@goondocks/myco 0.12.9 → 0.13.0

package/dist/{session-T4Y5AIHM.js → session-XXVEDIQZ.js}

@@ -1,20 +1,21 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   initVaultDb
-} from "./chunk-UGUJJ7QP.js";
+} from "./chunk-TFGGH6UB.js";
 import "./chunk-SAKJMNSR.js";
-import "./chunk-LUQBT2Y4.js";
+import "./chunk-TNCBMGWB.js";
+import "./chunk-HHZ3RTEI.js";
 import {
   getSession,
   listSessions
-} from "./chunk-JROOQQH6.js";
-import "./chunk-4VSNNMEU.js";
+} from "./chunk-JBFFAGJK.js";
+import "./chunk-NRT2ZRUG.js";
 import "./chunk-MYX5NCRH.js";
-import "./chunk-WDLBFMGG.js";
-import "./chunk-PIRWYDOH.js";
-import "./chunk-S6I62FAH.js";
-import "./chunk-U7JRFBJO.js";
+import "./chunk-VQEXXS56.js";
+import "./chunk-EUQQVKGQ.js";
 import "./chunk-LPUQPDC2.js";
+import "./chunk-TRA3R4EC.js";
+import "./chunk-S6I62FAH.js";
 import "./chunk-PZUWP5VK.js";
 
 // src/cli/session.ts
@@ -66,4 +67,4 @@ ${target.summary}`);
 export {
   run
 };
-//# sourceMappingURL=session-T4Y5AIHM.js.map
+//# sourceMappingURL=session-XXVEDIQZ.js.map

