@goondocks/myco 0.17.2 → 0.18.1

package/dist/{chunk-UTLWSKDV.js → chunk-CURS2TNP.js}

@@ -2,7 +2,7 @@ import { createRequire as __cr } from 'node:module'; const require = __cr(import
 import {
   DEFAULT_MACHINE_ID,
   epochSeconds
-} from "./chunk-7DAH5GLC.js";
+} from "./chunk-CKJAWZQE.js";
 
 // src/db/schema-ddl.ts
 var SCHEMA_VERSION_TABLE = `
@@ -323,6 +323,7 @@ var SKILL_CANDIDATES_TABLE = `
     status          TEXT NOT NULL DEFAULT 'identified',
     source_ids      TEXT NOT NULL DEFAULT '[]',
     skill_id        TEXT,
+    supersedes      TEXT,
     created_at      INTEGER NOT NULL,
     updated_at      INTEGER NOT NULL,
     approved_at     INTEGER,
@@ -337,6 +338,7 @@ var SKILL_RECORDS_TABLE = `
     display_name    TEXT NOT NULL,
     description     TEXT NOT NULL,
     status          TEXT NOT NULL DEFAULT 'active',
+    embedded        INTEGER DEFAULT 0,
     generation      INTEGER NOT NULL DEFAULT 1,
     candidate_id    TEXT REFERENCES skill_candidates(id),
     source_ids      TEXT NOT NULL DEFAULT '[]',
@@ -439,6 +441,7 @@ var SECONDARY_INDEXES = [
   "CREATE INDEX IF NOT EXISTS idx_sessions_processed ON sessions (processed)",
   "CREATE INDEX IF NOT EXISTS idx_sessions_started_at ON sessions (started_at)",
   "CREATE INDEX IF NOT EXISTS idx_sessions_agent ON sessions (agent)",
+  "CREATE INDEX IF NOT EXISTS idx_sessions_created_at ON sessions (created_at)",
   // Prompt batches
   "CREATE INDEX IF NOT EXISTS idx_prompt_batches_session_id ON prompt_batches (session_id)",
   "CREATE INDEX IF NOT EXISTS idx_prompt_batches_processed ON prompt_batches (processed)",
@@ -591,7 +594,9 @@ var MIGRATIONS = [
   { version: 7, migrate: migrateV6ToV7 },
   { version: 8, migrate: (db) => migrateV7ToV8(db) },
   { version: 9, migrate: (db) => migrateV8ToV9(db) },
-  { version: 10, migrate: (db) => migrateV9ToV10(db) }
+  { version: 10, migrate: (db) => migrateV9ToV10(db) },
+  { version: 11, migrate: (db) => migrateV10ToV11(db) },
+  { version: 12, migrate: (db) => migrateV11ToV12(db) }
 ];
 function migrateV1ToV2(db) {
   db.exec("BEGIN");
@@ -967,9 +972,45 @@ function migrateV9ToV10(db) {
     throw err;
   }
 }
+function migrateV10ToV11(db) {
+  db.exec("BEGIN");
+  try {
+    try {
+      db.exec("ALTER TABLE skill_candidates ADD COLUMN supersedes TEXT");
+    } catch {
+    }
+    db.prepare(
+      `INSERT INTO schema_version (version, applied_at)
+       VALUES (?, ?)
+       ON CONFLICT (version) DO NOTHING`
+    ).run(11, epochSeconds());
+    db.exec("COMMIT");
+  } catch (err) {
+    db.exec("ROLLBACK");
+    throw err;
+  }
+}
+function migrateV11ToV12(db) {
+  db.exec("BEGIN");
+  try {
+    try {
+      db.exec("ALTER TABLE skill_records ADD COLUMN embedded INTEGER DEFAULT 0");
+    } catch {
+    }
+    db.prepare(
+      `INSERT INTO schema_version (version, applied_at)
+       VALUES (?, ?)
+       ON CONFLICT (version) DO NOTHING`
+    ).run(12, epochSeconds());
+    db.exec("COMMIT");
+  } catch (err) {
+    db.exec("ROLLBACK");
+    throw err;
+  }
+}
 
 // src/db/schema.ts
-var SCHEMA_VERSION = 10;
+var SCHEMA_VERSION = 12;
 var EMBEDDING_DIMENSIONS = 1024;
 function getCurrentVersion(db) {
   const row = db.prepare(
@@ -1014,4 +1055,4 @@ export {
   EMBEDDING_DIMENSIONS,
   createSchema
 };
-//# sourceMappingURL=chunk-UTLWSKDV.js.map
+//# sourceMappingURL=chunk-CURS2TNP.js.map

