?? 'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\nexport function upsertCortexInstructions(input: CortexInstructionsUpsert): CortexInstructionsRow {\n  const db = getDatabase();\n  const id = input.id ?? `${input.agent_id}:${DEFAULT_CORTEX_INSTRUCTIONS_ID}`;\n\n  const row = db.prepare(\n    `INSERT INTO cortex_instructions (\n       id, agent_id, content, input_hash, source_run_id, generated_at, machine_id\n     ) VALUES (\n       ?, ?, ?, ?, ?, ?, ?\n     )\n     ON CONFLICT (id) DO UPDATE SET\n       content = EXCLUDED.content,\n       input_hash = EXCLUDED.input_hash,\n       source_run_id = EXCLUDED.source_run_id,\n       generated_at = EXCLUDED.generated_at,\n       machine_id = EXCLUDED.machine_id\n     RETURNING ${SELECT_COLUMNS}`,\n  ).get(\n    id,\n    input.agent_id,\n    input.content,\n    input.input_hash,\n    input.source_run_id ?? null,\n    input.generated_at,\n    input.machine_id ?? getTeamMachineId(),\n  ) as Record<string, unknown>;\n\n  return toCortexInstructionsRow(row);\n}\n\nexport function getCortexInstructions(agentId: string): CortexInstructionsRow | null {\n  const db = getDatabase();\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM cortex_instructions\n     WHERE agent_id = ?\n     ORDER BY generated_at DESC\n     LIMIT 1`,\n  ).get(agentId) as Record<string, unknown> | undefined;\n  return row ? toCortexInstructionsRow(row) : null;\n}\n","/**\n * Digest extract CRUD query helpers.\n *\n * All functions obtain the SQLite instance internally via `getDatabase()`.\n * Queries use positional `?` placeholders throughout (better-sqlite3).\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport { DIGEST_TIERS, epochSeconds } from '@myco/constants.js';\nimport { getTeamMachineId } from '@myco/daemon/team-context.js';\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** Fields required when upserting a digest extract. */\nexport interface DigestExtractUpsert {\n  agent_id: string;\n  tier: number;\n  content: string;\n  generated_at: number;\n  machine_id?: string;\n}\n\n/**\n * Options that control whether the upsert actually writes and how the\n * revision history is recorded. Added in schema v15.\n */\nexport interface DigestExtractUpsertOptions {\n  /**\n   * When true, the upsert is a no-op: nothing is written, no revision is\n   * recorded, and `null` is returned. Used by dry-run tooling so we can\n   * preview writes without touching persistent state.\n   */\n  dryRun?: boolean;\n  /**\n   * Id of the agent_run that produced this write. Recorded on the\n   * revision row so operators can roll a specific run back.\n   */\n  runId?: string | null;\n  /**\n   * Optional JSON-encoded metadata to store with the revision.\n   */\n  metadata?: string | null;\n}\n\n/** Row shape for entries in digest_extract_revisions. */\nexport interface DigestExtractRevisionRow {\n  id: number;\n  agent_id: string;\n  tier: number;\n  content: string;\n  metadata: string | null;\n  run_id: string | null;\n  parent_revision_id: number | null;\n  created_at: number;\n}\n\n/** Options accepted by rollbackDigestExtract. */\nexport interface RollbackDigestExtractOptions {\n  revisionId: number;\n  /** Id of the run performing the rollback (recorded on the new revision). */\n  runId?: string | null;\n}\n\n/** Row shape returned from digest_extracts queries (all columns). */\nexport interface DigestExtractRow {\n  id: number;\n  agent_id: string;\n  tier: number;\n  content: string;\n  substrate_hash: string | null;\n  generated_at: number;\n  machine_id: string;\n  synced_at: number | null;\n}\n\n// ---------------------------------------------------------------------------\n// Column list\n// ---------------------------------------------------------------------------\n\nconst EXTRACT_COLUMNS = [\n  'id',\n  'agent_id',\n  'tier',\n  'content',\n  'substrate_hash',\n  'generated_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = EXTRACT_COLUMNS.join(', ');\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/** Normalize a SQLite result row into a typed DigestExtractRow. */\nfunction toDigestExtractRow(row: Record<string, unknown>): DigestExtractRow {\n  return {\n    id: row.id as number,\n    agent_id: row.agent_id as string,\n    tier: row.tier as number,\n    content: row.content as string,\n    substrate_hash: (row.substrate_hash as string) ?? null,\n    generated_at: row.generated_at as number,\n    machine_id: (row.machine_id as string) ?? 'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Upsert a digest extract. Uses ON CONFLICT on (agent_id, tier).\n *\n * Schema v15 behaviour: when an existing row would be overwritten, the\n * prior content is copied into digest_extract_revisions (linked to the\n * previous revision if any) *before* the upsert runs. This makes the\n * revision log append-only and preserves the state the agent is replacing.\n *\n * When `options.dryRun === true`, the function is a no-op: nothing is\n * written to digest_extracts or digest_extract_revisions, and `null` is\n * returned. Call sites that care about the hydrated row should skip\n * follow-up reads when dry-running.\n */\nexport function upsertDigestExtract(\n  data: DigestExtractUpsert,\n  options: DigestExtractUpsertOptions = {},\n): DigestExtractRow | null {\n  if (options.dryRun) return null;\n\n  const db = getDatabase();\n\n  // The revision snapshot and the live-row upsert MUST be atomic. Without\n  // a transaction, a crash between the two writes would leave the revision\n  // log out of sync with `digest_extracts` — the exact invariant this log\n  // exists to guarantee. Matches the pattern used in sessions.ts /\n  // skill-records.ts for multi-table writes.\n  return db.transaction(() => {\n    // Capture the row we're about to overwrite (if any) so we can copy it\n    // into the revision history before mutating the live table.\n    const existingRow = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(data.agent_id, data.tier) as Record<string, unknown> | undefined;\n\n    if (existingRow) {\n      const priorRevisionId = db.prepare(\n        `SELECT id FROM digest_extract_revisions\n         WHERE agent_id = ? AND tier = ?\n         ORDER BY id DESC\n         LIMIT 1`,\n      ).get(data.agent_id, data.tier) as { id: number } | undefined;\n\n      db.prepare(\n        `INSERT INTO digest_extract_revisions\n           (agent_id, tier, content, metadata, run_id, parent_revision_id, created_at)\n         VALUES (?, ?, ?, ?, ?, ?, ?)`,\n      ).run(\n        data.agent_id,\n        data.tier,\n        existingRow.content as string,\n        options.metadata ?? null,\n        options.runId ?? null,\n        priorRevisionId?.id ?? null,\n        epochSeconds(),\n      );\n    }\n\n    db.prepare(\n      `INSERT INTO digest_extracts (agent_id, tier, content, generated_at)\n       VALUES (?, ?, ?, ?)\n       ON CONFLICT (agent_id, tier) DO UPDATE SET\n         content = EXCLUDED.content,\n         generated_at = EXCLUDED.generated_at`,\n    ).run(data.agent_id, data.tier, data.content, data.generated_at);\n\n    // Always look up by composite unique key — works for both insert and update cases.\n    const row = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(data.agent_id, data.tier);\n\n    return toDigestExtractRow(row as Record<string, unknown>);\n  })();\n}\n\n/**\n * Get a digest extract for a specific agent and tier.\n *\n * @returns the extract row, or null if not found.\n */\nexport function getDigestExtract(\n  agentId: string,\n  tier: number,\n): DigestExtractRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM digest_extracts\n     WHERE agent_id = ? AND tier = ?`,\n  ).get(agentId, tier) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toDigestExtractRow(row);\n}\n\n/**\n * List digest extracts for an agent, filtered to configured tiers, ordered by tier ASC.\n */\nexport function listDigestExtracts(\n  agentId: string,\n): DigestExtractRow[] {\n  const db = getDatabase();\n  const tierPlaceholders = DIGEST_TIERS.map(() => '?').join(', ');\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM digest_extracts\n     WHERE agent_id = ? AND tier IN (${tierPlaceholders})\n     ORDER BY tier ASC`,\n  ).all(agentId, ...DIGEST_TIERS) as Record<string, unknown>[];\n\n  return rows.map(toDigestExtractRow);\n}\n\n// ---------------------------------------------------------------------------\n// Revision history (schema v15)\n// ---------------------------------------------------------------------------\n\nconst REVISION_COLUMNS = [\n  'id',\n  'agent_id',\n  'tier',\n  'content',\n  'metadata',\n  'run_id',\n  'parent_revision_id',\n  'created_at',\n] as const;\n\nconst REVISION_SELECT = REVISION_COLUMNS.join(', ');\n\nfunction toRevisionRow(row: Record<string, unknown>): DigestExtractRevisionRow {\n  return {\n    id: row.id as number,\n    agent_id: row.agent_id as string,\n    tier: row.tier as number,\n    content: row.content as string,\n    metadata: (row.metadata as string) ?? null,\n    run_id: (row.run_id as string) ?? null,\n    parent_revision_id: (row.parent_revision_id as number) ?? null,\n    created_at: row.created_at as number,\n  };\n}\n\n/**\n * List revisions for a specific (agent_id, tier) pair, newest first.\n * Used by operators who want to roll back a digest to an earlier state.\n */\nexport function listDigestRevisions(\n  options: { agentId: string; tier: number; limit?: number },\n): DigestExtractRevisionRow[] {\n  const db = getDatabase();\n  const limit = options.limit ?? 50;\n  const rows = db.prepare(\n    `SELECT ${REVISION_SELECT}\n     FROM digest_extract_revisions\n     WHERE agent_id = ? AND tier = ?\n     ORDER BY created_at DESC, id DESC\n     LIMIT ?`,\n  ).all(options.agentId, options.tier, limit) as Record<string, unknown>[];\n  return rows.map(toRevisionRow);\n}\n\n/** Result of a successful rollback. */\nexport interface RollbackDigestExtractResult {\n  /** The restored digest_extracts row (content now matches the target revision). */\n  row: DigestExtractRow;\n  /**\n   * Id of the newly-appended revision that captures the pre-rollback live\n   * content (so the rollback itself is reversible). `null` when no live row\n   * existed before the rollback (nothing to preserve).\n   */\n  newRevisionId: number | null;\n}\n\n/**\n * Restore an earlier revision's content back into digest_extracts, and\n * append a *new* revision row so the revision history remains append-only.\n *\n * The newly-appended revision captures what was live before the rollback\n * (so the rollback itself is reversible), with its parent set to the last\n * revision for (agent_id, tier).\n *\n * Returns the restored digest_extracts row plus the newly-minted revision\n * id, or null if the revision id doesn't exist.