@goondocks/myco 0.15.1 → 0.16.1

package/dist/{chunk-75J2BR4P.js → chunk-D63XTGBV.js}

@@ -1,11 +1,18 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
+import {
+  getSpore,
+  listSporeIdsSince
+} from "./chunk-IRSNOBGD.js";
+import {
+  getSession
+} from "./chunk-SGYYOTNM.js";
 import {
   getTeamMachineId,
   syncRow
-} from "./chunk-LF5Z62X6.js";
+} from "./chunk-4JVHWBZF.js";
 import {
   loadConfig
-} from "./chunk-4BQ5QE76.js";
+} from "./chunk-XAXQ72L3.js";
 import {
   getDatabase
 } from "./chunk-MYX5NCRH.js";
@@ -19,7 +26,7 @@ import {
   GRAPH_EDGE_DEFAULT_CONFIDENCE,
   QUERY_DEFAULT_LIST_LIMIT,
   epochSeconds
-} from "./chunk-TRA3R4EC.js";
+} from "./chunk-34NHDRWI.js";
 
 // src/utils/error-message.ts
 function errorMessage(err) {
@@ -32,461 +39,198 @@ function errorMessage(err) {
   }
 }
 
-// src/db/queries/runs.ts
-var DEFAULT_LIST_LIMIT2 = 100;
-var DEFAULT_STATUS = "pending";
-var STATUS_RUNNING = "running";
-var STATUS_COMPLETED = "completed";
-var STATUS_FAILED = "failed";
-var RUN_COLUMNS = [
+// src/db/queries/skill-candidates.ts
+var DEFAULT_CONFIDENCE = 0;
+var DEFAULT_STATUS = "identified";
+var CANDIDATE_COLUMNS = [
   "id",
   "agent_id",
-  "task",
-  "instruction",
+  "machine_id",
+  "topic",
+  "rationale",
+  "confidence",
   "status",
-  "started_at",
-  "completed_at",
-  "tokens_used",
-  "cost_usd",
-  "actions_taken",
-  "error"
+  "source_ids",
+  "skill_id",
+  "approved_at",
+  "created_at",
+  "updated_at",
+  "synced_at"
 ];
-var SELECT_COLUMNS = RUN_COLUMNS.join(", ");
-function toRunRow(row) {
+var SELECT_COLUMNS = CANDIDATE_COLUMNS.join(", ");
+function toCandidateRow(row) {
   return {
     id: row.id,
     agent_id: row.agent_id,
-    task: row.task ?? null,
-    instruction: row.instruction ?? null,
+    machine_id: row.machine_id ?? getTeamMachineId(),
+    topic: row.topic,
+    rationale: row.rationale,
+    confidence: row.confidence,
     status: row.status,
-    started_at: row.started_at ?? null,
-    completed_at: row.completed_at ?? null,
-    tokens_used: row.tokens_used ?? null,
-    cost_usd: row.cost_usd ?? null,
-    actions_taken: row.actions_taken ?? null,
-    error: row.error ?? null
+    source_ids: row.source_ids ?? "[]",
+    skill_id: row.skill_id ?? null,
+    approved_at: row.approved_at ?? null,
+    created_at: row.created_at,
+    updated_at: row.updated_at,
+    synced_at: row.synced_at ?? null
   };
 }
-function insertRun(data) {
+function buildWhere(options) {
+  const conditions = [];
+  const params = [];
+  if (options.agent_id !== void 0) {
+    conditions.push(`agent_id = ?`);
+    params.push(options.agent_id);
+  }
+  if (options.statuses !== void 0 && options.statuses.length > 0) {
+    const placeholders = options.statuses.map(() => "?").join(", ");
+    conditions.push(`status IN (${placeholders})`);
+    params.push(...options.statuses);
+  } else if (options.status !== void 0) {
+    conditions.push(`status = ?`);
+    params.push(options.status);
+  }
+  return {
+    where: conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "",
+    params
+  };
+}
+function insertCandidate(data) {
   const db = getDatabase();
   db.prepare(
-    `INSERT INTO agent_runs (
-       id, agent_id, task, instruction, status,
-       started_at, completed_at, tokens_used, cost_usd,
-       actions_taken, error
+    `INSERT INTO skill_candidates (
+       id, agent_id, machine_id, topic, rationale,
+       confidence, status, source_ids, skill_id, approved_at,
+       created_at, updated_at
      ) VALUES (
        ?, ?, ?, ?, ?,
-       ?, ?, ?, ?,
+       ?, ?, ?, ?, ?,
        ?, ?