package/dist/{session-T4Y5AIHM.js.map → session-XXVEDIQZ.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/cli/session.ts"],"sourcesContent":["/**\n * CLI: myco session — display session info via direct SQLite reads.\n *\n * Opens the database directly (WAL mode allows concurrent reads).\n * Does NOT require the daemon to be running.\n */\n\nimport { listSessions, getSession } from '@myco/db/queries/sessions.js';\nimport { initVaultDb } from './shared.js';\n\n// ---------------------------------------------------------------------------\n// Command\n// ---------------------------------------------------------------------------\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const idOrLatest = args[0];\n\n  const cleanup = initVaultDb(vaultDir);\n  try {\n    const sessions = listSessions({ limit: 100 });\n    if (sessions.length === 0) {\n      console.log('No sessions found');\n      return;\n    }\n\n    // Resolve target session ID\n    let targetId: string;\n    if (!idOrLatest || idOrLatest === 'latest') {\n      targetId = sessions[0].id;\n    } else {\n      const match = sessions.find((s) => s.id.includes(idOrLatest));\n      if (!match) {\n        console.error(`Session not found: ${idOrLatest}`);\n        console.log('Available:', sessions.map((s) => s.id.slice(0, 12)).join(', '));\n        return;\n      }\n      targetId = match.id;\n    }\n\n    // Fetch full session detail\n    const target = getSession(targetId);\n    if (!target) {\n      console.error(`Failed to fetch session: ${targetId}`);\n      return;\n    }\n\n    console.log(`Session: ${target.id}`);\n    console.log(`Status:  ${target.status}`);\n    if (target.title) console.log(`Title:   ${target.title}`);\n    if (target.branch) console.log(`Branch:  ${target.branch}`);\n    if (target.user) console.log(`User:    ${target.user}`);\n    console.log(`Started: ${new Date(target.started_at * 1000).toISOString()}`);\n    if (target.ended_at) console.log(`Ended:   ${new Date(target.ended_at * 1000).toISOString()}`);\n    if (target.prompt_count) console.log(`Prompts: ${target.prompt_count}`);\n    if (target.tool_count) console.log(`Tools:   ${target.tool_count}`);\n    if (target.summary) console.log(`\\nSummary:\\n${target.summary}`);\n  } catch (err) {\n    console.error('Failed to read vault database:', (err as Error).message);\n    process.exit(1);\n  } finally {\n    cleanup();\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;;;AAcA,eAAsB,IAAI,MAAgB,UAAiC;AACzE,QAAM,aAAa,KAAK,CAAC;AAEzB,QAAM,UAAU,YAAY,QAAQ;AACpC,MAAI;AACF,UAAM,WAAW,aAAa,EAAE,OAAO,IAAI,CAAC;AAC5C,QAAI,SAAS,WAAW,GAAG;AACzB,cAAQ,IAAI,mBAAmB;AAC/B;AAAA,IACF;AAGA,QAAI;AACJ,QAAI,CAAC,cAAc,eAAe,UAAU;AAC1C,iBAAW,SAAS,CAAC,EAAE;AAAA,IACzB,OAAO;AACL,YAAM,QAAQ,SAAS,KAAK,CAAC,MAAM,EAAE,GAAG,SAAS,UAAU,CAAC;AAC5D,UAAI,CAAC,OAAO;AACV,gBAAQ,MAAM,sBAAsB,UAAU,EAAE;AAChD,gBAAQ,IAAI,cAAc,SAAS,IAAI,CAAC,MAAM,EAAE,GAAG,MAAM,GAAG,EAAE,CAAC,EAAE,KAAK,IAAI,CAAC;AAC3E;AAAA,MACF;AACA,iBAAW,MAAM;AAAA,IACnB;AAGA,UAAM,SAAS,WAAW,QAAQ;AAClC,QAAI,CAAC,QAAQ;AACX,cAAQ,MAAM,4BAA4B,QAAQ,EAAE;AACpD;AAAA,IACF;AAEA,YAAQ,IAAI,YAAY,OAAO,EAAE,EAAE;AACnC,YAAQ,IAAI,YAAY,OAAO,MAAM,EAAE;AACvC,QAAI,OAAO,MAAO,SAAQ,IAAI,YAAY,OAAO,KAAK,EAAE;AACxD,QAAI,OAAO,OAAQ,SAAQ,IAAI,YAAY,OAAO,MAAM,EAAE;AAC1D,QAAI,OAAO,KAAM,SAAQ,IAAI,YAAY,OAAO,IAAI,EAAE;AACtD,YAAQ,IAAI,YAAY,IAAI,KAAK,OAAO,aAAa,GAAI,EAAE,YAAY,CAAC,EAAE;AAC1E,QAAI,OAAO,SAAU,SAAQ,IAAI,YAAY,IAAI,KAAK,OAAO,WAAW,GAAI,EAAE,YAAY,CAAC,EAAE;AAC7F,QAAI,OAAO,aAAc,SAAQ,IAAI,YAAY,OAAO,YAAY,EAAE;AACtE,QAAI,OAAO,WAAY,SAAQ,IAAI,YAAY,OAAO,UAAU,EAAE;AAClE,QAAI,OAAO,QAAS,SAAQ,IAAI;AAAA;AAAA,EAAe,OAAO,OAAO,EAAE;AAAA,EACjE,SAAS,KAAK;AACZ,YAAQ,MAAM,kCAAmC,IAAc,OAAO;AACtE,YAAQ,KAAK,CAAC;AAAA,EAChB,UAAE;AACA,YAAQ;AAAA,EACV;AACF;","names":[]}
+{"version":3,"sources":["../src/cli/session.ts"],"sourcesContent":["/**\n * CLI: myco session — display session info via direct SQLite reads.\n *\n * Opens the database directly (WAL mode allows concurrent reads).\n * Does NOT require the daemon to be running.\n */\n\nimport { listSessions, getSession } from '@myco/db/queries/sessions.js';\nimport { initVaultDb } from './shared.js';\n\n// ---------------------------------------------------------------------------\n// Command\n// ---------------------------------------------------------------------------\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const idOrLatest = args[0];\n\n  const cleanup = initVaultDb(vaultDir);\n  try {\n    const sessions = listSessions({ limit: 100 });\n    if (sessions.length === 0) {\n      console.log('No sessions found');\n      return;\n    }\n\n    // Resolve target session ID\n    let targetId: string;\n    if (!idOrLatest || idOrLatest === 'latest') {\n      targetId = sessions[0].id;\n    } else {\n      const match = sessions.find((s) => s.id.includes(idOrLatest));\n      if (!match) {\n        console.error(`Session not found: ${idOrLatest}`);\n        console.log('Available:', sessions.map((s) => s.id.slice(0, 12)).join(', '));\n        return;\n      }\n      targetId = match.id;\n    }\n\n    // Fetch full session detail\n    const target = getSession(targetId);\n    if (!target) {\n      console.error(`Failed to fetch session: ${targetId}`);\n      return;\n    }\n\n    console.log(`Session: ${target.id}`);\n    console.log(`Status:  ${target.status}`);\n    if (target.title) console.log(`Title:   ${target.title}`);\n    if (target.branch) console.log(`Branch:  ${target.branch}`);\n    if (target.user) console.log(`User:    ${target.user}`);\n    console.log(`Started: ${new Date(target.started_at * 1000).toISOString()}`);\n    if (target.ended_at) console.log(`Ended:   ${new Date(target.ended_at * 1000).toISOString()}`);\n    if (target.prompt_count) console.log(`Prompts: ${target.prompt_count}`);\n    if (target.tool_count) console.log(`Tools:   ${target.tool_count}`);\n    if (target.summary) console.log(`\\nSummary:\\n${target.summary}`);\n  } catch (err) {\n    console.error('Failed to read vault database:', (err as Error).message);\n    process.exit(1);\n  } finally {\n    cleanup();\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;;;;AAcA,eAAsB,IAAI,MAAgB,UAAiC;AACzE,QAAM,aAAa,KAAK,CAAC;AAEzB,QAAM,UAAU,YAAY,QAAQ;AACpC,MAAI;AACF,UAAM,WAAW,aAAa,EAAE,OAAO,IAAI,CAAC;AAC5C,QAAI,SAAS,WAAW,GAAG;AACzB,cAAQ,IAAI,mBAAmB;AAC/B;AAAA,IACF;AAGA,QAAI;AACJ,QAAI,CAAC,cAAc,eAAe,UAAU;AAC1C,iBAAW,SAAS,CAAC,EAAE;AAAA,IACzB,OAAO;AACL,YAAM,QAAQ,SAAS,KAAK,CAAC,MAAM,EAAE,GAAG,SAAS,UAAU,CAAC;AAC5D,UAAI,CAAC,OAAO;AACV,gBAAQ,MAAM,sBAAsB,UAAU,EAAE;AAChD,gBAAQ,IAAI,cAAc,SAAS,IAAI,CAAC,MAAM,EAAE,GAAG,MAAM,GAAG,EAAE,CAAC,EAAE,KAAK,IAAI,CAAC;AAC3E;AAAA,MACF;AACA,iBAAW,MAAM;AAAA,IACnB;AAGA,UAAM,SAAS,WAAW,QAAQ;AAClC,QAAI,CAAC,QAAQ;AACX,cAAQ,MAAM,4BAA4B,QAAQ,EAAE;AACpD;AAAA,IACF;AAEA,YAAQ,IAAI,YAAY,OAAO,EAAE,EAAE;AACnC,YAAQ,IAAI,YAAY,OAAO,MAAM,EAAE;AACvC,QAAI,OAAO,MAAO,SAAQ,IAAI,YAAY,OAAO,KAAK,EAAE;AACxD,QAAI,OAAO,OAAQ,SAAQ,IAAI,YAAY,OAAO,MAAM,EAAE;AAC1D,QAAI,OAAO,KAAM,SAAQ,IAAI,YAAY,OAAO,IAAI,EAAE;AACtD,YAAQ,IAAI,YAAY,IAAI,KAAK,OAAO,aAAa,GAAI,EAAE,YAAY,CAAC,EAAE;AAC1E,QAAI,OAAO,SAAU,SAAQ,IAAI,YAAY,IAAI,KAAK,OAAO,WAAW,GAAI,EAAE,YAAY,CAAC,EAAE;AAC7F,QAAI,OAAO,aAAc,SAAQ,IAAI,YAAY,OAAO,YAAY,EAAE;AACtE,QAAI,OAAO,WAAY,SAAQ,IAAI,YAAY,OAAO,UAAU,EAAE;AAClE,QAAI,OAAO,QAAS,SAAQ,IAAI;AAAA;AAAA,EAAe,OAAO,OAAO,EAAE;AAAA,EACjE,SAAS,KAAK;AACZ,YAAQ,MAAM,kCAAmC,IAAc,OAAO;AACtE,YAAQ,KAAK,CAAC;AAAA,EAChB,UAAE;AACA,YAAQ;AAAA,EACV;AACF;","names":[]}