\n */\nexport function rollbackDigestExtract(\n  options: RollbackDigestExtractOptions,\n): RollbackDigestExtractResult | null {\n  const db = getDatabase();\n\n  const revision = db.prepare(\n    `SELECT ${REVISION_SELECT}\n     FROM digest_extract_revisions\n     WHERE id = ?`,\n  ).get(options.revisionId) as Record<string, unknown> | undefined;\n\n  if (!revision) return null;\n\n  const agentId = revision.agent_id as string;\n  const tier = revision.tier as number;\n  const targetContent = revision.content as string;\n  const now = epochSeconds();\n\n  // Preservation of the pre-rollback state and the live-row restore must\n  // be atomic — same invariant as `upsertDigestExtract`.\n  return db.transaction(() => {\n    // 1) Append a new revision that preserves the *current* live content\n    //    (pre-rollback state) so the rollback itself is reversible.\n    const currentRow = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(agentId, tier) as Record<string, unknown> | undefined;\n\n    let newRevisionId: number | null = null;\n    if (currentRow) {\n      const priorRevisionId = db.prepare(\n        `SELECT id FROM digest_extract_revisions\n         WHERE agent_id = ? AND tier = ?\n         ORDER BY id DESC\n         LIMIT 1`,\n      ).get(agentId, tier) as { id: number } | undefined;\n\n      const info = db.prepare(\n        `INSERT INTO digest_extract_revisions\n           (agent_id, tier, content, metadata, run_id, parent_revision_id, created_at)\n         VALUES (?, ?, ?, ?, ?, ?, ?)`,\n      ).run(\n        agentId,\n        tier,\n        currentRow.content as string,\n        JSON.stringify({ rollback_of: options.revisionId }),\n        options.runId ?? null,\n        priorRevisionId?.id ?? null,\n        now,\n      );\n      newRevisionId = Number(info.lastInsertRowid);\n    }\n\n    // 2) Restore the target revision's content into the live row.\n    db.prepare(\n      `INSERT INTO digest_extracts (agent_id, tier, content, generated_at)\n       VALUES (?, ?, ?, ?)\n       ON CONFLICT (agent_id, tier) DO UPDATE SET\n         content = EXCLUDED.content,\n         generated_at = EXCLUDED.generated_at`,\n    ).run(agentId, tier, targetContent, now);\n\n    const restored = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(agentId, tier) as Record<string, unknown>;\n\n    return {\n      row: toDigestExtractRow(restored),\n      newRevisionId,\n    };\n  })();\n}\n","/**\n * Plan CRUD query helpers.\n *\n * All functions obtain the SQLite instance internally via `getDatabase()`.\n * Queries use positional `?` placeholders throughout (better-sqlite3).\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport { epochSeconds } from '@myco/constants.js';\nimport { getTeamMachineId, isTeamSyncEnabled } from '@myco/daemon/team-context.js';\nimport { enqueueOutbox } from '@myco/db/queries/team-outbox.js';\nimport { syncRow } from '@myco/db/queries/team-outbox.js';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Default number of plans returned by listPlans when no limit given. */\nconst DEFAULT_LIST_LIMIT = 100;\n\n/** Default plan status for new plans. */\nconst DEFAULT_STATUS = 'active';\n\n/** Default processed flag for new plans. */\nconst DEFAULT_PROCESSED = 0;\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** Fields required (or optional) when inserting/upserting a plan. */\nexport interface PlanInsert {\n  id: string;\n  logical_key: string;\n  created_at: number;\n  status?: string;\n  author?: string | null;\n  title?: string | null;\n  content?: string | null;\n  source_path?: string | null;\n  tags?: string | null;\n  session_id?: string | null;\n  prompt_batch_id?: number | null;\n  content_hash?: string | null;\n  processed?: number;\n  updated_at?: number | null;\n  machine_id?: string;\n}\n\n/** Row shape returned from plan queries. */\nexport interface PlanRow {\n  id: string;\n  logical_key: string;\n  status: string;\n  author: string | null;\n  title: string | null;\n  content: string | null;\n  source_path: string | null;\n  tags: string | null;\n  session_id: string | null;\n  prompt_batch_id: number | null;\n  content_hash: string | null;\n  processed: number;\n  embedded: number;\n  created_at: number;\n  updated_at: number | null;\n  machine_id: string;\n  synced_at: number | null;\n}\n\n/** Filter options for `listPlans`. */\nexport interface ListPlansOptions {\n  status?: string;\n  limit?: number;\n}\n\n// ---------------------------------------------------------------------------\n// Column list\n// ---------------------------------------------------------------------------\n\nconst PLAN_COLUMNS = [\n  'id',\n  'logical_key',\n  'status',\n  'author',\n  'title',\n  'content',\n  'source_path',\n  'tags',\n  'session_id',\n  'prompt_batch_id',\n  'content_hash',\n  'processed',\n  'embedded',\n  'created_at',\n  'updated_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = PLAN_COLUMNS.join(', ');\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/** Normalize a SQLite result row into a typed PlanRow. */\nfunction toPlanRow(row: Record<string, unknown>): PlanRow {\n  return {\n    id: row.id as string,\n    logical_key: row.logical_key as string,\n    status: row.status as string,\n    author: (row.author as string) ?? null,\n    title: (row.title as string) ?? null,\n    content: (row.content as string) ?? null,\n    source_path: (row.source_path as string) ?? null,\n    tags: (row.tags as string) ?? null,\n    session_id: (row.session_id as string) ?? null,\n    prompt_batch_id: (row.prompt_batch_id as number) ?? null,\n    content_hash: (row.content_hash as string) ?? null,\n    processed: row.processed as number,\n    embedded: (row.embedded as number) ?? 0,\n    created_at: row.created_at as number,\n    updated_at: (row.updated_at as number) ?? null,\n    machine_id: (row.machine_id as string) ?? 'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Insert a plan or update it if the id already exists.\n *\n * On conflict the row is updated with the values from `data`.\n */\nexport function upsertPlan(data: PlanInsert): PlanRow {\n  const db = getDatabase();\n\n  db.prepare(\n    `INSERT INTO plans (\n       id, logical_key, status, author, title, content,\n       source_path, tags, session_id, prompt_batch_id, content_hash,\n       processed, created_at, updated_at, machine_id\n     ) VALUES (\n       ?, ?, ?, ?, ?, ?,\n       ?, ?, ?, ?, ?,\n       ?, ?, ?, ?\n     )\n     ON CONFLICT (logical_key) DO UPDATE SET\n       id              = EXCLUDED.id,\n       status          = EXCLUDED.status,\n       author          = EXCLUDED.author,\n       title           = EXCLUDED.title,\n       content         = EXCLUDED.content,\n       source_path     = EXCLUDED.source_path,\n       tags            = EXCLUDED.tags,\n       session_id      = EXCLUDED.session_id,\n       prompt_batch_id = EXCLUDED.prompt_batch_id,\n       content_hash    = EXCLUDED.content_hash,\n       processed       = EXCLUDED.processed,\n       updated_at      = EXCLUDED.updated_at,\n       embedded        = CASE\n         WHEN EXCLUDED.content_hash != plans.content_hash THEN 0\n         ELSE plans.embedded\n       END`,\n  ).run(\n    data.id,\n    data.logical_key,\n    data.status ?? DEFAULT_STATUS,\n    data.author ?? null,\n    data.title ?? null,\n    data.content ?? null,\n    data.source_path ?? null,\n    data.tags ?? null,\n    data.session_id ?? null,\n    data.prompt_batch_id ?? null,\n    data.content_hash ?? null,\n    data.processed ?? DEFAULT_PROCESSED,\n    data.created_at,\n    data.updated_at ?? null,\n    data.machine_id ?? getTeamMachineId(),\n  );\n\n  const row = toPlanRow(\n    db.prepare(`SELECT ${SELECT_COLUMNS} FROM plans WHERE logical_key = ?`).get(data.logical_key) as Record<string, unknown>,\n  );\n\n  syncRow('plans', row);\n\n  return row;\n}\n\n/**\n * Retrieve a single plan by id.\n *\n * @returns the plan row, or null if not found.\n */\nexport function getPlan(id: string): PlanRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM plans WHERE id = ?`,\n  ).get(id) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toPlanRow(row);\n}\n\n/**\n * Retrieve a single plan by logical key.\n *\n * @returns the plan row, or null if not found.\n */\nexport function getPlanByLogicalKey(logicalKey: string): PlanRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM plans WHERE logical_key = ?`,\n  ).get(logicalKey) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toPlanRow(row);\n}\n\n/**\n * Delete a single plan by id and enqueue a team-sync tombstone when enabled.\n *\n * @returns the deleted plan row, or null if not found.\n */\nexport function deletePlan(id: string): PlanRow | null {\n  const db = getDatabase();\n  const row = getPlan(id);\n  if (!row) return null;\n\n  const info = db.prepare(`DELETE FROM plans WHERE id = ?`).run(id);\n  if (info.changes === 0) return null;\n\n  if (isTeamSyncEnabled()) {\n    enqueueOutbox({\n      table_name: 'plans',\n      row_id: row.id,\n      operation: 'delete',\n      payload: JSON.stringify({\n        id: row.id,\n        logical_key: row.logical_key,\n        title: row.title,\n      }),\n      machine_id: getTeamMachineId(),\n      created_at: epochSeconds(),\n    });\n  }\n\n  return row;\n}\n\n/**\n * List plans with optional filters, ordered by created_at DESC.\n */\nexport function listPlans(\n  options: ListPlansOptions = {},\n): PlanRow[] {\n  const db = getDatabase();\n\n  const conditions: string[] = [];\n  const params: unknown[] = [];\n\n  if (options.status !== undefined) {\n    conditions.push(`status = ?`);\n    params.push(options.status);\n  }\n\n  const where = conditions.length > 0 ? `WHERE ${conditions.join(' AND ')}` : '';\n  const limit = options.limit ?? DEFAULT_LIST_LIMIT;\n\n  params.push(limit);\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM plans\n     ${where}\n     ORDER BY created_at DESC\n     LIMIT ?`,\n  ).all(...params) as Record<string, unknown>[];\n\n  return rows.map(toPlanRow);\n}\n\n/**\n * List all plans associated with a specific session, ordered by created_at DESC.\n */\nexport function listPlansBySession(sessionId: string): PlanRow[] {\n  const db = getDatabase();\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM plans\n     WHERE session_id = ?\n     ORDER BY created_at DESC`,\n  ).all(sessionId) as Record<string, unknown>[];\n\n  return rows.map(toPlanRow);\n}\n","/**\n * Spore CRUD query helpers.\n *\n * All functions obtain the SQLite instance internally via `getDatabase()`.\n * Queries use positional `?` placeholders throughout (better-sqlite3).