      )`
   ).run(
     data.id,
     data.agent_id,
-    data.task ?? null,
-    data.instruction ?? null,
+    data.machine_id ?? getTeamMachineId(),
+    data.topic,
+    data.rationale,
+    data.confidence ?? DEFAULT_CONFIDENCE,
     data.status ?? DEFAULT_STATUS,
-    data.started_at ?? null,
-    data.completed_at ?? null,
-    data.tokens_used ?? null,
-    data.cost_usd ?? null,
-    data.actions_taken ?? null,
-    data.error ?? null
-  );
-  return toRunRow(
-    db.prepare(`SELECT ${SELECT_COLUMNS} FROM agent_runs WHERE id = ?`).get(data.id)
+    data.source_ids ?? "[]",
+    data.skill_id ?? null,
+    data.approved_at ?? null,
+    data.created_at,
+    data.updated_at
   );
+  const raw = db.prepare(`SELECT ${SELECT_COLUMNS} FROM skill_candidates WHERE id = ?`).get(data.id);
+  if (!raw) throw new Error(`Failed to insert skill candidate: ${data.id}`);
+  const row = toCandidateRow(raw);
+  syncRow("skill_candidates", row);
+  return row;
 }
-function getRun(id) {
+function getCandidate(id) {
   const db = getDatabase();
   const row = db.prepare(
-    `SELECT ${SELECT_COLUMNS} FROM agent_runs WHERE id = ?`
+    `SELECT ${SELECT_COLUMNS} FROM skill_candidates WHERE id = ?`
   ).get(id);
   if (!row) return null;
-  return toRunRow(row);
-}
-function buildRunsWhere(options) {
-  const conditions = [];
-  const params = [];
-  if (options.agent_id !== void 0) {
-    conditions.push(`agent_id = ?`);
-    params.push(options.agent_id);
-  }
-  if (options.status !== void 0) {
-    conditions.push(`status = ?`);
-    params.push(options.status);
-  }
-  if (options.task !== void 0) {
-    conditions.push(`task = ?`);
-    params.push(options.task);
-  }
-  if (options.search !== void 0 && options.search.length > 0) {
-    conditions.push(`task LIKE ?`);
-    params.push(`%${options.search}%`);
-  }
-  return {
-    where: conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "",
-    params
-  };
+  return toCandidateRow(row);
 }
-function listRuns(options = {}) {
+function listCandidates(options = {}) {
   const db = getDatabase();
-  const { where, params } = buildRunsWhere(options);
-  const limit = options.limit ?? DEFAULT_LIST_LIMIT2;
+  const { where, params } = buildWhere(options);
+  const limit = options.limit ?? DEFAULT_LIST_LIMIT;
   const offset = options.offset ?? 0;
   const rows = db.prepare(
     `SELECT ${SELECT_COLUMNS}
-     FROM agent_runs
+     FROM skill_candidates
      ${where}
-     ORDER BY started_at DESC NULLS LAST
+     ORDER BY confidence DESC, created_at DESC
      LIMIT ?
      OFFSET ?`
   ).all(...params, limit, offset);
-  return rows.map(toRunRow);
-}
-function countRuns(options = {}) {
-  const db = getDatabase();
-  const { where, params } = buildRunsWhere(options);
-  const row = db.prepare(
-    `SELECT COUNT(*) as count FROM agent_runs ${where}`
-  ).get(...params);
-  return row.count;
+  return rows.map(toCandidateRow);
 }
-function updateRunStatus(id, status, completion) {
+function updateCandidate(id, updates) {
   const db = getDatabase();
-  const setClauses = ["status = ?"];
-  const params = [status];
-  if (completion?.completed_at !== void 0) {
-    setClauses.push(`completed_at = ?`);
-    params.push(completion.completed_at);
-  }
-  if (completion?.tokens_used !== void 0) {
-    setClauses.push(`tokens_used = ?`);
-    params.push(completion.tokens_used);
-  }
-  if (completion?.cost_usd !== void 0) {
-    setClauses.push(`cost_usd = ?`);
-    params.push(completion.cost_usd);
-  }
-  if (completion?.actions_taken !== void 0) {
-    setClauses.push(`actions_taken = ?`);
-    params.push(completion.actions_taken);
+  let autoApprovedAt;
+  if (updates.status === "approved" && updates.approved_at === void 0) {
+    const existing = getCandidate(id);
+    if (existing && existing.approved_at === null) {
+      autoApprovedAt = updates.updated_at;
+    }
   }
-  if (completion?.error !== void 0) {
-    setClauses.push(`error = ?`);
-    params.push(completion.error);
+  const fieldMap = {
+    topic: "topic",
+    rationale: "rationale",
+    confidence: "confidence",
+    status: "status",
+    source_ids: "source_ids",
+    skill_id: "skill_id",
+    approved_at: "approved_at",
+    updated_at: "updated_at"
+  };
+  const setClauses = [];
+  const params = [];
+  const updateValues = updates;
+  for (const [key, column] of Object.entries(fieldMap)) {
+    if (key in updates) {
+      setClauses.push(`${column} = ?`);
+      params.push(updateValues[key] ?? null);
+    } else if (key === "approved_at" && autoApprovedAt !== void 0) {
+      setClauses.push(`${column} = ?`);
+      params.push(autoApprovedAt);
+    }
   }
+  if (setClauses.length === 0) return getCandidate(id);
   params.push(id);
-  const info = db.prepare(
-    `UPDATE agent_runs
+  db.prepare(
+    `UPDATE skill_candidates
      SET ${setClauses.join(", ")}
      WHERE id = ?`
   ).run(...params);
-  if (info.changes === 0) return null;
-  return toRunRow(
-    db.prepare(`SELECT ${SELECT_COLUMNS} FROM agent_runs WHERE id = ?`).get(id)
-  );
+  const updated = getCandidate(id);
+  if (updated) syncRow("skill_candidates", updated);
+  return updated;
 }
-function getRunningRunForTask(agentId, taskName) {
+function listCandidatesWithCount(options = {}) {
   const db = getDatabase();
-  const row = db.prepare(
-    `SELECT id FROM agent_runs
-     WHERE agent_id = ? AND task = ? AND status = ?
