@goondocks/myco 0.19.1 → 0.19.3

package/dist/{agent-run-BV3ATBWB.js → agent-run-MCVZOJWA.js}

@@ -1,16 +1,16 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   connectToDaemon
-} from "./chunk-AOCBCPAP.js";
+} from "./chunk-SELPXOJ7.js";
 import "./chunk-SAKJMNSR.js";
 import "./chunk-WYOE4IAX.js";
 import "./chunk-PMT2LSTQ.js";
 import "./chunk-MYX5NCRH.js";
-import "./chunk-NU74DHV3.js";
-import "./chunk-46AQ7D23.js";
+import "./chunk-JRKTIOXA.js";
+import "./chunk-NFXXQCO2.js";
 import "./chunk-LPUQPDC2.js";
 import "./chunk-I54KLC6H.js";
-import "./chunk-E7NUADTQ.js";
+import "./chunk-UUHLLQXO.js";
 import "./chunk-PZUWP5VK.js";
 
 // src/cli/agent-run.ts
@@ -32,4 +32,4 @@ async function run(args, vaultDir) {
 export {
   run
 };
-//# sourceMappingURL=agent-run-BV3ATBWB.js.map
+//# sourceMappingURL=agent-run-MCVZOJWA.js.map

package/dist/{agent-tasks-I5SMLWVL.js → agent-tasks-I4S35M2E.js}

@@ -1,16 +1,16 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   connectToDaemon
-} from "./chunk-AOCBCPAP.js";
+} from "./chunk-SELPXOJ7.js";
 import "./chunk-SAKJMNSR.js";
 import "./chunk-WYOE4IAX.js";
 import "./chunk-PMT2LSTQ.js";
 import "./chunk-MYX5NCRH.js";
-import "./chunk-NU74DHV3.js";
-import "./chunk-46AQ7D23.js";
+import "./chunk-JRKTIOXA.js";
+import "./chunk-NFXXQCO2.js";
 import "./chunk-LPUQPDC2.js";
 import "./chunk-I54KLC6H.js";
-import "./chunk-E7NUADTQ.js";
+import "./chunk-UUHLLQXO.js";
 import "./chunk-PZUWP5VK.js";
 
 // src/cli/agent-tasks.ts
@@ -178,4 +178,4 @@ async function run(args, vaultDir) {
 export {
   run
 };
-//# sourceMappingURL=agent-tasks-I5SMLWVL.js.map
+//# sourceMappingURL=agent-tasks-I4S35M2E.js.map

package/dist/{chunk-4NIMDUYW.js → chunk-3C4LT4BW.js}

@@ -26,7 +26,14 @@ var EmbeddingProviderSchema = external_exports.object({
 var DaemonSchema = external_exports.object({
   port: external_exports.number().int().min(1024).max(65535).nullable().default(null),
   log_level: external_exports.enum(["debug", "info", "warn", "error"]).default("info"),
-  log_retention_days: external_exports.number().int().min(1).max(365).default(30)
+  log_retention_days: external_exports.number().int().min(1).max(365).default(30),
+  /**
+   * Time without new prompts before an active session is auto-completed (ms).
+   * Intelligence tasks (full-intelligence, skill-survey, etc.) only process
+   * settled sessions, so this threshold directly controls how fresh their
+   * inputs are. Defaults to 1 hour.
+   */
+  stale_session_threshold_ms: external_exports.number().int().min(6e4).default(60 * 60 * 1e3)
 });
 var CaptureSchema = external_exports.object({
   transcript_paths: external_exports.array(external_exports.string()).default([]),
@@ -428,4 +435,4 @@ export {
   getEnabledSymbiontNames,
   updateTeamConfig
 };
-//# sourceMappingURL=chunk-4NIMDUYW.js.map
+//# sourceMappingURL=chunk-3C4LT4BW.js.map