\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport { getTeamMachineId } from '@myco/daemon/team-context.js';\nimport { syncRow } from '@myco/db/queries/team-outbox.js';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Default number of spores returned by listSpores when no limit given. */\nconst DEFAULT_LIST_LIMIT = 100;\n\n/** Default spore status for new spores. */\nconst DEFAULT_STATUS = 'active';\n\n/** Default importance score for new spores. */\nexport const DEFAULT_IMPORTANCE = 5;\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** Fields required (or optional) when inserting a spore. */\nexport interface SporeInsert {\n  id: string;\n  agent_id: string;\n  observation_type: string;\n  content: string;\n  created_at: number;\n  session_id?: string | null;\n  prompt_batch_id?: number | null;\n  status?: string;\n  context?: string | null;\n  importance?: number;\n  file_path?: string | null;\n  tags?: string | null;\n  content_hash?: string | null;\n  properties?: string | null;\n  updated_at?: number | null;\n  machine_id?: string;\n}\n\n/** Row shape returned from spore queries (all columns). */\nexport interface SporeRow {\n  id: string;\n  agent_id: string;\n  session_id: string | null;\n  prompt_batch_id: number | null;\n  observation_type: string;\n  status: string;\n  content: string;\n  context: string | null;\n  importance: number;\n  file_path: string | null;\n  tags: string | null;\n  content_hash: string | null;\n  properties: string | null;\n  embedded: number;\n  created_at: number;\n  updated_at: number | null;\n  machine_id: string;\n  synced_at: number | null;\n}\n\n/** Filter options for `listSpores`. */\nexport interface ListSporesOptions {\n  agent_id?: string;\n  observation_type?: string;\n  status?: string;\n  session_id?: string;\n  search?: string;\n  /** Only return spores created after this epoch-seconds timestamp. */\n  since?: number;\n  limit?: number;\n  offset?: number;\n  /**\n   * When explicitly `false`, exclude spores whose source session is still\n   * `status = 'active'` — intelligence-task reads (agent tools, context\n   * queries) should opt in to this. Defaults to permissive so UI listings\n   * and prompt-time context injection keep seeing in-flight work. Explicit\n   * `session_id` filters bypass this check: a direct lookup of one session's\n   * spores is always permitted.\n   */\n  includeActive?: boolean;\n}\n\n// ---------------------------------------------------------------------------\n// Column list\n// ---------------------------------------------------------------------------\n\nconst SPORE_COLUMNS = [\n  'id',\n  'agent_id',\n  'session_id',\n  'prompt_batch_id',\n  'observation_type',\n  'status',\n  'content',\n  'context',\n  'importance',\n  'file_path',\n  'tags',\n  'content_hash',\n  'properties',\n  'embedded',\n  'created_at',\n  'updated_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = SPORE_COLUMNS.join(', ');\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/** Normalize a SQLite result row into a typed SporeRow. */\nfunction toSporeRow(row: Record<string, unknown>): SporeRow {\n  return {\n    id: row.id as string,\n    agent_id: row.agent_id as string,\n    session_id: (row.session_id as string) ?? null,\n    prompt_batch_id: (row.prompt_batch_id as number) ?? null,\n    observation_type: row.observation_type as string,\n    status: row.status as string,\n    content: row.content as string,\n    context: (row.context as string) ?? null,\n    importance: row.importance as number,\n    file_path: (row.file_path as string) ?? null,\n    tags: (row.tags as string) ?? null,\n    content_hash: (row.content_hash as string) ?? null,\n    properties: (row.properties as string) ?? null,\n    embedded: (row.embedded as number) ?? 0,\n    created_at: row.created_at as number,\n    updated_at: (row.updated_at as number) ?? null,\n    machine_id: (row.machine_id as string) ?? 'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Insert a new spore.\n *\n * Requires a valid `agent_id` (foreign key to agents table).\n */\nexport function insertSpore(data: SporeInsert): SporeRow {\n  const db = getDatabase();\n\n  db.prepare(\n    `INSERT INTO spores (\n       id, agent_id, session_id, prompt_batch_id,\n       observation_type, status, content, context,\n       importance, file_path, tags, content_hash,\n       properties, created_at, updated_at, machine_id\n     ) VALUES (\n       ?, ?, ?, ?,\n       ?, ?, ?, ?,\n       ?, ?, ?, ?,\n       ?, ?, ?, ?\n     )`,\n  ).run(\n    data.id,\n    data.agent_id,\n    data.session_id ?? null,\n    data.prompt_batch_id ?? null,\n    data.observation_type,\n    data.status ?? DEFAULT_STATUS,\n    data.content,\n    data.context ?? null,\n    data.importance ?? DEFAULT_IMPORTANCE,\n    data.file_path ?? null,\n    data.tags ?? null,\n    data.content_hash ?? null,\n    data.properties ?? null,\n    data.created_at,\n    data.updated_at ?? null,\n    data.machine_id ?? getTeamMachineId(),\n  );\n\n  const row = toSporeRow(\n    db.prepare(`SELECT ${SELECT_COLUMNS} FROM spores WHERE id = ?`).get(data.id) as Record<string, unknown>,\n  );\n\n  syncRow('spores', row);\n\n  return row;\n}\n\n/**\n * Retrieve a single spore by id.\n *\n * @returns the spore row, or null if not found.\n */\nexport function getSpore(id: string): SporeRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM spores WHERE id = ?`,\n  ).get(id) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toSporeRow(row);\n}\n\n/**\n * List spores with optional filters, ordered by created_at DESC.\n */\n/** Build WHERE clause and bound params from spore filter options. */\nfunction buildSporeWhere(\n  options: Omit<ListSporesOptions, 'limit' | 'offset'>,\n): { where: string; params: unknown[] } {\n  const conditions: string[] = [];\n  const params: unknown[] = [];\n\n  if (options.agent_id !== undefined) {\n    conditions.push(`agent_id = ?`);\n    params.push(options.agent_id);\n  }\n  if (options.observation_type !== undefined) {\n    conditions.push(`observation_type = ?`);\n    params.push(options.observation_type);\n  }\n  if (options.status !== undefined) {\n    conditions.push(`status = ?`);\n    params.push(options.status);\n  }\n  if (options.session_id !== undefined) {\n    conditions.push(`session_id = ?`);\n    params.push(options.session_id);\n  }\n  if (options.search !== undefined && options.search.length > 0) {\n    conditions.push(`(content LIKE ? OR observation_type LIKE ?)`);\n    const pattern = `%${options.search}%`;\n    params.push(pattern, pattern);\n  }\n  if (options.since !== undefined) {\n    conditions.push('created_at > ?');\n    params.push(options.since);\n  }\n\n  // Only exclude spores from in-flight sessions when the caller explicitly\n  // asks for it (intelligence tasks). UI and hook-level context injection\n  // leave this unset so they see everything. A direct session_id filter\n  // bypasses the gate — that lookup is always permitted.\n  if (options.includeActive === false && options.session_id === undefined) {\n    conditions.push(\n      `(session_id IS NULL OR EXISTS (SELECT 1 FROM sessions s WHERE s.id = spores.session_id AND s.status != 'active'))`,\n    );\n  }\n\n  return {\n    where: conditions.length > 0 ? `WHERE ${conditions.join(' AND ')}` : '',\n    params,\n  };\n}\n\n/**\n * List spores with optional filters, ordered by created_at DESC.\n */\nexport function listSpores(\n  options: ListSporesOptions = {},\n): SporeRow[] {\n  const db = getDatabase();\n  const { where, params } = buildSporeWhere(options);\n  const limit = options.limit ?? DEFAULT_LIST_LIMIT;\n  const offset = options.offset ?? 0;\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM spores\n     ${where}\n     ORDER BY created_at DESC\n     LIMIT ?\n     OFFSET ?`,\n  ).all(...params, limit, offset) as Record<string, unknown>[];\n\n  return rows.map(toSporeRow);\n}\n\n/**\n * Count spores matching optional filters (for pagination totals).\n */\nexport function countSpores(\n  options: Omit<ListSporesOptions, 'limit' | 'offset'> = {},\n): number {\n  const db = getDatabase();\n  const { where, params } = buildSporeWhere(options);\n\n  const row = db.prepare(\n    `SELECT COUNT(*) as count FROM spores ${where}`,\n  ).get(...params) as { count: number };\n\n  return row.count;\n}\n\n/**\n * Count active spores created after a given timestamp.\n * Used by skill-evolve to detect new knowledge since last assessment.\n */\nexport function countSporesSince(sinceEpoch: number): number {\n  const db = getDatabase();\n  const row = db.prepare(\n    `SELECT COUNT(*) as count FROM spores WHERE created_at > ? AND status = 'active'`,\n  ).get(sinceEpoch) as { count: number };\n  return row.count;\n}\n\n/**\n * List active spore IDs created after a given timestamp, ordered newest first.\n */\nexport function listSporeIdsSince(sinceEpoch: number, limit = 20): string[] {\n  const db = getDatabase();\n  const rows = db.prepare(\n    `SELECT id FROM spores WHERE created_at > ? AND status = 'active' ORDER BY created_at DESC LIMIT ?`,\n  ).all(sinceEpoch, limit) as Array<{ id: string }>;\n  return rows.map(r => r.id);\n}\n\n/**\n * Update the status and updated_at timestamp of a spore.\n *\n * @returns the updated row, or null if the spore does not exist.\n */\nexport function updateSporeStatus(\n  id: string,\n  status: string,\n  updatedAt: number,\n): SporeRow | null {\n  const db = getDatabase();\n\n  const info = db.prepare(\n    `UPDATE spores\n     SET status = ?, updated_at = ?\n     WHERE id = ?`,\n  ).run(status, updatedAt, id);\n\n  if (info.changes === 0) return null;\n\n  const row = toSporeRow(\n    db.prepare(`SELECT ${SELECT_COLUMNS} FROM spores WHERE id = ?`).get(id) as Record<string, unknown>,\n  );\n\n  syncRow('spores', row);\n\n  return row;\n}\n","/**\n * Cortex content assembly.\n *\n * Builds the material that the Cortex agent consumes and emits:\n *   - Capability resolution (team/collective availability)\n *   - Delivery-decision logic (inline vs session-start injection)\n *   - Retrieval guidance derived from MCP tool definitions\n *   - Instruction-input prompt for the `cortex-instructions` agent task\n *\n * Pure content layer — orchestration (agent run launch, snapshot reads,\n * prompt builder) lives in `@myco/daemon/cortex`.