-     LIMIT 1`
-  ).get(agentId, taskName, STATUS_RUNNING);
-  return row?.id ?? null;
+  const { where, params } = buildWhere(options);
+  const limit = options.limit ?? DEFAULT_LIST_LIMIT;
+  const offset = options.offset ?? 0;
+  const rows = db.prepare(
+    `SELECT ${SELECT_COLUMNS}, COUNT(*) OVER () AS __total
+     FROM skill_candidates
+     ${where}
+     ORDER BY confidence DESC, created_at DESC
+     LIMIT ?
+     OFFSET ?`
+  ).all(...params, limit, offset);
+  if (rows.length === 0) {
+    return { items: [], total: countCandidates(options) };
+  }
+  const total = Number(rows[0].__total);
+  const items = rows.map((row) => {
+    const { __total: _drop, ...rest } = row;
+    return toCandidateRow(rest);
+  });
+  return { items, total };
 }
-function getLatestRunId(agentId, taskName) {
+function countCandidates(options = {}) {
   const db = getDatabase();
-  if (taskName) {
-    const row2 = db.prepare(
-      `SELECT id FROM agent_runs
-       WHERE agent_id = ? AND task = ?
-       ORDER BY started_at DESC
-       LIMIT 1`
-    ).get(agentId, taskName);
-    return row2?.id ?? null;
-  }
+  const { where, params } = buildWhere(options);
   const row = db.prepare(
-    `SELECT id FROM agent_runs
-     WHERE agent_id = ?
-     ORDER BY started_at DESC
-     LIMIT 1`
-  ).get(agentId);
-  return row?.id ?? null;
+    `SELECT COUNT(*) as count FROM skill_candidates ${where}`
+  ).get(...params);
+  return row.count;
 }
-
-// src/db/queries/notifications.ts
-var DEFAULT_LIMIT = 50;
-var NOTIFICATION_PRUNE_AGE_SECONDS = 30 * 24 * 60 * 60;
-function insertNotification(n) {
+function deleteCandidate(id) {
   const db = getDatabase();
-  db.prepare(
-    `INSERT INTO notifications (id, domain, type, level, title, message, mode, status, link, metadata, created_at)
-     VALUES (?, ?, ?, ?, ?, ?, ?, 'unread', ?, ?, ?)`
-  ).run(n.id, n.domain, n.type, n.level, n.title, n.message, n.mode, n.link, n.metadata, epochSeconds());
-}
-function listNotifications(opts = {}) {
-  const db = getDatabase();
-  const conditions = [];
-  const params = [];
-  if (opts.status) {
-    conditions.push("status = ?");
-    params.push(opts.status);
-  }
-  if (opts.domain) {
-    conditions.push("domain = ?");
-    params.push(opts.domain);
-  }
-  if (opts.mode) {
-    conditions.push("mode = ?");
-    params.push(opts.mode);
-  }
-  const where = conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "";
-  const limit = opts.limit ?? DEFAULT_LIMIT;
-  const offset = opts.offset ?? 0;
-  return db.prepare(
-    `SELECT * FROM notifications ${where} ORDER BY created_at DESC LIMIT ? OFFSET ?`
-  ).all(...params, limit, offset);
-}
-function countNotifications(status) {
-  const db = getDatabase();
-  if (status) {
-    const row2 = db.prepare("SELECT COUNT(*) as count FROM notifications WHERE status = ?").get(status);
-    return row2.count;
-  }
-  const row = db.prepare("SELECT COUNT(*) as count FROM notifications").get();
-  return row.count;
-}
-function getNotification(id) {
-  const db = getDatabase();
-  return db.prepare("SELECT * FROM notifications WHERE id = ?").get(id);
-}
-function updateNotificationStatus(id, status) {
-  const db = getDatabase();
-  const result = db.prepare("UPDATE notifications SET status = ? WHERE id = ?").run(status, id);
-  return result.changes > 0;
-}
-function dismissAllNotifications(domain) {
-  const db = getDatabase();
-  if (domain) {
-    const result2 = db.prepare("UPDATE notifications SET status = 'dismissed' WHERE domain = ? AND status != 'dismissed'").run(domain);
-    return result2.changes;
-  }
-  const result = db.prepare("UPDATE notifications SET status = 'dismissed' WHERE status != 'dismissed'").run();
-  return result.changes;
-}
-function markAllRead(domain) {
-  const db = getDatabase();
-  if (domain) {
-    const result2 = db.prepare("UPDATE notifications SET status = 'read' WHERE domain = ? AND status = 'unread'").run(domain);
-    return result2.changes;
-  }
-  const result = db.prepare("UPDATE notifications SET status = 'read' WHERE status = 'unread'").run();
-  return result.changes;
-}
-
-// src/notifications/registry.ts
-var domains = /* @__PURE__ */ new Map();
-function register(descriptor) {
-  domains.set(descriptor.domain, descriptor);
