@goondocks/myco 0.20.2 → 0.21.1

package/dist/{chunk-NGROSFOH.js → chunk-Z66IT5KL.js}

@@ -77,18 +77,23 @@ var RegistrationSchema = external_exports.object({
   mcpTarget: external_exports.string().optional(),
   mcpFormat: external_exports.enum(["json", "toml"]).default("json"),
   /**
-   * Optional working directory injected into the Myco MCP server entry. Values
-   * may use `{projectRoot}` and `{vaultDir}` placeholders, or remain relative
-   * (for example `.` in a project-local config file) when the host agent
-   * resolves paths against the config file location.
+   * Optional working directory injected verbatim into the Myco MCP server entry.
+   * Used by symbionts (for example Codex with `.`) whose MCP child would
+   * otherwise launch with a cwd that breaks vault discovery.
    */
   mcpCwd: external_exports.string().optional(),
   /**
-   * Optional env vars injected into the Myco MCP server entry. Values may use
-   * `{projectRoot}` and `{vaultDir}` placeholders so symbionts whose MCP child
-   * starts outside the repo can still anchor Myco to the correct project.
+   * When true, the installer rewrites any `myco-run` references in this
+   * symbiont's templates to the project's `.myco/runtime.command` alias
+   * (e.g. `myco-dev`) at install time. Opt-in because most symbionts
+   * rely on `bin/myco-run` to read runtime.command at spawn time, which
+   * keeps the alias dynamic — change runtime.command and the next spawn
+   * picks it up with no re-install. Set this only for hosts that reorder
+   * PATH so `~/.local/bin` loses (opencode prepends `/opt/homebrew/bin`,
+   * so it can't reach the dev shim via PATH). Baking the alias at
+   * install time bypasses PATH resolution entirely for those hosts.
    */
-  mcpEnv: external_exports.record(external_exports.string(), external_exports.string()).default({}),
+  substituteRuntimeCommand: external_exports.boolean().optional(),
   /**
    * JSON key under which MCP server entries are stored in the MCP config file.
    * Defaults to 'mcpServers' (used by Claude Code, Cursor, etc.). opencode uses 'mcp'.
@@ -181,4 +186,4 @@ export {
   detectSymbionts,
   resolvePackageRoot
 };
-//# sourceMappingURL=chunk-NGROSFOH.js.map
+//# sourceMappingURL=chunk-Z66IT5KL.js.map

package/dist/chunk-Z66IT5KL.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 *   - `transcript_meta_field_equals`: structural. Fires when a dot-path\n *     field in the transcript's first JSON line equals a specific scalar\n *     value (for example, `source = \"exec\"`). Use for source-kind or mode\n *     filters that are stable in transcript metadata but not represented\n *     by field presence alone.\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 same rules are also reusable at later\n *     lifecycle boundaries that could still materialize a session row\n *     (for example, transcript-backed stop processing after a missed\n *     SessionStart). This is the durable \"session capture rules\"\n *     contract for every symbiont.\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     * Structural: fires when a dot-path field in session_meta exactly equals\n     * a scalar value (string / number / boolean / null). Use for stable\n     * source-kind markers like `source = \"exec\"`.\n     */\n    transcript_meta_field_equals: z.object({\n      path: z.string(),\n      value: z.union([z.string(), z.number(), z.boolean(), z.null()]),\n    }).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   * Optional working directory injected verbatim into the Myco MCP server entry.\n   * Used by symbionts (for example Codex with `.`) whose MCP child would\n   * otherwise launch with a cwd that breaks vault discovery.\n   */\n  mcpCwd: z.string().optional(),\n  /**\n   * When true, the installer rewrites any `myco-run` references in this\n   * symbiont's templates to the project's `.myco/runtime.command` alias\n   * (e.g. `myco-dev`) at install time. Opt-in because most symbionts\n   * rely on `bin/myco-run` to read runtime.command at spawn time, which\n   * keeps the alias dynamic — change runtime.command and the next spawn\n   * picks it up with no re-install. Set this only for hosts that reorder\n   * PATH so `~/.local/bin` loses (opencode prepends `/opt/homebrew/bin`,\n   * so it can't reach the dev shim via PATH). Baking the alias at\n   * install time bypasses PATH resolution entirely for those hosts.\n   */\n  substituteRuntimeCommand: z.boolean().optional(),\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/{cli-GGPWH4UO.js → cli-HSLIG7EX.js}