\n */\nimport { createHash } from 'node:crypto';\nimport type { MycoConfig } from '@myco/config/schema.js';\nimport {\n  CONTENT_HASH_ALGORITHM,\n  DEFAULT_AGENT_ID,\n  DIGEST_FALLBACK_TIER,\n} from '@myco/constants.js';\nimport { getCortexInstructions } from '@myco/db/queries/cortex-instructions.js';\nimport { getDigestExtract } from '@myco/db/queries/digest-extracts.js';\nimport { listPlans } from '@myco/db/queries/plans.js';\nimport { listSessions } from '@myco/db/queries/sessions.js';\nimport { listSpores } from '@myco/db/queries/spores.js';\nimport type { TeamSyncClient } from '../daemon/team-sync.js';\nimport {\n  TOOL_DEFINITIONS,\n  COLLECTIVE_TOOL_DEFINITIONS,\n  getToolCortexPriority,\n  type ToolDefinition,\n} from '../mcp/tool-definitions.js';\n\nconst MAX_COLLECTIVE_CAPABILITY_LABELS = 4;\nconst ALL_CORTEX_TOOL_DEFINITIONS = [...TOOL_DEFINITIONS, ...COLLECTIVE_TOOL_DEFINITIONS];\n\nconst RECENT_SESSION_LIMIT = 3;\nconst RECENT_SPORE_LIMIT = 4;\nconst RECENT_PLAN_LIMIT = 3;\nconst CONTENT_PREVIEW_MAX_CHARS = 240;\nconst DIGEST_EXCERPT_MAX_CHARS = 900;\nconst JSON_INDENT = 2;\n\nexport const CORTEX_SKILLS_NOTE = 'Project and Myco skills are already registered with the agent separately. Tell the agent to use those skills directly when relevant, and do not instruct it to call `myco_skills`.';\n\n// ---------------------------------------------------------------------------\n// Capability resolution\n// ---------------------------------------------------------------------------\n\nexport interface CortexCapabilities {\n  teamEnabled: boolean;\n  collectiveConnected: boolean;\n  collectiveCapabilities: string[];\n}\n\nexport interface CortexToolGuidance {\n  tool: string;\n  guidance: string;\n  requiresTeam?: boolean;\n  requiresCollective?: boolean;\n  priority: number;\n}\n\nexport interface DeliveryDecision {\n  inlineInstructions: boolean;\n  reason: 'missing-symbiont' | 'session-start-supported' | 'session-start-disabled' | 'no-session-start';\n}\n\nfunction toCortexToolGuidance(\n  tool: Pick<ToolDefinition, 'name' | 'cortex'>,\n): CortexToolGuidance | null {\n  const cortex = tool.cortex;\n  if (!cortex) return null;\n  return {\n    tool: tool.name,\n    guidance: cortex.guidance,\n    requiresTeam: cortex.requiresTeam,\n    requiresCollective: cortex.requiresCollective,\n    priority: getToolCortexPriority(tool),\n  };\n}\n\nexport const RETRIEVAL_GUIDANCE: CortexToolGuidance[] = ALL_CORTEX_TOOL_DEFINITIONS\n  .map(toCortexToolGuidance)\n  .filter((entry): entry is CortexToolGuidance => entry !== null)\n  .sort((left, right) => left.priority - right.priority);\n\nexport async function resolveCortexCapabilities(\n  config: Pick<MycoConfig, 'team'>,\n  getTeamClient?: () => TeamSyncClient | null,\n): Promise<CortexCapabilities> {\n  const teamClient = getTeamClient?.() ?? null;\n  const teamEnabled = Boolean(config.team.enabled && teamClient);\n  let collectiveConnected = false;\n  let collectiveCapabilities: string[] = [];\n\n  if (teamEnabled && teamClient) {\n    try {\n      const status = await teamClient.getCollectiveStatus();\n      collectiveConnected = Boolean(status?.connected);\n      collectiveCapabilities = status?.capabilities ?? [];\n    } catch {\n      collectiveConnected = false;\n      collectiveCapabilities = [];\n    }\n  }\n\n  return {\n    teamEnabled,\n    collectiveConnected,\n    collectiveCapabilities,\n  };\n}\n\nexport function shouldInjectCortex(\n  config: MycoConfig['context'],\n): boolean {\n  return config.cortex_enabled;\n}\n\nexport function resolveInstructionDelivery(\n  config: MycoConfig['context'],\n  symbiont: {\n    supportsSessionStartInjection: boolean;\n  } | null,\n): DeliveryDecision {\n  if (!symbiont) {\n    return { inlineInstructions: true, reason: 'missing-symbiont' };\n  }\n  if (!config.cortex_enabled) {\n    return { inlineInstructions: true, reason: 'session-start-disabled' };\n  }\n  if (symbiont.supportsSessionStartInjection) {\n    return { inlineInstructions: false, reason: 'session-start-supported' };\n  }\n  return { inlineInstructions: true, reason: 'no-session-start' };\n}\n\nexport function buildCapabilitySummary(capabilities: CortexCapabilities): string[] {\n  const summary = [\n    capabilities.collectiveConnected\n      ? 'Myco can retrieve local, team, and collective knowledge in this project.'\n      : capabilities.teamEnabled\n        ? 'Myco can retrieve local and shared team knowledge in this project.'\n        : 'Myco can retrieve local project knowledge in this project.',\n    'Use only the currently available Myco MCP tools described below, and omit any surfaces that are offline.',\n  ];\n\n  if (capabilities.collectiveConnected && capabilities.collectiveCapabilities.length > 0) {\n    const labels = capabilities.collectiveCapabilities.slice(0, MAX_COLLECTIVE_CAPABILITY_LABELS);\n    const remaining = Math.max(\n      0,\n      capabilities.collectiveCapabilities.length - MAX_COLLECTIVE_CAPABILITY_LABELS,\n    );\n    const suffix = remaining > 0 ? ` (+${remaining} more)` : '';\n    summary.push(`Collective capabilities online: ${labels.join(', ')}${suffix}.`);\n  }\n\n  return summary;\n}\n\nexport function buildRetrievalGuidanceLines(capabilities: CortexCapabilities): string[] {\n  const lines: string[] = [];\n\n  for (const entry of RETRIEVAL_GUIDANCE) {\n    if (entry.requiresTeam && !capabilities.teamEnabled) continue;\n    if (entry.requiresCollective && !capabilities.collectiveConnected) continue;\n    lines.push(`- \\`${entry.tool}\\`: ${entry.guidance}`);\n  }\n\n  return lines;\n}\n\n// ---------------------------------------------------------------------------\n// Instruction-input prompt assembly (for the `cortex-instructions` task)\n// ---------------------------------------------------------------------------\n\nfunction hashInput(value: unknown): string {\n  return createHash(CONTENT_HASH_ALGORITHM)\n    .update(JSON.stringify(value))\n    .digest('hex');\n}\n\nfunction truncatePreview(text: string | null, maxChars: number = CONTENT_PREVIEW_MAX_CHARS): string | null {\n  if (!text) return null;\n  return text.length > maxChars\n    ? `${text.slice(0, maxChars)}...`\n    : text;\n}\n\nfunction formatRecentSessions(): string {\n  const sessions = listSessions({\n    includeActive: true,\n    limit: RECENT_SESSION_LIMIT,\n  });\n  if (sessions.length === 0) return 'No recent sessions are available.';\n\n  return sessions.map((session) => {\n    const parts = [\n      `- ${session.title ?? session.id}`,\n      session.branch ? `branch=${session.branch}` : null,\n      truncatePreview(session.summary),\n    ].filter(Boolean);\n    return parts.join(' — ');\n  }).join('\\n');\n}\n\nfunction formatRecentSpores(): string {\n  const spores = listSpores({\n    includeActive: true,\n    status: 'active',\n    limit: RECENT_SPORE_LIMIT,\n  });\n  if (spores.length === 0) return 'No recent spores are available.';\n\n  return spores.map((spore) => {\n    const parts = [\n      `- [${spore.observation_type}] ${truncatePreview(spore.content)}`,\n      spore.session_id ? `session=${spore.session_id}` : null,\n    ].filter(Boolean);\n    return parts.join(' — ');\n  }).join('\\n');\n}\n\nfunction formatRecentPlans(): string {\n  const plans = listPlans({\n    status: 'active',\n    limit: RECENT_PLAN_LIMIT,\n  });\n  if (plans.length === 0) return 'No active plans are available.';\n\n  return plans.map((plan) => {\n    const parts = [\n      `- ${plan.title ?? plan.id}`,\n      `status=${plan.status}`,\n      truncatePreview(plan.content),\n    ].filter(Boolean);\n    return parts.join(' — ');\n  }).join('\\n');\n}\n\nfunction formatDigestExcerpt(config: MycoConfig): string {\n  const preferredTier = config.context.digest_tier;\n  const extract =\n    getDigestExtract(DEFAULT_AGENT_ID, preferredTier) ??\n    getDigestExtract(DEFAULT_AGENT_ID, DIGEST_FALLBACK_TIER);\n  if (!extract) return 'No current digest extract is available.';\n\n  const excerpt = truncatePreview(extract.content, DIGEST_EXCERPT_MAX_CHARS) ?? '';\n  return excerpt\n    ? `Tier ${extract.tier} digest excerpt:\\n${excerpt}`\n    : `Tier ${extract.tier} digest extract is empty.`;\n}\n\nexport interface CortexInstructionPayload {\n  inputHash: string;\n  instruction: string;\n}\n\nexport async function buildCortexInstructionsInput(\n  config: MycoConfig,\n  getTeamClient?: () => TeamSyncClient | null,\n): Promise<CortexInstructionPayload> {\n  const capabilities = await resolveCortexCapabilities(config, getTeamClient);\n  const capabilitySummary = buildCapabilitySummary(capabilities);\n  const retrievalGuidance = buildRetrievalGuidanceLines(capabilities);\n  const recentSessions = formatRecentSessions();\n  const recentSpores = formatRecentSpores();\n  const recentPlans = formatRecentPlans();\n  const digestExcerpt = formatDigestExcerpt(config);\n  const input = {\n    context: {\n      digest_tier: config.context.digest_tier,\n      cortex_enabled: config.context.cortex_enabled,\n      prompt_search: config.context.prompt_search,\n      prompt_max_spores: config.context.prompt_max_spores,\n    },\n    capabilities,\n    digestExcerpt,\n    recentSessions,\n    recentSpores,\n    recentPlans,\n    skillsNote: CORTEX_SKILLS_NOTE,\n  };\n\n  return {\n    inputHash: hashInput(input),\n    instruction: [\n      'Author compact session-start instructions for another coding agent.',\n      'Focus on teaching how to use the highest-signal Myco tools correctly, especially retrieval and plan persistence.',\n      'Do not restate AGENTS.md or static installation details.',\n      '',\n      '## Runtime config',\n      JSON.stringify(input.context, null, JSON_INDENT),\n      '',\n      '## Authoring requirements',\n      '- Start with the heading `## Myco-Enabled Project`.',\n      '- Follow the heading with one brief sentence explaining that Myco provides project memory, prior decisions, plans, and retrieval tools for this repository.',\n      '- Teach the most useful current Myco MCP tool behavior, especially retrieval and plan persistence.',\n      '- Use the recent vault activity below to mention live project hotspots when that improves usefulness.',\n      `- ${CORTEX_SKILLS_NOTE}`,\n      '- Keep the heading and description brief so most of the budget goes to retrieval guidance.',\n      '- Keep the output compact and ready for direct injection.',\n      '',\n      '## Capability summary',\n      ...capabilitySummary,\n      '',\n      '## Tool guidance to encode',\n      ...retrievalGuidance,\n      '',\n      '## Current digest excerpt',\n      digestExcerpt,\n      '',\n      '## Recent sessions',\n      recentSessions,\n      '',\n      '## Recent spores',\n      recentSpores,\n      '',\n      '## Active plans',\n      recentPlans,\n    ].join('\\n'),\n  };\n}\n\nexport async function buildScheduledCortexInstruction(\n  config: MycoConfig,\n  getTeamClient?: () => TeamSyncClient | null,\n): Promise<CortexInstructionPayload | undefined> {\n  const built = await buildCortexInstructionsInput(config, getTeamClient);\n  const existing = getCortexInstructions(DEFAULT_AGENT_ID);\n  if (existing?.input_hash === built.inputHash) {\n    return undefined;\n  }\n  return 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'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\nexport function upsertCortexInstructions(input: CortexInstructionsUpsert): CortexInstructionsRow {\n  const db = getDatabase();\n  const id = input.id ?? `${input.agent_id}:${DEFAULT_CORTEX_INSTRUCTIONS_ID}`;\n\n  const row = db.prepare(\n    `INSERT INTO cortex_instructions (\n       id, agent_id, content, input_hash, source_run_id, generated_at, machine_id\n     ) VALUES (\n       ?, ?, ?, ?, ?, ?, ?