-}
-function getAllDomains() {
-  return [...domains.values()].sort((a, b) => a.domain.localeCompare(b.domain));
-}
-function getType(typeId) {
-  for (const descriptor of domains.values()) {
-    const match = descriptor.types.find((t) => t.id === typeId);
-    if (match) return { domain: descriptor, type: match };
-  }
-  return void 0;
-}
-
-// src/notifications/notify.ts
-import crypto from "crypto";
-function notify(vaultDir, payload, config) {
-  if (!vaultDir) return null;
-  try {
-    const cfg = config ?? loadConfig(vaultDir);
-    if (!cfg.notifications.enabled) return null;
-    const domainConfig = cfg.notifications.domains[payload.domain];
-    if (domainConfig && !domainConfig.enabled) return null;
-    const registeredType = getType(payload.type);
-    const mode = payload.mode ?? domainConfig?.mode ?? registeredType?.type.defaultMode ?? cfg.notifications.default_mode;
-    const level = payload.level ?? registeredType?.type.defaultLevel ?? "info";
-    const id = crypto.randomUUID();
-    insertNotification({
-      id,
-      domain: payload.domain,
-      type: payload.type,
-      level,
-      title: payload.title,
-      message: payload.message ?? null,
-      mode,
-      link: payload.link ?? null,
-      metadata: payload.metadata ? JSON.stringify(payload.metadata) : null
-    });
-    return id;
-  } catch (err) {
-    console.warn("[notify] Failed to emit notification:", err instanceof Error ? err.message : err);
-    return null;
-  }
-}
-
-// src/db/queries/skill-candidates.ts
-var DEFAULT_CONFIDENCE = 0;
-var DEFAULT_STATUS2 = "identified";
-var CANDIDATE_COLUMNS = [
-  "id",
-  "agent_id",
-  "machine_id",
-  "topic",
-  "rationale",
-  "confidence",
-  "status",
-  "source_ids",
-  "skill_id",
-  "created_at",
-  "updated_at",
-  "synced_at"
-];
-var SELECT_COLUMNS2 = CANDIDATE_COLUMNS.join(", ");
-function toCandidateRow(row) {
-  return {
-    id: row.id,
-    agent_id: row.agent_id,
-    machine_id: row.machine_id ?? getTeamMachineId(),
-    topic: row.topic,
-    rationale: row.rationale,
-    confidence: row.confidence,
-    status: row.status,
-    source_ids: row.source_ids ?? "[]",
-    skill_id: row.skill_id ?? null,
-    created_at: row.created_at,
-    updated_at: row.updated_at,
-    synced_at: row.synced_at ?? null
-  };
-}
-function buildWhere(options) {
-  const conditions = [];
-  const params = [];
-  if (options.agent_id !== void 0) {
-    conditions.push(`agent_id = ?`);
-    params.push(options.agent_id);
-  }
-  if (options.status !== void 0) {
-    conditions.push(`status = ?`);
-    params.push(options.status);
-  }
-  return {
-    where: conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "",
-    params
-  };
-}
-function insertCandidate(data) {
-  const db = getDatabase();
-  db.prepare(
-    `INSERT INTO skill_candidates (
-       id, agent_id, machine_id, topic, rationale,
-       confidence, status, source_ids, skill_id,
-       created_at, updated_at
-     ) VALUES (
-       ?, ?, ?, ?, ?,
-       ?, ?, ?, ?,
-       ?, ?
-     )`
-  ).run(
-    data.id,
-    data.agent_id,
-    data.machine_id ?? getTeamMachineId(),
-    data.topic,
-    data.rationale,
-    data.confidence ?? DEFAULT_CONFIDENCE,
-    data.status ?? DEFAULT_STATUS2,
-    data.source_ids ?? "[]",
-    data.skill_id ?? null,
-    data.created_at,
-    data.updated_at
-  );
-  const raw = db.prepare(`SELECT ${SELECT_COLUMNS2} FROM skill_candidates WHERE id = ?`).get(data.id);
-  if (!raw) throw new Error(`Failed to insert skill candidate: ${data.id}`);
-  const row = toCandidateRow(raw);
-  syncRow("skill_candidates", row);
-  return row;
-}
-function getCandidate(id) {
-  const db = getDatabase();
-  const row = db.prepare(
-    `SELECT ${SELECT_COLUMNS2} FROM skill_candidates WHERE id = ?`
-  ).get(id);
-  if (!row) return null;
-  return toCandidateRow(row);
-}
-function listCandidates(options = {}) {
-  const db = getDatabase();
-  const { where, params } = buildWhere(options);
-  const limit = options.limit ?? DEFAULT_LIST_LIMIT;
-  const offset = options.offset ?? 0;
-  const rows = db.prepare(
-    `SELECT ${SELECT_COLUMNS2}
-     FROM skill_candidates
-     ${where}
-     ORDER BY confidence DESC, created_at DESC
-     LIMIT ?