package/dist/{session-end-FMQ4JJU7.js → session-end-6DP6VTZV.js}

@@ -2,15 +2,15 @@ import { createRequire as __cr } from 'node:module'; const require = __cr(import
 import {
   normalizeHookInput,
   readStdin
-} from "./chunk-RR75ZKEV.js";
+} from "./chunk-OQVKLTQY.js";
 import {
   DaemonClient
-} from "./chunk-WDLBFMGG.js";
-import "./chunk-PIRWYDOH.js";
-import "./chunk-S6I62FAH.js";
-import "./chunk-U7JRFBJO.js";
+} from "./chunk-VQEXXS56.js";
+import "./chunk-EUQQVKGQ.js";
 import "./chunk-QFMBZ72S.js";
 import "./chunk-LPUQPDC2.js";
+import "./chunk-TRA3R4EC.js";
+import "./chunk-S6I62FAH.js";
 import "./chunk-D7TYRPRM.js";
 import "./chunk-E4VLWIJC.js";
 import "./chunk-KH64DHOY.js";
@@ -40,4 +40,4 @@ async function main() {
 export {
   main
 };
-//# sourceMappingURL=session-end-FMQ4JJU7.js.map
+//# sourceMappingURL=session-end-6DP6VTZV.js.map

package/dist/{session-start-KV2WR6UI.js → session-start-QNAQDF5M.js}

@@ -1,17 +1,17 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   listSpores
-} from "./chunk-Q2AYS2QE.js";
+} from "./chunk-LPISXFM4.js";
 import {
   listSessions
-} from "./chunk-JROOQQH6.js";
-import "./chunk-4VSNNMEU.js";
+} from "./chunk-JBFFAGJK.js";
+import "./chunk-NRT2ZRUG.js";
 import {
   createSchema
-} from "./chunk-PW5QVY44.js";
+} from "./chunk-NCVR636M.js";
 import {
   loadConfig
-} from "./chunk-OAGY5APE.js";
+} from "./chunk-W3T3QDBN.js";
 import {
   getDatabase,
   initDatabase,
@@ -20,20 +20,20 @@ import {
 import {
   normalizeHookInput,
   readStdin
-} from "./chunk-RR75ZKEV.js";
+} from "./chunk-OQVKLTQY.js";
 import {
   DaemonClient
-} from "./chunk-WDLBFMGG.js";
+} from "./chunk-VQEXXS56.js";
+import "./chunk-EUQQVKGQ.js";
+import "./chunk-QFMBZ72S.js";
+import "./chunk-LPUQPDC2.js";
 import {
   CONTEXT_SESSION_PREVIEW_CHARS,
   CONTEXT_SPORE_PREVIEW_CHARS,
   EXCLUDED_SPORE_STATUSES,
   estimateTokens
-} from "./chunk-PIRWYDOH.js";
+} from "./chunk-TRA3R4EC.js";
 import "./chunk-S6I62FAH.js";
-import "./chunk-U7JRFBJO.js";
-import "./chunk-QFMBZ72S.js";
-import "./chunk-LPUQPDC2.js";
 import "./chunk-D7TYRPRM.js";
 import "./chunk-E4VLWIJC.js";
 import "./chunk-KH64DHOY.js";
@@ -170,4 +170,4 @@ async function main() {
 export {
   main
 };
-//# sourceMappingURL=session-start-KV2WR6UI.js.map
+//# sourceMappingURL=session-start-QNAQDF5M.js.map