\n     )\n     ON CONFLICT (id) DO UPDATE SET\n       content = EXCLUDED.content,\n       input_hash = EXCLUDED.input_hash,\n       source_run_id = EXCLUDED.source_run_id,\n       generated_at = EXCLUDED.generated_at,\n       machine_id = EXCLUDED.machine_id\n     RETURNING ${SELECT_COLUMNS}`,\n  ).get(\n    id,\n    input.agent_id,\n    input.content,\n    input.input_hash,\n    input.source_run_id ?? null,\n    input.generated_at,\n    input.machine_id ?? getTeamMachineId(),\n  ) as Record<string, unknown>;\n\n  return toCortexInstructionsRow(row);\n}\n\nexport function getCortexInstructions(agentId: string): CortexInstructionsRow | null {\n  const db = getDatabase();\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM cortex_instructions\n     WHERE agent_id = ?\n     ORDER BY generated_at DESC\n     LIMIT 1`,\n  ).get(agentId) as Record<string, unknown> | undefined;\n  return row ? toCortexInstructionsRow(row) : null;\n}\n","/**\n * Digest extract CRUD query helpers.\n *\n * All functions obtain the SQLite instance internally via `getDatabase()`.\n * Queries use positional `?` placeholders throughout (better-sqlite3).\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport { DIGEST_TIERS, epochSeconds } from '@myco/constants.js';\nimport { getTeamMachineId } from '@myco/daemon/team-context.js';\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** Fields required when upserting a digest extract. */\nexport interface DigestExtractUpsert {\n  agent_id: string;\n  tier: number;\n  content: string;\n  generated_at: number;\n  machine_id?: string;\n}\n\n/**\n * Options that control whether the upsert actually writes and how the\n * revision history is recorded. Added in schema v15.\n */\nexport interface DigestExtractUpsertOptions {\n  /**\n   * When true, the upsert is a no-op: nothing is written, no revision is\n   * recorded, and `null` is returned. Used by dry-run tooling so we can\n   * preview writes without touching persistent state.\n   */\n  dryRun?: boolean;\n  /**\n   * Id of the agent_run that produced this write. Recorded on the\n   * revision row so operators can roll a specific run back.\n   */\n  runId?: string | null;\n  /**\n   * Optional JSON-encoded metadata to store with the revision.\n   */\n  metadata?: string | null;\n}\n\n/** Row shape for entries in digest_extract_revisions. */\nexport interface DigestExtractRevisionRow {\n  id: number;\n  agent_id: string;\n  tier: number;\n  content: string;\n  metadata: string | null;\n  run_id: string | null;\n  parent_revision_id: number | null;\n  created_at: number;\n}\n\n/** Options accepted by rollbackDigestExtract. */\nexport interface RollbackDigestExtractOptions {\n  revisionId: number;\n  /** Id of the run performing the rollback (recorded on the new revision). */\n  runId?: string | null;\n}\n\n/** Row shape returned from digest_extracts queries (all columns). */\nexport interface DigestExtractRow {\n  id: number;\n  agent_id: string;\n  tier: number;\n  content: string;\n  substrate_hash: string | null;\n  generated_at: number;\n  machine_id: string;\n  synced_at: number | null;\n}\n\n// ---------------------------------------------------------------------------\n// Column list\n// ---------------------------------------------------------------------------\n\nconst EXTRACT_COLUMNS = [\n  'id',\n  'agent_id',\n  'tier',\n  'content',\n  'substrate_hash',\n  'generated_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = EXTRACT_COLUMNS.join(', ');\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/** Normalize a SQLite result row into a typed DigestExtractRow. */\nfunction toDigestExtractRow(row: Record<string, unknown>): DigestExtractRow {\n  return {\n    id: row.id as number,\n    agent_id: row.agent_id as string,\n    tier: row.tier as number,\n    content: row.content as string,\n    substrate_hash: (row.substrate_hash as string) ?? null,\n    generated_at: row.generated_at as number,\n    machine_id: (row.machine_id as string) ?? 'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Upsert a digest extract. Uses ON CONFLICT on (agent_id, tier).\n *\n * Schema v15 behaviour: when an existing row would be overwritten, the\n * prior content is copied into digest_extract_revisions (linked to the\n * previous revision if any) *before* the upsert runs. This makes the\n * revision log append-only and preserves the state the agent is replacing.\n *\n * When `options.dryRun === true`, the function is a no-op: nothing is\n * written to digest_extracts or digest_extract_revisions, and `null` is\n * returned. Call sites that care about the hydrated row should skip\n * follow-up reads when dry-running.\n */\nexport function upsertDigestExtract(\n  data: DigestExtractUpsert,\n  options: DigestExtractUpsertOptions = {},\n): DigestExtractRow | null {\n  if (options.dryRun) return null;\n\n  const db = getDatabase();\n\n  // The revision snapshot and the live-row upsert MUST be atomic. Without\n  // a transaction, a crash between the two writes would leave the revision\n  // log out of sync with `digest_extracts` — the exact invariant this log\n  // exists to guarantee. Matches the pattern used in sessions.ts /\n  // skill-records.ts for multi-table writes.\n  return db.transaction(() => {\n    // Capture the row we're about to overwrite (if any) so we can copy it\n    // into the revision history before mutating the live table.\n    const existingRow = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(data.agent_id, data.tier) as Record<string, unknown> | undefined;\n\n    if (existingRow) {\n      const priorRevisionId = db.prepare(\n        `SELECT id FROM digest_extract_revisions\n         WHERE agent_id = ? AND tier = ?\n         ORDER BY id DESC\n         LIMIT 1`,\n      ).get(data.agent_id, data.tier) as { id: number } | undefined;\n\n      db.prepare(\n        `INSERT INTO digest_extract_revisions\n           (agent_id, tier, content, metadata, run_id, parent_revision_id, created_at)\n         VALUES (?, ?, ?, ?, ?, ?, ?)`,\n      ).run(\n        data.agent_id,\n        data.tier,\n        existingRow.content as string,\n        options.metadata ?? null,\n        options.runId ?? null,\n        priorRevisionId?.id ?? null,\n        epochSeconds(),\n      );\n    }\n\n    db.prepare(\n      `INSERT INTO digest_extracts (agent_id, tier, content, generated_at)\n       VALUES (?, ?, ?, ?)\n       ON CONFLICT (agent_id, tier) DO UPDATE SET\n         content = EXCLUDED.content,\n         generated_at = EXCLUDED.generated_at`,\n    ).run(data.agent_id, data.tier, data.content, data.generated_at);\n\n    // Always look up by composite unique key — works for both insert and update cases.\n    const row = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(data.agent_id, data.tier);\n\n    return toDigestExtractRow(row as Record<string, unknown>);\n  })();\n}\n\n/**\n * Get a digest extract for a specific agent and tier.\n *\n * @returns the extract row, or null if not found.\n */\nexport function getDigestExtract(\n  agentId: string,\n  tier: number,\n): DigestExtractRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM digest_extracts\n     WHERE agent_id = ? AND tier = ?`,\n  ).get(agentId, tier) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toDigestExtractRow(row);\n}\n\n/**\n * List digest extracts for an agent, filtered to configured tiers, ordered by tier ASC.\n */\nexport function listDigestExtracts(\n  agentId: string,\n): DigestExtractRow[] {\n  const db = getDatabase();\n  const tierPlaceholders = DIGEST_TIERS.map(() => '?').join(', ');\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM digest_extracts\n     WHERE agent_id = ? AND tier IN (${tierPlaceholders})\n     ORDER BY tier ASC`,\n  ).all(agentId, ...DIGEST_TIERS) as Record<string, unknown>[];\n\n  return rows.map(toDigestExtractRow);\n}\n\n// ---------------------------------------------------------------------------\n// Revision history (schema v15)\n// ---------------------------------------------------------------------------\n\nconst REVISION_COLUMNS = [\n  'id',\n  'agent_id',\n  'tier',\n  'content',\n  'metadata',\n  'run_id',\n  'parent_revision_id',\n  'created_at',\n] as const;\n\nconst REVISION_SELECT = REVISION_COLUMNS.join(', ');\n\nfunction toRevisionRow(row: Record<string, unknown>): DigestExtractRevisionRow {\n  return {\n    id: row.id as number,\n    agent_id: row.agent_id as string,\n    tier: row.tier as number,\n    content: row.content as string,\n    metadata: (row.metadata as string) ?? null,\n    run_id: (row.run_id as string) ?? null,\n    parent_revision_id: (row.parent_revision_id as number) ?? null,\n    created_at: row.created_at as number,\n  };\n}\n\n/**\n * List revisions for a specific (agent_id, tier) pair, newest first.\n * Used by operators who want to roll back a digest to an earlier state.\n */\nexport function listDigestRevisions(\n  options: { agentId: string; tier: number; limit?: number },\n): DigestExtractRevisionRow[] {\n  const db = getDatabase();\n  const limit = options.limit ?? 50;\n  const rows = db.prepare(\n    `SELECT ${REVISION_SELECT}\n     FROM digest_extract_revisions\n     WHERE agent_id = ? AND tier = ?\n     ORDER BY created_at DESC, id DESC\n     LIMIT ?`,\n  ).all(options.agentId, options.tier, limit) as Record<string, unknown>[];\n  return rows.map(toRevisionRow);\n}\n\n/** Result of a successful rollback. */\nexport interface RollbackDigestExtractResult {\n  /** The restored digest_extracts row (content now matches the target revision). */\n  row: DigestExtractRow;\n  /**\n   * Id of the newly-appended revision that captures the pre-rollback live\n   * content (so the rollback itself is reversible). `null` when no live row\n   * existed before the rollback (nothing to preserve).\n   */\n  newRevisionId: number | null;\n}\n\n/**\n * Restore an earlier revision's content back into digest_extracts, and\n * append a *new* revision row so the revision history remains append-only.\n *\n * The newly-appended revision captures what was live before the rollback\n * (so the rollback itself is reversible), with its parent set to the last\n * revision for (agent_id, tier).\n *\n * Returns the restored digest_extracts row plus the newly-minted revision\n * id, or null if the revision id doesn't exist.\n */\nexport function rollbackDigestExtract(\n  options: RollbackDigestExtractOptions,\n): RollbackDigestExtractResult | null {\n  const db = getDatabase();\n\n  const revision = db.prepare(\n    `SELECT ${REVISION_SELECT}\n     FROM digest_extract_revisions\n     WHERE id = ?