-     OFFSET ?`
-  ).all(...params, limit, offset);
-  return rows.map(toCandidateRow);
-}
-function updateCandidate(id, updates) {
-  const db = getDatabase();
-  const setClauses = [];
-  const params = [];
-  const fieldMap = {
-    topic: "topic",
-    rationale: "rationale",
-    confidence: "confidence",
-    status: "status",
-    source_ids: "source_ids",
-    skill_id: "skill_id",
-    updated_at: "updated_at"
-  };
-  for (const [key, column] of Object.entries(fieldMap)) {
-    if (key in updates) {
-      setClauses.push(`${column} = ?`);
-      params.push(updates[key] ?? null);
-    }
-  }
-  if (setClauses.length === 0) return getCandidate(id);
-  params.push(id);
-  db.prepare(
-    `UPDATE skill_candidates
-     SET ${setClauses.join(", ")}
-     WHERE id = ?`
-  ).run(...params);
-  const updated = getCandidate(id);
-  if (updated) syncRow("skill_candidates", updated);
-  return updated;
-}
-function listCandidatesWithCount(options = {}) {
-  const items = listCandidates(options);
-  const total = countCandidates(options);
-  return { items, total };
-}
-function countCandidates(options = {}) {
-  const db = getDatabase();
-  const { where, params } = buildWhere(options);
-  const row = db.prepare(
-    `SELECT COUNT(*) as count FROM skill_candidates ${where}`
-  ).get(...params);
-  return row.count;
-}
-function deleteCandidate(id) {
-  const db = getDatabase();
-  const info = db.prepare("DELETE FROM skill_candidates WHERE id = ?").run(id);
-  return info.changes > 0;
+  const info = db.prepare("DELETE FROM skill_candidates WHERE id = ?").run(id);
+  return info.changes > 0;
 }
 
 // src/db/queries/skill-records.ts
-var DEFAULT_STATUS3 = "active";
+var DEFAULT_STATUS2 = "active";
 var DEFAULT_GENERATION = 1;
 var RECORD_COLUMNS = [
   "id",
@@ -507,7 +251,7 @@ var RECORD_COLUMNS = [
   "properties",
   "synced_at"
 ];
-var SELECT_COLUMNS3 = RECORD_COLUMNS.join(", ");
+var SELECT_COLUMNS2 = RECORD_COLUMNS.join(", ");
 function toSkillRecordRow(row) {
   return {
     id: row.id,
@@ -564,7 +308,7 @@ function insertSkillRecord(data) {
     data.name,
     data.display_name,
     data.description,
-    data.status ?? DEFAULT_STATUS3,
+    data.status ?? DEFAULT_STATUS2,
     data.generation ?? DEFAULT_GENERATION,
     data.candidate_id ?? null,
     data.source_ids ?? "[]",
@@ -573,7 +317,7 @@ function insertSkillRecord(data) {
     data.updated_at,
     data.properties ?? "{}"
   );
-  const raw = db.prepare(`SELECT ${SELECT_COLUMNS3} FROM skill_records WHERE id = ?`).get(data.id);
+  const raw = db.prepare(`SELECT ${SELECT_COLUMNS2} FROM skill_records WHERE id = ?`).get(data.id);
   if (!raw) throw new Error(`Failed to insert skill record: ${data.id}`);
   const row = toSkillRecordRow(raw);
   syncRow("skill_records", row);
@@ -582,7 +326,7 @@ function insertSkillRecord(data) {
 function getSkillRecord(id) {
   const db = getDatabase();
   const row = db.prepare(
-    `SELECT ${SELECT_COLUMNS3} FROM skill_records WHERE id = ?`
+    `SELECT ${SELECT_COLUMNS2} FROM skill_records WHERE id = ?`
   ).get(id);
   if (!row) return null;
   return toSkillRecordRow(row);
@@ -590,7 +334,7 @@ function getSkillRecord(id) {
 function getSkillRecordByName(name) {
   const db = getDatabase();
   const row = db.prepare(
-    `SELECT ${SELECT_COLUMNS3} FROM skill_records WHERE name = ?`
+    `SELECT ${SELECT_COLUMNS2} FROM skill_records WHERE name = ?`
   ).get(name);
   if (!row) return null;
   return toSkillRecordRow(row);
@@ -601,7 +345,7 @@ function listSkillRecords(options = {}) {
   const limit = options.limit ?? DEFAULT_LIST_LIMIT;
   const offset = options.offset ?? 0;
   const rows = db.prepare(
-    `SELECT ${SELECT_COLUMNS3}
+    `SELECT ${SELECT_COLUMNS2}
      FROM skill_records
      ${where}
      ORDER BY updated_at DESC
@@ -693,7 +437,7 @@ var LINEAGE_COLUMNS = [
   "content_snapshot",
   "created_at"
 ];
-var SELECT_COLUMNS4 = LINEAGE_COLUMNS.join(", ");
+var SELECT_COLUMNS3 = LINEAGE_COLUMNS.join(", ");
 function toLineageRow(row) {
   return {
     id: row.id,
@@ -727,13 +471,13 @@ function insertLineage(data) {
     data.created_at
   );
   return toLineageRow(
-    db.prepare(`SELECT ${SELECT_COLUMNS4} FROM skill_lineage WHERE id = ?`).get(data.id)
+    db.prepare(`SELECT ${SELECT_COLUMNS3} FROM skill_lineage WHERE id = ?`).get(data.id)
   );
 }
 function listLineageForSkill(skillId, limit = 50) {
   const db = getDatabase();
   const rows = db.prepare(
-    `SELECT ${SELECT_COLUMNS4}
+    `SELECT ${SELECT_COLUMNS3}
      FROM skill_lineage
      WHERE skill_id = ?