package/dist/{setup-llm-YVI7ZSVN.js → setup-llm-ER3B7AZ2.js}

@@ -1,22 +1,23 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   withEmbedding
-} from "./chunk-M5XWW7UI.js";
-import "./chunk-UGUJJ7QP.js";
+} from "./chunk-SODRR3HE.js";
+import "./chunk-TFGGH6UB.js";
 import {
   parseStringFlag
 } from "./chunk-SAKJMNSR.js";
-import "./chunk-LUQBT2Y4.js";
+import "./chunk-TNCBMGWB.js";
+import "./chunk-HHZ3RTEI.js";
 import {
   loadConfig,
   updateConfig
-} from "./chunk-OAGY5APE.js";
+} from "./chunk-W3T3QDBN.js";
 import "./chunk-MYX5NCRH.js";
-import "./chunk-WDLBFMGG.js";
-import "./chunk-PIRWYDOH.js";
-import "./chunk-S6I62FAH.js";
-import "./chunk-U7JRFBJO.js";
+import "./chunk-VQEXXS56.js";
+import "./chunk-EUQQVKGQ.js";
 import "./chunk-LPUQPDC2.js";
+import "./chunk-TRA3R4EC.js";
+import "./chunk-S6I62FAH.js";
 import "./chunk-D7TYRPRM.js";
 import "./chunk-E4VLWIJC.js";
 import "./chunk-KH64DHOY.js";
@@ -78,4 +79,4 @@ async function run(args, vaultDir) {
 export {
   run
 };
-//# sourceMappingURL=setup-llm-YVI7ZSVN.js.map
+//# sourceMappingURL=setup-llm-ER3B7AZ2.js.map