package/dist/chunk-CURS2TNP.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/db/schema-ddl.ts","../src/constants/skill-candidate-status.ts","../src/db/migrations.ts","../src/db/schema.ts"],"sourcesContent":["/**\n * DDL constants for all Myco vault tables, FTS5 virtual tables,\n * sync triggers, and secondary indexes.\n *\n * Extracted from schema.ts for readability -- these are pure string\n * constants with no runtime behaviour.\n */\n\n// ---------------------------------------------------------------------------\n// Table DDL statements\n// ---------------------------------------------------------------------------\n\nconst SCHEMA_VERSION_TABLE = `\n  CREATE TABLE IF NOT EXISTS schema_version (\n    version    INTEGER PRIMARY KEY,\n    applied_at INTEGER NOT NULL\n  )`;\n\n// -- Capture Layer ----------------------------------------------------------\n\nconst SESSIONS_TABLE = `\n  CREATE TABLE IF NOT EXISTS sessions (\n    id                     TEXT PRIMARY KEY,\n    agent                  TEXT NOT NULL,\n    \"user\"                 TEXT,\n    project_root           TEXT,\n    branch                 TEXT,\n    started_at             INTEGER NOT NULL,\n    ended_at               INTEGER,\n    status                 TEXT DEFAULT 'active',\n    prompt_count           INTEGER DEFAULT 0,\n    tool_count             INTEGER DEFAULT 0,\n    title                  TEXT,\n    summary                TEXT,\n    transcript_path        TEXT,\n    parent_session_id      TEXT,\n    parent_session_reason  TEXT,\n    processed              INTEGER DEFAULT 0,\n    content_hash           TEXT UNIQUE,\n    created_at             INTEGER NOT NULL,\n    embedded               INTEGER DEFAULT 0,\n    machine_id             TEXT NOT NULL DEFAULT 'local',\n    synced_at              INTEGER\n  )`;\n\nconst PROMPT_BATCHES_TABLE = `\n  CREATE TABLE IF NOT EXISTS prompt_batches (\n    id                INTEGER PRIMARY KEY AUTOINCREMENT,\n    session_id        TEXT NOT NULL REFERENCES sessions(id),\n    prompt_number     INTEGER,\n    user_prompt       TEXT,\n    response_summary  TEXT,\n    classification    TEXT,\n    started_at        INTEGER,\n    ended_at          INTEGER,\n    status            TEXT DEFAULT 'active',\n    activity_count    INTEGER DEFAULT 0,\n    processed         INTEGER DEFAULT 0,\n    content_hash      TEXT UNIQUE,\n    created_at        INTEGER NOT NULL,\n    machine_id        TEXT NOT NULL DEFAULT 'local',\n    synced_at         INTEGER\n  )`;\n\nconst ACTIVITIES_TABLE = `\n  CREATE TABLE IF NOT EXISTS activities (\n    id                   INTEGER PRIMARY KEY AUTOINCREMENT,\n    session_id           TEXT NOT NULL REFERENCES sessions(id),\n    prompt_batch_id      INTEGER REFERENCES prompt_batches(id),\n    tool_name            TEXT NOT NULL,\n    tool_input           TEXT,\n    tool_output_summary  TEXT,\n    file_path            TEXT,\n    files_affected       TEXT,\n    duration_ms          INTEGER,\n    success              INTEGER DEFAULT 1,\n    error_message        TEXT,\n    timestamp            INTEGER NOT NULL,\n    processed            INTEGER DEFAULT 0,\n    content_hash         TEXT UNIQUE,\n    created_at           INTEGER NOT NULL\n  )`;\n\nconst PLANS_TABLE = `\n  CREATE TABLE IF NOT EXISTS plans (\n    id               TEXT PRIMARY KEY,\n    status           TEXT DEFAULT 'active',\n    author           TEXT,\n    title            TEXT,\n    content          TEXT,\n    source_path      TEXT,\n    tags             TEXT,\n    session_id       TEXT REFERENCES sessions(id),\n    prompt_batch_id  INTEGER REFERENCES prompt_batches(id),\n    content_hash     TEXT,\n    processed        INTEGER DEFAULT 0,\n    created_at       INTEGER NOT NULL,\n    updated_at       INTEGER,\n    embedded         INTEGER DEFAULT 0,\n    machine_id       TEXT NOT NULL DEFAULT 'local',\n    synced_at        INTEGER\n  )`;\n\nconst ARTIFACTS_TABLE = `\n  CREATE TABLE IF NOT EXISTS artifacts (\n    id               TEXT PRIMARY KEY,\n    artifact_type    TEXT,\n    source_path      TEXT NOT NULL,\n    title            TEXT NOT NULL,\n    content          TEXT,\n    last_captured_by TEXT,\n    tags             TEXT,\n    created_at       INTEGER NOT NULL,\n    updated_at       INTEGER,\n    embedded         INTEGER DEFAULT 0,\n    machine_id       TEXT NOT NULL DEFAULT 'local',\n    synced_at        INTEGER\n  )`;\n\nconst TEAM_MEMBERS_TABLE = `\n  CREATE TABLE IF NOT EXISTS team_members (\n    id          TEXT PRIMARY KEY,\n    \"user\"      TEXT NOT NULL,\n    role        TEXT,\n    joined      TEXT,\n    tags        TEXT,\n    machine_id  TEXT NOT NULL DEFAULT 'local',\n    synced_at   INTEGER\n  )`;\n\nconst ATTACHMENTS_TABLE = `\n  CREATE TABLE IF NOT EXISTS attachments (\n    id              TEXT PRIMARY KEY,\n    session_id      TEXT REFERENCES sessions(id),\n    prompt_batch_id INTEGER REFERENCES prompt_batches(id),\n    file_path       TEXT NOT NULL,\n    media_type      TEXT,\n    description     TEXT,\n    data            BLOB,\n    content_hash    TEXT,\n    created_at      INTEGER NOT NULL\n  )`;\n\n// -- Intelligence Layer -----------------------------------------------------\n\nconst AGENTS_TABLE = `\n  CREATE TABLE IF NOT EXISTS agents (\n    id                  TEXT PRIMARY KEY,\n    name                TEXT NOT NULL,\n    provider            TEXT,\n    model               TEXT,\n    system_prompt_hash  TEXT,\n    config              TEXT,\n    source              TEXT NOT NULL DEFAULT 'built-in',\n    system_prompt       TEXT,\n    max_turns           INTEGER,\n    timeout_seconds     INTEGER,\n    tool_access         TEXT,\n    enabled             INTEGER NOT NULL DEFAULT 1,\n    created_at          INTEGER NOT NULL,\n    updated_at          INTEGER\n  )`;\n\nconst SPORES_TABLE = `\n  CREATE TABLE IF NOT EXISTS spores (\n    id                TEXT PRIMARY KEY,\n    agent_id          TEXT NOT NULL REFERENCES agents(id),\n    session_id        TEXT REFERENCES sessions(id),\n    prompt_batch_id   INTEGER REFERENCES prompt_batches(id),\n    observation_type  TEXT NOT NULL,\n    status            TEXT DEFAULT 'active',\n    content           TEXT NOT NULL,\n    context           TEXT,\n    importance        INTEGER DEFAULT 5,\n    file_path         TEXT,\n    tags              TEXT,\n    content_hash      TEXT UNIQUE,\n    properties        TEXT,\n    created_at        INTEGER NOT NULL,\n    updated_at        INTEGER,\n    embedded          INTEGER DEFAULT 0,\n    machine_id        TEXT NOT NULL DEFAULT 'local',\n    synced_at         INTEGER\n  )`;\n\nconst ENTITIES_TABLE = `\n  CREATE TABLE IF NOT EXISTS entities (\n    id          TEXT PRIMARY KEY,\n    agent_id    TEXT NOT NULL REFERENCES agents(id),\n    type        TEXT NOT NULL,\n    name        TEXT NOT NULL,\n    properties  TEXT,\n    first_seen  INTEGER NOT NULL,\n    last_seen   INTEGER NOT NULL,\n    status      TEXT DEFAULT 'active',\n    machine_id  TEXT NOT NULL DEFAULT 'local',\n    synced_at   INTEGER,\n    UNIQUE (agent_id, type, name)\n  )`;\n\nconst GRAPH_EDGES_TABLE = `\n  CREATE TABLE IF NOT EXISTS graph_edges (\n    id              TEXT PRIMARY KEY,\n    agent_id        TEXT NOT NULL REFERENCES agents(id),\n    source_id       TEXT NOT NULL,\n    source_type     TEXT NOT NULL,\n    target_id       TEXT NOT NULL,\n    target_type     TEXT NOT NULL,\n    type            TEXT NOT NULL,\n    session_id      TEXT,\n    confidence      REAL DEFAULT 1.0,\n    properties      TEXT,\n    created_at      INTEGER NOT NULL,\n    machine_id      TEXT NOT NULL DEFAULT 'local',\n    synced_at       INTEGER\n  )`;\n\nconst ENTITY_MENTIONS_TABLE = `\n  CREATE TABLE IF NOT EXISTS entity_mentions (\n    entity_id   TEXT NOT NULL REFERENCES entities(id),\n    note_id     TEXT NOT NULL,\n    note_type   TEXT NOT NULL,\n    agent_id    TEXT NOT NULL REFERENCES agents(id),\n    machine_id  TEXT NOT NULL DEFAULT 'local',\n    synced_at   INTEGER,\n    UNIQUE (entity_id, note_id, note_type, agent_id)\n  )`;\n\nconst RESOLUTION_EVENTS_TABLE = `\n  CREATE TABLE IF NOT EXISTS resolution_events (\n    id            TEXT PRIMARY KEY,\n    agent_id      TEXT NOT NULL REFERENCES agents(id),\n    spore_id      TEXT NOT NULL REFERENCES spores(id),\n    action        TEXT NOT NULL,\n    new_spore_id  TEXT,\n    reason        TEXT,\n    session_id    TEXT,\n    created_at    INTEGER NOT NULL,\n    machine_id    TEXT NOT NULL DEFAULT 'local',\n    synced_at     INTEGER\n  )`;\n\nconst DIGEST_EXTRACTS_TABLE = `\n  CREATE TABLE IF NOT EXISTS digest_extracts (\n    id              INTEGER PRIMARY KEY AUTOINCREMENT,\n    agent_id        TEXT NOT NULL REFERENCES agents(id),\n    tier            INTEGER NOT NULL,\n    content         TEXT NOT NULL,\n    substrate_hash  TEXT,\n    generated_at    INTEGER NOT NULL,\n    machine_id      TEXT NOT NULL DEFAULT 'local',\n    synced_at       INTEGER,\n    UNIQUE (agent_id, tier)\n  )`;\n\n// -- Agent State Layer ------------------------------------------------------\n\nconst AGENT_RUNS_TABLE = `\n  CREATE TABLE IF NOT EXISTS agent_runs (\n    id            TEXT PRIMARY KEY,\n    agent_id      TEXT NOT NULL REFERENCES agents(id),\n    task          TEXT,\n    instruction   TEXT,\n    status        TEXT DEFAULT 'pending',\n    started_at    INTEGER,\n    completed_at  INTEGER,\n    tokens_used   INTEGER,\n    cost_usd      REAL,\n    actions_taken TEXT,\n    error         TEXT\n  )`;\n\nconst AGENT_REPORTS_TABLE = `\n  CREATE TABLE IF NOT EXISTS agent_reports (\n    id          INTEGER PRIMARY KEY AUTOINCREMENT,\n    run_id      TEXT NOT NULL REFERENCES agent_runs(id),\n    agent_id    TEXT NOT NULL REFERENCES agents(id),\n    action      TEXT NOT NULL,\n    summary     TEXT NOT NULL,\n    details     TEXT,\n    created_at  INTEGER NOT NULL\n  )`;\n\nconst AGENT_TURNS_TABLE = `\n  CREATE TABLE IF NOT EXISTS agent_turns (\n    id                   INTEGER PRIMARY KEY AUTOINCREMENT,\n    run_id               TEXT NOT NULL REFERENCES agent_runs(id),\n    agent_id             TEXT NOT NULL REFERENCES agents(id),\n    turn_number          INTEGER NOT NULL,\n    tool_name            TEXT NOT NULL,\n    tool_input           TEXT,\n    tool_output_summary  TEXT,\n    started_at           INTEGER,\n    completed_at         INTEGER\n  )`;\n\nconst AGENT_TASKS_TABLE = `\n  CREATE TABLE IF NOT EXISTS agent_tasks (\n    id              TEXT PRIMARY KEY,\n    agent_id        TEXT NOT NULL REFERENCES agents(id),\n    source          TEXT NOT NULL DEFAULT 'built-in',\n    display_name    TEXT,\n    description     TEXT,\n    prompt          TEXT NOT NULL,\n    is_default      INTEGER DEFAULT 0,\n    tool_overrides  TEXT,\n    model           TEXT,\n    config          TEXT,\n    created_at      INTEGER NOT NULL,\n    updated_at      INTEGER\n  )`;\n\nconst AGENT_STATE_TABLE = `\n  CREATE TABLE IF NOT EXISTS agent_state (\n    agent_id    TEXT NOT NULL REFERENCES agents(id),\n    key         TEXT NOT NULL,\n    value       TEXT NOT NULL,\n    updated_at  INTEGER NOT NULL,\n    PRIMARY KEY (agent_id, key)\n  )`;\n\n// -- Sync Layer -------------------------------------------------------------\n\nexport const TEAM_OUTBOX_TABLE = `\n  CREATE TABLE IF NOT EXISTS team_outbox (\n    id          INTEGER PRIMARY KEY AUTOINCREMENT,\n    table_name  TEXT NOT NULL,\n    row_id      TEXT NOT NULL,\n    operation   TEXT NOT NULL DEFAULT 'upsert',\n    payload     TEXT NOT NULL,\n    machine_id  TEXT NOT NULL,\n    created_at  INTEGER NOT NULL,\n    sent_at     INTEGER,\n    retry_count    INTEGER NOT NULL DEFAULT 0,\n    last_attempt_at INTEGER\n  )`;\n\n// -- Logging Layer ----------------------------------------------------------\n\nexport const LOG_ENTRIES_TABLE = `\n  CREATE TABLE IF NOT EXISTS log_entries (\n    id          INTEGER PRIMARY KEY AUTOINCREMENT,\n    timestamp   TEXT    NOT NULL,\n    level       TEXT    NOT NULL,\n    component   TEXT    NOT NULL,\n    kind        TEXT    NOT NULL,\n    message     TEXT    NOT NULL,\n    data        TEXT,\n    session_id  TEXT\n  )`;\n\n// -- Skills Layer -----------------------------------------------------------\n\nexport const SKILL_CANDIDATES_TABLE = `\n  CREATE TABLE IF NOT EXISTS skill_candidates (\n    id              TEXT PRIMARY KEY,\n    agent_id        TEXT NOT NULL REFERENCES agents(id),\n    machine_id      TEXT NOT NULL DEFAULT 'local',\n    topic           TEXT NOT NULL,\n    rationale       TEXT NOT NULL,\n    confidence      REAL NOT NULL DEFAULT 0.0,\n    status          TEXT NOT NULL DEFAULT 'identified',\n    source_ids      TEXT NOT NULL DEFAULT '[]',\n    skill_id        TEXT,\n    supersedes      TEXT,\n    created_at      INTEGER NOT NULL,\n    updated_at      INTEGER NOT NULL,\n    approved_at     INTEGER,\n    synced_at       INTEGER\n  )`;\n\nexport const SKILL_RECORDS_TABLE = `\n  CREATE TABLE IF NOT EXISTS skill_records (\n    id              TEXT PRIMARY KEY,\n    agent_id        TEXT NOT NULL REFERENCES agents(id),\n    machine_id      TEXT NOT NULL DEFAULT 'local',\n    name            TEXT NOT NULL UNIQUE,\n    display_name    TEXT NOT NULL,\n    description     TEXT NOT NULL,\n    status          TEXT NOT NULL DEFAULT 'active',\n    embedded        INTEGER DEFAULT 0,\n    generation      INTEGER NOT NULL DEFAULT 1,\n    candidate_id    TEXT REFERENCES skill_candidates(id),\n    source_ids      TEXT NOT NULL DEFAULT '[]',\n    path            TEXT NOT NULL,\n    usage_count     INTEGER NOT NULL DEFAULT 0,\n    last_used_at    INTEGER,\n    created_at      INTEGER NOT NULL,\n    updated_at      INTEGER NOT NULL,\n    properties      TEXT NOT NULL DEFAULT '{}',\n    synced_at       INTEGER\n  )`;\n\nexport const SKILL_LINEAGE_TABLE = `\n  CREATE TABLE IF NOT EXISTS skill_lineage (\n    id               TEXT PRIMARY KEY,\n    skill_id         TEXT NOT NULL REFERENCES skill_records(id),\n    generation       INTEGER NOT NULL,\n    action           TEXT NOT NULL,\n    rationale        TEXT NOT NULL,\n    source_ids_added TEXT NOT NULL DEFAULT '[]',\n    content_snapshot TEXT NOT NULL,\n    created_at       INTEGER NOT NULL\n  )`;\n\nexport const SKILL_USAGE_TABLE = `\n  CREATE TABLE IF NOT EXISTS skill_usage (\n    id          TEXT PRIMARY KEY,\n    skill_id    TEXT NOT NULL REFERENCES skill_records(id),\n    session_id  TEXT NOT NULL REFERENCES sessions(id),\n    machine_id  TEXT NOT NULL DEFAULT 'local',\n    detected_at INTEGER NOT NULL\n  )`;\n\n// -- Notifications Layer ----------------------------------------------------\n\nexport const NOTIFICATIONS_TABLE = `\n  CREATE TABLE IF NOT EXISTS notifications (\n    id          TEXT PRIMARY KEY,\n    domain      TEXT NOT NULL,\n    type        TEXT NOT NULL,\n    level       TEXT NOT NULL DEFAULT 'info',\n    title       TEXT NOT NULL,\n    message     TEXT,\n    mode        TEXT NOT NULL DEFAULT 'banner',\n    status      TEXT NOT NULL DEFAULT 'unread',\n    link        TEXT,\n    metadata    TEXT,\n    created_at  INTEGER NOT NULL\n  )`;\n\n// -- FTS5 Virtual Tables ----------------------------------------------------\n\nexport const FTS_TABLES = [\n  `CREATE VIRTUAL TABLE IF NOT EXISTS prompt_batches_fts\n     USING fts5(user_prompt, response_summary, content='prompt_batches', content_rowid='id')`,\n\n  `CREATE VIRTUAL TABLE IF NOT EXISTS activities_fts\n     USING fts5(tool_name, tool_input, file_path, content='activities', content_rowid='id')`,\n\n  `CREATE VIRTUAL TABLE IF NOT EXISTS log_entries_fts\n     USING fts5(message, content='log_entries', content_rowid='id')`,\n\n  `CREATE VIRTUAL TABLE IF NOT EXISTS spores_fts\n     USING fts5(content, content='spores', content_rowid='rowid')`,\n\n  `CREATE VIRTUAL TABLE IF NOT EXISTS sessions_fts\n     USING fts5(title, summary, content='sessions', content_rowid='rowid')`,\n\n  // FTS5 sync triggers for log_entries (external-content table)\n  `CREATE TRIGGER IF NOT EXISTS log_entries_ai AFTER INSERT ON log_entries BEGIN\n     INSERT INTO log_entries_fts(rowid, message) VALUES (new.id, new.message);\n   END`,\n\n  `CREATE TRIGGER IF NOT EXISTS log_entries_ad AFTER DELETE ON log_entries BEGIN\n     INSERT INTO log_entries_fts(log_entries_fts, rowid, message) VALUES('delete', old.id, old.message);\n   END`,\n\n  // FTS5 sync triggers for prompt_batches\n  `CREATE TRIGGER IF NOT EXISTS prompt_batches_fts_ai AFTER INSERT ON prompt_batches BEGIN\n     INSERT INTO prompt_batches_fts(rowid, user_prompt, response_summary) VALUES (new.id, new.user_prompt, new.response_summary);\n   END`,\n\n  `CREATE TRIGGER IF NOT EXISTS prompt_batches_fts_au AFTER UPDATE OF user_prompt, response_summary ON prompt_batches BEGIN\n     INSERT INTO prompt_batches_fts(prompt_batches_fts, rowid, user_prompt, response_summary) VALUES('delete', old.id, old.user_prompt, old.response_summary);\n     