`,\n  ).get(options.revisionId) as Record<string, unknown> | undefined;\n\n  if (!revision) return null;\n\n  const agentId = revision.agent_id as string;\n  const tier = revision.tier as number;\n  const targetContent = revision.content as string;\n  const now = epochSeconds();\n\n  // Preservation of the pre-rollback state and the live-row restore must\n  // be atomic — same invariant as `upsertDigestExtract`.\n  return db.transaction(() => {\n    // 1) Append a new revision that preserves the *current* live content\n    //    (pre-rollback state) so the rollback itself is reversible.\n    const currentRow = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(agentId, tier) as Record<string, unknown> | undefined;\n\n    let newRevisionId: number | null = null;\n    if (currentRow) {\n      const priorRevisionId = db.prepare(\n        `SELECT id FROM digest_extract_revisions\n         WHERE agent_id = ? AND tier = ?\n         ORDER BY id DESC\n         LIMIT 1`,\n      ).get(agentId, tier) as { id: number } | undefined;\n\n      const info = db.prepare(\n        `INSERT INTO digest_extract_revisions\n           (agent_id, tier, content, metadata, run_id, parent_revision_id, created_at)\n         VALUES (?, ?, ?, ?, ?, ?, ?)`,\n      ).run(\n        agentId,\n        tier,\n        currentRow.content as string,\n        JSON.stringify({ rollback_of: options.revisionId }),\n        options.runId ?? null,\n        priorRevisionId?.id ?? null,\n        now,\n      );\n      newRevisionId = Number(info.lastInsertRowid);\n    }\n\n    // 2) Restore the target revision's content into the live row.\n    db.prepare(\n      `INSERT INTO digest_extracts (agent_id, tier, content, generated_at)\n       VALUES (?, ?, ?, ?)\n       ON CONFLICT (agent_id, tier) DO UPDATE SET\n         content = EXCLUDED.content,\n         generated_at = EXCLUDED.generated_at`,\n    ).run(agentId, tier, targetContent, now);\n\n    const restored = db.prepare(\n      `SELECT ${SELECT_COLUMNS} FROM digest_extracts WHERE agent_id = ? AND tier = ?`,\n    ).get(agentId, tier) as Record<string, unknown>;\n\n    return {\n      row: toDigestExtractRow(restored),\n      newRevisionId,\n    };\n  })();\n}\n","/**\n * Plan CRUD query helpers.\n *\n * All functions obtain the SQLite instance internally via `getDatabase()`.\n * Queries use positional `?` placeholders throughout (better-sqlite3).\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport { epochSeconds } from '@myco/constants.js';\nimport { getTeamMachineId, isTeamSyncEnabled } from '@myco/daemon/team-context.js';\nimport { enqueueOutbox } from '@myco/db/queries/team-outbox.js';\nimport { syncRow } from '@myco/db/queries/team-outbox.js';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Default number of plans returned by listPlans when no limit given. */\nconst DEFAULT_LIST_LIMIT = 100;\n\n/** Default plan status for new plans. */\nconst DEFAULT_STATUS = 'active';\n\n/** Default processed flag for new plans. */\nconst DEFAULT_PROCESSED = 0;\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** Fields required (or optional) when inserting/upserting a plan. */\nexport interface PlanInsert {\n  id: string;\n  logical_key: string;\n  created_at: number;\n  status?: string;\n  author?: string | null;\n  title?: string | null;\n  content?: string | null;\n  source_path?: string | null;\n  tags?: string | null;\n  session_id?: string | null;\n  prompt_batch_id?: number | null;\n  content_hash?: string | null;\n  processed?: number;\n  updated_at?: number | null;\n  machine_id?: string;\n}\n\n/** Row shape returned from plan queries. */\nexport interface PlanRow {\n  id: string;\n  logical_key: string;\n  status: string;\n  author: string | null;\n  title: string | null;\n  content: string | null;\n  source_path: string | null;\n  tags: string | null;\n  session_id: string | null;\n  prompt_batch_id: number | null;\n  content_hash: string | null;\n  processed: number;\n  embedded: number;\n  created_at: number;\n  updated_at: number | null;\n  machine_id: string;\n  synced_at: number | null;\n}\n\n/** Filter options for `listPlans`. */\nexport interface ListPlansOptions {\n  status?: string;\n  limit?: number;\n}\n\n// ---------------------------------------------------------------------------\n// Column list\n// ---------------------------------------------------------------------------\n\nconst PLAN_COLUMNS = [\n  'id',\n  'logical_key',\n  'status',\n  'author',\n  'title',\n  'content',\n  'source_path',\n  'tags',\n  'session_id',\n  'prompt_batch_id',\n  'content_hash',\n  'processed',\n  'embedded',\n  'created_at',\n  'updated_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = PLAN_COLUMNS.join(', ');\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/** Normalize a SQLite result row into a typed PlanRow. */\nfunction toPlanRow(row: Record<string, unknown>): PlanRow {\n  return {\n    id: row.id as string,\n    logical_key: row.logical_key as string,\n    status: row.status as string,\n    author: (row.author as string) ?? null,\n    title: (row.title as string) ?? null,\n    content: (row.content as string) ?? null,\n    source_path: (row.source_path as string) ?? null,\n    tags: (row.tags as string) ?? null,\n    session_id: (row.session_id as string) ?? null,\n    prompt_batch_id: (row.prompt_batch_id as number) ?? null,\n    content_hash: (row.content_hash as string) ?? null,\n    processed: row.processed as number,\n    embedded: (row.embedded as number) ?? 0,\n    created_at: row.created_at as number,\n    updated_at: (row.updated_at as number) ?? null,\n    machine_id: (row.machine_id as string) ?? 'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Insert a plan or update it if the id already exists.\n *\n * On conflict the row is updated with the values from `data`.\n */\nexport function upsertPlan(data: PlanInsert): PlanRow {\n  const db = getDatabase();\n\n  db.prepare(\n    `INSERT INTO plans (\n       id, logical_key, status, author, title, content,\n       source_path, tags, session_id, prompt_batch_id, content_hash,\n       processed, created_at, updated_at, machine_id\n     ) VALUES (\n       ?, ?, ?, ?, ?, ?,\n       ?, ?, ?, ?, ?,\n       ?, ?, ?, ?\n     )\n     ON CONFLICT (logical_key) DO UPDATE SET\n       id              = EXCLUDED.id,\n       status          = EXCLUDED.status,\n       author          = EXCLUDED.author,\n       title           = EXCLUDED.title,\n       content         = EXCLUDED.content,\n       source_path     = EXCLUDED.source_path,\n       tags            = EXCLUDED.tags,\n       session_id      = EXCLUDED.session_id,\n       prompt_batch_id = EXCLUDED.prompt_batch_id,\n       content_hash    = EXCLUDED.content_hash,\n       processed       = EXCLUDED.processed,\n       updated_at      = EXCLUDED.updated_at,\n       embedded        = CASE\n         WHEN EXCLUDED.content_hash != plans.content_hash THEN 0\n         ELSE plans.embedded\n       END`,\n  ).run(\n    data.id,\n    data.logical_key,\n    data.status ?? DEFAULT_STATUS,\n    data.author ?? null,\n    data.title ?? null,\n    data.content ?? null,\n    data.source_path ?? null,\n    data.tags ?? null,\n    data.session_id ?? null,\n    data.prompt_batch_id ?? null,\n    data.content_hash ?? null,\n    data.processed ?? DEFAULT_PROCESSED,\n    data.created_at,\n    data.updated_at ?? null,\n    data.machine_id ?? getTeamMachineId(),\n  );\n\n  const row = toPlanRow(\n    db.prepare(`SELECT ${SELECT_COLUMNS} FROM plans WHERE logical_key = ?`).get(data.logical_key) as Record<string, unknown>,\n  );\n\n  syncRow('plans', row);\n\n  return row;\n}\n\n/**\n * Retrieve a single plan by id.\n *\n * @returns the plan row, or null if not found.\n */\nexport function getPlan(id: string): PlanRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM plans WHERE id = ?`,\n  ).get(id) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toPlanRow(row);\n}\n\n/**\n * Retrieve a single plan by logical key.\n *\n * @returns the plan row, or null if not found.\n */\nexport function getPlanByLogicalKey(logicalKey: string): PlanRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM plans WHERE logical_key = ?`,\n  ).get(logicalKey) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toPlanRow(row);\n}\n\n/**\n * Delete a single plan by id and enqueue a team-sync tombstone when enabled.\n *\n * @returns the deleted plan row, or null if not found.\n */\nexport function deletePlan(id: string): PlanRow | null {\n  const db = getDatabase();\n  const row = getPlan(id);\n  if (!row) return null;\n\n  const info = db.prepare(`DELETE FROM plans WHERE id = ?`).run(id);\n  if (info.changes === 0) return null;\n\n  if (isTeamSyncEnabled()) {\n    enqueueOutbox({\n      table_name: 'plans',\n      row_id: row.id,\n      operation: 'delete',\n      payload: JSON.stringify({\n        id: row.id,\n        logical_key: row.logical_key,\n        title: row.title,\n      }),\n      machine_id: getTeamMachineId(),\n      created_at: epochSeconds(),\n    });\n  }\n\n  return row;\n}\n\n/**\n * List plans with optional filters, ordered by created_at DESC.\n */\nexport function listPlans(\n  options: ListPlansOptions = {},\n): PlanRow[] {\n  const db = getDatabase();\n\n  const conditions: string[] = [];\n  const params: unknown[] = [];\n\n  if (options.status !== undefined) {\n    conditions.push(`status = ?`);\n    params.push(options.status);\n  }\n\n  const where = conditions.length > 0 ? `WHERE ${conditions.join(' AND ')}` : '';\n  const limit = options.limit ?? DEFAULT_LIST_LIMIT;\n\n  params.push(limit);\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM plans\n     ${where}\n     ORDER BY created_at DESC\n     LIMIT ?`,\n  ).all(...params) as Record<string, unknown>[];\n\n  return rows.map(toPlanRow);\n}\n\n/**\n * List all plans associated with a specific session, ordered by created_at DESC.\n */\nexport function listPlansBySession(sessionId: string): PlanRow[] {\n  const db = getDatabase();\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM plans\n     WHERE session_id = ?\n     ORDER BY created_at DESC`,\n  ).all(sessionId) as Record<string, unknown>[];\n\n  return rows.map(toPlanRow);\n}\n","/**\n * Spore CRUD query helpers.\n *\n * All functions obtain the SQLite instance internally via `getDatabase()`.\n * Queries use positional `?` placeholders throughout (better-sqlite3).