package/dist/{setup-llm-YVI7ZSVN.js.map → setup-llm-ER3B7AZ2.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/cli/setup-llm.ts"],"sourcesContent":["import fs from 'node:fs';\nimport path from 'node:path';\nimport { loadConfig, updateConfig } from '../config/loader.js';\nimport { withEmbedding } from '../config/updates.js';\nimport { parseStringFlag } from './shared.js';\nimport type { EmbeddingProviderConfig } from '../config/schema.js';\n\nconst DAEMON_STATE_FILENAME = 'daemon.json';\n\nconst USAGE = `Usage: myco setup-llm [options]\n\nConfigure embedding provider settings.\n\nIn v3, LLM configuration is managed by the Myco agent (Claude Agent SDK).\nOnly embedding settings are user-configurable.\n\nOptions:\n  --embedding-provider <name>   Embedding provider (ollama, openai-compatible)\n  --embedding-model <name>      Embedding model name\n  --embedding-url <url>         Embedding provider base URL\n  --show                        Show current settings and exit\n`;\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  // Show current settings\n  if (args.includes('--show')) {\n    const config = loadConfig(vaultDir);\n    console.log(JSON.stringify(config.embedding, null, 2));\n    return;\n  }\n\n  // No flags = show usage\n  if (args.length === 0) {\n    console.log(USAGE);\n    return;\n  }\n\n  // Warn about removed LLM flags\n  const llmProvider = parseStringFlag(args, '--llm-provider');\n  const llmModel = parseStringFlag(args, '--llm-model');\n  const llmUrl = parseStringFlag(args, '--llm-url');\n  const llmContextWindow = parseStringFlag(args, '--llm-context-window');\n  const llmMaxTokens = parseStringFlag(args, '--llm-max-tokens');\n  if (llmProvider || llmModel || llmUrl || llmContextWindow || llmMaxTokens) {\n    console.log('Note: LLM configuration is managed by the Myco agent. LLM flags are ignored.');\n  }\n\n  // Build partial embedding update from flags\n  const updates: Partial<EmbeddingProviderConfig> = {};\n\n  const embeddingProvider = parseStringFlag(args, '--embedding-provider');\n  if (embeddingProvider !== undefined) updates.provider = embeddingProvider as EmbeddingProviderConfig['provider'];\n\n  const embeddingModel = parseStringFlag(args, '--embedding-model');\n  if (embeddingModel !== undefined) updates.model = embeddingModel;\n\n  const embeddingUrl = parseStringFlag(args, '--embedding-url');\n  if (embeddingUrl !== undefined) updates.base_url = embeddingUrl;\n\n  // Apply the update through the single write gate\n  const updated = updateConfig(vaultDir, (config) => withEmbedding(config, updates));\n\n  console.log('Embedding configuration updated.');\n  console.log(JSON.stringify(updated.embedding, null, 2));\n\n  if (embeddingModel !== undefined) {\n    console.log('\\nWarning: changing the embedding model requires a full vector index rebuild.');\n    console.log('Run: myco rebuild');\n  }\n\n  if (fs.existsSync(path.join(vaultDir, DAEMON_STATE_FILENAME))) {\n    console.log('\\nNote: restart the daemon for changes to take effect (myco restart)');\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,OAAO,QAAQ;AACf,OAAO,UAAU;AAMjB,IAAM,wBAAwB;AAE9B,IAAM,QAAQ;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAcd,eAAsB,IAAI,MAAgB,UAAiC;AAEzE,MAAI,KAAK,SAAS,QAAQ,GAAG;AAC3B,UAAM,SAAS,WAAW,QAAQ;AAClC,YAAQ,IAAI,KAAK,UAAU,OAAO,WAAW,MAAM,CAAC,CAAC;AACrD;AAAA,EACF;AAGA,MAAI,KAAK,WAAW,GAAG;AACrB,YAAQ,IAAI,KAAK;AACjB;AAAA,EACF;AAGA,QAAM,cAAc,gBAAgB,MAAM,gBAAgB;AAC1D,QAAM,WAAW,gBAAgB,MAAM,aAAa;AACpD,QAAM,SAAS,gBAAgB,MAAM,WAAW;AAChD,QAAM,mBAAmB,gBAAgB,MAAM,sBAAsB;AACrE,QAAM,eAAe,gBAAgB,MAAM,kBAAkB;AAC7D,MAAI,eAAe,YAAY,UAAU,oBAAoB,cAAc;AACzE,YAAQ,IAAI,8EAA8E;AAAA,EAC5F;AAGA,QAAM,UAA4C,CAAC;AAEnD,QAAM,oBAAoB,gBAAgB,MAAM,sBAAsB;AACtE,MAAI,sBAAsB,OAAW,SAAQ,WAAW;AAExD,QAAM,iBAAiB,gBAAgB,MAAM,mBAAmB;AAChE,MAAI,mBAAmB,OAAW,SAAQ,QAAQ;AAElD,QAAM,eAAe,gBAAgB,MAAM,iBAAiB;AAC5D,MAAI,iBAAiB,OAAW,SAAQ,WAAW;AAGnD,QAAM,UAAU,aAAa,UAAU,CAAC,WAAW,cAAc,QAAQ,OAAO,CAAC;AAEjF,UAAQ,IAAI,kCAAkC;AAC9C,UAAQ,IAAI,KAAK,UAAU,QAAQ,WAAW,MAAM,CAAC,CAAC;AAEtD,MAAI,mBAAmB,QAAW;AAChC,YAAQ,IAAI,+EAA+E;AAC3F,YAAQ,IAAI,mBAAmB;AAAA,EACjC;AAEA,MAAI,GAAG,WAAW,KAAK,KAAK,UAAU,qBAAqB,CAAC,GAAG;AAC7D,YAAQ,IAAI,sEAAsE;AAAA,EACpF;AACF;","names":[]}
+{"version":3,"sources":["../src/cli/setup-llm.ts"],"sourcesContent":["import fs from 'node:fs';\nimport path from 'node:path';\nimport { loadConfig, updateConfig } from '../config/loader.js';\nimport { withEmbedding } from '../config/updates.js';\nimport { parseStringFlag } from './shared.js';\nimport type { EmbeddingProviderConfig } from '../config/schema.js';\n\nconst DAEMON_STATE_FILENAME = 'daemon.json';\n\nconst USAGE = `Usage: myco setup-llm [options]\n\nConfigure embedding provider settings.\n\nIn v3, LLM configuration is managed by the Myco agent (Claude Agent SDK).\nOnly embedding settings are user-configurable.\n\nOptions:\n  --embedding-provider <name>   Embedding provider (ollama, openai-compatible)\n  --embedding-model <name>      Embedding model name\n  --embedding-url <url>         Embedding provider base URL\n  --show                        Show current settings and exit\n`;\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  // Show current settings\n  if (args.includes('--show')) {\n    const config = loadConfig(vaultDir);\n    console.log(JSON.stringify(config.embedding, null, 2));\n    return;\n  }\n\n  // No flags = show usage\n  if (args.length === 0) {\n    console.log(USAGE);\n    return;\n  }\n\n  // Warn about removed LLM flags\n  const llmProvider = parseStringFlag(args, '--llm-provider');\n  const llmModel = parseStringFlag(args, '--llm-model');\n  const llmUrl = parseStringFlag(args, '--llm-url');\n  const llmContextWindow = parseStringFlag(args, '--llm-context-window');\n  const llmMaxTokens = parseStringFlag(args, '--llm-max-tokens');\n  if (llmProvider || llmModel || llmUrl || llmContextWindow || llmMaxTokens) {\n    console.log('Note: LLM configuration is managed by the Myco agent. LLM flags are ignored.');\n  }\n\n  // Build partial embedding update from flags\n  const updates: Partial<EmbeddingProviderConfig> = {};\n\n  const embeddingProvider = parseStringFlag(args, '--embedding-provider');\n  if (embeddingProvider !== undefined) updates.provider = embeddingProvider as EmbeddingProviderConfig['provider'];\n\n  const embeddingModel = parseStringFlag(args, '--embedding-model');\n  if (embeddingModel !== undefined) updates.model = embeddingModel;\n\n  const embeddingUrl = parseStringFlag(args, '--embedding-url');\n  if (embeddingUrl !== undefined) updates.base_url = embeddingUrl;\n\n  // Apply the update through the single write gate\n  const updated = updateConfig(vaultDir, (config) => withEmbedding(config, updates));\n\n  console.log('Embedding configuration updated.');\n  console.log(JSON.stringify(updated.embedding, null, 2));\n\n  if (embeddingModel !== undefined) {\n    console.log('\\nWarning: changing the embedding model requires a full vector index rebuild.');\n    console.log('Run: myco rebuild');\n  }\n\n  if (fs.existsSync(path.join(vaultDir, DAEMON_STATE_FILENAME))) {\n    console.log('\\nNote: restart the daemon for changes to take effect (myco restart)');\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,OAAO,QAAQ;AACf,OAAO,UAAU;AAMjB,IAAM,wBAAwB;AAE9B,IAAM,QAAQ;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAcd,eAAsB,IAAI,MAAgB,UAAiC;AAEzE,MAAI,KAAK,SAAS,QAAQ,GAAG;AAC3B,UAAM,SAAS,WAAW,QAAQ;AAClC,YAAQ,IAAI,KAAK,UAAU,OAAO,WAAW,MAAM,CAAC,CAAC;AACrD;AAAA,EACF;AAGA,MAAI,KAAK,WAAW,GAAG;AACrB,YAAQ,IAAI,KAAK;AACjB;AAAA,EACF;AAGA,QAAM,cAAc,gBAAgB,MAAM,gBAAgB;AAC1D,QAAM,WAAW,gBAAgB,MAAM,aAAa;AACpD,QAAM,SAAS,gBAAgB,MAAM,WAAW;AAChD,QAAM,mBAAmB,gBAAgB,MAAM,sBAAsB;AACrE,QAAM,eAAe,gBAAgB,MAAM,kBAAkB;AAC7D,MAAI,eAAe,YAAY,UAAU,oBAAoB,cAAc;AACzE,YAAQ,IAAI,8EAA8E;AAAA,EAC5F;AAGA,QAAM,UAA4C,CAAC;AAEnD,QAAM,oBAAoB,gBAAgB,MAAM,sBAAsB;AACtE,MAAI,sBAAsB,OAAW,SAAQ,WAAW;AAExD,QAAM,iBAAiB,gBAAgB,MAAM,mBAAmB;AAChE,MAAI,mBAAmB,OAAW,SAAQ,QAAQ;AAElD,QAAM,eAAe,gBAAgB,MAAM,iBAAiB;AAC5D,MAAI,iBAAiB,OAAW,SAAQ,WAAW;AAGnD,QAAM,UAAU,aAAa,UAAU,CAAC,WAAW,cAAc,QAAQ,OAAO,CAAC;AAEjF,UAAQ,IAAI,kCAAkC;AAC9C,UAAQ,IAAI,KAAK,UAAU,QAAQ,WAAW,MAAM,CAAC,CAAC;AAEtD,MAAI,mBAAmB,QAAW;AAChC,YAAQ,IAAI,+EAA+E;AAC3F,YAAQ,IAAI,mBAAmB;AAAA,EACjC;AAEA,MAAI,GAAG,WAAW,KAAK,KAAK,UAAU,qBAAqB,CAAC,GAAG;AAC7D,YAAQ,IAAI,sEAAsE;AAAA,EACpF;AACF;","names":[]}