package/dist/chunk-3C4LT4BW.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/config/loader.ts","../src/config/schema.ts","../src/config/migrations.ts"],"sourcesContent":["import fs from 'node:fs';\nimport path from 'node:path';\nimport YAML from 'yaml';\nimport { MycoConfigSchema, type MycoConfig, type BackupConfig, type TeamConfig } from './schema.js';\nimport { runMigrations, CURRENT_MIGRATION_VERSION } from './migrations.js';\n\nexport const CONFIG_FILENAME = 'myco.yaml';\n\nexport function loadConfig(vaultDir: string): MycoConfig {\n  const configPath = path.join(vaultDir, CONFIG_FILENAME);\n\n  if (!fs.existsSync(configPath)) {\n    throw new Error(`myco.yaml not found in ${vaultDir}`);\n  }\n\n  const raw = fs.readFileSync(configPath, 'utf-8');\n  const parsed = YAML.parse(raw) as Record<string, unknown>;\n\n  // Detect v1 config and guide migration\n  if (parsed.version === 1 || (parsed.intelligence as Record<string, unknown>)?.backend) {\n    throw new Error(\n      'Myco config uses v1 format. Run /myco:setup-llm to reconfigure for v2.',\n    );\n  }\n\n  // --- v2 → v3 migration ---\n  let v2Migrated = false;\n  if (parsed.version === 2) {\n    // Extract intelligence.embedding to top-level embedding\n    const intel = parsed.intelligence as Record<string, unknown> | undefined;\n    const embeddingConfig = intel?.embedding as Record<string, unknown> | undefined;\n    if (embeddingConfig && !parsed.embedding) {\n      // Map v2 'lm-studio' to v3 'openai-compatible' for embedding provider\n      if (embeddingConfig.provider === 'lm-studio') {\n        embeddingConfig.provider = 'openai-compatible';\n      }\n      parsed.embedding = embeddingConfig;\n    }\n\n    // Keep daemon.port and daemon.log_level, drop grace_period and max_log_size\n    const daemon = parsed.daemon as Record<string, unknown> | undefined;\n    if (daemon) {\n      const { port, log_level } = daemon;\n      parsed.daemon = { port: port ?? null, log_level: log_level ?? 'info' };\n    }\n\n    // Keep capture basics, drop token-related fields; migrate artifact_watch → plan_dirs\n    const capture = parsed.capture as Record<string, unknown> | undefined;\n    if (capture) {\n      const { transcript_paths, artifact_watch, plan_dirs, artifact_extensions, buffer_max_events } = capture;\n      parsed.capture = {\n        transcript_paths,\n        plan_dirs: plan_dirs ?? artifact_watch,\n        artifact_extensions,\n        buffer_max_events,\n      };\n    }\n\n    // Drop removed top-level sections\n    delete parsed.intelligence;\n    delete parsed.context;\n    delete parsed.team;\n    delete parsed.digest;\n    delete parsed.pipeline;\n\n    // Set version to 3\n    parsed.version = 3;\n    v2Migrated = true;\n\n    process.stderr.write('[myco migration] Migrated config from v2 to v3\\n');\n  }\n\n  // Run numbered migrations (for v3+ forward migrations)\n  const migrationsRan = runMigrations(parsed, vaultDir, (msg) => {\n    process.stderr.write(`[myco migration] ${msg}\\n`);\n  });\n\n  // Parse with Zod to fill in defaults for new config sections\n  const config = MycoConfigSchema.parse(parsed);\n\n  // Write back if v2→v3 migration ran, numbered migrations ran, or new defaults were added\n  const needsWrite = v2Migrated\n    || migrationsRan\n    || (parsed.config_version as number ?? 0) < CURRENT_MIGRATION_VERSION\n    || parsed.version !== config.version;\n\n  if (needsWrite) {\n    const fullConfig = JSON.parse(JSON.stringify(config)) as Record<string, unknown>;\n    fs.writeFileSync(configPath, YAML.stringify(fullConfig), 'utf-8');\n  }\n\n  return config;\n}\n\nexport function saveConfig(vaultDir: string, config: MycoConfig): void {\n  // Validate before writing — OAK lesson: validate on write, not just read\n  const validated = MycoConfigSchema.parse(config);\n\n  const configPath = path.join(vaultDir, CONFIG_FILENAME);\n  fs.mkdirSync(vaultDir, { recursive: true });\n  fs.writeFileSync(configPath, YAML.stringify(validated), 'utf-8');\n}\n\nexport function updateConfig(\n  vaultDir: string,\n  fn: (config: MycoConfig) => MycoConfig,\n): MycoConfig {\n  const current = loadConfig(vaultDir);\n  const updated = fn(current);\n  saveConfig(vaultDir, updated);\n  return updated;\n}\n\nexport function updateBackupConfig(\n  vaultDir: string,\n  backup: Partial<BackupConfig>,\n): MycoConfig {\n  return updateConfig(vaultDir, (config) => ({\n    ...config,\n    backup: { ...config.backup, ...backup },\n  }));\n}\n\n/**\n * Extract the set of enabled symbiont names from config.\n * Returns null when the `symbionts` section is absent (pre-existing installs),\n * signalling callers to fall back to their own heuristic.\n */\nexport function getEnabledSymbiontNames(config: MycoConfig): Set<string> | null {\n  if (!config.symbionts) return null;\n  return new Set(\n    Object.entries(config.symbionts)\n      .filter(([, entry]) => entry.enabled)\n      .map(([name]) => name),\n  );\n}\n\nexport function updateTeamConfig(\n  vaultDir: string,\n  team: Partial<TeamConfig>,\n): MycoConfig {\n  return updateConfig(vaultDir, (config) => ({\n    ...config,\n    team: { ...config.team, ...team },\n  }));\n}\n","import { z } from 'zod';\nimport { SCHEDULABLE_POWER_STATES } from '@myco/constants.js';\n\nconst EmbeddingProviderSchema = z.object({\n  provider: z.enum(['ollama', 'openai-compatible', 'openrouter', 'openai']).default('ollama'),\n  model: z.string().default('bge-m3'),\n  base_url: z.string().url().optional(),\n});\n\nconst DaemonSchema = z.object({\n  port: z.number().int().min(1024).max(65535).nullable().default(null),\n  log_level: z.enum(['debug', 'info', 'warn', 'error']).default('info'),\n  log_retention_days: z.number().int().min(1).max(365).default(30),\n  /**\n   * Time without new prompts before an active session is auto-completed (ms).\n   * Intelligence tasks (full-intelligence, skill-survey, etc.) only process\n   * settled sessions, so this threshold directly controls how fresh their\n   * inputs are. Defaults to 1 hour.\n   */\n  stale_session_threshold_ms: z.number().int().min(60_000).default(60 * 60 * 1000),\n});\n\nconst CaptureSchema = z.object({\n  transcript_paths: z.array(z.string()).default([]),\n  plan_dirs: z.array(z.string()).default([]),\n  artifact_extensions: z.array(z.string()).default(['.md']),\n  buffer_max_events: z.number().int().positive().default(500),\n});\n\n/** Provider config shape used in both task-level and phase-level overrides. */\nconst ProviderOverrideSchema = z.object({\n  type: z.enum(['anthropic', 'ollama', 'lmstudio']),\n  base_url: z.string().optional(),\n  model: z.string().optional(),\n  /** Context window size for local models (Ollama num_ctx, LM Studio context_length). */\n  context_length: z.number().int().positive().optional(),\n});\n\n/** Per-phase overrides within a task — keyed by phase name. */\nconst PhaseOverrideSchema = z.object({\n  provider: ProviderOverrideSchema.optional(),\n  model: z.string().optional(),\n  maxTurns: z.number().int().positive().optional(),\n});\n\n/** Per-task schedule override — partial, merges with YAML defaults. */\nconst ScheduleOverrideSchema = z.object({\n  enabled: z.boolean().optional(),\n  intervalSeconds: z.number().int().positive().optional(),\n  runIn: z.array(z.enum([...SCHEDULABLE_POWER_STATES])).optional(),\n  preCondition: z.enum(['has-unprocessed-batches', 'has-active-skills', 'has-approved-candidates']).optional(),\n}).optional();\n\n/** Per-task config override — stored in myco.yaml under agent.tasks. */\nconst TaskProviderOverrideSchema = z.object({\n  provider: ProviderOverrideSchema.optional(),\n  model: z.string().optional(),\n  maxTurns: z.number().int().positive().optional(),\n  timeoutSeconds: z.number().int().positive().optional(),\n  phases: z.record(z.string(), PhaseOverrideSchema).optional(),\n  schedule: ScheduleOverrideSchema,\n  /** Task-specific params — keys and types vary per task. */\n  params: z.record(z.string(), z.union([z.string(), z.number(), z.boolean()])).optional(),\n});\n\nconst ContextSchema = z.object({\n  /** Which digest tier to inject at session start. */\n  digest_tier: z.number().int().default(5000),\n  /** Enable semantic spore search on each user prompt. */\n  prompt_search: z.boolean().default(true),\n  /** Max spores to inject per prompt (0-10). */\n  prompt_max_spores: z.number().int().min(0).max(10).default(3),\n});\n\nconst AgentSchema = z.object({\n  /** Number of batches between event-driven summary triggers (0 to disable). */\n  summary_batch_interval: z.number().int().min(0).default(5),\n  /** Global toggle for PowerManager-scheduled agent tasks. */\n  scheduled_tasks_enabled: z.boolean().default(true),\n  /** Global toggle for event-driven agent tasks (title-summary). */\n  event_tasks_enabled: z.boolean().default(true),\n  /** Global default provider — applies to all tasks unless overridden per-task. */\n  provider: ProviderOverrideSchema.optional(),\n  /** Global default model — applies to all tasks unless overridden per-task. */\n  model: z.string().optional(),\n  /** Per-task overrides keyed by task name. */\n  tasks: z.record(z.string(), TaskProviderOverrideSchema).optional(),\n});\n\nconst BackupSchema = z.object({\n  /** Override directory for backup files. Supports ~ for home directory. When unset, defaults to .myco/backups. */\n  dir: z.string().optional(),\n});\n\nconst MaintenanceSchema = z.object({\n  /** Automatically run PRAGMA optimize on a schedule. */\n  auto_optimize: z.boolean().default(true),\n  /** How often to run auto-optimize, in hours (1–720). */\n  auto_optimize_interval_hours: z.number().int().min(1).max(720).default(24),\n});\n\nconst TeamSchema = z.object({\n  /** Whether team sync is enabled. */\n  enabled: z.boolean().default(false),\n  /** Cloudflare Worker URL for team sync. */\n  worker_url: z.string().url().optional(),\n  /** Team identifier for sync grouping. */\n  team_id: z.string().optional(),\n  /** Sync interval in minutes. */\n  interval_minutes: z.number().int().min(1).max(1440).default(15),\n});\n\nconst SkillsSchema = z.object({\n  /** Auto-generate candidates above this confidence score. */\n  confidence_threshold: z.number().min(0).max(1).default(0.7),\n  /** Flag unused skills after this many days. */\n  usage_stale_days: z.number().int().positive().default(30),\n});\n\nconst NotificationsSchema = z.object({\n  /** Master switch — disables all notifications when false. */\n  enabled: z.boolean().default(true),\n  /** Allow browser system notifications (Notification API). */\n  system_notifications: z.boolean().default(false),\n  /** Default display mode for new notification types. */\n  default_mode: z.enum(['banner', 'summary']).default('banner'),\n  /** Per-domain settings. Keys are domain names from the registry. */\n  domains: z.record(z.string(), z.object({\n    enabled: z.boolean().default(true),\n    /** Override display mode for this domain. Omit to use global default_mode. */\n    mode: z.enum(['banner', 'summary']).optional(),\n  })).default({}),\n});\n\nconst SymbiontEntrySchema = z.object({\n  enabled: z.boolean().default(true),\n});\n\nexport const MycoConfigSchema = z.preprocess(\n  (raw: unknown) => {\n    if (raw && typeof raw === 'object' && 'curation' in raw && !('agent' in raw)) {\n      const { curation, ...rest } = raw as Record<string, unknown>;\n      return { ...rest, agent: curation };\n    }\n    return raw;\n  },\n  z.object({\n    version: z.literal(3),\n    config_version: z.number().int().nonnegative().default(0),\n    embedding: EmbeddingProviderSchema.default(() => EmbeddingProviderSchema.parse({})),\n    daemon: DaemonSchema.default(() => DaemonSchema.parse({})),\n    capture: CaptureSchema.default(() => CaptureSchema.parse({})),\n    agent: AgentSchema.default(() => AgentSchema.parse({})),\n    context: ContextSchema.default(() => ContextSchema.parse({})),\n    backup: BackupSchema.default(() => BackupSchema.parse({})),\n    maintenance: MaintenanceSchema.default(() => MaintenanceSchema.parse({})),\n    team: TeamSchema.default(() => TeamSchema.parse({})),\n    skills: SkillsSchema.default(() => SkillsSchema.parse({})),\n    notifications: NotificationsSchema.default(() => NotificationsSchema.parse({})),\n    symbionts: z.record(z.string(), SymbiontEntrySchema).optional(),\n  }),\n);\n\nexport type MycoConfig = z.output<typeof MycoConfigSchema>;\nexport type EmbeddingProviderConfig = z.infer<typeof EmbeddingProviderSchema>;\nexport type TaskProviderOverride = z.infer<typeof TaskProviderOverrideSchema>;\nexport type PhaseOverride = z.infer<typeof PhaseOverrideSchema>;\nexport type ScheduleOverride = z.infer<typeof ScheduleOverrideSchema>;\nexport type ContextConfig = z.infer<typeof ContextSchema>;\nexport type BackupConfig = z.infer<typeof BackupSchema>;\nexport type TeamConfig = z.infer<typeof TeamSchema>;\nexport type SkillsConfig = z.infer<typeof SkillsSchema>;\nexport type NotificationsConfig = z.infer<typeof NotificationsSchema>;\nexport type SymbiontEntry = z.infer<typeof SymbiontEntrySchema>;\n","/**\n * Config and vault migrations — run once per version, tracked by config_version.\n *\n * Each migration has a version number, a name, and a function that receives\n * the raw parsed YAML doc and the vault directory. Migrations run in order\n * and are skipped if config_version is already past them.\n *\n * To add a new migration:\n * 1. Add an entry to MIGRATIONS with the next version number\n * 2. Write the migrate function — it receives the mutable doc and vaultDir\n * 3. The framework handles version tracking and writing the config back\n */\n\nimport fs from 'node:fs';\nimport path from 'node:path';\n\nexport interface Migration {\n  version: number;\n  name: string;\n  migrate: (doc: Record<string, unknown>, vaultDir: string) => void;\n}\n\n/** Regex matching both quoted and unquoted YAML: type: memory, type: \"memory\", type: 'memory' */\nconst MEMORY_TYPE_PATTERN = /type:\\s*[\"']?memory[\"']?/g;\n\nexport const MIGRATIONS: Migration[] = [\n  {\n    version: 1,\n    name: 'rename-memories-to-spores',\n    migrate: (doc, vaultDir) => {\n      // Config: rename context.layers.memories → context.layers.spores\n      const context = doc.context as Record<string, unknown> | undefined;\n      const layers = context?.layers as Record<string, unknown> | undefined;\n      if (layers && 'memories' in layers && !('spores' in layers)) {\n        layers.spores = layers.memories;\n        delete layers.memories;\n      }\n\n      // Vault: rename memories/ directory → spores/\n      const memoriesDir = path.join(vaultDir, 'memories');\n      const sporesDir = path.join(vaultDir, 'spores');\n\n      if (!fs.existsSync(memoriesDir)) return;\n\n      if (fs.existsSync(sporesDir)) {\n        // Both exist (interrupted migration) — merge remaining files\n        const moveRemaining = (srcDir: string, destDir: string): void => {\n          for (const entry of fs.readdirSync(srcDir, { withFileTypes: true })) {\n            const srcPath = path.join(srcDir, entry.name);\n            const destPath = path.join(destDir, entry.name);\n            if (entry.isDirectory()) {\n              if (!fs.existsSync(destPath)) fs.mkdirSync(destPath, { recursive: true });\n              moveRemaining(srcPath, destPath);\n            } else if (!fs.existsSync(destPath)) {\n              fs.renameSync(srcPath, destPath);\n            }\n          }\n        };\n        moveRemaining(memoriesDir, sporesDir);\n        fs.rmSync(memoriesDir, { recursive: true, force: true });\n      } else {\n        fs.renameSync(memoriesDir, sporesDir);\n      }\n\n      // Update frontmatter type: memory → type: spore (handles quoted and unquoted)\n      const walkUpdate = (dir: string): void => {\n        for (const entry of fs.readdirSync(dir, { withFileTypes: true })) {\n          const fullPath = path.join(dir, entry.name);\n          if (entry.isDirectory()) { walkUpdate(fullPath); continue; }\n          if (!entry.name.endsWith('.md')) continue;\n          const content = fs.readFileSync(fullPath, 'utf-8');\n          MEMORY_TYPE_PATTERN.lastIndex = 0;\n          if (MEMORY_TYPE_PATTERN.test(content)) {\n            MEMORY_TYPE_PATTERN.lastIndex = 0;\n            fs.writeFileSync(fullPath, content.replace(MEMORY_TYPE_PATTERN, 'type: spore'));\n          }\n        }\n      };\n      walkUpdate(sporesDir);\n\n      // Legacy: update wikilink references in Markdown files (pre-SQLite migration): [[memories/...]] → [[spores/...]]\n      const walkLinks = (dir: string): void => {\n        for (const entry of fs.readdirSync(dir, { withFileTypes: true })) {\n          const fullPath = path.join(dir, entry.name);\n          if (entry.isDirectory()) { walkLinks(fullPath); continue; }\n          if (!entry.name.endsWith('.md')) continue;\n          const content = fs.readFileSync(fullPath, 'utf-8');\n          if (content.includes('memories/')) {\n            fs.writeFileSync(fullPath, content.replace(/memories\\//g, 'spores/'));\n          }\n        }\n      };\n      walkLinks(vaultDir);\n    },\n  },\n  {\n    version: 2,\n    name: 'consolidation-boolean-to-object',\n    migrate: (doc) => {\n      const digest = doc.digest as Record<string, unknown> | undefined;\n      if (!digest) return;\n\n      const consolidation = digest.consolidation;\n      if (typeof consolidation === 'boolean') {\n        digest.consolidation = { enabled: consolidation, max_tokens: 2048 };\n      }\n    },\n  },\n  {\n    version: 3,\n    name: 'schedule-to-task-level',\n    migrate(doc: Record<string, unknown>, _vaultDir: string): void {\n      const agent = (doc.agent ?? {}) as Record<string, unknown>;\n      const skills = (doc.skills ?? {}) as Record<string, unknown>;\n      const tasks = ((agent.tasks ?? {}) as Record<string, Record<string, unknown>>);\n\n      /** Default interval for full-intelligence task (5 minutes). */\n      const DEFAULT_INTELLIGENCE_INTERVAL_SECONDS = 300;\n\n      const VALID_SCHEDULE_STATES = ['active', 'idle', 'sleep'] as const;\n\n      // Migrate agent.auto_run + interval_seconds → full-intelligence schedule\n      if ('auto_run' in agent || 'interval_seconds' in agent) {\n        const fiTask = tasks['full-intelligence'] ?? {};\n        fiTask.schedule = {\n          enabled: agent.auto_run ?? true,\n          intervalSeconds: agent.interval_seconds ?? DEFAULT_INTELLIGENCE_INTERVAL_SECONDS,\n        };\n        tasks['full-intelligence'] = fiTask;\n        delete agent.auto_run;\n        delete agent.interval_seconds;\n      }\n\n      // Migrate skills.auto_survey → skill-survey schedule\n      if ('auto_survey' in skills) {\n        const ssTask = tasks['skill-survey'] ?? {};\n        ssTask.schedule = {\n          enabled: skills.auto_survey ?? false,\n        };\n        tasks['skill-survey'] = ssTask;\n        delete skills.auto_survey;\n      }\n\n      // Migrate skills.auto_evolve + evolve_cadence → skill-evolve schedule\n      if ('auto_evolve' in skills || 'evolve_cadence' in skills) {\n        const seTask = tasks['skill-evolve'] ?? {};\n        const schedule: Record<string, unknown> = {\n          enabled: skills.auto_evolve ?? false,\n        };\n        if ('evolve_cadence' in skills) {\n          const cadence = String(skills.evolve_cadence);\n          schedule.runIn = VALID_SCHEDULE_STATES.includes(cadence as typeof VALID_SCHEDULE_STATES[number])\n            ? [cadence]\n            : ['idle']; // fallback to safe default\n        }\n        seTask.schedule = schedule;\n        tasks['skill-evolve'] = seTask;\n        delete skills.auto_evolve;\n        delete skills.evolve_cadence;\n      }\n\n      // Write back tasks if any were created\n      if (Object.keys(tasks).length > 0) {\n        agent.tasks = tasks;\n      }\n      doc.agent = agent;\n      doc.skills = skills;\n    },\n  },\n  {\n    version: 4,\n    name: 'rename-cloud-provider-to-anthropic',\n    migrate(doc: Record<string, unknown>, _vaultDir: string): void {\n      // Rename `provider.type: cloud` -> `provider.type: anthropic` everywhere\n      // it appears in the agent config: global default, per-task, per-phase.\n      const renameProvider = (provider: unknown): void => {\n        if (\n          provider &&\n          typeof provider === 'object' &&\n          (provider as Record<string, unknown>).type === 'cloud'\n        ) {\n          (provider as Record<string, unknown>).type = 'anthropic';\n        }\n      };\n\n      const agent = doc.agent as Record<string, unknown> | undefined;\n      if (!agent) return;\n\n      // Global default provider\n      renameProvider(agent.provider);\n\n      // Per-task overrides\n      const tasks = agent.tasks as Record<string, Record<string, unknown>> | undefined;\n      if (tasks) {\n        for (const taskConfig of Object.values(tasks)) {\n          renameProvider(taskConfig.provider);\n\n          // Per-phase overrides within a task\n          const phases = taskConfig.phases as Record<string, Record<string, unknown>> | undefined;\n          if (phases) {\n            for (const phaseConfig of Object.values(phases)) {\n              renameProvider(phaseConfig.provider);\n            }\n          }\n        }\n      }\n    },\n  },\n];\n\n/** Current migration version — the highest version in MIGRATIONS. */\nexport const CURRENT_MIGRATION_VERSION = MIGRATIONS[MIGRATIONS.length - 1]?.version ?? 0;\n\n/**\n * Run all pending migrations on the raw config doc.\n * Returns true if any migrations ran (caller should reindex).\n */\nexport function runMigrations(\n  doc: Record<string, unknown>,\n  vaultDir: string,\n  log?: (message: string) => void,\n): boolean {\n  const currentVersion = (doc.config_version as number) ?? 0;\n  let ran = false;\n\n  for (const migration of MIGRATIONS) {\n    if (migration.version <= currentVersion) continue;\n\n    migration.migrate(doc, vaultDir);\n    doc.config_version = migration.version;\n    ran = true;\n  }\n\n  if (ran) {\n    const from = currentVersion;\n    const to = (doc.config_version as number) ?? 0;\n    log?.(`Migrated config from v${from} to v${to}`);\n  }\n\n  return 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package/dist/{chunk-GVBVHYOT.js → chunk-7ONVLO43.js}