@@ -2,19 +2,21 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   loadEnv
-} from "./chunk-KESLPBKV.js";
+} from "./chunk-QDLVIW2O.js";
 import "./chunk-SAKJMNSR.js";
-import "./chunk-Q36VMZST.js";
-import "./chunk-FMRZ26U5.js";
-import "./chunk-OD4AA7PV.js";
+import "./chunk-OTQH5KZW.js";
+import "./chunk-X3IGT5RV.js";
+import "./chunk-53RPGOEN.js";
+import "./chunk-OUJSQSKE.js";
+import "./chunk-POEPHBQK.js";
 import "./chunk-MYX5NCRH.js";
 import {
   resolveVaultDir
-} from "./chunk-CUDIZJY7.js";
-import "./chunk-VVNL26WX.js";
-import "./chunk-XG5RRUYF.js";
+} from "./chunk-TSM6VESW.js";
+import "./chunk-KTTSXYEK.js";
+import "./chunk-ENZR5NG7.js";
 import "./chunk-LPUQPDC2.js";
-import "./chunk-FLLBJLHM.js";
+import "./chunk-6C6QZ4PM.js";
 import "./chunk-UUHLLQXO.js";
 import "./chunk-6LQIMRTC.js";
 import "./chunk-ODXLRR4U.js";
@@ -43,6 +45,7 @@ Commands:
   setup-llm [options]      Configure LLM and embedding providers
   setup-digest [options]   Configure digest and capture settings
   agent [options]          Run the intelligence agent
+  agent eval [options]    Run an evaluation matrix across runtime/reasoning/model variants
   task <subcommand>        Manage agent task definitions
   team <init|upgrade>      Provision or upgrade team sync infrastructure
   doctor [--fix]          Check vault health and repair issues
@@ -59,29 +62,29 @@ async function main() {
     process.stdout.write(USAGE);
     return;
   }
-  if (cmd === "init") return (await import("./init-LMYOVZAV.js")).run(args);
-  if (cmd === "detect-providers") return (await import("./detect-providers-5KOPZ7J2.js")).run(args);
+  if (cmd === "init") return (await import("./init-4KVK7W2E.js")).run(args);
+  if (cmd === "detect-providers") return (await import("./detect-providers-ILLQZROY.js")).run(args);
   if (cmd === "version" || cmd === "--version" || cmd === "-v") {
-    const { getPluginVersion } = await import("./version-XMPPJQHR.js");
+    const { getPluginVersion } = await import("./version-TXPPS3L5.js");
     console.log(getPluginVersion());
     return;
   }
-  if (cmd === "mcp") return (await import("./server-AGVYZVP5.js")).main();
+  if (cmd === "mcp") return (await import("./server-AZJSTQEK.js")).main();
   if (cmd === "hook") {
     const hookName = args[0];
     const HOOK_DISPATCH = {
-      "session-start": () => import("./session-start-LAFICHII.js"),
-      "session-end": () => import("./session-end-FT27DWYZ.js"),
-      "stop": () => import("./stop-ZPIKVLH4.js"),
-      "user-prompt-submit": () => import("./user-prompt-submit-N36KUPHI.js"),
-      "post-tool-use": () => import("./post-tool-use-POGPTJBA.js"),
-      "post-tool-use-failure": () => import("./post-tool-use-failure-OT7BFWQW.js"),
-      "subagent-start": () => import("./subagent-start-UUE6EHQD.js"),
-      "subagent-stop": () => import("./subagent-stop-KQWWWPE6.js"),
-      "stop-failure": () => import("./stop-failure-2PX67YJC.js"),
-      "task-completed": () => import("./task-completed-WMHOFQ7B.js"),
-      "pre-compact": () => import("./pre-compact-OXVODKH4.js"),
-      "post-compact": () => import("./post-compact-JSECI44W.js")
+      "session-start": () => import("./session-start-46KPFV2H.js"),
+      "session-end": () => import("./session-end-FS46UARX.js"),
+      "stop": () => import("./stop-OUEX6KA4.js"),
+      "user-prompt-submit": () => import("./user-prompt-submit-APMO6FVU.js"),
+      "post-tool-use": () => import("./post-tool-use-TZINWWDH.js"),
+      "post-tool-use-failure": () => import("./post-tool-use-failure-TCFEU2GI.js"),
+      "subagent-start": () => import("./subagent-start-J4VV6DEE.js"),
+      "subagent-stop": () => import("./subagent-stop-JMLVEPIA.js"),
+      "stop-failure": () => import("./stop-failure-2BWVNZEG.js"),
+      "task-completed": () => import("./task-completed-65CHMMKA.js"),
+      "pre-compact": () => import("./pre-compact-LO2VZCGR.js"),
+      "post-compact": () => import("./post-compact-7AEFVCZS.js")
     };
     const loader = HOOK_DISPATCH[hookName];
     if (!loader) {
@@ -90,13 +93,13 @@ async function main() {
     }
     return (await loader()).main();
   }
-  if (cmd === "daemon") return (await import("./main-YTBVRTBI.js")).main();
+  if (cmd === "daemon") return (await import("./main-4J4QZZTZ.js")).main();
   if (cmd === "doctor") {
     const vaultDir2 = resolveVaultDir();
-    return (await import("./doctor-5JXJ36KA.js")).run(args, vaultDir2);
+    return (await import("./doctor-HJCWHAU4.js")).run(args, vaultDir2);
   }
-  if (cmd === "update") return (await import("./update-O6V4RC4W.js")).run(args);
-  if (cmd === "remove") return (await import("./remove-N7ZPELFU.js")).run(args);
+  if (cmd === "update") return (await import("./update-ZSHVXWSQ.js")).run(args);
+  if (cmd === "remove") return (await import("./remove-F77AAALE.js")).run(args);
   const vaultDir = resolveVaultDir();
   if (!fs.existsSync(path.join(vaultDir, "myco.yaml"))) {
     console.error(`No myco.yaml found in ${vaultDir}. Run 'myco init' first.`);
@@ -104,37 +107,41 @@ async function main() {
   }
   switch (cmd) {
     case "config":
-      return (await import("./config-OMCYHG2S.js")).run(args, vaultDir);
+      return (await import("./config-VC4ACP42.js")).run(args, vaultDir);
     case "verify":
-      return (await import("./verify-LXPV7NYG.js")).run(args, vaultDir);
+      return (await import("./verify-R76ZFJSZ.js")).run(args, vaultDir);
     case "stats":
-      return (await import("./stats-NVPWOYTE.js")).run(args, vaultDir);
+      return (await import("./stats-MKMETHMA.js")).run(args, vaultDir);
     case "search":
-      return (await import("./search-AHZEUNRR.js")).run(args, vaultDir);
+      return (await import("./search-NHNVUAQQ.js")).run(args, vaultDir);
     case "vectors":
-      return (await import("./search-AHZEUNRR.js")).runVectors(args, vaultDir);
+      return (await import("./search-NHNVUAQQ.js")).runVectors(args, vaultDir);
     case "session":
-      return (await import("./session-6IU4AXYP.js")).run(args, vaultDir);
+      return (await import("./session-3HLC5KOD.js")).run(args, vaultDir);
     case "setup-llm":
-      return (await import("./setup-llm-77MP4I2G.js")).run(args, vaultDir);
+      return (await import("./setup-llm-JMWSNQ2C.js")).run(args, vaultDir);
     case "setup-digest":
       return (await import("./setup-digest-4KDSXAIV.js")).run(args, vaultDir);
-    case "agent":
-      return (await import("./agent-run-X25Q2A6T.js")).run(args, vaultDir);
+    case "agent": {
+      if (args[0] === "eval") {
+        return (await import("./agent-eval-YK2VP2S4.js")).run(args.slice(1), vaultDir);
+      }
+      return (await import("./agent-run-GEJBD2YD.js")).run(args, vaultDir);
+    }
     case "task":
-      return (await import("./agent-tasks-7B6OFERB.js")).run(args, vaultDir);
+      return (await import("./agent-tasks-5XSRGTRX.js")).run(args, vaultDir);
     case "team": {
       const sub = args[0];
-      if (sub === "init") return (await import("./team-LRZ6GTQK.js")).teamInit(vaultDir);
-      if (sub === "upgrade") return (await import("./team-LRZ6GTQK.js")).teamUpgrade(vaultDir);
+      if (sub === "init") return (await import("./team-U2LDKIS4.js")).teamInit(vaultDir);
+      if (sub === "upgrade") return (await import("./team-U2LDKIS4.js")).teamUpgrade(vaultDir);
       console.error("Usage: myco team <init|upgrade>");
       process.exit(1);
       break;
     }
     case "open":
-      return (await import("./open-HG2DX6RN.js")).run(args, vaultDir);
+      return (await import("./open-7TXJQM3H.js")).run(args, vaultDir);
     case "restart":
-      return (await import("./restart-ADG5GBTB.js")).run(args, vaultDir);
+      return (await import("./restart-UEFDPMLT.js")).run(args, vaultDir);
     case "logs":
       return (await import("./logs-7YVGGBIS.js")).run(args, vaultDir);
     default:
@@ -147,4 +154,4 @@ main().catch((err) => {
   console.error(`myco: ${err.message}`);
   process.exit(1);
 });
-//# sourceMappingURL=cli-GGPWH4UO.js.map
+//# sourceMappingURL=cli-HSLIG7EX.js.map