INSERT INTO prompt_batches_fts(rowid, user_prompt, response_summary) VALUES (new.id, new.user_prompt, new.response_summary);\n   END`,\n\n  `CREATE TRIGGER IF NOT EXISTS prompt_batches_fts_ad AFTER DELETE ON prompt_batches BEGIN\n     INSERT INTO prompt_batches_fts(prompt_batches_fts, rowid, user_prompt, response_summary) VALUES('delete', old.id, old.user_prompt, old.response_summary);\n   END`,\n\n  // FTS5 sync triggers for spores\n  `CREATE TRIGGER IF NOT EXISTS spores_fts_ai AFTER INSERT ON spores BEGIN\n     INSERT INTO spores_fts(rowid, content) VALUES (new.rowid, new.content);\n   END`,\n\n  `CREATE TRIGGER IF NOT EXISTS spores_fts_au AFTER UPDATE OF content ON spores BEGIN\n     INSERT INTO spores_fts(spores_fts, rowid, content) VALUES('delete', old.rowid, old.content);\n     INSERT INTO spores_fts(rowid, content) VALUES (new.rowid, new.content);\n   END`,\n\n  `CREATE TRIGGER IF NOT EXISTS spores_fts_ad AFTER DELETE ON spores BEGIN\n     INSERT INTO spores_fts(spores_fts, rowid, content) VALUES('delete', old.rowid, old.content);\n   END`,\n\n  // FTS5 sync triggers for sessions\n  `CREATE TRIGGER IF NOT EXISTS sessions_fts_ai AFTER INSERT ON sessions BEGIN\n     INSERT INTO sessions_fts(rowid, title, summary) VALUES (new.rowid, new.title, new.summary);\n   END`,\n\n  `CREATE TRIGGER IF NOT EXISTS sessions_fts_au AFTER UPDATE OF title, summary ON sessions BEGIN\n     INSERT INTO sessions_fts(sessions_fts, rowid, title, summary) VALUES('delete', old.rowid, old.title, old.summary);\n     INSERT INTO sessions_fts(rowid, title, summary) VALUES (new.rowid, new.title, new.summary);\n   END`,\n\n  `CREATE TRIGGER IF NOT EXISTS sessions_fts_ad AFTER DELETE ON sessions BEGIN\n     INSERT INTO sessions_fts(sessions_fts, rowid, title, summary) VALUES('delete', old.rowid, old.title, old.summary);\n   END`,\n];\n\n// -- Indexes ----------------------------------------------------------------\n\nexport const SECONDARY_INDEXES = [\n  // Sessions\n  'CREATE INDEX IF NOT EXISTS idx_sessions_status ON sessions (status)',\n  'CREATE INDEX IF NOT EXISTS idx_sessions_processed ON sessions (processed)',\n  'CREATE INDEX IF NOT EXISTS idx_sessions_started_at ON sessions (started_at)',\n  'CREATE INDEX IF NOT EXISTS idx_sessions_agent ON sessions (agent)',\n  'CREATE INDEX IF NOT EXISTS idx_sessions_created_at ON sessions (created_at)',\n\n  // Prompt batches\n  'CREATE INDEX IF NOT EXISTS idx_prompt_batches_session_id ON prompt_batches (session_id)',\n  'CREATE INDEX IF NOT EXISTS idx_prompt_batches_processed ON prompt_batches (processed)',\n  'CREATE INDEX IF NOT EXISTS idx_prompt_batches_status ON prompt_batches (status)',\n\n  // Activities\n  'CREATE INDEX IF NOT EXISTS idx_activities_session_id ON activities (session_id)',\n  'CREATE INDEX IF NOT EXISTS idx_activities_prompt_batch_id ON activities (prompt_batch_id)',\n  'CREATE INDEX IF NOT EXISTS idx_activities_tool_name ON activities (tool_name)',\n  'CREATE INDEX IF NOT EXISTS idx_activities_timestamp ON activities (timestamp)',\n  'CREATE INDEX IF NOT EXISTS idx_activities_processed ON activities (processed)',\n\n  // Spores\n  'CREATE INDEX IF NOT EXISTS idx_spores_agent_id ON spores (agent_id)',\n  'CREATE INDEX IF NOT EXISTS idx_spores_session_id ON spores (session_id)',\n  'CREATE INDEX IF NOT EXISTS idx_spores_status ON spores (status)',\n  'CREATE INDEX IF NOT EXISTS idx_spores_observation_type ON spores (observation_type)',\n  'CREATE INDEX IF NOT EXISTS idx_spores_created_at ON spores (created_at)',\n\n  // Entities\n  'CREATE INDEX IF NOT EXISTS idx_entities_agent_id ON entities (agent_id)',\n  'CREATE INDEX IF NOT EXISTS idx_entities_type ON entities (type)',\n\n  // Graph edges\n  'CREATE INDEX IF NOT EXISTS idx_graph_edges_source ON graph_edges (source_id, source_type)',\n  'CREATE INDEX IF NOT EXISTS idx_graph_edges_target ON graph_edges (target_id, target_type)',\n  'CREATE INDEX IF NOT EXISTS idx_graph_edges_type ON graph_edges (type)',\n  'CREATE INDEX IF NOT EXISTS idx_graph_edges_agent ON graph_edges (agent_id)',\n  'CREATE INDEX IF NOT EXISTS idx_graph_edges_source_type ON graph_edges (source_id, type)',\n\n  // Entity mentions\n  'CREATE INDEX IF NOT EXISTS idx_entity_mentions_entity_id ON entity_mentions (entity_id)',\n  'CREATE INDEX IF NOT EXISTS idx_entity_mentions_agent_id ON entity_mentions (agent_id)',\n\n  // Resolution events\n  'CREATE INDEX IF NOT EXISTS idx_resolution_events_spore_id ON resolution_events (spore_id)',\n  'CREATE INDEX IF NOT EXISTS idx_resolution_events_agent_id ON resolution_events (agent_id)',\n\n  // Digest extracts\n  'CREATE INDEX IF NOT EXISTS idx_digest_extracts_agent_id ON digest_extracts (agent_id)',\n\n  // Agent runs\n  'CREATE INDEX IF NOT EXISTS idx_agent_runs_agent_id ON agent_runs (agent_id)',\n  'CREATE INDEX IF NOT EXISTS idx_agent_runs_status ON agent_runs (status)',\n  'CREATE INDEX IF NOT EXISTS idx_agent_runs_agent_status ON agent_runs (agent_id, status)',\n  'CREATE INDEX IF NOT EXISTS idx_agent_runs_task_completed ON agent_runs (task, status, completed_at)',\n\n  // Agent reports\n  'CREATE INDEX IF NOT EXISTS idx_agent_reports_run_id ON agent_reports (run_id)',\n\n  // Agent turns\n  'CREATE INDEX IF NOT EXISTS idx_agent_turns_run_id ON agent_turns (run_id)',\n\n  // Agent tasks\n  'CREATE INDEX IF NOT EXISTS idx_agent_tasks_agent_id ON agent_tasks (agent_id)',\n\n  // Plans\n  'CREATE INDEX IF NOT EXISTS idx_plans_session_id ON plans (session_id)',\n  'CREATE INDEX IF NOT EXISTS idx_plans_source_path ON plans (source_path)',\n  'CREATE INDEX IF NOT EXISTS idx_plans_content_hash ON plans (content_hash)',\n  // Attachments\n  'CREATE INDEX IF NOT EXISTS idx_attachments_file_path ON attachments (file_path)',\n\n  // Team outbox\n  'CREATE INDEX IF NOT EXISTS idx_team_outbox_pending ON team_outbox (sent_at, created_at)',\n  'CREATE INDEX IF NOT EXISTS idx_team_outbox_table_name ON team_outbox (table_name)',\n  'CREATE INDEX IF NOT EXISTS idx_team_outbox_row_lookup ON team_outbox (table_name, row_id)',\n\n  // Machine ID (synced tables)\n  'CREATE INDEX IF NOT EXISTS idx_sessions_machine_id ON sessions (machine_id)',\n  'CREATE INDEX IF NOT EXISTS idx_spores_machine_id ON spores (machine_id)',\n  'CREATE INDEX IF NOT EXISTS idx_graph_edges_machine_id ON graph_edges (machine_id)',\n\n  // Skill candidates\n  'CREATE INDEX IF NOT EXISTS idx_skill_candidates_agent_id ON skill_candidates (agent_id)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_candidates_status ON skill_candidates (status)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_candidates_machine_id ON skill_candidates (machine_id)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_candidates_agent_status ON skill_candidates (agent_id, status)',\n\n  // Skill records\n  'CREATE INDEX IF NOT EXISTS idx_skill_records_agent_id ON skill_records (agent_id)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_records_status ON skill_records (status)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_records_name ON skill_records (name)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_records_machine_id ON skill_records (machine_id)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_records_agent_status ON skill_records (agent_id, status)',\n\n  // Skill lineage\n  'CREATE INDEX IF NOT EXISTS idx_skill_lineage_skill_id ON skill_lineage (skill_id)',\n\n  // Skill usage\n  'CREATE INDEX IF NOT EXISTS idx_skill_usage_skill_id ON skill_usage (skill_id)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_usage_session_id ON skill_usage (session_id)',\n  'CREATE INDEX IF NOT EXISTS idx_skill_usage_skill_session ON skill_usage (skill_id, session_id)',\n\n  // Log entries\n  'CREATE INDEX IF NOT EXISTS idx_log_entries_timestamp ON log_entries (timestamp)',\n  'CREATE INDEX IF NOT EXISTS idx_log_entries_level ON log_entries (level)',\n  'CREATE INDEX IF NOT EXISTS idx_log_entries_component ON log_entries (component)',\n  'CREATE INDEX IF NOT EXISTS idx_log_entries_kind ON log_entries (kind)',\n  'CREATE INDEX IF NOT EXISTS idx_log_entries_session_id ON log_entries (session_id)',\n\n  // Notifications\n  'CREATE INDEX IF NOT EXISTS idx_notifications_status ON notifications (status)',\n  'CREATE INDEX IF NOT EXISTS idx_notifications_domain ON notifications (domain)',\n  'CREATE INDEX IF NOT EXISTS idx_notifications_created_at ON notifications (created_at)',\n  'CREATE INDEX IF NOT EXISTS idx_notifications_status_created ON notifications (status, created_at)',\n];\n\n// -- Ordered table creation -------------------------------------------------\n\nexport const TABLE_DDLS = [\n  SCHEMA_VERSION_TABLE,\n  // Capture layer (order matters for FK references)\n  SESSIONS_TABLE,\n  PROMPT_BATCHES_TABLE,\n  ACTIVITIES_TABLE,\n  PLANS_TABLE,\n  ARTIFACTS_TABLE,\n  TEAM_MEMBERS_TABLE,\n  ATTACHMENTS_TABLE,\n  // Intelligence layer\n  AGENTS_TABLE,\n  SPORES_TABLE,\n  ENTITIES_TABLE,\n  GRAPH_EDGES_TABLE,\n  ENTITY_MENTIONS_TABLE,\n  RESOLUTION_EVENTS_TABLE,\n  DIGEST_EXTRACTS_TABLE,\n  // Agent state layer\n  AGENT_RUNS_TABLE,\n  AGENT_REPORTS_TABLE,\n  AGENT_TURNS_TABLE,\n  AGENT_TASKS_TABLE,\n  AGENT_STATE_TABLE,\n  // Skills layer\n  SKILL_CANDIDATES_TABLE,\n  SKILL_RECORDS_TABLE,\n  SKILL_LINEAGE_TABLE,\n  SKILL_USAGE_TABLE,\n  // Sync layer\n  TEAM_OUTBOX_TABLE,\n  // Logging layer\n  LOG_ENTRIES_TABLE,\n  // Notifications layer\n  NOTIFICATIONS_TABLE,\n];\n","/**\n * Canonical string values for skill_candidates.status.\n *\n * The skill lifecycle uses four states:\n *   - identified: discovered by skill-survey, awaiting human review\n *   - approved:   human approved; queued for skill-generate\n *   - generated:  vault_finalize_skill promoted the staged skill to live\n *   - dismissed:  retired (human or agent)\n *\n * See docs/superpowers/plans/2026-04-08-skill-lifecycle-audit-and-staging.md\n * for the lifecycle transitions and who is allowed to make each one.\n */\nexport const CANDIDATE_STATUS = {\n  IDENTIFIED: 'identified',\n  APPROVED: 'approved',\n  GENERATED: 'generated',\n  DISMISSED: 'dismissed',\n} as const;\n\nexport type SkillCandidateStatus = (typeof CANDIDATE_STATUS)[keyof typeof CANDIDATE_STATUS];\n\n/**\n * Statuses the agent-facing vault_skill_candidates tool is allowed to set\n * on an update. Human-only transitions (approved) and internal-only\n * transitions (generated, via vault_finalize_skill) are excluded.\n */\nexport const AGENT_SETTABLE_STATUSES: readonly SkillCandidateStatus[] = [\n  CANDIDATE_STATUS.IDENTIFIED,\n  CANDIDATE_STATUS.DISMISSED,\n];\n\n/**\n * Statuses REST callers (UI + MCP myco_skill_candidates) are allowed to\n * set. 'generated' is internal — only vault_finalize_skill sets it, and\n * that path calls updateCandidate directly rather than going through REST.\n */\nexport const REST_SETTABLE_STATUSES: readonly SkillCandidateStatus[] = [\n  CANDIDATE_STATUS.IDENTIFIED,\n  CANDIDATE_STATUS.APPROVED,\n  CANDIDATE_STATUS.DISMISSED,\n];\n\n/**\n * Composite UI filter value that the REST handler translates into a\n * multi-status query (`status IN ('approved', 'generated')`). Kept here\n * so the UI and backend share a single source of truth for the wire\n * encoding.\n */\nexport const PIPELINE_FILTER_VALUE = `${CANDIDATE_STATUS.APPROVED},${CANDIDATE_STATUS.GENERATED}`;\n","/**\n * Schema migrations for the Myco vault database.\n *\n * Each migration is a function that upgrades the database from version N-1 to N.\n * The MIGRATIONS registry provides a declarative list that createSchema() can\n * iterate over instead of hand-coding version checks.\n */\n\nimport type { Database } from 'better-sqlite3';\nimport { epochSeconds, DEFAULT_MACHINE_ID } from '@myco/constants.js';\nimport { CANDIDATE_STATUS } from '@myco/constants/skill-candidate-status.js';\nimport {\n  LOG_ENTRIES_TABLE,\n  TEAM_OUTBOX_TABLE,\n  SKILL_CANDIDATES_TABLE,\n  SKILL_RECORDS_TABLE,\n  SKILL_LINEAGE_TABLE,\n  SKILL_USAGE_TABLE,\n  NOTIFICATIONS_TABLE,\n} from './schema-ddl.js';\n\n// ---------------------------------------------------------------------------\n// Migration interface + registry\n// ---------------------------------------------------------------------------\n\nexport interface Migration {\n  version: number;\n  migrate: (db: Database, machineId: string) => void;\n}\n\nexport const MIGRATIONS: Migration[] = [\n  { version: 2, migrate: (db) => migrateV1ToV2(db) },\n  { version: 3, migrate: (db) => migrateV2ToV3(db) },\n  { version: 4, migrate: migrateV3ToV4 },\n  { version: 5, migrate: (db) => migrateV4ToV5(db) },\n  { version: 6, migrate: (db) => migrateV5ToV6(db) },\n  { version: 7, migrate: migrateV6ToV7 },\n  { version: 8, migrate: (db) => migrateV7ToV8(db) },\n  { version: 9, migrate: (db) => migrateV8ToV9(db) },\n  { version: 10, migrate: (db) => migrateV9ToV10(db) },\n  { version: 11, migrate: (db) => migrateV10ToV11(db) },\n  { version: 12, migrate: (db) => migrateV11ToV12(db) },\n];\n\n// ---------------------------------------------------------------------------\n// Individual migration functions\n// ---------------------------------------------------------------------------\n\n/**\n * Migrate a version-1 database to version-2.\n *\n * Version 2 adds:\n *   - plans.session_id, plans.prompt_batch_id, plans.content_hash\n *   - attachments.data, attachments.content_hash\n *   - indexes: idx_plans_session_id, idx_plans_source_path, idx_plans_content_hash\n *\n * Each ALTER TABLE is wrapped in try/catch so re-running is safe -- SQLite\n * throws \"duplicate column name\" if the column already exists, which we ignore.\n */\nfunction migrateV1ToV2(db: Database): void {\n  db.exec('BEGIN');\n  try {\n    const alterStatements = [\n      'ALTER TABLE plans ADD COLUMN session_id TEXT REFERENCES sessions(id)',\n      'ALTER TABLE plans ADD COLUMN prompt_batch_id INTEGER REFERENCES prompt_batches(id)',\n      'ALTER TABLE plans ADD COLUMN content_hash TEXT',\n      'ALTER TABLE attachments ADD COLUMN data BLOB',\n      'ALTER TABLE attachments ADD COLUMN content_hash TEXT',\n    ];\n\n    for (const stmt of alterStatements) {\n      try {\n        db.exec(stmt);\n      } catch {\n        // Column already exists -- safe to ignore on re-run\n      }\n    }\n\n    // Indexes use IF NOT EXISTS so they are idempotent\n    const newIndexes = [\n      'CREATE INDEX IF NOT EXISTS idx_plans_session_id ON plans (session_id)',\n      'CREATE INDEX IF NOT EXISTS idx_plans_source_path ON plans (source_path)',\n      'CREATE INDEX IF NOT EXISTS idx_plans_content_hash ON plans (content_hash)',\n      'CREATE INDEX IF NOT EXISTS idx_attachments_file_path ON attachments (file_path)',\n    ];\n\n    for (const idx of newIndexes) {\n      db.exec(idx);\n    }\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`\n    ).run(2, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Migrate a version-2 database to version-3.\n *\n * Version 3 adds:\n *   - log_entries table\n *   - log_entries_fts virtual table (FTS5)\n *   - indexes: idx_log_entries_timestamp, _level, _component, _kind, _session_id\n *\n * Uses `CREATE ... IF NOT EXISTS` throughout for idempotency.\n */\nfunction migrateV2ToV3(db: Database): void {\n  db.exec('BEGIN');\n  try {\n    db.exec(LOG_ENTRIES_TABLE);\n\n    db.exec(\n      `CREATE VIRTUAL TABLE IF NOT EXISTS log_entries_fts\n         USING fts5(message, content='log_entries', content_rowid='id')`\n    );\n\n    // FTS5 sync triggers for log_entries\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS log_entries_ai AFTER INSERT ON log_entries BEGIN\n         INSERT INTO log_entries_fts(rowid, message) VALUES (new.id, new.message);\n       END`\n    );\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS log_entries_ad AFTER DELETE ON log_entries BEGIN\n         INSERT INTO log_entries_fts(log_entries_fts, rowid, message) VALUES('delete', old.id, old.message);\n       END`\n    );\n\n    const newIndexes = [\n      'CREATE INDEX IF NOT EXISTS idx_log_entries_timestamp ON log_entries (timestamp)',\n      'CREATE INDEX IF NOT EXISTS idx_log_entries_level ON log_entries (level)',\n      'CREATE INDEX IF NOT EXISTS idx_log_entries_component ON log_entries (component)',\n      'CREATE INDEX IF NOT EXISTS idx_log_entries_kind ON log_entries (kind)',\n      'CREATE INDEX IF NOT EXISTS idx_log_entries_session_id ON log_entries (session_id)',\n    ];\n\n    for (const idx of newIndexes) {\n      db.exec(idx);\n    }\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`\n    ).run(3, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Migrate a version-3 database to version-4.