@@ -12,15 +12,17 @@ function fullTextSearch(query, options = {}) {
   const db = getDatabase();
   const limit = options.limit ?? SEARCH_RESULTS_DEFAULT_LIMIT;
   const typeFilter = options.type;
+  const excludeActive = options.includeActive === false;
   const results = [];
   if (typeFilter === void 0 || typeFilter === "prompt_batch") {
+    const activeGate = excludeActive ? ` AND EXISTS (SELECT 1 FROM sessions s WHERE s.id = pb.session_id AND s.status != 'active')` : "";
     const batchRows = db.prepare(
       `SELECT pb.id, pb.prompt_number, pb.session_id,
               substr(COALESCE(pb.user_prompt, '') || ' ' || COALESCE(pb.response_summary, ''), 1, ?) AS preview,
               fts.rank
        FROM prompt_batches_fts fts
        JOIN prompt_batches pb ON pb.id = fts.rowid
-       WHERE prompt_batches_fts MATCH ?
+       WHERE prompt_batches_fts MATCH ?${activeGate}
        ORDER BY fts.rank
        LIMIT ?`
     ).all(SEARCH_PREVIEW_CHARS, query, limit);
@@ -36,12 +38,13 @@ function fullTextSearch(query, options = {}) {
     }
   }
   if (typeFilter === void 0 || typeFilter === "activity") {
+    const activeGate = excludeActive ? ` AND EXISTS (SELECT 1 FROM sessions s WHERE s.id = a.session_id AND s.status != 'active')` : "";
     const activityRows = db.prepare(
       `SELECT a.id, a.tool_name, a.tool_input, a.file_path, a.session_id,
               fts.rank
        FROM activities_fts fts
        JOIN activities a ON a.id = fts.rowid
-       WHERE activities_fts MATCH ?
+       WHERE activities_fts MATCH ?${activeGate}
        ORDER BY fts.rank
        LIMIT ?`
     ).all(query, limit);
@@ -58,13 +61,14 @@ function fullTextSearch(query, options = {}) {
     }
   }
   if (typeFilter === void 0 || typeFilter === "spore") {
+    const activeGate = excludeActive ? ` AND (s.session_id IS NULL OR EXISTS (SELECT 1 FROM sessions ss WHERE ss.id = s.session_id AND ss.status != 'active'))` : "";
     const sporeRows = db.prepare(
       `SELECT s.id, s.observation_type, s.session_id,
               substr(COALESCE(s.content, ''), 1, ?) AS preview,
               fts.rank
        FROM spores_fts fts
        JOIN spores s ON s.rowid = fts.rowid
-       WHERE spores_fts MATCH ?
+       WHERE spores_fts MATCH ?${activeGate}
        ORDER BY fts.rank
        LIMIT ?`
     ).all(SEARCH_PREVIEW_CHARS, query, limit);
@@ -80,13 +84,14 @@ function fullTextSearch(query, options = {}) {
     }
   }
   if (typeFilter === void 0 || typeFilter === "session") {
+    const activeGate = excludeActive ? ` AND s.status != 'active'` : "";
     const sessionRows = db.prepare(
       `SELECT s.id, s.title,
               substr(COALESCE(s.summary, s.title, ''), 1, ?) AS preview,
               fts.rank
        FROM sessions_fts fts
        JOIN sessions s ON s.rowid = fts.rowid
-       WHERE sessions_fts MATCH ?
+       WHERE sessions_fts MATCH ?${activeGate}
        ORDER BY fts.rank
        LIMIT ?`
     ).all(SEARCH_PREVIEW_CHARS, query, limit);
@@ -223,4 +228,4 @@ export {
   fullTextSearch,
   hydrateSearchResults
 };
-//# sourceMappingURL=chunk-GVBVHYOT.js.map
+//# sourceMappingURL=chunk-7ONVLO43.js.map