\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport { getTeamMachineId } from '@myco/daemon/team-context.js';\nimport { syncRow } from '@myco/db/queries/team-outbox.js';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Default number of spores returned by listSpores when no limit given. */\nconst DEFAULT_LIST_LIMIT = 100;\n\n/** Default spore status for new spores. */\nconst DEFAULT_STATUS = 'active';\n\n/** Default importance score for new spores. */\nexport const DEFAULT_IMPORTANCE = 5;\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** Fields required (or optional) when inserting a spore. */\nexport interface SporeInsert {\n  id: string;\n  agent_id: string;\n  observation_type: string;\n  content: string;\n  created_at: number;\n  session_id?: string | null;\n  prompt_batch_id?: number | null;\n  status?: string;\n  context?: string | null;\n  importance?: number;\n  file_path?: string | null;\n  tags?: string | null;\n  content_hash?: string | null;\n  properties?: string | null;\n  updated_at?: number | null;\n  machine_id?: string;\n}\n\n/** Row shape returned from spore queries (all columns). */\nexport interface SporeRow {\n  id: string;\n  agent_id: string;\n  session_id: string | null;\n  prompt_batch_id: number | null;\n  observation_type: string;\n  status: string;\n  content: string;\n  context: string | null;\n  importance: number;\n  file_path: string | null;\n  tags: string | null;\n  content_hash: string | null;\n  properties: string | null;\n  embedded: number;\n  created_at: number;\n  updated_at: number | null;\n  machine_id: string;\n  synced_at: number | null;\n}\n\n/** Filter options for `listSpores`. */\nexport interface ListSporesOptions {\n  agent_id?: string;\n  observation_type?: string;\n  status?: string;\n  session_id?: string;\n  search?: string;\n  /** Only return spores created after this epoch-seconds timestamp. */\n  since?: number;\n  limit?: number;\n  offset?: number;\n  /**\n   * When explicitly `false`, exclude spores whose source session is still\n   * `status = 'active'` — intelligence-task reads (agent tools, context\n   * queries) should opt in to this. Defaults to permissive so UI listings\n   * and prompt-time context injection keep seeing in-flight work. Explicit\n   * `session_id` filters bypass this check: a direct lookup of one session's\n   * spores is always permitted.\n   */\n  includeActive?: boolean;\n}\n\n// ---------------------------------------------------------------------------\n// Column list\n// ---------------------------------------------------------------------------\n\nconst SPORE_COLUMNS = [\n  'id',\n  'agent_id',\n  'session_id',\n  'prompt_batch_id',\n  'observation_type',\n  'status',\n  'content',\n  'context',\n  'importance',\n  'file_path',\n  'tags',\n  'content_hash',\n  'properties',\n  'embedded',\n  'created_at',\n  'updated_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = SPORE_COLUMNS.join(', ');\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/** Normalize a SQLite result row into a typed SporeRow. */\nfunction toSporeRow(row: Record<string, unknown>): SporeRow {\n  return {\n    id: row.id as string,\n    agent_id: row.agent_id as string,\n    session_id: (row.session_id as string) ?? null,\n    prompt_batch_id: (row.prompt_batch_id as number) ?? null,\n    observation_type: row.observation_type as string,\n    status: row.status as string,\n    content: row.content as string,\n    context: (row.context as string) ?? null,\n    importance: row.importance as number,\n    file_path: (row.file_path as string) ?? null,\n    tags: (row.tags as string) ?? null,\n    content_hash: (row.content_hash as string) ?? null,\n    properties: (row.properties as string) ?? null,\n    embedded: (row.embedded as number) ?? 0,\n    created_at: row.created_at as number,\n    updated_at: (row.updated_at as number) ?? null,\n    machine_id: (row.machine_id as string) ?? 'local',\n    synced_at: (row.synced_at as number) ?? null,\n  };\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Insert a new spore.\n *\n * Requires a valid `agent_id` (foreign key to agents table).\n */\nexport function insertSpore(data: SporeInsert): SporeRow {\n  const db = getDatabase();\n\n  db.prepare(\n    `INSERT INTO spores (\n       id, agent_id, session_id, prompt_batch_id,\n       observation_type, status, content, context,\n       importance, file_path, tags, content_hash,\n       properties, created_at, updated_at, machine_id\n     ) VALUES (\n       ?, ?, ?, ?,\n       ?, ?, ?, ?,\n       ?, ?, ?, ?,\n       ?, ?, ?, ?\n     )`,\n  ).run(\n    data.id,\n    data.agent_id,\n    data.session_id ?? null,\n    data.prompt_batch_id ?? null,\n    data.observation_type,\n    data.status ?? DEFAULT_STATUS,\n    data.content,\n    data.context ?? null,\n    data.importance ?? DEFAULT_IMPORTANCE,\n    data.file_path ?? null,\n    data.tags ?? null,\n    data.content_hash ?? null,\n    data.properties ?? null,\n    data.created_at,\n    data.updated_at ?? null,\n    data.machine_id ?? getTeamMachineId(),\n  );\n\n  const row = toSporeRow(\n    db.prepare(`SELECT ${SELECT_COLUMNS} FROM spores WHERE id = ?`).get(data.id) as Record<string, unknown>,\n  );\n\n  syncRow('spores', row);\n\n  return row;\n}\n\n/**\n * Retrieve a single spore by id.\n *\n * @returns the spore row, or null if not found.\n */\nexport function getSpore(id: string): SporeRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM spores WHERE id = ?`,\n  ).get(id) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toSporeRow(row);\n}\n\n/**\n * List spores with optional filters, ordered by created_at DESC.\n */\n/** Build WHERE clause and bound params from spore filter options. */\nfunction buildSporeWhere(\n  options: Omit<ListSporesOptions, 'limit' | 'offset'>,\n): { where: string; params: unknown[] } {\n  const conditions: string[] = [];\n  const params: unknown[] = [];\n\n  if (options.agent_id !== undefined) {\n    conditions.push(`agent_id = ?`);\n    params.push(options.agent_id);\n  }\n  if (options.observation_type !== undefined) {\n    conditions.push(`observation_type = ?`);\n    params.push(options.observation_type);\n  }\n  if (options.status !== undefined) {\n    conditions.push(`status = ?`);\n    params.push(options.status);\n  }\n  if (options.session_id !== undefined) {\n    conditions.push(`session_id = ?`);\n    params.push(options.session_id);\n  }\n  if (options.search !== undefined && options.search.length > 0) {\n    conditions.push(`(content LIKE ? OR observation_type LIKE ?)`);\n    const pattern = `%${options.search}%`;\n    params.push(pattern, pattern);\n  }\n  if (options.since !== undefined) {\n    conditions.push('created_at > ?');\n    params.push(options.since);\n  }\n\n  // Only exclude spores from in-flight sessions when the caller explicitly\n  // asks for it (intelligence tasks). UI and hook-level context injection\n  // leave this unset so they see everything. A direct session_id filter\n  // bypasses the gate — that lookup is always permitted.\n  if (options.includeActive === false && options.session_id === undefined) {\n    conditions.push(\n      `(session_id IS NULL OR EXISTS (SELECT 1 FROM sessions s WHERE s.id = spores.session_id AND s.status != 'active'))`,\n    );\n  }\n\n  return {\n    where: conditions.length > 0 ? `WHERE ${conditions.join(' AND ')}` : '',\n    params,\n  };\n}\n\n/**\n * List spores with optional filters, ordered by created_at DESC.\n */\nexport function listSpores(\n  options: ListSporesOptions = {},\n): SporeRow[] {\n  const db = getDatabase();\n  const { where, params } = buildSporeWhere(options);\n  const limit = options.limit ?? DEFAULT_LIST_LIMIT;\n  const offset = options.offset ?? 0;\n\n  const rows = db.prepare(\n    `SELECT ${SELECT_COLUMNS}\n     FROM spores\n     ${where}\n     ORDER BY created_at DESC\n     LIMIT ?\n     OFFSET ?`,\n  ).all(...params, limit, offset) as Record<string, unknown>[];\n\n  return rows.map(toSporeRow);\n}\n\n/**\n * Count spores matching optional filters (for pagination totals).\n */\nexport function countSpores(\n  options: Omit<ListSporesOptions, 'limit' | 'offset'> = {},\n): number {\n  const db = getDatabase();\n  const { where, params } = buildSporeWhere(options);\n\n  const row = db.prepare(\n    `SELECT COUNT(*) as count FROM spores ${where}`,\n  ).get(...params) as { count: number };\n\n  return row.count;\n}\n\n/**\n * Count active spores created after a given timestamp.\n * Used by skill-evolve to detect new knowledge since last assessment.\n */\nexport function countSporesSince(sinceEpoch: number): number {\n  const db = getDatabase();\n  const row = db.prepare(\n    `SELECT COUNT(*) as count FROM spores WHERE created_at > ? AND status = 'active'`,\n  ).get(sinceEpoch) as { count: number };\n  return row.count;\n}\n\n/**\n * List active spore IDs created after a given timestamp, ordered newest first.\n */\nexport function listSporeIdsSince(sinceEpoch: number, limit = 20): string[] {\n  const db = getDatabase();\n  const rows = db.prepare(\n    `SELECT id FROM spores WHERE created_at > ? AND status = 'active' ORDER BY created_at DESC LIMIT ?`,\n  ).all(sinceEpoch, limit) as Array<{ id: string }>;\n  return rows.map(r => r.id);\n}\n\n/**\n * Update the status and updated_at timestamp of a spore.\n *\n * @returns the updated row, or null if the spore does not exist.\n */\nexport function updateSporeStatus(\n  id: string,\n  status: string,\n  updatedAt: number,\n): SporeRow | null {\n  const db = getDatabase();\n\n  const info = db.prepare(\n    `UPDATE spores\n     SET status = ?, updated_at = ?\n     WHERE id = ?`,\n  ).run(status, updatedAt, id);\n\n  if (info.changes === 0) return null;\n\n  const row = toSporeRow(\n    db.prepare(`SELECT ${SELECT_COLUMNS} FROM spores WHERE id = ?`).get(id) as Record<string, unknown>,\n  );\n\n  syncRow('spores', row);\n\n  return row;\n}\n","/**\n * Cortex content assembly.\n *\n * Builds the material that the Cortex agent consumes and emits:\n *   - Capability resolution (team/collective availability)\n *   - Delivery-decision logic (inline vs session-start injection)\n *   - Retrieval guidance derived from MCP tool definitions\n *   - Instruction-input prompt for the `cortex-instructions` agent task\n *\n * Pure content layer — orchestration (agent run launch, snapshot reads,\n * prompt builder) lives in `@myco/daemon/cortex`.