\n *\n * Version 4 adds multi-machine support:\n *   - machine_id TEXT NOT NULL DEFAULT 'local' on all synced tables\n *   - synced_at INTEGER on all synced tables\n *   - team_outbox table + indexes\n *   - machine_id indexes on high-traffic tables\n *\n * Backfills existing rows with the provided machineId.\n */\nfunction migrateV3ToV4(db: Database, machineId: string): void {\n  db.exec('BEGIN');\n  try {\n    // Tables that need machine_id + synced_at columns\n    const syncedTables = [\n      'sessions',\n      'prompt_batches',\n      'spores',\n      'entities',\n      'graph_edges',\n      'entity_mentions',\n      'resolution_events',\n      'plans',\n      'artifacts',\n      'digest_extracts',\n      'team_members',\n    ];\n\n    for (const table of syncedTables) {\n      try {\n        db.exec(`ALTER TABLE ${table} ADD COLUMN machine_id TEXT NOT NULL DEFAULT 'local'`);\n      } catch {\n        // Column already exists -- safe to ignore on re-run\n      }\n      try {\n        db.exec(`ALTER TABLE ${table} ADD COLUMN synced_at INTEGER`);\n      } catch {\n        // Column already exists -- safe to ignore on re-run\n      }\n    }\n\n    // Backfill machine_id on existing rows\n    for (const table of syncedTables) {\n      db.prepare(`UPDATE ${table} SET machine_id = ? WHERE machine_id = 'local'`).run(machineId);\n    }\n\n    // Create team_outbox table\n    db.exec(TEAM_OUTBOX_TABLE);\n\n    // Create new indexes (IF NOT EXISTS for idempotency)\n    const newIndexes = [\n      'CREATE INDEX IF NOT EXISTS idx_team_outbox_pending ON team_outbox (sent_at, created_at)',\n      'CREATE INDEX IF NOT EXISTS idx_team_outbox_table_name ON team_outbox (table_name)',\n      'CREATE INDEX IF NOT EXISTS idx_team_outbox_row_lookup ON team_outbox (table_name, row_id)',\n      'CREATE INDEX IF NOT EXISTS idx_sessions_machine_id ON sessions (machine_id)',\n      'CREATE INDEX IF NOT EXISTS idx_spores_machine_id ON spores (machine_id)',\n      'CREATE INDEX IF NOT EXISTS idx_graph_edges_machine_id ON graph_edges (machine_id)',\n    ];\n\n    for (const idx of newIndexes) {\n      db.exec(idx);\n    }\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`\n    ).run(4, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Migrate a version-4 database to version-5.\n *\n * Version 5 adds the Skills layer:\n *   - skill_candidates table\n *   - skill_records table\n *   - skill_lineage table\n *   - skill_usage table\n *   - indexes for all new tables\n *\n * Uses `CREATE TABLE IF NOT EXISTS` throughout for idempotency.\n */\nfunction migrateV4ToV5(db: Database): void {\n  db.exec('BEGIN');\n  try {\n    db.exec(SKILL_CANDIDATES_TABLE);\n    db.exec(SKILL_RECORDS_TABLE);\n    db.exec(SKILL_LINEAGE_TABLE);\n    db.exec(SKILL_USAGE_TABLE);\n\n    const newIndexes = [\n      'CREATE INDEX IF NOT EXISTS idx_skill_candidates_agent_id ON skill_candidates (agent_id)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_candidates_status ON skill_candidates (status)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_candidates_machine_id ON skill_candidates (machine_id)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_candidates_agent_status ON skill_candidates (agent_id, status)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_records_agent_id ON skill_records (agent_id)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_records_status ON skill_records (status)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_records_name ON skill_records (name)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_records_machine_id ON skill_records (machine_id)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_records_agent_status ON skill_records (agent_id, status)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_lineage_skill_id ON skill_lineage (skill_id)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_usage_skill_id ON skill_usage (skill_id)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_usage_session_id ON skill_usage (session_id)',\n      'CREATE INDEX IF NOT EXISTS idx_skill_usage_skill_session ON skill_usage (skill_id, session_id)',\n      'CREATE INDEX IF NOT EXISTS idx_agent_runs_task_completed ON agent_runs (task, status, completed_at)',\n    ];\n\n    for (const idx of newIndexes) {\n      db.exec(idx);\n    }\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`\n    ).run(5, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Migrate a version-5 database to version-6.\n *\n * Version 6 expands FTS5 coverage:\n *   - prompt_batches_fts gains response_summary column (drop + recreate)\n *   - spores_fts new virtual table (content column, hidden rowid)\n *   - sessions_fts new virtual table (title + summary, hidden rowid)\n *   - sync triggers for all three tables (insert / update / delete)\n *   - backfills FTS from existing data\n *\n * Uses `IF NOT EXISTS` throughout for idempotency where possible.\n * The prompt_batches_fts table must be dropped first since its column\n * definition changed.\n */\nfunction migrateV5ToV6(db: Database): void {\n  db.exec('BEGIN');\n  try {\n    // Drop old prompt_batches_fts (column definition changed)\n    db.exec('DROP TABLE IF EXISTS prompt_batches_fts');\n\n    // Recreate with response_summary added\n    db.exec(\n      `CREATE VIRTUAL TABLE IF NOT EXISTS prompt_batches_fts\n         USING fts5(user_prompt, response_summary, content='prompt_batches', content_rowid='id')`,\n    );\n\n    // New FTS tables\n    db.exec(\n      `CREATE VIRTUAL TABLE IF NOT EXISTS spores_fts\n         USING fts5(content, content='spores', content_rowid='rowid')`,\n    );\n    db.exec(\n      `CREATE VIRTUAL TABLE IF NOT EXISTS sessions_fts\n         USING fts5(title, summary, content='sessions', content_rowid='rowid')`,\n    );\n\n    // Triggers for prompt_batches\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS prompt_batches_fts_ai AFTER INSERT ON prompt_batches BEGIN\n         INSERT INTO prompt_batches_fts(rowid, user_prompt, response_summary) VALUES (new.id, new.user_prompt, new.response_summary);\n       END`,\n    );\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS prompt_batches_fts_au AFTER UPDATE OF user_prompt, response_summary ON prompt_batches BEGIN\n         INSERT INTO prompt_batches_fts(prompt_batches_fts, rowid, user_prompt, response_summary) VALUES('delete', old.id, old.user_prompt, old.response_summary);\n         INSERT INTO prompt_batches_fts(rowid, user_prompt, response_summary) VALUES (new.id, new.user_prompt, new.response_summary);\n       END`,\n    );\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS prompt_batches_fts_ad AFTER DELETE ON prompt_batches BEGIN\n         INSERT INTO prompt_batches_fts(prompt_batches_fts, rowid, user_prompt, response_summary) VALUES('delete', old.id, old.user_prompt, old.response_summary);\n       END`,\n    );\n\n    // Triggers for spores\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS spores_fts_ai AFTER INSERT ON spores BEGIN\n         INSERT INTO spores_fts(rowid, content) VALUES (new.rowid, new.content);\n       END`,\n    );\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS spores_fts_au AFTER UPDATE OF content ON spores BEGIN\n         INSERT INTO spores_fts(spores_fts, rowid, content) VALUES('delete', old.rowid, old.content);\n         INSERT INTO spores_fts(rowid, content) VALUES (new.rowid, new.content);\n       END`,\n    );\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS spores_fts_ad AFTER DELETE ON spores BEGIN\n         INSERT INTO spores_fts(spores_fts, rowid, content) VALUES('delete', old.rowid, old.content);\n       END`,\n    );\n\n    // Triggers for sessions\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS sessions_fts_ai AFTER INSERT ON sessions BEGIN\n         INSERT INTO sessions_fts(rowid, title, summary) VALUES (new.rowid, new.title, new.summary);\n       END`,\n    );\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS sessions_fts_au AFTER UPDATE OF title, summary ON sessions BEGIN\n         INSERT INTO sessions_fts(sessions_fts, rowid, title, summary) VALUES('delete', old.rowid, old.title, old.summary);\n         INSERT INTO sessions_fts(rowid, title, summary) VALUES (new.rowid, new.title, new.summary);\n       END`,\n    );\n    db.exec(\n      `CREATE TRIGGER IF NOT EXISTS sessions_fts_ad AFTER DELETE ON sessions BEGIN\n         INSERT INTO sessions_fts(sessions_fts, rowid, title, summary) VALUES('delete', old.rowid, old.title, old.summary);\n       END`,\n    );\n\n    // Backfill FTS from existing data\n    db.exec(\n      `INSERT INTO prompt_batches_fts(rowid, user_prompt, response_summary)\n         SELECT rowid, user_prompt, response_summary FROM prompt_batches`,\n    );\n    db.exec(\n      `INSERT INTO spores_fts(rowid, content)\n         SELECT rowid, content FROM spores`,\n    );\n    db.exec(\n      `INSERT INTO sessions_fts(rowid, title, summary)\n         SELECT rowid, title, summary FROM sessions`,\n    );\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`,\n    ).run(6, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Migrate v6 -> v7: fix stale 'local' machine_id on ALL synced tables.\n *\n * The agent vault tools historically used DEFAULT_MACHINE_ID ('local')\n * instead of the resolved machine identity. This one-time data migration\n * fixes all affected records and re-queues them for team sync.\n */\nfunction migrateV6ToV7(db: Database, machineId: string): void {\n  if (machineId === 'local' || machineId === DEFAULT_MACHINE_ID) return; // Nothing to fix\n\n  db.exec('BEGIN');\n  try {\n    // entity_mentions excluded -- no `id` column (composite key: entity_id, note_id, note_type)\n    const tables = [\n      'sessions', 'prompt_batches', 'spores', 'entities', 'graph_edges',\n      'resolution_events', 'plans', 'artifacts',\n      'digest_extracts', 'skill_candidates', 'skill_records',\n    ];\n\n    for (const table of tables) {\n      try {\n        // Find rows that need fixing BEFORE updating\n        const staleRows = db.prepare(\n          `SELECT id FROM ${table} WHERE machine_id = 'local'`,\n        ).all() as Array<{ id: string }>;\n\n        if (staleRows.length === 0) continue;\n\n        // Fix machine_id and clear synced_at\n        db.prepare(\n          `UPDATE ${table} SET machine_id = ?, synced_at = NULL WHERE machine_id = 'local'`,\n        ).run(machineId);\n\n        // Clear stale outbox entries for affected rows only\n        for (const row of staleRows) {\n          db.prepare(\n            `DELETE FROM team_outbox WHERE table_name = ? AND row_id = ?`,\n          ).run(table, String(row.id));\n        }\n\n        // Re-enqueue only the fixed rows with full payload\n        const enqueueStmt = db.prepare(\n          `INSERT INTO team_outbox (table_name, row_id, operation, payload, machine_id, created_at)\n           VALUES (?, ?, 'upsert', ?, ?, ?)`,\n        );\n        const now = epochSeconds();\n        for (const stale of staleRows) {\n          const fresh = db.prepare(`SELECT * FROM ${table} WHERE id = ?`).get(stale.id) as Record<string, unknown>;\n          if (fresh) {\n            enqueueStmt.run(table, String(stale.id), JSON.stringify(fresh), machineId, now);\n          }\n        }\n      } catch (tableErr) {\n        // Skip if table doesn't exist; re-throw for other errors (I/O, constraint)\n        const msg = tableErr instanceof Error ? tableErr.message : String(tableErr);\n        if (!msg.includes('no such table')) throw tableErr;\n      }\n    }\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`,\n    ).run(7, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Migrate v7 -> v8: add notifications table.\n *\n * Uses `CREATE TABLE IF NOT EXISTS` for idempotency.\n */\nfunction migrateV7ToV8(db: Database): void {\n  db.exec('BEGIN');\n  try {\n    db.exec(NOTIFICATIONS_TABLE);\n\n    const newIndexes = [\n      'CREATE INDEX IF NOT EXISTS idx_notifications_status ON notifications (status)',\n      'CREATE INDEX IF NOT EXISTS idx_notifications_domain ON notifications (domain)',\n      'CREATE INDEX IF NOT EXISTS idx_notifications_created_at ON notifications (created_at)',\n      'CREATE INDEX IF NOT EXISTS idx_notifications_status_created ON notifications (status, created_at)',\n    ];\n\n    for (const idx of newIndexes) {\n      db.exec(idx);\n    }\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`,\n    ).run(8, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Version 9 adds retry tracking to the team outbox:\n *   - retry_count INTEGER NOT NULL DEFAULT 0\n *   - last_attempt_at INTEGER\n *\n * Records exceeding the max retry count are dead-lettered (excluded from\n * pending queries) so they don't block the sync flush or deep sleep.\n */\nfunction migrateV8ToV9(db: Database): void {\n  db.exec('BEGIN');\n  try {\n    db.exec('ALTER TABLE team_outbox ADD COLUMN retry_count INTEGER NOT NULL DEFAULT 0');\n    db.exec('ALTER TABLE team_outbox ADD COLUMN last_attempt_at INTEGER');\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`,\n    ).run(9, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Version 10 adds an audit trail for skill candidate approvals.\n *\n *   - skill_candidates.approved_at INTEGER (nullable) — timestamp of the\n *     first transition into status='approved'. Auto-managed by\n *     updateCandidate going forward.\n *\n * Backfill: rows currently in status 'approved' or 'generated' get\n * approved_at set to the migration timestamp. This is a one-time,\n * deliberately-imprecise assumption — the true approval time is lost\n * for existing rows, so we record \"as of the migration, these were\n * considered approved\" rather than inventing timestamps.\n *\n * Rows in 'identified' or 'dismissed' state keep approved_at = NULL.\n *\n * Idempotent: the ALTER is wrapped in try/catch so re-runs tolerate the\n * existing column; the backfill uses `WHERE approved_at IS NULL` so it\n * never overwrites a previously-recorded timestamp.\n */\nfunction migrateV9ToV10(db: Database): void {\n  db.exec('BEGIN');\n  try {\n    try {\n      db.exec('ALTER TABLE skill_candidates ADD COLUMN approved_at INTEGER');\n    } catch {\n      // Column already exists -- safe to ignore on re-run\n    }\n\n    const now = epochSeconds();\n    db.prepare(\n      `UPDATE skill_candidates\n         SET approved_at = ?\n       WHERE approved_at IS NULL\n         AND status IN (?, ?)`,\n    ).run(now, CANDIDATE_STATUS.APPROVED, CANDIDATE_STATUS.GENERATED);\n\n    db.prepare(\n      `INSERT INTO schema_version (version, applied_at)\n       VALUES (?, ?)\n       ON CONFLICT (version) DO NOTHING`,\n    ).run(10, epochSeconds());\n\n    db.exec('COMMIT');\n  } catch (err) {\n    db.exec('ROLLBACK');\n    throw err;\n  }\n}\n\n/**\n * Version 11 adds supersedes tracking to skill candidates.\n *\n *   - skill_candidates.supersedes TEXT (nullable) — JSON array of skill\n *     record names that this candidate would replace. 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Running `createSchema()` multiple times is always safe.\n *\n * Timestamp convention: all timestamps are INTEGER (Unix epoch seconds).\n * Content hashing: all `content_hash` columns are TEXT with UNIQUE constraint.\n * Embedding dimensions: 1024 (bge-m3 default) -- used by external sqlite-vec store.\n *\n * Vector columns live in a separate sqlite-vec virtual table, not inline.\n * Tables that participate in vector search carry an `embedded INTEGER DEFAULT 0`\n * flag so the embedder knows which rows still need vectors.\n */\n\nimport type { Database } from 'better-sqlite3';\nimport { epochSeconds, DEFAULT_MACHINE_ID } from '@myco/constants.js';\nimport { TABLE_DDLS, FTS_TABLES, SECONDARY_INDEXES } from './schema-ddl.js';\nimport { MIGRATIONS } from './migrations.js';\n\n/** Current schema version -- fresh start for the SQLite era. */\nexport const SCHEMA_VERSION = 12;\n\n// Re-export for backwards compat (other modules import from schema.ts)\nexport { DEFAULT_MACHINE_ID };\n\n/** Embedding vector dimensions (bge-m3 default). */\nexport const EMBEDDING_DIMENSIONS = 1024;\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\nfunction getCurrentVersion(db: Database): number {\n  const row = db.prepare(\n    'SELECT version FROM schema_version ORDER BY version DESC LIMIT 1'\n  ).get() as { version: number } | undefined;\n  return row?.version ?? 0;\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/**\n * Create all database tables, indexes, and record the schema version.\n *\n * Fully idempotent -- safe to call on every startup. Uses `IF NOT EXISTS`\n * for all DDL and `ON CONFLICT DO NOTHING` for the version row.\n *\n * @param db -- better-sqlite3 Database instance.\n * @param machineId -- machine identifier for backfilling existing rows during\n *   v3->v4 and v6->v7 migrations. 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package/dist/{chunk-EBIYONNZ.js → chunk-DPSLJ242.js}