package/dist/chunk-7ONVLO43.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/db/queries/search.ts"],"sourcesContent":["/**\n * Full-text search using SQLite FTS5.\n *\n * Searches prompt_batches and activities via their FTS5 virtual tables.\n * Semantic search (vector similarity) is handled by the external VectorStore —\n * this module covers text-based retrieval only.\n *\n * All queries use parameterized placeholders throughout.\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport {\n  SEARCH_RESULTS_DEFAULT_LIMIT,\n  SEARCH_PREVIEW_CHARS,\n} from '@myco/constants.js';\nimport type { VectorSearchResult } from '@myco/daemon/embedding/types.js';\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** All result types that can appear in search results. */\nexport type SearchResultType =\n  | 'session'\n  | 'spore'\n  | 'plan'\n  | 'artifact'\n  | 'prompt_batch'\n  | 'activity'\n  | 'skill';\n\n/** A single result returned from full-text or semantic search. */\nexport interface SearchResult {\n  id: string;\n  type: SearchResultType;\n  title: string;\n  preview: string;\n  score: number;\n  session_id?: string;\n}\n\n/** Options for fullTextSearch. */\nexport interface SearchOptions {\n  /** Restrict results to a single type. */\n  type?: string;\n  /** Maximum number of results to return (default: SEARCH_RESULTS_DEFAULT_LIMIT). */\n  limit?: number;\n  /**\n   * When explicitly `false`, hide results belonging to sessions still in\n   * `status = 'active'` (and active sessions themselves). Intelligence-task\n   * reads opt in to this; UI/CLI callers leave it unset.\n   */\n  includeActive?: boolean;\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Full-text search across capture tables using SQLite FTS5.\n *\n * Searches prompt_batches (indexed on user_prompt) and activities (indexed\n * on tool_name, tool_input, file_path). The raw query string is passed\n * directly to FTS5 MATCH — callers should sanitize if needed.\n *\n * FTS5 `rank` values are negative (lower = better match). This function\n * converts them to positive scores via `Math.abs()` so higher = better\n * in the returned results.\n *\n * When `options.type` is specified, only the matching table branch is queried.\n *\n * @param query — search string (FTS5 MATCH syntax)\n * @param options — optional type filter and result limit\n * @returns SearchResult[] ordered by score DESC\n */\nexport function fullTextSearch(\n  query: string,\n  options: SearchOptions = {},\n): SearchResult[] {\n  const db = getDatabase();\n  const limit = options.limit ?? SEARCH_RESULTS_DEFAULT_LIMIT;\n  const typeFilter = options.type;\n  const excludeActive = options.includeActive === false;\n\n  const results: SearchResult[] = [];\n\n  // -- prompt_batches branch ------------------------------------------------\n  if (typeFilter === undefined || typeFilter === 'prompt_batch') {\n    const activeGate = excludeActive\n      ? ` AND EXISTS (SELECT 1 FROM sessions s WHERE s.id = pb.session_id AND s.status != 'active')`\n      : '';\n    const batchRows = db.prepare(\n      `SELECT pb.id, pb.prompt_number, pb.session_id,\n              substr(COALESCE(pb.user_prompt, '') || ' ' || COALESCE(pb.response_summary, ''), 1, ?) AS preview,\n              fts.rank\n       FROM prompt_batches_fts fts\n       JOIN prompt_batches pb ON pb.id = fts.rowid\n       WHERE prompt_batches_fts MATCH ?${activeGate}\n       ORDER BY fts.rank\n       LIMIT ?`\n    ).all(SEARCH_PREVIEW_CHARS, query, limit) as Array<{\n      id: number;\n      prompt_number: number | null;\n      session_id: string | null;\n      preview: string;\n      rank: number;\n    }>;\n\n    for (const row of batchRows) {\n      results.push({\n        id: String(row.id),\n        type: 'prompt_batch',\n        title: row.prompt_number != null\n          ? `Batch #${row.prompt_number}`\n          : `Batch ${row.id}`,\n        preview: row.preview,\n        score: Math.abs(row.rank),\n        ...(row.session_id != null ? { session_id: row.session_id } : {}),\n      });\n    }\n  }\n\n  // -- activities branch ----------------------------------------------------\n  if (typeFilter === undefined || typeFilter === 'activity') {\n    const activeGate = excludeActive\n      ? ` AND EXISTS (SELECT 1 FROM sessions s WHERE s.id = a.session_id AND s.status != 'active')`\n      : '';\n    const activityRows = db.prepare(\n      `SELECT a.id, a.tool_name, a.tool_input, a.file_path, a.session_id,\n              fts.rank\n       FROM activities_fts fts\n       JOIN activities a ON a.id = fts.rowid\n       WHERE activities_fts MATCH ?${activeGate}\n       ORDER BY fts.rank\n       LIMIT ?`\n    ).all(query, limit) as Array<{\n      id: number;\n      tool_name: string;\n      tool_input: string | null;\n      file_path: string | null;\n      session_id: string | null;\n      rank: number;\n    }>;\n\n    for (const row of activityRows) {\n      const preview = (row.tool_input ?? row.file_path ?? '').slice(0, SEARCH_PREVIEW_CHARS);\n      results.push({\n        id: String(row.id),\n        type: 'activity',\n        title: row.tool_name,\n        preview,\n        score: Math.abs(row.rank),\n        ...(row.session_id != null ? { session_id: row.session_id } : {}),\n      });\n    }\n  }\n\n  // -- spores branch --------------------------------------------------------\n  if (typeFilter === undefined || typeFilter === 'spore') {\n    // Spores may have a NULL session_id (agent-authored, no source session),\n    // which are always kept; only spores attached to still-active sessions\n    // are excluded when the gate is on.\n    const activeGate = excludeActive\n      ? ` AND (s.session_id IS NULL OR EXISTS (SELECT 1 FROM sessions ss WHERE ss.id = s.session_id AND ss.status != 'active'))`\n      : '';\n    const sporeRows = db.prepare(\n      `SELECT s.id, s.observation_type, s.session_id,\n              substr(COALESCE(s.content, ''), 1, ?) AS preview,\n              fts.rank\n       FROM spores_fts fts\n       JOIN spores s ON s.rowid = fts.rowid\n       WHERE spores_fts MATCH ?${activeGate}\n       ORDER BY fts.rank\n       LIMIT ?`\n    ).all(SEARCH_PREVIEW_CHARS, query, limit) as Array<{\n      id: string;\n      observation_type: string;\n      session_id: string | null;\n      preview: string;\n      rank: number;\n    }>;\n\n    for (const row of sporeRows) {\n      results.push({\n        id: String(row.id),\n        type: 'spore',\n        title: row.observation_type,\n        preview: row.preview,\n        score: Math.abs(row.rank),\n        ...(row.session_id != null ? { session_id: row.session_id } : {}),\n      });\n    }\n  }\n\n  // -- sessions branch ------------------------------------------------------\n  if (typeFilter === undefined || typeFilter === 'session') {\n    const activeGate = excludeActive ? ` AND s.status != 'active'` : '';\n    const sessionRows = db.prepare(\n      `SELECT s.id, s.title,\n              substr(COALESCE(s.summary, s.title, ''), 1, ?) AS preview,\n              fts.rank\n       FROM sessions_fts fts\n       JOIN sessions s ON s.rowid = fts.rowid\n       WHERE sessions_fts MATCH ?${activeGate}\n       ORDER BY fts.rank\n       LIMIT ?`\n    ).all(SEARCH_PREVIEW_CHARS, query, limit) as Array<{\n      id: string;\n      title: string | null;\n      preview: string;\n      rank: number;\n    }>;\n\n    for (const row of sessionRows) {\n      results.push({\n        id: String(row.id),\n        type: 'session',\n        title: row.title ?? `Session ${row.id.slice(-6)}`,\n        preview: row.preview,\n        score: Math.abs(row.rank),\n      });\n    }\n  }\n\n  // Sort combined results by score DESC and apply limit.\n  results.sort((a, b) => b.score - a.score);\n  return results.slice(0, limit);\n}\n\n// ---------------------------------------------------------------------------\n// Hydration — convert VectorSearchResults into SearchResults\n// ---------------------------------------------------------------------------\n\n/** Row shape returned from sessions table for hydration. */\ninterface SessionRow {\n  id: string;\n  title: string | null;\n  summary: string | null;\n  session_id?: undefined;\n}\n\n/** Row shape returned from spores table for hydration. */\ninterface SporeRow {\n  id: string;\n  observation_type: string;\n  content: string;\n  session_id: string | null;\n}\n\n/** Row shape returned from plans table for hydration. */\ninterface PlanRow {\n  id: string;\n  title: string | null;\n  content: string | null;\n  session_id: string | null;\n}\n\n/** Row shape returned from artifacts table for hydration. */\ninterface ArtifactRow {\n  id: string;\n  title: string;\n  content: string | null;\n}\n\n/**\n * Hydrate vector search results into SearchResults by fetching full records\n * from the record store.\n *\n * Groups results by namespace, queries each table for the relevant IDs, then\n * maps them into SearchResult format with titles and previews.\n */\nexport function hydrateSearchResults(\n  vectorResults: VectorSearchResult[],\n): SearchResult[] {\n  if (vectorResults.length === 0) return [];\n\n  const db = getDatabase();\n  const results: SearchResult[] = [];\n\n  // Group result IDs by namespace\n  const byNamespace = new Map<string, VectorSearchResult[]>();\n  for (const vr of vectorResults) {\n    const group = byNamespace.get(vr.namespace) ?? [];\n    group.push(vr);\n    byNamespace.set(vr.namespace, group);\n  }\n\n  // Use json_each so the statement text is stable and SQLite can cache the plan.\n  const sessionStmt = db.prepare(\n    `SELECT id, title, summary FROM sessions WHERE id IN (SELECT value FROM json_each(?))`,\n  );\n  const sporeStmt = db.prepare(\n    `SELECT id, observation_type, content, session_id FROM spores WHERE id IN (SELECT value FROM json_each(?))`,\n  );\n  const planStmt = db.prepare(\n    `SELECT id, title, content, session_id FROM plans WHERE id IN (SELECT value FROM json_each(?))`,\n  );\n  const artifactStmt = db.prepare(\n    `SELECT id, title, content FROM artifacts WHERE id IN (SELECT value FROM json_each(?))`,\n  );\n  const skillStmt = db.prepare(\n    `SELECT id, name, display_name, description FROM skill_records WHERE id IN (SELECT value FROM json_each(?))`,\n  );\n\n  // --- sessions ---\n  const sessionResults = byNamespace.get('sessions');\n  if (sessionResults && sessionResults.length > 0) {\n    const ids = sessionResults.map((r) => r.id);\n    const rows = sessionStmt.all(JSON.stringify(ids)) as SessionRow[];\n\n    const rowMap = new Map(rows.map((r) => [r.id, r]));\n    for (const vr of sessionResults) {\n      const row = rowMap.get(vr.id);\n      if (!row) continue;\n      results.push({\n        id: row.id,\n        type: 'session',\n        title: row.title ?? `Session ${row.id.slice(-6)}`,\n        preview: (row.summary ?? '').slice(0, SEARCH_PREVIEW_CHARS),\n        score: vr.similarity,\n      });\n    }\n  }\n\n  // --- spores ---\n  const sporeResults = byNamespace.get('spores');\n  if (sporeResults && sporeResults.length > 0) {\n    const ids = sporeResults.map((r) => r.id);\n    const rows = sporeStmt.all(JSON.stringify(ids)) as SporeRow[];\n\n    const rowMap = new Map(rows.map((r) => [r.id, r]));\n    for (const vr of sporeResults) {\n      const row = rowMap.get(vr.id);\n      if (!row) continue;\n      results.push({\n        id: row.id,\n        type: 'spore',\n        title: row.observation_type,\n        preview: row.content.slice(0, SEARCH_PREVIEW_CHARS),\n        score: vr.similarity,\n        ...(row.session_id != null ? { session_id: row.session_id } : {}),\n      });\n    }\n  }\n\n  // --- plans ---\n  const planResults = byNamespace.get('plans');\n  if (planResults && planResults.length > 0) {\n    const ids = planResults.map((r) => r.id);\n    const rows = planStmt.all(JSON.stringify(ids)) as PlanRow[];\n\n    const rowMap = new Map(rows.map((r) => [r.id, r]));\n    for (const vr of planResults) {\n      const row = rowMap.get(vr.id);\n      if (!row) continue;\n      results.push({\n        id: row.id,\n        type: 'plan',\n        title: row.title ?? `Plan ${row.id.slice(-6)}`,\n        preview: (row.content ?? '').slice(0, SEARCH_PREVIEW_CHARS),\n        score: vr.similarity,\n        ...(row.session_id != null ? { session_id: row.session_id } : {}),\n      });\n    }\n  }\n\n  // --- artifacts ---\n  const artifactResults = byNamespace.get('artifacts');\n  if (artifactResults && artifactResults.length > 0) {\n    const ids = artifactResults.map((r) => r.id);\n    const rows = artifactStmt.all(JSON.stringify(ids)) as ArtifactRow[];\n\n    const rowMap = new Map(rows.map((r) => [r.id, r]));\n    for (const vr of artifactResults) {\n      const row = rowMap.get(vr.id);\n      if (!row) continue;\n      results.push({\n        id: row.id,\n        type: 'artifact',\n        title: row.title,\n        preview: (row.content ?? '').slice(0, SEARCH_PREVIEW_CHARS),\n        score: vr.similarity,\n      });\n    }\n  }\n\n  // --- skill_records ---\n  const skillResults = byNamespace.get('skill_records');\n  if (skillResults && skillResults.length > 0) {\n    const ids = skillResults.map((r) => r.id);\n    const rows = skillStmt.all(JSON.stringify(ids)) as Array<{ id: string; name: string; display_name: string; description: string }>;\n\n    const rowMap = new Map(rows.map((r) => [r.id, r]));\n    for (const vr of skillResults) {\n      const row = rowMap.get(vr.id);\n      if (!row) continue;\n      results.push({\n        id: row.id,\n        type: 'skill',\n        title: row.display_name || row.name,\n        preview: row.description.slice(0, SEARCH_PREVIEW_CHARS),\n        score: vr.similarity,\n      });\n    }\n  }\n\n  // Preserve the original similarity-based ordering from vector search\n  results.sort((a, b) => b.score - a.score);\n  return 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package/dist/{chunk-MVBCON4D.js → chunk-DURKJTVO.js}