package/dist/src/agent/definitions/agent.yaml

@@ -22,6 +22,8 @@ tools:
   - vault_state
   - vault_entities
   - vault_edges
+  - vault_skill_candidates
+  - vault_skill_records
   # Write tools
   - vault_create_spore
   - vault_create_entity

package/dist/src/agent/definitions/tasks/digest-only.yaml

@@ -13,6 +13,7 @@ description: >
   to spores or graph data.
 agent: myco-agent
 isDefault: false
+model: claude-sonnet-4-6
 maxTurns: 28
 timeoutSeconds: 1800
 

package/dist/src/agent/definitions/tasks/extract-only.yaml

@@ -13,6 +13,7 @@ description: >
   quick pass that captures knowledge without full reasoning overhead.
 agent: myco-agent
 isDefault: false
+model: claude-sonnet-4-6
 maxTurns: 30
 timeoutSeconds: 300
 

package/dist/src/agent/definitions/tasks/full-intelligence.yaml

@@ -21,6 +21,14 @@ maxTurns: 130
 timeoutSeconds: 1800
 model: claude-sonnet-4-6
 
+schedule:
+  enabled: true
+  intervalSeconds: 300
+  runIn:
+    - active
+    - idle
+  preCondition: has-unprocessed-batches
+
 orchestrator:
   enabled: true
   model: claude-sonnet-4-6

package/dist/src/agent/definitions/tasks/graph-maintenance.yaml

@@ -13,6 +13,7 @@ description: >
   new spores or regenerate digest.
 agent: myco-agent
 isDefault: false
+model: claude-sonnet-4-6
 maxTurns: 40
 timeoutSeconds: 480
 

package/dist/src/agent/definitions/tasks/review-session.yaml

@@ -13,6 +13,7 @@ description: >
   checks, and generates the session title and summary.
 agent: myco-agent
 isDefault: false
+model: claude-sonnet-4-6
 maxTurns: 40
 timeoutSeconds: 480
 