@@ -13,8 +13,40 @@ import {
 } from "./chunk-PZUWP5VK.js";
 
 // src/symbionts/manifest-schema.ts
+var CaptureRuleSchema = external_exports.object({
+  event: external_exports.enum(["session_start", "user_prompt"]),
+  scope: external_exports.enum(["this_agent", "any_agent"]).default("this_agent"),
+  when: external_exports.object({
+    prompt_starts_with: external_exports.string().optional(),
+    prompt_contains: external_exports.string().optional(),
+    /** Structural: fires when transcript_path is absent or empty. */
+    transcript_path_missing: external_exports.boolean().optional(),
+    /**
+     * Structural: fires when a dot-path field exists (and is truthy) in the
+     * transcript's first JSON line (session_meta). Use for detecting sub-agent
+     * sessions that have real transcript files but are not user-initiated.
+     *
+     * Example: `source.subagent` matches a Codex thread-spawn session whose
+     * session_meta has `"source": {"subagent": {...}}` but would NOT match
+     * a user session with `"source": "vscode"`.
+     *
+     * The hook handler reads the transcript and passes the parsed meta to
+     * the evaluator — the evaluator itself does no file I/O.
+     */
+    transcript_meta_field_exists: external_exports.string().optional()
+  }),
+  action: external_exports.enum(["drop", "rewrite_prompt"]),
+  /** Short audit string logged when the rule matches (e.g., "codex-internal-title-gen"). */
+  reason: external_exports.string().optional(),
+  /** For rewrite_prompt: keep only the substring after this marker (first occurrence). */
+  extract_after: external_exports.string().optional(),
+  /** For rewrite_prompt: trim whitespace from the extracted substring. Default true. */
+  trim: external_exports.boolean().default(true)
+});
 var CaptureManifestSchema = external_exports.object({
-  planDirs: external_exports.array(external_exports.string()).default([])
+  planDirs: external_exports.array(external_exports.string()).default([]),
+  planTags: external_exports.array(external_exports.string()).default([]),
+  rules: external_exports.array(CaptureRuleSchema).default([])
 });
 var RegistrationSchema = external_exports.object({
   hooksTarget: external_exports.string().optional(),
@@ -127,4 +159,4 @@ export {
   detectSymbionts,
   resolvePackageRoot
 };
-//# sourceMappingURL=chunk-EBIYONNZ.js.map
+//# sourceMappingURL=chunk-DPSLJ242.js.map