      ORDER BY generation DESC
@@ -742,6 +486,424 @@ function listLineageForSkill(skillId, limit = 50) {
   return rows.map(toLineageRow);
 }
 
+// src/agent/instruction-builders.ts
+var SKILL_GENERATE_TASK = "skill-generate";
+var SKILL_EVOLVE_TASK = "skill-evolve";
+function buildSkillGenerateInstruction() {
+  const candidates = listCandidates({ status: "approved", limit: 1 });
+  if (candidates.length === 0) return void 0;
+  const c = candidates[0];
+  const parts = [
+    `candidate_id: ${c.id}`,
+    `topic: ${c.topic}`,
+    `confidence: ${c.confidence}`,
+    `rationale: ${c.rationale}`,
+    "",
+    "## Source Material"
+  ];
+  let sourceIds = [];
+  try {
+    sourceIds = JSON.parse(c.source_ids || "[]");
+  } catch {
+  }
+  for (const src of sourceIds) {
+    if (src.type === "spore") {
+      const spore = getSpore(src.id);
+      if (spore) {
+        parts.push(`
+### Spore: ${src.id} (${spore.observation_type}, importance ${spore.importance})`);
+        parts.push(spore.content);
+        if (spore.context) parts.push(`Context: ${spore.context}`);
+        if (spore.tags) parts.push(`Tags: ${spore.tags}`);
+      }
+    } else if (src.type === "session") {
+      const session = getSession(src.id);
+      if (session) {
+        parts.push(`
+### Session: ${src.id}`);
+        if (session.title) parts.push(`Title: ${session.title}`);
+        if (session.summary) parts.push(session.summary);
+      }
+    }
+  }
+  return {
+    instruction: parts.join("\n"),
+    context: { candidate_id: c.id }
+  };
+}
+var SKILL_EVOLVE_DEFAULT_ASSESS_INTERVAL_HOURS = 24;
+var SKILL_EVOLVE_DEFAULT_MAX_SKILLS_PER_RUN = 5;
+function buildSkillEvolveInstruction(params) {
+  const assessIntervalHours = Number(params?.assess_interval_hours ?? SKILL_EVOLVE_DEFAULT_ASSESS_INTERVAL_HOURS);
+  const maxSkillsPerRun = Number(params?.max_skills_per_run ?? SKILL_EVOLVE_DEFAULT_MAX_SKILLS_PER_RUN);
+  const now = epochSeconds();
+  const intervalSeconds = assessIntervalHours * 3600;
+  const allSkills = listSkillRecords({ status: "active", limit: 100 });
+  const needsAssessment = [];
+  for (const skill of allSkills) {
+    let props = {};
+    try {
+      props = JSON.parse(skill.properties || "{}");
+    } catch {
+      props = {};
+    }
+    const lastAssessedAt = typeof props.last_assessed_at === "number" ? props.last_assessed_at : 0;
+    const knowledgeWatermark = typeof props.knowledge_watermark === "number" ? props.knowledge_watermark : 0;
+    if (lastAssessedAt > 0 && now - lastAssessedAt < intervalSeconds) continue;
+    const newSporeIds = listSporeIdsSince(knowledgeWatermark, 10);
+    if (newSporeIds.length === 0) continue;
+    const lineage = listLineageForSkill(skill.id, 1);
+    if (lineage.length === 0) continue;
+    needsAssessment.push({
+      id: skill.id,
+      name: skill.name,
+      generation: skill.generation,
+      description: skill.description,
+      contentSnapshot: lineage[0].content_snapshot,
+      newSporeIds
+    });
+    if (needsAssessment.length >= maxSkillsPerRun) {
+      break;
+    }
+  }
+  if (needsAssessment.length === 0) {
+    return "No skills need assessment. All active skills are current or were recently assessed. Report skip via vault_report and finish.";
+  }
+  const parts = [
+    `${needsAssessment.length} skill(s) need assessment.`,
+    `assess_interval_hours: ${assessIntervalHours}`,
+    `max_skills_per_run: ${maxSkillsPerRun}`
+  ];
+  for (const skill of needsAssessment) {
+    parts.push("");
+    parts.push("---");
+    parts.push(`## Skill: ${skill.name} (gen ${skill.generation})`);
+    parts.push(`id: ${skill.id}`);
+    parts.push(`description: ${skill.description}`);
+    parts.push(`new_spore_ids: ${JSON.stringify(skill.newSporeIds)}`);
+    parts.push("");
+    parts.push("### Current Content");
+    parts.push("");
+    parts.push(skill.contentSnapshot);
+  }
+  return parts.join("\n");
+}
+function buildTaskInstruction(taskName, taskParams) {
+  switch (taskName) {
+    case SKILL_GENERATE_TASK:
+      return buildSkillGenerateInstruction();
+    case SKILL_EVOLVE_TASK: {
+      const instruction = buildSkillEvolveInstruction(taskParams);
+      return instruction ? { instruction } : void 0;
+    }
+    default:
+      return void 0;
+  }
+}
+function isInstructionRequiredTask(taskName) {
+  return taskName === SKILL_GENERATE_TASK || taskName === SKILL_EVOLVE_TASK;
+}
+
+// src/db/queries/runs.ts
+var DEFAULT_LIST_LIMIT2 = 100;
+var DEFAULT_STATUS3 = "pending";
+var STATUS_RUNNING = "running";
+var STATUS_COMPLETED = "completed";
+var STATUS_FAILED = "failed";
+var RUN_COLUMNS = [
+  "id",
+  "agent_id",
+  "task",
+  "instruction",
+  "status",
+  "started_at",
+  "completed_at",
+  "tokens_used",
+  "cost_usd",
+  "actions_taken",
+  "error"
+];
+var SELECT_COLUMNS4 = RUN_COLUMNS.join(", ");
+function toRunRow(row) {
+  return {
+    id: row.id,
+    agent_id: row.agent_id,
+    task: row.task ?? null,
+    instruction: row.instruction ?? null,
+    status: row.status,
+    started_at: row.started_at ?? null,
+    completed_at: row.completed_at ?? null,
+    tokens_used: row.tokens_used ?? null,
+    cost_usd: row.cost_usd ?? null,
+    actions_taken: row.actions_taken ?? null,
+    error: row.error ?? null
+  };
+}
+function insertRun(data) {
+  const db = getDatabase();
+  db.prepare(
+    `INSERT INTO agent_runs (
+       id, agent_id, task, instruction, status,
+       started_at, completed_at, tokens_used, cost_usd,
+       actions_taken, error
+     ) VALUES (
+       ?, ?, ?, ?, ?,
+       ?, ?, ?, ?,
+       ?, ?