@@ -1,7 +1,7 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   kindToComponent
-} from "./chunk-E7NUADTQ.js";
+} from "./chunk-UUHLLQXO.js";
 
 // src/daemon/logger.ts
 import fs from "fs";
@@ -113,4 +113,4 @@ export {
   LEVEL_ORDER,
   DaemonLogger
 };
-//# sourceMappingURL=chunk-MVBCON4D.js.map
+//# sourceMappingURL=chunk-DURKJTVO.js.map

package/dist/{chunk-PZEAO35P.js → chunk-FGKCE5AE.js}

@@ -128,6 +128,11 @@ function buildSporeWhere(options) {
     conditions.push("created_at > ?");
     params.push(options.since);
   }
+  if (options.includeActive === false && options.session_id === void 0) {
+    conditions.push(
+      `(session_id IS NULL OR EXISTS (SELECT 1 FROM sessions s WHERE s.id = spores.session_id AND s.status != 'active'))`
+    );
+  }
   return {
     where: conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "",
     params
@@ -187,4 +192,4 @@ export {
   listSporeIdsSince,
   updateSporeStatus
 };
-//# sourceMappingURL=chunk-PZEAO35P.js.map
+//# sourceMappingURL=chunk-FGKCE5AE.js.map

package/dist/chunk-FGKCE5AE.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/db/queries/spores.ts"],"sourcesContent":["/**\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"],"mappings":";;;;;;;;;;AAgBA,IAAM,qBAAqB;AAG3B,IAAM,iBAAiB;AAGhB,IAAM,qBAAqB;AA0ElC,IAAM,gBAAgB;AAAA,EACpB;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AAAA,EACA;AACF;AAEA,IAAM,iBAAiB,cAAc,KAAK,IAAI;AAO9C,SAAS,WAAW,KAAwC;AAC1D,SAAO;AAAA,IACL,IAAI,IAAI;AAAA,IACR,UAAU,IAAI;AAAA,IACd,YAAa,IAAI,cAAyB;AAAA,IAC1C,iBAAkB,IAAI,mBAA8B;AAAA,IACpD,kBAAkB,IAAI;AAAA,IACtB,QAAQ,IAAI;AAAA,IACZ,SAAS,IAAI;AAAA,IACb,SAAU,IAAI,WAAsB;AAAA,IACpC,YAAY,IAAI;AAAA,IAChB,WAAY,IAAI,aAAwB;AAAA,IACxC,MAAO,IAAI,QAAmB;AAAA,IAC9B,cAAe,IAAI,gBAA2B;AAAA,IAC9C,YAAa,IAAI,cAAyB;AAAA,IAC1C,UAAW,IAAI,YAAuB;AAAA,IACtC,YAAY,IAAI;AAAA,IAChB,YAAa,IAAI,cAAyB;AAAA,IAC1C,YAAa,IAAI,cAAyB;AAAA,IAC1C,WAAY,IAAI,aAAwB;AAAA,EAC1C;AACF;AAWO,SAAS,YAAY,MAA6B;AACvD,QAAM,KAAK,YAAY;AAEvB,KAAG;AAAA,IACD;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA,EAWF,EAAE;AAAA,IACA,KAAK;AAAA,IACL,KAAK;AAAA,IACL,KAAK,cAAc;AAAA,IACnB,KAAK,mBAAmB;AAAA,IACxB,KAAK;AAAA,IACL,KAAK,UAAU;AAAA,IACf,KAAK;AAAA,IACL,KAAK,WAAW;AAAA,IAChB,KAAK,cAAc;AAAA,IACnB,KAAK,aAAa;AAAA,IAClB,KAAK,QAAQ;AAAA,IACb,KAAK,gBAAgB;AAAA,IACrB,KAAK,cAAc;AAAA,IACnB,KAAK;AAAA,IACL,KAAK,cAAc;AAAA,IACnB,KAAK,cAAc,iBAAiB;AAAA,EACtC;AAEA,QAAM,MAAM;AAAA,IACV,GAAG,QAAQ,UAAU,cAAc,2BAA2B,EAAE,IAAI,KAAK,EAAE;AAAA,EAC7E;AAEA,UAAQ,UAAU,GAAG;AAErB,SAAO;AACT;AAOO,SAAS,SAAS,IAA6B;AACpD,QAAM,KAAK,YAAY;AAEvB,QAAM,MAAM,GAAG;AAAA,IACb,UAAU,cAAc;AAAA,EAC1B,EAAE,IAAI,EAAE;AAER,MAAI,CAAC,IAAK,QAAO;AACjB,SAAO,WAAW,GAAG;AACvB;AAMA,SAAS,gBACP,SACsC;AACtC,QAAM,aAAuB,CAAC;AAC9B,QAAM,SAAoB,CAAC;AAE3B,MAAI,QAAQ,aAAa,QAAW;AAClC,eAAW,KAAK,cAAc;AAC9B,WAAO,KAAK,QAAQ,QAAQ;AAAA,EAC9B;AACA,MAAI,QAAQ,qBAAqB,QAAW;AAC1C,eAAW,KAAK,sBAAsB;AACtC,WAAO,KAAK,QAAQ,gBAAgB;AAAA,EACtC;AACA,MAAI,QAAQ,WAAW,QAAW;AAChC,eAAW,KAAK,YAAY;AAC5B,WAAO,KAAK,QAAQ,MAAM;AAAA,EAC5B;AACA,MAAI,QAAQ,eAAe,QAAW;AACpC,eAAW,KAAK,gBAAgB;AAChC,WAAO,KAAK,QAAQ,UAAU;AAAA,EAChC;AACA,MAAI,QAAQ,WAAW,UAAa,QAAQ,OAAO,SAAS,GAAG;AAC7D,eAAW,KAAK,6CAA6C;AAC7D,UAAM,UAAU,IAAI,QAAQ,MAAM;AAClC,WAAO,KAAK,SAAS,OAAO;AAAA,EAC9B;AACA,MAAI,QAAQ,UAAU,QAAW;AAC/B,eAAW,KAAK,gBAAgB;AAChC,WAAO,KAAK,QAAQ,KAAK;AAAA,EAC3B;AAMA,MAAI,QAAQ,kBAAkB,SAAS,QAAQ,eAAe,QAAW;AACvE,eAAW;AAAA,MACT;AAAA,IACF;AAAA,EACF;AAEA,SAAO;AAAA,IACL,OAAO,WAAW,SAAS,IAAI,SAAS,WAAW,KAAK,OAAO,CAAC,KAAK;AAAA,IACrE;AAAA,EACF;AACF;AAKO,SAAS,WACd,UAA6B,CAAC,GAClB;AACZ,QAAM,KAAK,YAAY;AACvB,QAAM,EAAE,OAAO,OAAO,IAAI,gBAAgB,OAAO;AACjD,QAAM,QAAQ,QAAQ,SAAS;AAC/B,QAAM,SAAS,QAAQ,UAAU;AAEjC,QAAM,OAAO,GAAG;AAAA,IACd,UAAU,cAAc;AAAA;AAAA,OAErB,KAAK;AAAA;AAAA;AAAA;AAAA,EAIV,EAAE,IAAI,GAAG,QAAQ,OAAO,MAAM;AAE9B,SAAO,KAAK,IAAI,UAAU;AAC5B;AAKO,SAAS,YACd,UAAuD,CAAC,GAChD;AACR,QAAM,KAAK,YAAY;AACvB,QAAM,EAAE,OAAO,OAAO,IAAI,gBAAgB,OAAO;AAEjD,QAAM,MAAM,GAAG;AAAA,IACb,wCAAwC,KAAK;AAAA,EAC/C,EAAE,IAAI,GAAG,MAAM;AAEf,SAAO,IAAI;AACb;AAiBO,SAAS,kBAAkB,YAAoB,QAAQ,IAAc;AAC1E,QAAM,KAAK,YAAY;AACvB,QAAM,OAAO,GAAG;AAAA,IACd;AAAA,EACF,EAAE,IAAI,YAAY,KAAK;AACvB,SAAO,KAAK,IAAI,OAAK,EAAE,EAAE;AAC3B;AAOO,SAAS,kBACd,IACA,QACA,WACiB;AACjB,QAAM,KAAK,YAAY;AAEvB,QAAM,OAAO,GAAG;AAAA,IACd;AAAA;AAAA;AAAA,EAGF,EAAE,IAAI,QAAQ,WAAW,EAAE;AAE3B,MAAI,KAAK,YAAY,EAAG,QAAO;AAE/B,QAAM,MAAM;AAAA,IACV,GAAG,QAAQ,UAAU,cAAc,2BAA2B,EAAE,IAAI,EAAE;AAAA,EACxE;AAEA,UAAQ,UAAU,GAAG;AAErB,SAAO;AACT;","names":[]}