package/dist/src/agent/definitions/tasks/skill-evolve.yaml

@@ -0,0 +1,155 @@
+name: skill-evolve
+displayName: Skill Evolution
+description: >-
+  Evaluate and evolve existing Myco-managed skills based on new
+  vault knowledge and usage patterns.
+agent: myco-agent
+prompt: >-
+  Assess all active Myco-managed skills for staleness, conflicts,
+  and oversized scope. Evolve skills that need it.
+isDefault: false
+model: claude-sonnet-4-6
+maxTurns: 60
+timeoutSeconds: 1800
+schedule:
+  enabled: false
+  intervalSeconds: 900
+  runIn:
+    - idle
+  preCondition: has-active-skills
+phases:
+  - name: assess
+    prompt: |
+      Evaluate every active Myco-managed skill to determine if it
+      needs updating.
+
+      For EACH active skill (vault_skill_records action: list, status: active):
+
+      1. READ THE CURRENT SKILL CONTENT.
+         Get the skill record (vault_skill_records action: get), then
+         read the latest lineage entry's content_snapshot to see what
+         the skill currently says. You MUST read the actual content
+         before you can assess accuracy.
+
+      2. SEARCH FOR NEW KNOWLEDGE since the skill was last updated.
+         Use vault_search_semantic with the skill's topic/keywords.
+         Use vault_search_fts with specific file paths, function names,
+         and technical terms mentioned in the skill.
+         Use vault_spores to check for recent wisdom, decisions, and
+         gotchas related to the skill's domain.
+
+         Compare what you find to what the skill currently says.
+         Does the skill miss anything important? Does it say anything
+         that's now wrong or outdated?
+
+      3. CHECK SOURCE SPORE STATUS.
+         For each source spore ID in the skill's source_ids, check if
+         it's been superseded (vault_spores, status: superseded).
+         Superseded sources mean the skill may contain outdated advice.
+
+      4. ASSESS SKILL SCOPE.
+         Is the skill trying to cover too many distinct procedures?
+         A skill over 400 lines or covering 3+ independent workflows
+         is a candidate for splitting.
+
+      Classify each skill:
+      - **CURRENT**: Content is still accurate, no significant new
+        knowledge changes what it should say.
+      - **STALE**: New knowledge exists that should be incorporated
+        (new gotchas, new steps, changed file paths, new patterns).
+        Note specifically WHAT is new/changed.
+      - **CONFLICTED**: New knowledge directly contradicts the skill's
+        current content (a decision was reversed, a pattern was
+        abandoned). Note the contradiction.
+      - **OVERSIZED**: Covers too many distinct procedures. Note
+        how it should be split.
+
+      NOTE: Skip usage-based retirement for now — usage tracking is
+      not yet active. Do not classify skills as UNUSED.
+
+      Store classifications using vault_set_state with key
+      'skill-evolve-classifications' and value as a JSON object:
+      ```json
+      {
+        "skill-name": {
+          "classification": "CURRENT|STALE|CONFLICTED|OVERSIZED",
+          "rationale": "what changed and why",
+          "new_knowledge": ["list of specific new findings"]
+        }
+      }
+      ```
+
+      Report classifications via vault_report.
+    tools:
+      - vault_skill_records
+      - vault_spores
+      - vault_sessions
+      - vault_search_fts
+      - vault_search_semantic
+      - vault_read_digest
+      - vault_state
+      - vault_set_state
+      - vault_edges
+      - vault_report
+    maxTurns: 20
+    required: true
+
+  - name: evolve
+    prompt: |
+      Read classifications from vault_state
+      (key: skill-evolve-classifications). Parse the JSON.
+
+      For each skill classified as STALE, CONFLICTED, or OVERSIZED:
+
+      ## STALE or CONFLICTED — Rewrite the skill
+
+      1. Read the current skill content from vault_skill_records
+         (action: get) to see the current version.
+
+      2. Gather the new knowledge: read the specific spores, sessions,
+         or search results identified in the assessment.
+
+      3. Rewrite using vault_write_skill. The rewrite MUST:
+         - Preserve ALL existing frontmatter fields — read the current
+           content first and carry every field forward (name, description,
+           managed_by, user-invocable, allowed-tools). The quality gate
+           rejects writes missing any required frontmatter field.
+         - Preserve all content that is still accurate
+         - Incorporate the new knowledge identified in assessment
+         - Follow the same SKILL.md format:
+           - Prerequisites, Steps, Common Pitfalls structure
+         - Stay under 500 lines
+         - Include a rationale parameter explaining WHAT changed:
+           e.g., "Updated: added hookFields normalization step from
+           session dd5bc83a, corrected Windsurf MCP path"
+
+         vault_write_skill automatically bumps the generation and
+         creates a lineage entry with the rationale.
+
+      ## OVERSIZED — Split into focused sub-skills
+
+      1. Identify distinct procedures within the skill.
+      2. Write each as a new skill via vault_write_skill.
+         Each sub-skill gets its own name, description, and content.
+      3. Retire the parent via vault_skill_records
+         (action: update, status: retired).
+
+      ## CURRENT — No action needed. Skip.
+
+      Report a summary of all actions taken via vault_report:
+      - Which skills were updated (with rationale)
+      - Which skills were split (into what)
+      - Which skills were left as CURRENT
+    tools:
+      - vault_write_skill
+      - vault_skill_records
+      - vault_skill_candidates
+      - vault_state
+      - vault_spores
+      - vault_search_fts
+      - vault_search_semantic
+      - vault_report
+    maxTurns: 35
+    required: true
+    dependsOn:
+      - assess