+     )`
+  ).run(
+    data.id,
+    data.agent_id,
+    data.task ?? null,
+    data.instruction ?? null,
+    data.status ?? DEFAULT_STATUS3,
+    data.started_at ?? null,
+    data.completed_at ?? null,
+    data.tokens_used ?? null,
+    data.cost_usd ?? null,
+    data.actions_taken ?? null,
+    data.error ?? null
+  );
+  return toRunRow(
+    db.prepare(`SELECT ${SELECT_COLUMNS4} FROM agent_runs WHERE id = ?`).get(data.id)
+  );
+}
+function getRun(id) {
+  const db = getDatabase();
+  const row = db.prepare(
+    `SELECT ${SELECT_COLUMNS4} FROM agent_runs WHERE id = ?`
+  ).get(id);
+  if (!row) return null;
+  return toRunRow(row);
+}
+function buildRunsWhere(options) {
+  const conditions = [];
+  const params = [];
+  if (options.agent_id !== void 0) {
+    conditions.push(`agent_id = ?`);
+    params.push(options.agent_id);
+  }
+  if (options.status !== void 0) {
+    conditions.push(`status = ?`);
+    params.push(options.status);
+  }
+  if (options.task !== void 0) {
+    conditions.push(`task = ?`);
+    params.push(options.task);
+  }
+  if (options.search !== void 0 && options.search.length > 0) {
+    conditions.push(`task LIKE ?`);
+    params.push(`%${options.search}%`);
+  }
+  return {
+    where: conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "",
+    params
+  };
+}
+function listRuns(options = {}) {
+  const db = getDatabase();
+  const { where, params } = buildRunsWhere(options);
+  const limit = options.limit ?? DEFAULT_LIST_LIMIT2;
+  const offset = options.offset ?? 0;
+  const rows = db.prepare(
+    `SELECT ${SELECT_COLUMNS4}
+     FROM agent_runs
+     ${where}
+     ORDER BY started_at DESC NULLS LAST
+     LIMIT ?
+     OFFSET ?`
+  ).all(...params, limit, offset);
+  return rows.map(toRunRow);
+}
+function countRuns(options = {}) {
+  const db = getDatabase();
+  const { where, params } = buildRunsWhere(options);
+  const row = db.prepare(
+    `SELECT COUNT(*) as count FROM agent_runs ${where}`
+  ).get(...params);
+  return row.count;
+}
+function updateRunStatus(id, status, completion) {
+  const db = getDatabase();
+  const setClauses = ["status = ?"];
+  const params = [status];
+  if (completion?.completed_at !== void 0) {
+    setClauses.push(`completed_at = ?`);
+    params.push(completion.completed_at);
+  }
+  if (completion?.tokens_used !== void 0) {
+    setClauses.push(`tokens_used = ?`);
+    params.push(completion.tokens_used);
+  }
+  if (completion?.cost_usd !== void 0) {
+    setClauses.push(`cost_usd = ?`);
+    params.push(completion.cost_usd);
+  }
+  if (completion?.actions_taken !== void 0) {
+    setClauses.push(`actions_taken = ?`);
+    params.push(completion.actions_taken);
+  }
+  if (completion?.error !== void 0) {
+    setClauses.push(`error = ?`);
+    params.push(completion.error);
+  }
+  params.push(id);
+  const info = db.prepare(
+    `UPDATE agent_runs
+     SET ${setClauses.join(", ")}
+     WHERE id = ?`
+  ).run(...params);
+  if (info.changes === 0) return null;
+  return toRunRow(
+    db.prepare(`SELECT ${SELECT_COLUMNS4} FROM agent_runs WHERE id = ?`).get(id)
+  );
+}
+function getRunningRunForTask(agentId, taskName) {
+  const db = getDatabase();
+  const row = db.prepare(
+    `SELECT id FROM agent_runs
+     WHERE agent_id = ? AND task = ? AND status = ?
+     LIMIT 1`
+  ).get(agentId, taskName, STATUS_RUNNING);
+  return row?.id ?? null;
+}
+function getLatestRunId(agentId, taskName) {
+  const db = getDatabase();
+  if (taskName) {
+    const row2 = db.prepare(
+      `SELECT id FROM agent_runs
+       WHERE agent_id = ? AND task = ?
+       ORDER BY started_at DESC
+       LIMIT 1`
+    ).get(agentId, taskName);
+    return row2?.id ?? null;
+  }
+  const row = db.prepare(
+    `SELECT id FROM agent_runs
+     WHERE agent_id = ?