package/dist/{chunk-NU74DHV3.js → chunk-JRKTIOXA.js}

@@ -1,7 +1,7 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   getPluginVersion
-} from "./chunk-46AQ7D23.js";
+} from "./chunk-NFXXQCO2.js";
 import {
   DAEMON_CLIENT_TIMEOUT_MS,
   DAEMON_HEALTH_CHECK_TIMEOUT_MS,
@@ -185,4 +185,4 @@ export {
   resolveCliEntryPath,
   DaemonClient
 };
-//# sourceMappingURL=chunk-NU74DHV3.js.map
+//# sourceMappingURL=chunk-JRKTIOXA.js.map

package/dist/{chunk-OR4XUYBJ.js → chunk-KYH4V4ML.js}

@@ -3,7 +3,7 @@ import {
   AgentTaskSchema,
   loadAgentTasks,
   taskFromParsed
-} from "./chunk-YDU3AHSW.js";
+} from "./chunk-Q4QD6LJT.js";
 import {
   BUILT_IN_SOURCE,
   MAX_TASK_NAME_LENGTH,
@@ -100,4 +100,4 @@ export {
   deleteUserTask,
   copyTaskToUser
 };
-//# sourceMappingURL=chunk-OR4XUYBJ.js.map
+//# sourceMappingURL=chunk-KYH4V4ML.js.map

package/dist/{chunk-46AQ7D23.js → chunk-NFXXQCO2.js}

@@ -11,7 +11,7 @@ var cached;
 function getPluginVersion() {
   if (cached) return cached;
   if (true) {
-    cached = "0.19.1";
+    cached = "0.19.3";
     return cached;
   }
   const root = findPackageRoot(path.dirname(fileURLToPath(import.meta.url)));
@@ -32,4 +32,4 @@ function getPluginVersion() {
 export {
   getPluginVersion
 };
-//# sourceMappingURL=chunk-46AQ7D23.js.map
+//# sourceMappingURL=chunk-NFXXQCO2.js.map

package/dist/{chunk-CDM6ZLMZ.js → chunk-PLYWR5D7.js}

@@ -5,7 +5,7 @@ import {
 import {
   loadConfig,
   updateTeamConfig
-} from "./chunk-4NIMDUYW.js";
+} from "./chunk-3C4LT4BW.js";
 import {
   TEAM_API_KEY_SECRET,
   TEAM_MCP_TOKEN_SECRET,
@@ -210,7 +210,7 @@ function resolvePackageRoot() {
 }
 function getTeamPackageVersion() {
   if (true) {
-    return "0.1.1";
+    return "0.1.2";
   }
   const packageRoot = resolvePackageRoot();
   const candidatePaths = [
@@ -595,4 +595,4 @@ export {
   upgradeWorker,
   teamUpgrade
 };
-//# sourceMappingURL=chunk-CDM6ZLMZ.js.map
+//# sourceMappingURL=chunk-PLYWR5D7.js.map

package/dist/{chunk-YDU3AHSW.js → chunk-Q4QD6LJT.js}

@@ -464,7 +464,7 @@ async function registerBuiltInAgentsAndTasks(definitionsDir, vaultDir) {
     ).run(BUILT_IN_SOURCE, definition.name, ...validTaskIds);
   }
   if (vaultDir) {
-    const { loadAllTasks } = await import("./registry-XGRKLHEK.js");
+    const { loadAllTasks } = await import("./registry-OCM4WAPJ.js");
     const allTasks = loadAllTasks(definitionsDir, vaultDir);
     for (const [name, task] of allTasks) {
       if (task.source === USER_TASK_SOURCE) {
@@ -492,10 +492,10 @@ async function registerBuiltInAgentsAndTasks(definitionsDir, vaultDir) {
 }
 
 export {
-  registerAgent,
-  getAgent,
   getTask,
   getDefaultTask,
+  registerAgent,
+  getAgent,
   AgentTaskSchema,
   resolveDefinitionsDir,
   loadAgentDefinition,
@@ -505,4 +505,4 @@ export {
   resolveEffectiveConfig,
   registerBuiltInAgentsAndTasks
 };
-//# sourceMappingURL=chunk-YDU3AHSW.js.map
+//# sourceMappingURL=chunk-Q4QD6LJT.js.map

package/dist/{chunk-HQLPB346.js → chunk-Q6OEZM3S.js}

@@ -153,6 +153,9 @@ function buildSessionsWhere(options) {
     conditions.push("created_at > ?");
     params.push(options.since);
   }
+  if (options.includeActive === false && options.status === void 0) {
+    conditions.push(`status != 'active'`);
+  }
   return {
     where: conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "",
     params
@@ -181,6 +184,25 @@ function countSessions(options = {}) {
   ).get(...params);
   return row.count;
 }
+function getActiveSessionIds() {
+  const db = getDatabase();
+  const rows = db.prepare(
+    `SELECT id FROM sessions WHERE status = 'active'`
+  ).all();
+  return new Set(rows.map((r) => r.id));
+}
+function reactivateSessionIfCompleted(id) {
+  const db = getDatabase();
+  const info = db.prepare(
+    `UPDATE sessions SET status = 'active' WHERE id = ? AND status = 'completed'`
+  ).run(id);
+  if (info.changes === 0) return false;
+  const row = db.prepare(
+    `SELECT ${SELECT_COLUMNS} FROM sessions WHERE id = ?`
+  ).get(id);
+  if (row) syncRow("sessions", toSessionRow(row));
+  return true;
+}
 function updateSession(id, updates) {
   const db = getDatabase();
   const setClauses = [];
@@ -310,10 +332,12 @@ export {
   getSession,
   listSessions,
   countSessions,
+  getActiveSessionIds,
+  reactivateSessionIfCompleted,
   updateSession,
   incrementSessionToolCount,
   closeSession,
   getSessionImpact,
   deleteSessionCascade
 };
-//# sourceMappingURL=chunk-HQLPB346.js.map
+//# sourceMappingURL=chunk-Q6OEZM3S.js.map