\n */\nimport { createHash } from 'node:crypto';\nimport type { MycoConfig } from '@myco/config/schema.js';\nimport {\n  CONTENT_HASH_ALGORITHM,\n  DEFAULT_AGENT_ID,\n  DIGEST_FALLBACK_TIER,\n} from '@myco/constants.js';\nimport { getCortexInstructions } from '@myco/db/queries/cortex-instructions.js';\nimport { getDigestExtract } from '@myco/db/queries/digest-extracts.js';\nimport { listPlans } from '@myco/db/queries/plans.js';\nimport { listSessions } from '@myco/db/queries/sessions.js';\nimport { listSpores } from '@myco/db/queries/spores.js';\nimport type { TeamSyncClient } from '../daemon/team-sync.js';\nimport {\n  TOOL_DEFINITIONS,\n  COLLECTIVE_TOOL_DEFINITIONS,\n  getToolCortexPriority,\n  type ToolDefinition,\n} from '../mcp/tool-definitions.js';\n\nconst MAX_COLLECTIVE_CAPABILITY_LABELS = 4;\nconst ALL_CORTEX_TOOL_DEFINITIONS = [...TOOL_DEFINITIONS, ...COLLECTIVE_TOOL_DEFINITIONS];\n\nconst RECENT_SESSION_LIMIT = 5;\nconst RECENT_WISDOM_SPORE_LIMIT = 3;\nconst RECENT_DECISION_SPORE_LIMIT = 3;\nconst RECENT_DISCOVERY_SPORE_LIMIT = 3;\nconst RECENT_PLAN_LIMIT = 3;\nconst CONTENT_PREVIEW_MAX_CHARS = 360;\nconst DIGEST_EXCERPT_MAX_CHARS = 1800;\nconst JSON_INDENT = 2;\n\nexport const CORTEX_SKILLS_NOTE = 'Project and Myco skills are already registered with the agent separately. Tell the agent to use those skills directly when relevant, and do not instruct it to call `myco_skills`.';\n\n// ---------------------------------------------------------------------------\n// Capability resolution\n// ---------------------------------------------------------------------------\n\nexport interface CortexCapabilities {\n  teamEnabled: boolean;\n  collectiveConnected: boolean;\n  collectiveCapabilities: string[];\n}\n\nexport interface CortexToolGuidance {\n  tool: string;\n  guidance: string;\n  requiresTeam?: boolean;\n  requiresCollective?: boolean;\n  priority: number;\n}\n\nexport interface DeliveryDecision {\n  inlineInstructions: boolean;\n  reason: 'missing-symbiont' | 'session-start-supported' | 'session-start-disabled' | 'no-session-start';\n}\n\nfunction toCortexToolGuidance(\n  tool: Pick<ToolDefinition, 'name' | 'cortex'>,\n): CortexToolGuidance | null {\n  const cortex = tool.cortex;\n  if (!cortex) return null;\n  return {\n    tool: tool.name,\n    guidance: cortex.guidance,\n    requiresTeam: cortex.requiresTeam,\n    requiresCollective: cortex.requiresCollective,\n    priority: getToolCortexPriority(tool),\n  };\n}\n\nexport const RETRIEVAL_GUIDANCE: CortexToolGuidance[] = ALL_CORTEX_TOOL_DEFINITIONS\n  .map(toCortexToolGuidance)\n  .filter((entry): entry is CortexToolGuidance => entry !== null)\n  .sort((left, right) => left.priority - right.priority);\n\nexport async function resolveCortexCapabilities(\n  config: Pick<MycoConfig, 'team'>,\n  getTeamClient?: () => TeamSyncClient | null,\n): Promise<CortexCapabilities> {\n  const teamClient = getTeamClient?.() ?? null;\n  const teamEnabled = Boolean(config.team.enabled && teamClient);\n  let collectiveConnected = false;\n  let collectiveCapabilities: string[] = [];\n\n  if (teamEnabled && teamClient) {\n    try {\n      const status = await teamClient.getCollectiveStatus();\n      collectiveConnected = Boolean(status?.connected);\n      collectiveCapabilities = status?.capabilities ?? [];\n    } catch {\n      collectiveConnected = false;\n      collectiveCapabilities = [];\n    }\n  }\n\n  return {\n    teamEnabled,\n    collectiveConnected,\n    collectiveCapabilities,\n  };\n}\n\nexport function shouldInjectCortex(\n  config: MycoConfig['context'],\n): boolean {\n  return config.cortex_enabled;\n}\n\nexport function resolveInstructionDelivery(\n  config: MycoConfig['context'],\n  symbiont: {\n    supportsSessionStartInjection: boolean;\n  } | null,\n): DeliveryDecision {\n  if (!symbiont) {\n    return { inlineInstructions: true, reason: 'missing-symbiont' };\n  }\n  if (!config.cortex_enabled) {\n    return { inlineInstructions: true, reason: 'session-start-disabled' };\n  }\n  if (symbiont.supportsSessionStartInjection) {\n    return { inlineInstructions: false, reason: 'session-start-supported' };\n  }\n  return { inlineInstructions: true, reason: 'no-session-start' };\n}\n\nexport function buildCapabilitySummary(capabilities: CortexCapabilities): string[] {\n  const summary = [\n    capabilities.collectiveConnected\n      ? 'Myco can retrieve local, team, and collective knowledge in this project.'\n      : capabilities.teamEnabled\n        ? 'Myco can retrieve local and shared team knowledge in this project.'\n        : 'Myco can retrieve local project knowledge in this project.',\n    'Use only the currently available Myco MCP tools described below, and omit any surfaces that are offline.',\n  ];\n\n  if (capabilities.collectiveConnected && capabilities.collectiveCapabilities.length > 0) {\n    const labels = capabilities.collectiveCapabilities.slice(0, MAX_COLLECTIVE_CAPABILITY_LABELS);\n    const remaining = Math.max(\n      0,\n      capabilities.collectiveCapabilities.length - MAX_COLLECTIVE_CAPABILITY_LABELS,\n    );\n    const suffix = remaining > 0 ? ` (+${remaining} more)` : '';\n    summary.push(`Collective capabilities online: ${labels.join(', ')}${suffix}.`);\n  }\n\n  return summary;\n}\n\nexport function buildRetrievalGuidanceLines(capabilities: CortexCapabilities): string[] {\n  const lines: string[] = [];\n\n  for (const entry of RETRIEVAL_GUIDANCE) {\n    if (entry.requiresTeam && !capabilities.teamEnabled) continue;\n    if (entry.requiresCollective && !capabilities.collectiveConnected) continue;\n    lines.push(`- \\`${entry.tool}\\`: ${entry.guidance}`);\n  }\n\n  return lines;\n}\n\n// ---------------------------------------------------------------------------\n// Instruction-input prompt assembly (for the `cortex-instructions` task)\n// ---------------------------------------------------------------------------\n\nfunction hashInput(value: unknown): string {\n  return createHash(CONTENT_HASH_ALGORITHM)\n    .update(JSON.stringify(value))\n    .digest('hex');\n}\n\nfunction truncatePreview(text: string | null, maxChars: number = CONTENT_PREVIEW_MAX_CHARS): string | null {\n  if (!text) return null;\n  return text.length > maxChars\n    ? `${text.slice(0, maxChars)}...`\n    : text;\n}\n\nfunction formatRecentSessions(): string {\n  const sessions = listSessions({\n    includeActive: false,\n    limit: RECENT_SESSION_LIMIT,\n  });\n  if (sessions.length === 0) return 'No recent sessions are available.';\n\n  return sessions.map((session) => {\n    const head = `- ${session.title ?? session.id}${session.branch ? ` (branch=${session.branch})` : ''}`;\n    const body = truncatePreview(session.summary);\n    return body ? `${head}\\n  ${body}` : head;\n  }).join('\\n');\n}\n\nfunction formatSporesOfType(\n  observationType: 'wisdom' | 'decision' | 'discovery',\n  limit: number,\n): string {\n  const spores = listSpores({\n    observation_type: observationType,\n    includeActive: false,\n    status: 'active',\n    limit,\n  });\n  if (spores.length === 0) return `No recent ${observationType} spores are available.`;\n\n  return spores.map((spore) => {\n    const parts = [\n      `- ${truncatePreview(spore.content)}`,\n      spore.session_id ? `session=${spore.session_id}` : null,\n    ].filter(Boolean);\n    return parts.join(' — ');\n  }).join('\\n');\n}\n\nfunction formatRecentPlans(): string {\n  const plans = listPlans({\n    status: 'active',\n    limit: RECENT_PLAN_LIMIT,\n  });\n  if (plans.length === 0) return 'No active plans are available.';\n\n  return plans.map((plan) => {\n    const parts = [\n      `- ${plan.title ?? plan.id}`,\n      `status=${plan.status}`,\n      truncatePreview(plan.content),\n    ].filter(Boolean);\n    return parts.join(' — ');\n  }).join('\\n');\n}\n\nfunction formatDigestExcerpt(config: MycoConfig): string {\n  const preferredTier = config.context.digest_tier;\n  const extract =\n    getDigestExtract(DEFAULT_AGENT_ID, preferredTier) ??\n    getDigestExtract(DEFAULT_AGENT_ID, DIGEST_FALLBACK_TIER);\n  if (!extract) return 'No current digest extract is available.';\n\n  const excerpt = truncatePreview(extract.content, DIGEST_EXCERPT_MAX_CHARS) ?? '';\n  return excerpt\n    ? `Tier ${extract.tier} digest excerpt:\\n${excerpt}`\n    : `Tier ${extract.tier} digest extract is empty.`;\n}\n\nexport interface CortexInstructionPayload {\n  inputHash: string;\n  instruction: string;\n}\n\nexport async function buildCortexInstructionsInput(\n  config: MycoConfig,\n  getTeamClient?: () => TeamSyncClient | null,\n): Promise<CortexInstructionPayload> {\n  const capabilities = await resolveCortexCapabilities(config, getTeamClient);\n  const capabilitySummary = buildCapabilitySummary(capabilities);\n  const retrievalGuidance = buildRetrievalGuidanceLines(capabilities);\n  const recentSessions = formatRecentSessions();\n  const recentWisdomSpores = formatSporesOfType('wisdom', RECENT_WISDOM_SPORE_LIMIT);\n  const recentDecisionSpores = formatSporesOfType('decision', RECENT_DECISION_SPORE_LIMIT);\n  const recentDiscoverySpores = formatSporesOfType('discovery', RECENT_DISCOVERY_SPORE_LIMIT);\n  const recentPlans = formatRecentPlans();\n  const digestExcerpt = formatDigestExcerpt(config);\n  const input = {\n    context: {\n      digest_tier: config.context.digest_tier,\n      cortex_enabled: config.context.cortex_enabled,\n      prompt_search: config.context.prompt_search,\n      prompt_max_spores: config.context.prompt_max_spores,\n    },\n    capabilities,\n    digestExcerpt,\n    recentSessions,\n    recentWisdomSpores,\n    recentDecisionSpores,\n    recentDiscoverySpores,\n    recentPlans,\n    skillsNote: CORTEX_SKILLS_NOTE,\n  };\n\n  return {\n    inputHash: hashInput(input),\n    instruction: [\n      'Author compact session-start instructions for another coding agent.',\n      'Focus on teaching how to use the highest-signal Myco tools correctly, especially retrieval and plan persistence.',\n      'Do not restate AGENTS.md or static installation details.',\n      '',\n      '## Runtime config',\n      JSON.stringify(input.context, null, JSON_INDENT),\n      '',\n      '## Authoring requirements',\n      '- Start with the heading `## Myco-Enabled Project`.',\n      '- Follow the heading with one brief sentence explaining that Myco provides project memory, prior decisions, plans, and retrieval tools for this repository.',\n      '- Teach the most useful current Myco MCP tool behavior, especially retrieval and plan persistence.',\n      '- Use the recent vault activity below to mention live project hotspots when that improves usefulness.',\n      `- ${CORTEX_SKILLS_NOTE}`,\n      '- Keep the heading and description brief so most of the budget goes to retrieval guidance.',\n      '- Keep the output compact and ready for direct injection.',\n      '',\n      '## Capability summary',\n      ...capabilitySummary,\n      '',\n      '## Tool guidance to encode',\n      ...retrievalGuidance,\n      '',\n      '## Current digest excerpt',\n      digestExcerpt,\n      '',\n      '## Recent sessions',\n      recentSessions,\n      '',\n      '## Recent wisdom spores',\n      recentWisdomSpores,\n      '',\n      '## Recent decision spores',\n      recentDecisionSpores,\n      '',\n      '## Recent discovery spores',\n      recentDiscoverySpores,\n      '',\n      '## Active plans',\n      recentPlans,\n    ].join('\\n'),\n  };\n}\n\nexport async function buildScheduledCortexInstruction(\n  config: MycoConfig,\n  getTeamClient?: () => TeamSyncClient | null,\n): Promise<CortexInstructionPayload | undefined> {\n  const built = await buildCortexInstructionsInput(config, getTeamClient);\n  const existing = getCortexInstructions(DEFAULT_AGENT_ID);\n  if (existing?.input_hash === built.inputHash) {\n    return undefined;\n  }\n  return 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