+     ORDER BY started_at DESC
+     LIMIT 1`
+  ).get(agentId);
+  return row?.id ?? null;
+}
+
+// src/db/queries/notifications.ts
+var DEFAULT_LIMIT = 50;
+var NOTIFICATION_PRUNE_AGE_SECONDS = 30 * 24 * 60 * 60;
+function insertNotification(n) {
+  const db = getDatabase();
+  db.prepare(
+    `INSERT INTO notifications (id, domain, type, level, title, message, mode, status, link, metadata, created_at)
+     VALUES (?, ?, ?, ?, ?, ?, ?, 'unread', ?, ?, ?)`
+  ).run(n.id, n.domain, n.type, n.level, n.title, n.message, n.mode, n.link, n.metadata, epochSeconds());
+}
+function listNotifications(opts = {}) {
+  const db = getDatabase();
+  const conditions = [];
+  const params = [];
+  if (opts.status) {
+    conditions.push("status = ?");
+    params.push(opts.status);
+  }
+  if (opts.domain) {
+    conditions.push("domain = ?");
+    params.push(opts.domain);
+  }
+  if (opts.mode) {
+    conditions.push("mode = ?");
+    params.push(opts.mode);
+  }
+  const where = conditions.length > 0 ? `WHERE ${conditions.join(" AND ")}` : "";
+  const limit = opts.limit ?? DEFAULT_LIMIT;
+  const offset = opts.offset ?? 0;
+  return db.prepare(
+    `SELECT * FROM notifications ${where} ORDER BY created_at DESC LIMIT ? OFFSET ?`
+  ).all(...params, limit, offset);
+}
+function countNotifications(status) {
+  const db = getDatabase();
+  if (status) {
+    const row2 = db.prepare("SELECT COUNT(*) as count FROM notifications WHERE status = ?").get(status);
+    return row2.count;
+  }
+  const row = db.prepare("SELECT COUNT(*) as count FROM notifications").get();
+  return row.count;
+}
+function getNotification(id) {
+  const db = getDatabase();
+  return db.prepare("SELECT * FROM notifications WHERE id = ?").get(id);
+}
+function updateNotificationStatus(id, status) {
+  const db = getDatabase();
+  const result = db.prepare("UPDATE notifications SET status = ? WHERE id = ?").run(status, id);
+  return result.changes > 0;
+}
+function dismissAllNotifications(domain) {
+  const db = getDatabase();
+  if (domain) {
+    const result2 = db.prepare("UPDATE notifications SET status = 'dismissed' WHERE domain = ? AND status != 'dismissed'").run(domain);
+    return result2.changes;
+  }
+  const result = db.prepare("UPDATE notifications SET status = 'dismissed' WHERE status != 'dismissed'").run();
+  return result.changes;
+}
+function markAllRead(domain) {
+  const db = getDatabase();
+  if (domain) {
+    const result2 = db.prepare("UPDATE notifications SET status = 'read' WHERE domain = ? AND status = 'unread'").run(domain);
+    return result2.changes;
+  }
+  const result = db.prepare("UPDATE notifications SET status = 'read' WHERE status = 'unread'").run();
+  return result.changes;
+}
+
+// src/notifications/registry.ts
+var domains = /* @__PURE__ */ new Map();
+function register(descriptor) {
+  domains.set(descriptor.domain, descriptor);
+}
+function getAllDomains() {
+  return [...domains.values()].sort((a, b) => a.domain.localeCompare(b.domain));
+}
+function getType(typeId) {
+  for (const descriptor of domains.values()) {
+    const match = descriptor.types.find((t) => t.id === typeId);
+    if (match) return { domain: descriptor, type: match };
+  }
+  return void 0;
+}
+
+// src/notifications/notify.ts
+import crypto from "crypto";
+function notify(vaultDir, payload, config) {
+  if (!vaultDir) return null;
+  try {
+    const cfg = config ?? loadConfig(vaultDir);
+    if (!cfg.notifications.enabled) return null;
+    const domainConfig = cfg.notifications.domains[payload.domain];
+    if (domainConfig && !domainConfig.enabled) return null;
+    const registeredType = getType(payload.type);
+    const mode = payload.mode ?? domainConfig?.mode ?? registeredType?.type.defaultMode ?? cfg.notifications.default_mode;
+    const level = payload.level ?? registeredType?.type.defaultLevel ?? "info";
+    const id = crypto.randomUUID();
+    insertNotification({
+      id,
+      domain: payload.domain,
+      type: payload.type,
+      level,
+      title: payload.title,
+      message: payload.message ?? null,
+      mode,
+      link: payload.link ?? null,
+      metadata: payload.metadata ? JSON.stringify(payload.metadata) : null
+    });
+    return id;
+  } catch (err) {
+    console.warn("[notify] Failed to emit notification:", err instanceof Error ? err.message : err);
+    return null;
+  }
+}
+
 // src/db/queries/batches.ts
 var DEFAULT_UNPROCESSED_LIMIT = 100;
 var BATCHES_DEFAULT_LIMIT = 200;
@@ -1399,6 +1561,9 @@ export {
   getDigestExtract,
   listDigestExtracts,
   errorMessage,
+  SKILL_GENERATE_TASK,
+  buildTaskInstruction,
+  isInstructionRequiredTask,
   STATUS_RUNNING,
   STATUS_COMPLETED,
   STATUS_FAILED,
@@ -1414,4 +1579,4 @@ export {
   insertReport,
   listReports
 };
-//# sourceMappingURL=chunk-75J2BR4P.js.map
+//# sourceMappingURL=chunk-D63XTGBV.js.map