package/dist/chunk-Q6OEZM3S.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/db/queries/sessions.ts"],"sourcesContent":["/**\n * Session 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 sessions returned by listSessions when no limit given. */\nconst DEFAULT_LIST_LIMIT = 100;\n\n/** Session status value when a session is closed normally. */\nconst STATUS_COMPLETED = 'completed';\n\n/** Default session status for new sessions. */\nconst DEFAULT_STATUS = 'active';\n\n/** Default prompt count for new sessions. */\nconst DEFAULT_PROMPT_COUNT = 0;\n\n/** Default tool count for new sessions. */\nconst DEFAULT_TOOL_COUNT = 0;\n\n/** Default processed flag for new sessions. */\nconst DEFAULT_PROCESSED = 0;\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\n/** Fields required (or optional) when inserting/upserting a session. */\nexport interface SessionInsert {\n  id: string;\n  agent: string;\n  started_at: number;\n  created_at: number;\n  user?: string | null;\n  project_root?: string | null;\n  branch?: string | null;\n  ended_at?: number | null;\n  status?: string;\n  prompt_count?: number;\n  tool_count?: number;\n  title?: string | null;\n  summary?: string | null;\n  transcript_path?: string | null;\n  parent_session_id?: string | null;\n  parent_session_reason?: string | null;\n  processed?: number;\n  content_hash?: string | null;\n  machine_id?: string;\n}\n\n/** Row shape returned from session queries (all columns). */\nexport interface SessionRow {\n  id: string;\n  agent: string;\n  user: string | null;\n  project_root: string | null;\n  branch: string | null;\n  started_at: number;\n  ended_at: number | null;\n  status: string;\n  prompt_count: number;\n  tool_count: number;\n  title: string | null;\n  summary: string | null;\n  transcript_path: string | null;\n  parent_session_id: string | null;\n  parent_session_reason: string | null;\n  processed: number;\n  content_hash: string | null;\n  embedded: number;\n  created_at: number;\n  machine_id: string;\n  synced_at: number | null;\n}\n\n/** Updatable fields for `updateSession`. */\nexport interface SessionUpdate {\n  agent?: string;\n  user?: string | null;\n  project_root?: string | null;\n  branch?: string | null;\n  ended_at?: number | null;\n  status?: string;\n  prompt_count?: number;\n  tool_count?: number;\n  title?: string | null;\n  summary?: string | null;\n  transcript_path?: string | null;\n  parent_session_id?: string | null;\n  parent_session_reason?: string | null;\n  processed?: number;\n  content_hash?: string | null;\n}\n\n/** Filter options for `listSessions`. */\nexport interface ListSessionsOptions {\n  limit?: number;\n  offset?: number;\n  status?: string;\n  agent?: string;\n  search?: string;\n  /** Only return sessions created after this epoch-seconds timestamp. */\n  since?: number;\n  /**\n   * When explicitly `false` and no `status` filter is set, exclude sessions\n   * still in `status = 'active'` — intelligence-task reads opt in to this.\n   * Defaults permissive so UI listings keep showing in-flight sessions.\n   */\n  includeActive?: boolean;\n}\n\n// ---------------------------------------------------------------------------\n// Column list\n// ---------------------------------------------------------------------------\n\nconst SESSION_COLUMNS = [\n  'id',\n  'agent',\n  '\"user\"',\n  'project_root',\n  'branch',\n  'started_at',\n  'ended_at',\n  'status',\n  'prompt_count',\n  'tool_count',\n  'title',\n  'summary',\n  'transcript_path',\n  'parent_session_id',\n  'parent_session_reason',\n  'processed',\n  'content_hash',\n  'embedded',\n  'created_at',\n  'machine_id',\n  'synced_at',\n] as const;\n\nconst SELECT_COLUMNS = SESSION_COLUMNS.join(', ');\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/**\n * Normalize a SQLite result row into a typed SessionRow.\n *\n * The quoted \"user\" column comes back as `user` in the result object.\n */\nfunction toSessionRow(row: Record<string, unknown>): SessionRow {\n  return {\n    id: row.id as string,\n    agent: row.agent as string,\n    user: (row.user as string) ?? null,\n    project_root: (row.project_root as string) ?? null,\n    branch: (row.branch as string) ?? null,\n    started_at: row.started_at as number,\n    ended_at: (row.ended_at as number) ?? null,\n    status: row.status as string,\n    prompt_count: row.prompt_count as number,\n    tool_count: row.tool_count as number,\n    title: (row.title as string) ?? null,\n    summary: (row.summary as string) ?? null,\n    transcript_path: (row.transcript_path as string) ?? null,\n    parent_session_id: (row.parent_session_id as string) ?? null,\n    parent_session_reason: (row.parent_session_reason as string) ?? null,\n    processed: row.processed as number,\n    content_hash: (row.content_hash as string) ?? null,\n    embedded: (row.embedded as number) ?? 0,\n    created_at: row.created_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 * Insert a session or update it if the id already exists.\n *\n * On conflict the row is updated with the values from `data`, preserving\n * any columns not supplied via COALESCE with EXCLUDED values.\n */\nexport function upsertSession(data: SessionInsert): SessionRow {\n  const db = getDatabase();\n\n  db.prepare(\n    `INSERT INTO sessions (\n       id, agent, \"user\", project_root, branch,\n       started_at, ended_at, status, prompt_count, tool_count,\n       title, summary, transcript_path,\n       parent_session_id, parent_session_reason,\n       processed, content_hash, created_at, machine_id\n     ) VALUES (\n       ?, ?, ?, ?, ?,\n       ?, ?, ?, ?, ?,\n       ?, ?, ?,\n       ?, ?,\n       ?, ?, ?, ?\n     )\n     ON CONFLICT (id) DO UPDATE SET\n       agent                 = EXCLUDED.agent,\n       \"user\"                = EXCLUDED.\"user\",\n       project_root          = EXCLUDED.project_root,\n       branch                = EXCLUDED.branch,\n       started_at            = EXCLUDED.started_at,\n       ended_at              = COALESCE(EXCLUDED.ended_at, sessions.ended_at),\n       status                = COALESCE(EXCLUDED.status, sessions.status),\n       prompt_count          = CASE WHEN ? THEN EXCLUDED.prompt_count ELSE sessions.prompt_count END,\n       tool_count            = CASE WHEN ? THEN EXCLUDED.tool_count ELSE sessions.tool_count END,\n       title                 = COALESCE(EXCLUDED.title, sessions.title),\n       summary               = COALESCE(EXCLUDED.summary, sessions.summary),\n       transcript_path       = COALESCE(EXCLUDED.transcript_path, sessions.transcript_path),\n       parent_session_id     = EXCLUDED.parent_session_id,\n       parent_session_reason = EXCLUDED.parent_session_reason,\n       processed             = COALESCE(EXCLUDED.processed, sessions.processed),\n       content_hash          = EXCLUDED.content_hash`,\n  ).run(\n    data.id,\n    data.agent,\n    data.user ?? null,\n    data.project_root ?? null,\n    data.branch ?? null,\n    data.started_at,\n    data.ended_at ?? null,\n    data.status ?? DEFAULT_STATUS,\n    data.prompt_count ?? DEFAULT_PROMPT_COUNT,\n    data.tool_count ?? DEFAULT_TOOL_COUNT,\n    data.title ?? null,\n    data.summary ?? null,\n    data.transcript_path ?? null,\n    data.parent_session_id ?? null,\n    data.parent_session_reason ?? null,\n    data.processed ?? DEFAULT_PROCESSED,\n    data.content_hash ?? null,\n    data.created_at,\n    data.machine_id ?? getTeamMachineId(),\n    data.prompt_count !== undefined ? 1 : 0,\n    data.tool_count !== undefined ? 1 : 0,\n  );\n\n  const row = toSessionRow(\n    db.prepare(`SELECT ${SELECT_COLUMNS} FROM sessions WHERE id = ?`).get(data.id) as Record<string, unknown>,\n  );\n\n  syncRow('sessions', row);\n\n  return row;\n}\n\n/**\n * Retrieve a single session by id.\n *\n * @returns the session row, or null if not found.\n */\nexport function getSession(id: string): SessionRow | null {\n  const db = getDatabase();\n\n  const row = db.prepare(\n    `SELECT ${SELECT_COLUMNS} FROM sessions WHERE id = ?`,\n  ).get(id) as Record<string, unknown> | undefined;\n\n  if (!row) return null;\n  return toSessionRow(row);\n}\n\n/** Build WHERE clause and bound params from session filter options. */\nfunction buildSessionsWhere(\n  options: Omit<ListSessionsOptions, 'limit' | 'offset'>,\n): { where: string; params: unknown[] } {\n  const conditions: string[] = [];\n  const params: unknown[] = [];\n\n  if (options.status !== undefined) {\n    conditions.push(`status = ?`);\n    params.push(options.status);\n  }\n\n  if (options.agent !== undefined) {\n    conditions.push(`agent = ?`);\n    params.push(options.agent);\n  }\n\n  if (options.search !== undefined && options.search.length > 0) {\n    conditions.push(`(title LIKE ? OR id LIKE ?)`);\n    const pattern = `%${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  // Exclude active sessions only when the caller explicitly opts in and\n  // hasn't already constrained `status`. Intelligence-task reads set this\n  // to avoid picking up in-flight work; UI/CLI leave it unset.\n  if (options.includeActive === false && options.status === undefined) {\n    conditions.push(`status != 'active'`);\n  }\n\n  return {\n    where: conditions.length > 0 ? `WHERE ${conditions.join(' AND ')}` : '',\n    params,\n  };\n}\n\n/**\n * List sessions with optional filters, ordered by created_at DESC.\n */\nexport function listSessions(\n  options: ListSessionsOptions = {},\n): SessionRow[] {\n  const db = getDatabase();\n  const { where, params } = buildSessionsWhere(options);\n  const limit = options.limit ?? 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AS graphEdgeCount`,\n  ).get(sessionId, sessionId, sessionId, sessionId) as SessionImpact;\n\n  return row;\n}\n\n/**\n * Delete a session and ALL related data in a single transaction.\n *\n * Returns counts of deleted rows and IDs needed for post-transaction\n * cleanup (vault files, embedding vectors).\n */\nexport function deleteSessionCascade(sessionId: string): DeleteCascadeResult {\n  const db = getDatabase();\n\n  const zeroCounts: DeleteCascadeResult = {\n    deleted: false,\n    counts: { prompts: 0, spores: 0, attachments: 0, graphEdges: 0, resolutionEvents: 0 },\n    deletedSporeIds: [],\n    deletedAttachmentPaths: [],\n  };\n\n  // Check session exists first\n  const exists = db.prepare(`SELECT id FROM sessions WHERE id = ?`).get(sessionId);\n  if (!exists) return zeroCounts;\n\n  // Collect IDs/paths needed for post-transaction cleanup before deleting.\n  // Spores can reference prompt_batches from a different session (cross-session\n  // spore linkage), so we must also collect spores linked via prompt_batch_id.\n  const sporeIds = (db.prepare(\n    `SELECT id FROM spores\n     WHERE session_id = ?\n        OR prompt_batch_id IN (SELECT id FROM prompt_batches WHERE session_id = ?)`,\n  ).all(sessionId, sessionId) as { id: string }[]).map((r) => r.id);\n\n  const attachmentPaths = (db.prepare(\n    `SELECT file_path FROM attachments WHERE session_id = ?`,\n  ).all(sessionId) as { file_path: string }[]).map((r) => r.file_path);\n\n  // Run all deletes in a single transaction.\n  //\n  // Order matters — foreign_keys = ON is set in client.ts, so every DELETE\n  // is checked immediately. Child rows must be removed before their parents:\n  //   - spores.prompt_batch_id     → prompt_batches(id)   [spores BEFORE prompt_batches]\n  //   - plans.prompt_batch_id      → prompt_batches(id)   [plans BEFORE prompt_batches]\n  //   - resolution_events.spore_id → spores(id)           [resolution_events BEFORE spores]\n  //   - skill_usage.session_id     → sessions(id) NOT NULL\n  //   - plans.session_id           → sessions(id)\n  // resolution_events can reference spores across sessions (e.g. a later\n  // session supersedes an earlier session's spore), so we match by either\n  // session_id OR spore_id-in-this-session to catch cross-session references.\n  //\n  // Spores can also reference prompt_batches from a different session\n  // (cross-session prompt_batch_id linkage). 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package/dist/{chunk-WGIQOJKJ.js → chunk-R2PT7XMQ.js}