package/dist/chunk-DPSLJ242.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/symbionts/manifest-schema.ts","../src/symbionts/detect.ts"],"sourcesContent":["import { z } from 'zod';\n\n/**\n * Declarative capture rules owned per-symbiont in its YAML manifest.\n *\n * Rules let each symbiont describe how Myco should filter or rewrite\n * captured events *without* adding symbiont-specific branches inside\n * the generic hook handlers. The hook loads the rules, a generic\n * evaluator decides the action, and the hook acts on the result.\n *\n * Condition types (in `when`):\n *   - `transcript_path_missing`: structural. Fires when the hook's\n *     transcript_path field is absent/empty. A legitimate user-facing\n *     session records a transcript; an ephemeral sub-invocation (e.g.,\n *     an agent's internal title-generation call) does not. Preferred\n *     over text matching because it doesn't drift as UIs evolve.\n *   - `prompt_starts_with` / `prompt_contains`: text fallback. Use\n *     when no structural signal is available. Document the upgrade path\n *     in the YAML so future maintainers can replace it when a better\n *     signal appears.\n *\n * Scope semantics:\n *   - `this_agent` (default): rule fires only when the detected agent\n *     matches the manifest that owns the rule. Use for behavior that\n *     is specific to the symbiont and can rely on detection working.\n *   - `any_agent`: rule fires regardless of detected agent. Use for\n *     patterns where detection itself might fail — e.g., an internal\n *     sub-invocation that omits the fields agent detection keys on.\n *\n * Events:\n *   - `session_start`: fires on SessionStart, before any prompts or\n *     tools are captured. The right place to catch ephemeral sub-\n *     invocations so they're never registered as sessions at all.\n *   - `user_prompt`: fires on UserPromptSubmit. Safety net for anything\n *     that slips past session_start, and the only layer where\n *     `rewrite_prompt` makes sense (prompt text doesn't exist until\n *     the prompt is submitted).\n *\n * Actions:\n *   - `drop`: discard the event entirely. For session_start, the hook\n *     skips registering the session row. For user_prompt, the hook\n *     skips posting the event and cascade-deletes any session row that\n *     may have been registered before the drop rule could fire.\n *   - `rewrite_prompt`: replace the captured prompt with the substring\n *     after `extract_after`. Only valid for `user_prompt` events.\n */\nconst CaptureRuleSchema = z.object({\n  event: z.enum(['session_start', 'user_prompt']),\n  scope: z.enum(['this_agent', 'any_agent']).default('this_agent'),\n  when: z.object({\n    prompt_starts_with: z.string().optional(),\n    prompt_contains: z.string().optional(),\n    /** Structural: fires when transcript_path is absent or empty. */\n    transcript_path_missing: z.boolean().optional(),\n    /**\n     * Structural: fires when a dot-path field exists (and is truthy) in the\n     * transcript's first JSON line (session_meta). Use for detecting sub-agent\n     * sessions that have real transcript files but are not user-initiated.\n     *\n     * Example: `source.subagent` matches a Codex thread-spawn session whose\n     * session_meta has `\"source\": {\"subagent\": {...}}` but would NOT match\n     * a user session with `\"source\": \"vscode\"`.\n     *\n     * The hook handler reads the transcript and passes the parsed meta to\n     * the evaluator — the evaluator itself does no file I/O.\n     */\n    transcript_meta_field_exists: z.string().optional(),\n  }),\n  action: z.enum(['drop', 'rewrite_prompt']),\n  /** Short audit string logged when the rule matches (e.g., \"codex-internal-title-gen\"). */\n  reason: z.string().optional(),\n  /** For rewrite_prompt: keep only the substring after this marker (first occurrence). */\n  extract_after: z.string().optional(),\n  /** For rewrite_prompt: trim whitespace from the extracted substring. Default true. */\n  trim: z.boolean().default(true),\n});\n\nexport type CaptureRule = z.infer<typeof CaptureRuleSchema>;\n\nconst CaptureManifestSchema = z.object({\n  planDirs: z.array(z.string()).default([]),\n  planTags: z.array(z.string()).default([]),\n  rules: z.array(CaptureRuleSchema).default([]),\n});\n\nconst RegistrationSchema = z.object({\n  hooksTarget: z.string().optional(),\n  /**\n   * Format of the hooks target.\n   * - 'json' (default): hooks template is merged into a JSON settings file.\n   * - 'plugin-file': the hooks template is a verbatim file (e.g., an opencode TS plugin)\n   *   copied to hooksTarget without JSON parsing. Used for agents with plugin-based hook\n   *   systems rather than JSON hook entries.\n   */\n  hooksFormat: z.enum(['json', 'plugin-file']).default('json'),\n  /**\n   * Optional file path for a plugin deps package.json. When set, the installer writes\n   * a package.json declaring the plugin SDK dependency so the agent's package manager\n   * (e.g., opencode's Bun) can install it at startup. Preserved on uninstall so\n   * contributors can keep their own deps.\n   */\n  pluginPackageTarget: z.string().optional(),\n  mcpTarget: z.string().optional(),\n  mcpFormat: z.enum(['json', 'toml']).default('json'),\n  /**\n   * JSON key under which MCP server entries are stored in the MCP config file.\n   * Defaults to 'mcpServers' (used by Claude Code, Cursor, etc.). opencode uses 'mcp'.\n   */\n  mcpServersKey: z.string().default('mcpServers'),\n  skillsTarget: z.string().optional(),\n  settingsTarget: z.string().optional(),\n  /** Format of the settings file. TOML-format agents (e.g., Codex) emit top-level template keys as TOML sections. */\n  settingsFormat: z.enum(['json', 'toml']).default('json'),\n  /** Instruction file that stubs out to AGENTS.md. Only for agents that don't read AGENTS.md natively. */\n  instructionsFile: z.string().optional(),\n});\n\nexport const SymbiontManifestSchema = z.object({\n  name: z.string(),\n  displayName: z.string(),\n  binary: z.string(),\n  configDir: z.string(),\n  pluginRootEnvVar: z.string(),\n  settingsPath: z.string().optional(),\n  hookFields: z.object({\n    sessionId: z.string(),\n    transcriptPath: z.string(),\n    lastResponse: z.string(),\n    prompt: z.string().default('prompt'),\n    toolName: z.string().default('tool_name'),\n    toolInput: z.string().default('tool_input'),\n    toolOutput: z.string().default('tool_output'),\n    /** Env var fallback for session ID (e.g., GEMINI_SESSION_ID). */\n    sessionIdEnv: z.string().optional(),\n  }),\n  /** Resume command template with {sessionId} placeholder. Omit for IDE-based agents. */\n  resumeCommand: z.string().optional(),\n  capture: CaptureManifestSchema.optional(),\n  registration: RegistrationSchema.optional(),\n});\n\nexport type SymbiontManifest = z.infer<typeof SymbiontManifestSchema>;\nexport type SymbiontRegistration = z.infer<typeof RegistrationSchema>;\n","import { SymbiontManifestSchema, type SymbiontManifest } from './manifest-schema.js';\nimport { findPackageRoot } from '../utils/find-package-root.js';\nimport { execFileSync } from 'node:child_process';\nimport fs from 'node:fs';\nimport path from 'node:path';\nimport YAML from 'yaml';\n\nexport interface DetectedSymbiont {\n  manifest: SymbiontManifest;\n  binaryFound: boolean;\n  configDirFound: boolean;\n}\n\nconst MANIFESTS_SUBDIR = 'symbionts/manifests';\n\n/** Cached manifests — static files that never change at runtime. */\nlet manifestCache: SymbiontManifest[] | null = null;\n\n/** Load all symbiont manifests from the package's dist directory. */\nexport function loadManifests(): SymbiontManifest[] {\n  if (manifestCache) return manifestCache;\n  const candidates = [\n    // Source layout: src/symbionts/detect.ts → src/symbionts/manifests/\n    path.resolve(import.meta.dirname, MANIFESTS_SUBDIR),\n    // Dist layout: dist/src/symbionts/ → dist/src/symbionts/manifests/\n    // (or dist/src/daemon/ → dist/src/symbionts/manifests/)\n    path.resolve(import.meta.dirname, '..', MANIFESTS_SUBDIR),\n    path.resolve(import.meta.dirname, '..', '..', MANIFESTS_SUBDIR),\n    // Chunk layout: dist/chunk-*.js → dist/src/symbionts/manifests/\n    path.resolve(import.meta.dirname, 'src', MANIFESTS_SUBDIR),\n  ];\n\n  for (const dir of candidates) {\n    if (!fs.existsSync(dir)) continue;\n    const files = fs.readdirSync(dir).filter(f => f.endsWith('.yaml'));\n    if (files.length === 0) continue;\n    manifestCache = files.map(f => {\n      const raw = YAML.parse(fs.readFileSync(path.join(dir, f), 'utf-8'));\n      return SymbiontManifestSchema.parse(raw);\n    });\n    return manifestCache;\n  }\n  return [];\n}\n\n/** Check if a binary is available on PATH. */\nfunction isBinaryOnPath(binary: string): boolean {\n  try {\n    execFileSync('which', [binary], { stdio: 'pipe' });\n    return true;\n  } catch {\n    return false;\n  }\n}\n\n/** Detect which symbionts are available for a project. */\nexport function detectSymbionts(projectRoot: string): DetectedSymbiont[] {\n  const manifests = loadManifests();\n  return manifests.map(manifest => ({\n    manifest,\n    binaryFound: isBinaryOnPath(manifest.binary),\n    configDirFound: fs.existsSync(path.join(projectRoot, manifest.configDir)),\n  })).filter(d => d.binaryFound || d.configDirFound);\n}\n\n/** Find the Myco package root (where package.json lives). */\nexport function resolvePackageRoot(): string {\n  return findPackageRoot(import.meta.dirname) ?? 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package/dist/{chunk-BZDZORVP.js → chunk-LSP5HYOO.js}