package/dist/src/agent/definitions/tasks/skill-generate.yaml

@@ -0,0 +1,210 @@
+name: skill-generate
+displayName: Skill Generation
+description: >-
+  Synthesize a project skill from a vault knowledge candidate.
+  Writes SKILL.md to .agents/skills/ following Anthropic skill design principles.
+agent: myco-agent
+prompt: >-
+  Generate ONE project-specific skill from the next approved candidate.
+  Process only the first approved candidate found — do not batch multiple
+  skills in a single run. The schedule will pick up the next one.
+isDefault: false
+model: claude-sonnet-4-6
+maxTurns: 35
+timeoutSeconds: 900
+schedule:
+  enabled: false
+  intervalSeconds: 600
+  runIn:
+    - idle
+  preCondition: has-approved-candidates
+phases:
+  - name: gather
+    prompt: |
+      You are generating ONE skill. Find the first approved candidate
+      that doesn't have a skill yet.
+
+      If an instruction provides a candidate ID, use that specific one.
+      Otherwise, use vault_skill_candidates (action: list, status: approved)
+      and pick the FIRST result. Process ONLY that one candidate —
+      do not attempt to generate multiple skills in this run.
+
+      Read the candidate. If its skill_id is set or status is 'generated',
+      it already has a skill — report "already generated" and STOP.
+      Do NOT skip based on similar topics. The user approved it.
+
+      If no skill exists, gather ALL source material for this candidate:
+
+      1. Read each source item referenced in the candidate's source_ids.
+         Use vault_spores to fetch spore IDs, vault_sessions to fetch
+         session IDs. These contain the detailed knowledge.
+
+      2. Search for additional context using vault_search_semantic with
+         the candidate's topic as the query. This may surface plans,
+         artifacts, and sessions not in the source_ids.
+
+      3. Search vault_search_fts for specific file paths, function names,
+         or config keys mentioned in the source material.
+
+      4. Check vault_entities for related entities — these often link
+         to additional spores via edges.
+
+      For each source, extract:
+      - Concrete steps (what to do, in what order)
+      - File paths and code patterns (specific to this project)
+      - Gotchas and pitfalls (things that went wrong)
+      - Decisions and rationale (why this approach, not another)
+      - Prerequisites (what must be true before starting)
+
+      Be thorough — the skill quality depends entirely on how much
+      concrete detail you gather here.
+    tools:
+      - vault_skill_candidates
+      - vault_spores
+      - vault_sessions
+      - vault_search_fts
+      - vault_search_semantic
+      - vault_read_digest
+      - vault_entities
+      - vault_edges
+    maxTurns: 10
+    required: true
+
+  - name: draft
+    prompt: |
+      Write a SKILL.md from the gathered material. The skill must be a
+      procedural how-to guide that teaches an agent how to accomplish
+      a specific task in THIS project.
+
+      ## SKILL.md Format
+
+      ```markdown
+      ---
+      name: myco:kebab-case-name
+      description: |
+        One paragraph that serves as the PRIMARY triggering mechanism.
+        Be explicit about when this skill activates. Include concrete
+        keywords, file names, and scenarios. Be somewhat pushy to
+        counter undertriggering — include "even if the user doesn't
+        explicitly ask for [topic]" language when appropriate.
+      managed_by: myco
+      user-invocable: true
+      allowed-tools: Read, Edit, Write, Bash, Grep, Glob
+      ---
+
+      # Skill Title
+
+      Brief context paragraph (2-3 sentences) explaining what this
+      procedure accomplishes and when you'd use it.
+
+      ## Prerequisites
+
+      What must be true before starting.
+
+      ## Steps
+
+      Numbered, concrete steps with file paths and code examples.
+      Each step should reference specific files in this project.
+
+      ## Common Pitfalls
+
+      Inline with the steps where possible, or as a short section
+      at the end for cross-cutting gotchas.
+      ```
+
+      ## Frontmatter Fields
+
+      - **user-invocable: true** — makes the skill available as a slash
+        command (e.g., `/add-symbiont`). Set this for all procedural skills.
+      - **allowed-tools** — comma-separated list of tools the skill needs.
+        Most procedural skills need: Read, Edit, Write, Bash, Grep, Glob.
+        Narrow this if the skill only needs read access (e.g., audit skills).
+        Omit the field entirely to allow all tools.
+
+      ## Writing Principles
+
+      - **Explain reasoning, not rigid rules.** "Because X, do Y"
+        is better than "ALWAYS do Y." Use theory of mind — the agent
+        using this skill is smart enough to understand WHY.
+      - **Stay under 500 lines.** Be concise but complete.
+      - **Use concrete file paths** from this project, not generic examples.
+      - **Include code patterns** where they help (inline code blocks).
+      - **Include examples** — show input/output or before/after where
+        it makes the procedure clearer.
+      - **Reference gotchas inline** where the developer would encounter
+        them, not in a separate section.
+      - **The description is the trigger.** An agent reading just the
+        description should know whether this skill applies to their task.
+      - **Be general enough to survive change.** The skill should teach
+        the pattern, not just document the current state. If a file path
+        changes, the procedure should still make sense.
+
+      Use vault_write_skill to write the file. Pass:
+      - name: kebab-case directory name (NO colon — directory-safe name)
+        The myco: prefix goes ONLY in the SKILL.md frontmatter name field,
+        not in the directory name.
+      - display_name: human-readable title
+      - description: the frontmatter description text
+      - content: the full SKILL.md including frontmatter
+      - candidate_id: the candidate ID from the gather phase
+      - source_ids: JSON array of source item IDs used
+      - rationale: "Initial generation from candidate survey"
+    tools:
+      - vault_write_skill
+      - vault_skill_records
+    maxTurns: 10
+    required: true
+    dependsOn:
+      - gather
+
+  - name: validate
+    prompt: |
+      Review the skill you just generated. Read it back from
+      vault_skill_records (action: get) to see the stored record.
+
+      Check against these criteria:
+
+      1. **Triggering clarity:** Would an agent reading only the
+         description know when to use this skill? Test: describe
+         a task that SHOULD trigger it and one that SHOULD NOT.
+
+      2. **Procedural content:** Does every section describe steps
+         to take? Remove any definitional content ("X is...").
+
+      3. **Concreteness:** Does it reference real file paths,
+         function names, and code patterns from this project?
+         Generic advice ("add a config file") is not enough.
+
+      4. **Length:** Under 500 lines?
+
+      5. **Conflicts:** Does it overlap with existing skills?
+         Use vault_skill_records (action: list) to check.
+
+      6. **Accuracy:** Spot-check 2-3 specific claims against the
+         vault. Use vault_search_fts to verify file paths and
+         function names mentioned in the skill.
+
+      If any criterion fails, rewrite using vault_write_skill.
+      This automatically bumps the generation.
+
+      **CRITICAL:** When rewriting, preserve ALL frontmatter fields from
+      the original — including user-invocable and allowed-tools. Read the
+      existing skill content first and carry every frontmatter field forward.
+      The quality gate will reject writes missing required fields.
+
+      Report results using vault_report with:
+      - Skill name and path
+      - Generation number
+      - Each criterion: pass/fail with brief note
+      - Any rewrites performed
+    tools:
+      - vault_write_skill
+      - vault_skill_records
+      - vault_skill_candidates
+      - vault_spores
+      - vault_search_fts
+      - vault_report
+    maxTurns: 8
+    required: true
+    dependsOn:
+      - draft