@@ -1,10 +1,10 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   isProcessAlive
-} from "./chunk-AOCBCPAP.js";
+} from "./chunk-SELPXOJ7.js";
 import {
   loadConfig
-} from "./chunk-4NIMDUYW.js";
+} from "./chunk-3C4LT4BW.js";
 import {
   getDatabase
 } from "./chunk-MYX5NCRH.js";
@@ -187,4 +187,4 @@ export {
   getEmbeddingQueueDepth,
   gatherStats
 };
-//# sourceMappingURL=chunk-WGIQOJKJ.js.map
+//# sourceMappingURL=chunk-R2PT7XMQ.js.map

package/dist/{chunk-AOCBCPAP.js → chunk-SELPXOJ7.js}

@@ -13,7 +13,7 @@ import {
 } from "./chunk-MYX5NCRH.js";
 import {
   DaemonClient
-} from "./chunk-NU74DHV3.js";
+} from "./chunk-JRKTIOXA.js";
 
 // src/cli/shared.ts
 import fs from "fs";
@@ -79,6 +79,9 @@ attachments/
 # Team sync admin state + worker deployment
 team/
 
+# Staged files generated by the myco agent
+staging/
+
 # Runtime command alias \u2014 per-contributor override for which myco binary
 # the hook guard invokes. Default (file absent) is \`myco\`; \`make dev-link\`
 # writes \`myco-dev\`; users can hand-edit for PATH conflicts or pinning.
@@ -120,4 +123,4 @@ export {
   VAULT_GITIGNORE,
   registerSymbionts
 };
-//# sourceMappingURL=chunk-AOCBCPAP.js.map
+//# sourceMappingURL=chunk-SELPXOJ7.js.map

package/dist/chunk-SELPXOJ7.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/cli/shared.ts"],"sourcesContent":["import fs from 'node:fs';\nimport path from 'node:path';\nimport os from 'node:os';\nimport { OllamaBackend } from '../intelligence/ollama.js';\nimport { LmStudioBackend } from '../intelligence/lm-studio.js';\n\nimport { DaemonClient } from '../hooks/client.js';\nimport { initDatabase, closeDatabase, vaultDbPath } from '../db/client.js';\nimport { SymbiontInstaller } from '../symbionts/installer.js';\nimport type { SymbiontManifest } from '../symbionts/manifest-schema.js';\n\nexport { parseStringFlag, parseIntFlag } from '../logs/format.js';\n\n/**\n * Initialize the singleton database for direct CLI reads.\n * Used by CLI commands that only need reads (stats, search, session).\n * Does NOT require the daemon to be running — WAL mode allows concurrent reads.\n *\n * @returns a cleanup function that closes the database.\n */\nexport function initVaultDb(vaultDir: string): () => void {\n  initDatabase(vaultDbPath(vaultDir));\n  return closeDatabase;\n}\n\n/** Connect to the daemon, ensuring it's running. Exits on failure. */\nexport async function connectToDaemon(vaultDir: string): Promise<DaemonClient> {\n  const client = new DaemonClient(vaultDir);\n  const healthy = await client.ensureRunning();\n  if (!healthy) {\n    console.error('Failed to connect to daemon');\n    process.exit(1);\n  }\n  return client;\n}\n\n/** Load .env from cwd (not script location — that's the plugin install dir). */\nexport function loadEnv(): void {\n  const envPath = path.resolve(process.cwd(), '.env');\n  if (!fs.existsSync(envPath)) return;\n  for (const line of fs.readFileSync(envPath, 'utf-8').split('\\n')) {\n    const match = line.match(/^\\s*([^#=]+?)\\s*=\\s*(.*?)\\s*$/);\n    if (match && !process.env[match[1]]) {\n      process.env[match[1]] = match[2];\n    }\n  }\n}\n\nexport function isProcessAlive(pid: number): boolean {\n  try { process.kill(pid, 0); return true; } catch { return false; }\n}\n\n// --- Provider defaults (sourced from backend classes) ---\nexport const PROVIDER_DEFAULTS: Record<string, { base_url: string }> = {\n  ollama: { base_url: OllamaBackend.DEFAULT_BASE_URL },\n  'lm-studio': { base_url: LmStudioBackend.DEFAULT_BASE_URL },\n};\n\n\nexport const VAULT_GITIGNORE = `# SQLite database\nmyco.db*\nvectors.db*\n\n# Daemon state — per-machine, ephemeral\ndaemon.json\nbuffer/\nlogs/\n\n# Secrets — API keys for cloud providers\nsecrets.env\n\n# Machine ID\nmachine_id\n\n# Update tracking — per-machine state\nlast-update-version\nrestart-reason.json\n\n# Binary attachments — screenshots captured from transcripts\nattachments/\n\n# Team sync admin state + worker deployment\nteam/\n\n# Staged files generated by the myco agent\nstaging/\n\n# Runtime command alias — per-contributor override for which myco binary\n# the hook guard invokes. Default (file absent) is \\`myco\\`; \\`make dev-link\\`\n# writes \\`myco-dev\\`; users can hand-edit for PATH conflicts or pinning.\n# Never committed — different contributors use different aliases.\nruntime.command\n`;\n\n/** Collapse an absolute home-dir path to its `~/` form for portable config storage. */\nexport function collapseHomePath(absPath: string): string {\n  const home = os.homedir();\n  if (absPath.startsWith(home + path.sep) || absPath === home) {\n    return '~' + absPath.slice(home.length);\n  }\n  return absPath;\n}\n\n/**\n * Run the SymbiontInstaller for each symbiont manifest and log results.\n * Shared between myco init and myco update.\n */\nexport function registerSymbionts(\n  manifests: SymbiontManifest[],\n  projectRoot: string,\n  packageRoot: string,\n  verb: 'Registered' | 'Updated',\n): number {\n  let count = 0;\n  for (const manifest of manifests) {\n    try {\n      const installer = new SymbiontInstaller(manifest, projectRoot, packageRoot);\n      const result = installer.install();\n\n      const installed = [\n        result.hooks && 'hooks',\n        result.mcp && 'MCP server',\n        result.skills && 'skills',\n        result.settings && 'settings',\n        result.instructions && 'instructions',\n        result.pluginPackage && 'plugin deps',\n      ].filter(Boolean);\n\n      if (installed.length > 0) {\n        console.log(`  \\u2713 ${verb} ${manifest.displayName}: ${installed.join(', ')}`);\n        count++;\n      } else {\n        console.log(`  \\u2013 ${manifest.displayName}: no registration targets configured`);\n      }\n    } catch (err) {\n      console.error(`  \\u2717 Failed to register ${manifest.displayName}: ${(err as Error).message}`);\n    }\n  }\n  return count;\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;AAAA,OAAO,QAAQ;AACf,OAAO,UAAU;AACjB,OAAO,QAAQ;AAkBR,SAAS,YAAY,UAA8B;AACxD,eAAa,YAAY,QAAQ,CAAC;AAClC,SAAO;AACT;AAGA,eAAsB,gBAAgB,UAAyC;AAC7E,QAAM,SAAS,IAAI,aAAa,QAAQ;AACxC,QAAM,UAAU,MAAM,OAAO,cAAc;AAC3C,MAAI,CAAC,SAAS;AACZ,YAAQ,MAAM,6BAA6B;AAC3C,YAAQ,KAAK,CAAC;AAAA,EAChB;AACA,SAAO;AACT;AAGO,SAAS,UAAgB;AAC9B,QAAM,UAAU,KAAK,QAAQ,QAAQ,IAAI,GAAG,MAAM;AAClD,MAAI,CAAC,GAAG,WAAW,OAAO,EAAG;AAC7B,aAAW,QAAQ,GAAG,aAAa,SAAS,OAAO,EAAE,MAAM,IAAI,GAAG;AAChE,UAAM,QAAQ,KAAK,MAAM,+BAA+B;AACxD,QAAI,SAAS,CAAC,QAAQ,IAAI,MAAM,CAAC,CAAC,GAAG;AACnC,cAAQ,IAAI,MAAM,CAAC,CAAC,IAAI,MAAM,CAAC;AAAA,IACjC;AAAA,EACF;AACF;AAEO,SAAS,eAAe,KAAsB;AACnD,MAAI;AAAE,YAAQ,KAAK,KAAK,CAAC;AAAG,WAAO;AAAA,EAAM,QAAQ;AAAE,WAAO;AAAA,EAAO;AACnE;AAGO,IAAM,oBAA0D;AAAA,EACrE,QAAQ,EAAE,UAAU,cAAc,iBAAiB;AAAA,EACnD,aAAa,EAAE,UAAU,gBAAgB,iBAAiB;AAC5D;AAGO,IAAM,kBAAkB;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAgDxB,SAAS,kBACd,WACA,aACA,aACA,MACQ;AACR,MAAI,QAAQ;AACZ,aAAW,YAAY,WAAW;AAChC,QAAI;AACF,YAAM,YAAY,IAAI,kBAAkB,UAAU,aAAa,WAAW;AAC1E,YAAM,SAAS,UAAU,QAAQ;AAEjC,YAAM,YAAY;AAAA,QAChB,OAAO,SAAS;AAAA,QAChB,OAAO,OAAO;AAAA,QACd,OAAO,UAAU;AAAA,QACjB,OAAO,YAAY;AAAA,QACnB,OAAO,gBAAgB;AAAA,QACvB,OAAO,iBAAiB;AAAA,MAC1B,EAAE,OAAO,OAAO;AAEhB,UAAI,UAAU,SAAS,GAAG;AACxB,gBAAQ,IAAI,YAAY,IAAI,IAAI,SAAS,WAAW,KAAK,UAAU,KAAK,IAAI,CAAC,EAAE;AAC/E;AAAA,MACF,OAAO;AACL,gBAAQ,IAAI,YAAY,SAAS,WAAW,sCAAsC;AAAA,MACpF;AAAA,IACF,SAAS,KAAK;AACZ,cAAQ,MAAM,+BAA+B,SAAS,WAAW,KAAM,IAAc,OAAO,EAAE;AAAA,IAChG;AAAA,EACF;AACA,SAAO;AACT;","names":[]}