@@ -1,26 +1,27 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   isProcessAlive
-} from "./chunk-CTF7TQMJ.js";
+} from "./chunk-TLK46KKD.js";
 import {
   loadConfig
-} from "./chunk-XD3NEN3Q.js";
+} from "./chunk-2V7HR7HB.js";
 import {
   getDatabase
 } from "./chunk-MYX5NCRH.js";
 import {
   DIGEST_TIERS
-} from "./chunk-7DAH5GLC.js";
+} from "./chunk-CKJAWZQE.js";
 
 // src/db/queries/embeddings.ts
-var EMBEDDABLE_TABLES = ["sessions", "spores", "plans", "artifacts"];
+var EMBEDDABLE_TABLES = ["sessions", "spores", "plans", "artifacts", "skill_records"];
 var EMBEDDABLE_TEXT_COLUMNS = {
   sessions: "summary",
   spores: "content",
   plans: "content",
-  artifacts: "content"
+  artifacts: "content",
+  skill_records: "description"
 };
-var INVALID_TABLE_MSG = "Invalid table name \u2014 must be one of: sessions, spores, plans, artifacts";
+var INVALID_TABLE_MSG = "Invalid table name \u2014 must be one of: sessions, spores, plans, artifacts, skill_records";
 var DEFAULT_UNEMBEDDED_LIMIT = 100;
 function assertValidTable(table) {
   if (!EMBEDDABLE_TABLES.includes(table)) {
@@ -42,7 +43,7 @@ function getUnembedded(table, limit = DEFAULT_UNEMBEDDED_LIMIT) {
   const db = getDatabase();
   const textCol = EMBEDDABLE_TEXT_COLUMNS[table];
   const contentFilter = table === "sessions" ? " AND summary IS NOT NULL" : "";
-  const statusFilter = table === "spores" ? " AND status = 'active'" : "";
+  const statusFilter = table === "spores" || table === "skill_records" ? " AND status = 'active'" : "";
   return db.prepare(
     `SELECT id, created_at, ${textCol} AS text
      FROM ${table}
@@ -55,18 +56,20 @@ function getEmbeddingQueueDepth() {
   const db = getDatabase();
   const queueRow = db.prepare(`
     SELECT
-      (SELECT COUNT(*) FROM sessions  WHERE embedded = 0 AND summary IS NOT NULL) +
-      (SELECT COUNT(*) FROM spores    WHERE embedded = 0 AND status = 'active') +
-      (SELECT COUNT(*) FROM plans     WHERE embedded = 0 AND content IS NOT NULL) +
-      (SELECT COUNT(*) FROM artifacts WHERE embedded = 0 AND content IS NOT NULL)
+      (SELECT COUNT(*) FROM sessions      WHERE embedded = 0 AND summary IS NOT NULL) +
+      (SELECT COUNT(*) FROM spores        WHERE embedded = 0 AND status = 'active') +
+      (SELECT COUNT(*) FROM plans         WHERE embedded = 0 AND content IS NOT NULL) +
+      (SELECT COUNT(*) FROM artifacts     WHERE embedded = 0 AND content IS NOT NULL) +
+      (SELECT COUNT(*) FROM skill_records WHERE embedded = 0 AND status = 'active')
     AS cnt
   `).get();
   const embeddedRow = db.prepare(`
     SELECT
-      (SELECT COUNT(*) FROM sessions  WHERE embedded = 1) +
-      (SELECT COUNT(*) FROM spores    WHERE embedded = 1) +
-      (SELECT COUNT(*) FROM plans     WHERE embedded = 1) +
-      (SELECT COUNT(*) FROM artifacts WHERE embedded = 1)
+      (SELECT COUNT(*) FROM sessions      WHERE embedded = 1) +
+      (SELECT COUNT(*) FROM spores        WHERE embedded = 1) +
+      (SELECT COUNT(*) FROM plans         WHERE embedded = 1) +
+      (SELECT COUNT(*) FROM artifacts     WHERE embedded = 1) +
+      (SELECT COUNT(*) FROM skill_records WHERE embedded = 1)
     AS cnt
   `).get();
   const queue_depth = Number(queueRow.cnt ?? 0);
@@ -184,4 +187,4 @@ export {
   getEmbeddingQueueDepth,
   gatherStats
 };
-//# sourceMappingURL=chunk-BZDZORVP.js.map
+//# sourceMappingURL=chunk-LSP5HYOO.js.map

package/dist/chunk-LSP5HYOO.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/db/queries/embeddings.ts","../src/services/stats.ts"],"sourcesContent":["/**\n * Embedded flag management — tracks which rows have been indexed in the external vector store.\n *\n * All vector storage and similarity search is handled by the external VectorStore.\n * This module only manages the `embedded` flag on relational tables.\n */\n\nimport { getDatabase } from '@myco/db/client.js';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Tables that participate in vector embedding. */\nexport const EMBEDDABLE_TABLES = ['sessions', 'spores', 'plans', 'artifacts', 'skill_records'] as const;\n\n/** TypeScript type for valid embeddable table names. */\nexport type EmbeddableTable = (typeof EMBEDDABLE_TABLES)[number];\n\n/** Per-table column that holds the text content used for embedding. */\nexport const EMBEDDABLE_TEXT_COLUMNS: Record<EmbeddableTable, string> = {\n  sessions: 'summary',\n  spores: 'content',\n  plans: 'content',\n  artifacts: 'content',\n  skill_records: 'description',\n};\n\n/** Error message for invalid table names. */\nconst INVALID_TABLE_MSG = 'Invalid table name — must be one of: sessions, spores, plans, artifacts, skill_records';\n\n/** Default number of rows returned by getUnembedded. */\nconst DEFAULT_UNEMBEDDED_LIMIT = 100;\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/**\n * Validate that a table name is in the allowlist.\n *\n * @throws if the table name is not one of the embeddable tables.\n */\nexport function assertValidTable(table: string): asserts table is EmbeddableTable {\n  if (!(EMBEDDABLE_TABLES as readonly string[]).includes(table)) {\n    throw new Error(INVALID_TABLE_MSG);\n  }\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\n/** Mark a row as embedded in the external vector store. */\nexport function markEmbedded(table: string, id: string | number): void {\n  assertValidTable(table);\n  const db = getDatabase();\n  db.prepare(`UPDATE ${table} SET embedded = 1 WHERE id = ?`).run(id);\n}\n\n/** Clear the embedded flag (e.g., when vector is removed or needs re-embedding). */\nexport function clearEmbedded(table: string, id: string | number): void {\n  assertValidTable(table);\n  const db = getDatabase();\n  db.prepare(`UPDATE ${table} SET embedded = 0 WHERE id = ?`).run(id);\n}\n\n/** Find rows that have not yet been embedded, oldest first. */\nexport function getUnembedded(\n  table: string,\n  limit: number = DEFAULT_UNEMBEDDED_LIMIT,\n): Array<{ id: string | number; created_at: number; text: string }> {\n  assertValidTable(table);\n  const db = getDatabase();\n  const textCol = EMBEDDABLE_TEXT_COLUMNS[table as EmbeddableTable];\n  const contentFilter = table === 'sessions' ? ' AND summary IS NOT NULL' : '';\n  const statusFilter = (table === 'spores' || table === 'skill_records') ? \" AND status = 'active'\" : '';\n\n  return db.prepare(\n    `SELECT id, created_at, ${textCol} AS text\n     FROM ${table}\n     WHERE embedded = 0${contentFilter}${statusFilter}\n     ORDER BY created_at ASC\n     LIMIT ?`\n  ).all(limit) as Array<{ id: string | number; created_at: number; text: string }>;\n}\n\n/** Get aggregated embedding queue depth across all embeddable tables. */\nexport function getEmbeddingQueueDepth(): {\n  queue_depth: number;\n  embedded_count: number;\n  total: number;\n} {\n  const db = getDatabase();\n\n  const queueRow = db.prepare(`\n    SELECT\n      (SELECT COUNT(*) FROM sessions      WHERE embedded = 0 AND summary IS NOT NULL) +\n      (SELECT COUNT(*) FROM spores        WHERE embedded = 0 AND status = 'active') +\n      (SELECT COUNT(*) FROM plans         WHERE embedded = 0 AND content IS NOT NULL) +\n      (SELECT COUNT(*) FROM artifacts     WHERE embedded = 0 AND content IS NOT NULL) +\n      (SELECT COUNT(*) FROM skill_records WHERE embedded = 0 AND status = 'active')\n    AS cnt\n  `).get() as { cnt: number };\n\n  const embeddedRow = db.prepare(`\n    SELECT\n      (SELECT COUNT(*) FROM sessions      WHERE embedded = 1) +\n      (SELECT COUNT(*) FROM spores        WHERE embedded = 1) +\n      (SELECT COUNT(*) FROM plans         WHERE embedded = 1) +\n      (SELECT COUNT(*) FROM artifacts     WHERE embedded = 1) +\n      (SELECT COUNT(*) FROM skill_records WHERE embedded = 1)\n    AS cnt\n  `).get() as { cnt: number };\n\n  const queue_depth = Number(queueRow.cnt ?? 0);\n  const embedded_count = Number(embeddedRow.cnt ?? 0);\n  return { queue_depth, embedded_count, total: queue_depth + embedded_count };\n}\n","/**\n * Vault statistics — gathered from SQLite.\n */\n\nimport { getDatabase } from '@myco/db/client.js';\nimport { getEmbeddingQueueDepth } from '@myco/db/queries/embeddings.js';\nimport { loadConfig } from '@myco/config/loader.js';\nimport { isProcessAlive } from '@myco/cli/shared.js';\nimport { DIGEST_TIERS } from '@myco/constants.js';\nimport fs from 'node:fs';\nimport path from 'node:path';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Process uptime is available directly from the daemon process via process.uptime(). */\nconst DAEMON_JSON_FILENAME = 'daemon.json';\n\n// ---------------------------------------------------------------------------\n// Types\n// ---------------------------------------------------------------------------\n\nexport interface V2Stats {\n  daemon: {\n    pid: number;\n    port: number;\n    version: string;\n    uptime_seconds: number;\n    active_sessions: string[];\n  };\n  vault: {\n    path: string;\n    name: string;\n    session_count: number;\n    batch_count: number;\n    spore_count: number;\n    plan_count: number;\n    artifact_count: number;\n    entity_count: number;\n    edge_count: number;\n  };\n  embedding: {\n    provider: string;\n    model: string;\n    queue_depth: number;\n    embedded_count: number;\n    total_embeddable: number;\n  };\n  agent: {\n    last_run_at: number | null;\n    last_run_status: string | null;\n    total_runs: number;\n  };\n  digest: {\n    freshest_tier: number | null;\n    generated_at: number | null;\n    tiers_available: number[];\n  };\n  unprocessed_batches: number;\n}\n\n// ---------------------------------------------------------------------------\n// Helpers\n// ---------------------------------------------------------------------------\n\n/** Count rows in a table (sync). */\nfunction countTable(db: ReturnType<typeof getDatabase>, table: string): number {\n  const row = db.prepare(`SELECT COUNT(*) AS cnt FROM ${table}`).get() as { cnt: number };\n  return Number(row.cnt);\n}\n\n// ---------------------------------------------------------------------------\n// Public API\n// ---------------------------------------------------------------------------\n\nexport function gatherStats(vaultDir: string, options?: { active_sessions?: string[] }): V2Stats {\n  const db = getDatabase();\n\n  // Load config for embedding provider info (sync — already on disk)\n  const config = loadConfig(vaultDir);\n\n  // All queries are synchronous — no Promise.all needed\n  const session_count = countTable(db, 'sessions');\n  const batch_count = countTable(db, 'prompt_batches');\n  const spore_count = countTable(db, 'spores');\n  const plan_count = countTable(db, 'plans');\n  const artifact_count = countTable(db, 'artifacts');\n  const entity_count = countTable(db, 'entities');\n  const edge_count = countTable(db, 'graph_edges');\n\n  // Shared embedding queue depth helper (consistent filter logic)\n  const embeddingStats = getEmbeddingQueueDepth();\n  const { queue_depth, embedded_count, total: total_embeddable } = embeddingStats;\n\n  // Unprocessed batches\n  const unprocessedRow = db.prepare(\n    'SELECT COUNT(*) AS cnt FROM prompt_batches WHERE processed = 0',\n  ).get() as { cnt: number };\n  const unprocessed_batches = Number(unprocessedRow.cnt ?? 0);\n\n  // Agent: most recent run\n  const lastRun = db.prepare(\n    'SELECT started_at, status FROM agent_runs ORDER BY started_at DESC LIMIT 1',\n  ).get() as { started_at: number; status: string } | undefined;\n  const last_run_at = lastRun ? lastRun.started_at : null;\n  const last_run_status = lastRun ? lastRun.status : null;\n\n  // Total agent runs\n  const agentTotalRow = db.prepare(\n    'SELECT COUNT(*) AS cnt FROM agent_runs',\n  ).get() as { cnt: number };\n  const total_runs = Number(agentTotalRow.cnt ?? 0);\n\n  // Digest extracts: only report tiers that are currently configured\n  const digestRows = db.prepare(\n    'SELECT tier, generated_at FROM digest_extracts ORDER BY tier ASC',\n  ).all() as Array<{ tier: number; generated_at: number }>;\n  const configuredTiers = new Set<number>(DIGEST_TIERS);\n  const activeDigestRows = digestRows.filter((r) => configuredTiers.has(r.tier));\n  const tiers_available = activeDigestRows.map((r) => r.tier);\n  const freshest_tier = tiers_available.length > 0 ? Math.max(...tiers_available) : null;\n  const freshestRow = activeDigestRows.find((r) => r.tier === freshest_tier);\n  const generated_at = freshestRow ? freshestRow.generated_at : null;\n\n  // Daemon info from daemon.json\n  let daemonPid = 0;\n  let daemonPort = 0;\n  let daemonVersion = '';\n  let daemonUptimeSeconds = 0;\n  const daemonPath = path.join(vaultDir, DAEMON_JSON_FILENAME);\n  if (fs.existsSync(daemonPath)) {\n    try {\n      const info = JSON.parse(fs.readFileSync(daemonPath, 'utf-8')) as Record<string, unknown>;\n      daemonPid = (info.pid as number) ?? 0;\n      daemonPort = (info.port as number) ?? 0;\n      daemonVersion = (info.version as string) ?? '';\n      // uptime: if daemon is alive, compute from started timestamp\n      if (typeof info.started === 'string' && isProcessAlive(daemonPid)) {\n        const startedMs = new Date(info.started as string).getTime();\n        daemonUptimeSeconds = Math.floor((Date.now() - startedMs) / 1000);\n      }\n    } catch { /* ignore corrupt daemon.json */ }\n  }\n\n  return {\n    daemon: {\n      pid: daemonPid,\n      port: daemonPort,\n      version: daemonVersion,\n      uptime_seconds: daemonUptimeSeconds,\n      active_sessions: options?.active_sessions ?? 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package/dist/{chunk-NUSTG3BH.js → chunk-N75GMQGA.js}

@@ -5,13 +5,13 @@ import {
 import {
   normalizeHookInput,
   readStdin
-} from "./chunk-5ZISXCDC.js";
+} from "./chunk-YZPI2Y3E.js";
 import {
   resolveVaultDir
 } from "./chunk-5ZT2Q6P5.js";
 import {
   DaemonClient
-} from "./chunk-XZWFMMJR.js";
+} from "./chunk-XWOQL4XN.js";
 
 // src/hooks/send-event.ts
 import fs from "fs";
@@ -39,4 +39,4 @@ async function sendEvent(hookName, buildEvent) {
 export {
   sendEvent
 };
-//# sourceMappingURL=chunk-NUSTG3BH.js.map
+//# sourceMappingURL=chunk-N75GMQGA.js.map

package/dist/{chunk-F6C4IC6R.js → chunk-NI23QCHB.js}

@@ -11,7 +11,7 @@ import {
   SCHEDULABLE_POWER_STATES,
   USER_TASK_SOURCE,
   epochSeconds
-} from "./chunk-7DAH5GLC.js";
+} from "./chunk-CKJAWZQE.js";
 import {
   require_dist
 } from "./chunk-D7TYRPRM.js";
@@ -464,7 +464,7 @@ async function registerBuiltInAgentsAndTasks(definitionsDir, vaultDir) {
     ).run(BUILT_IN_SOURCE, definition.name, ...validTaskIds);
   }
   if (vaultDir) {
-    const { loadAllTasks } = await import("./registry-TFQ22Z7N.js");
+    const { loadAllTasks } = await import("./registry-O2NZLO3V.js");
     const allTasks = loadAllTasks(definitionsDir, vaultDir);
     for (const [name, task] of allTasks) {
       if (task.source === USER_TASK_SOURCE) {
@@ -505,4 +505,4 @@ export {
   resolveEffectiveConfig,
   registerBuiltInAgentsAndTasks
 };
-//# sourceMappingURL=chunk-F6C4IC6R.js.map
+//# sourceMappingURL=chunk-NI23QCHB.js.map

package/dist/{chunk-C3C5QVLK.js → chunk-O3TRN3RC.js}

@@ -4,7 +4,7 @@ import {
 } from "./chunk-MYX5NCRH.js";
 import {
   DEFAULT_MACHINE_ID
-} from "./chunk-7DAH5GLC.js";
+} from "./chunk-CKJAWZQE.js";
 
 // src/daemon/team-context.ts
 var teamSyncEnabled = false;
@@ -224,4 +224,4 @@ export {
   markSourceRowsSynced,
   backfillUnsynced
 };
-//# sourceMappingURL=chunk-C3C5QVLK.js.map
+//# sourceMappingURL=chunk-O3TRN3RC.js.map

package/dist/{chunk-3NCVCGUZ.js → chunk-RAV5YMRU.js}

@@ -3,14 +3,14 @@ import {
   AgentTaskSchema,
   loadAgentTasks,
   taskFromParsed
-} from "./chunk-F6C4IC6R.js";
+} from "./chunk-NI23QCHB.js";
 import {
   BUILT_IN_SOURCE,
   MAX_TASK_NAME_LENGTH,
   TASK_NAME_PATTERN,
   USER_TASKS_DIR,
   USER_TASK_SOURCE
-} from "./chunk-7DAH5GLC.js";
+} from "./chunk-CKJAWZQE.js";
 import {
   require_dist
 } from "./chunk-D7TYRPRM.js";
@@ -100,4 +100,4 @@ export {
   deleteUserTask,
   copyTaskToUser
 };
-//# sourceMappingURL=chunk-3NCVCGUZ.js.map
+//# sourceMappingURL=chunk-RAV5YMRU.js.map

package/dist/{chunk-25WHTV4N.js → chunk-RIDSOQDR.js}

@@ -2,7 +2,7 @@ import { createRequire as __cr } from 'node:module'; const require = __cr(import
 import {
   getTeamMachineId,
   syncRow
-} from "./chunk-C3C5QVLK.js";
+} from "./chunk-O3TRN3RC.js";
 import {
   getDatabase
 } from "./chunk-MYX5NCRH.js";
@@ -149,6 +149,10 @@ function buildSessionsWhere(options) {
     const pattern = `%${options.search}%`;
     params.push(pattern, pattern);
   }
+  if (options.since !== void 0) {
+    conditions.push("created_at > ?");
+    params.push(options.since);
+  }
   return {
     where: conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "",
     params
@@ -254,8 +258,10 @@ function deleteSessionCascade(sessionId) {
   const exists = db.prepare(`SELECT id FROM sessions WHERE id = ?`).get(sessionId);
   if (!exists) return zeroCounts;
   const sporeIds = db.prepare(
-    `SELECT id FROM spores WHERE session_id = ?`
-  ).all(sessionId).map((r) => r.id);
+    `SELECT id FROM spores
+     WHERE session_id = ?
+        OR prompt_batch_id IN (SELECT id FROM prompt_batches WHERE session_id = ?)`
+  ).all(sessionId, sessionId).map((r) => r.id);
   const attachmentPaths = db.prepare(
     `SELECT file_path FROM attachments WHERE session_id = ?`
   ).all(sessionId).map((r) => r.file_path);
@@ -267,10 +273,18 @@ function deleteSessionCascade(sessionId) {
     const resEvents = db.prepare(
       `DELETE FROM resolution_events
        WHERE session_id = ?
-          OR spore_id IN (SELECT id FROM spores WHERE session_id = ?)`
-    ).run(sessionId, sessionId);
+          OR spore_id IN (
+            SELECT id FROM spores
+            WHERE session_id = ?
+               OR prompt_batch_id IN (SELECT id FROM prompt_batches WHERE session_id = ?)
+          )`
+    ).run(sessionId, sessionId, sessionId);
     const edges = db.prepare(`DELETE FROM graph_edges WHERE session_id = ?`).run(sessionId);
-    const spores = db.prepare(`DELETE FROM spores WHERE session_id = ?`).run(sessionId);
+    const spores = db.prepare(
+      `DELETE FROM spores
+       WHERE session_id = ?
+          OR prompt_batch_id IN (SELECT id FROM prompt_batches WHERE session_id = ?)`
+    ).run(sessionId, sessionId);
     const prompts = db.prepare(`DELETE FROM prompt_batches WHERE session_id = ?`).run(sessionId);
     const session = db.prepare(`DELETE FROM sessions WHERE id = ?`).run(sessionId);
     return {
@@ -302,4 +316,4 @@ export {
   getSessionImpact,
   deleteSessionCascade
 };
-//# sourceMappingURL=chunk-25WHTV4N.js.map
+//# sourceMappingURL=chunk-RIDSOQDR.js.map