package/dist/cli-HSLIG7EX.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/cli.ts"],"sourcesContent":["#!/usr/bin/env node\nimport { loadEnv } from './cli/shared.js';\nimport { resolveVaultDir } from './vault/resolve.js';\nimport fs from 'node:fs';\nimport path from 'node:path';\n\nloadEnv();\n\nconst USAGE = `Usage: myco <command> [args]\n\nCommands:\n  init [options]           Initialize a new vault\n  update                   Update vault files and agent registration\n  remove [--remove-vault]    Remove Myco from this project (vault preserved by default)\n  remove --symbiont <name>   Unregister a single agent and remove from config\n  config <get|set> [args]  Get or set vault config values\n  detect-providers         Detect available LLM/embedding providers (JSON)\n  verify                   Test LLM and embedding connectivity\n  stats                    Vault health, index counts, vector count\n  search <query>           Combined FTS + vector search with scores\n  vectors <query>          Raw vector search with similarity scores\n  session [id|latest]      Show a session\n  logs [options]           View daemon logs\n  setup-llm [options]      Configure LLM and embedding providers\n  setup-digest [options]   Configure digest and capture settings\n  agent [options]          Run the intelligence agent\n  agent eval [options]    Run an evaluation matrix across runtime/reasoning/model variants\n  task <subcommand>        Manage agent task definitions\n  team <init|upgrade>      Provision or upgrade team sync infrastructure\n  doctor [--fix]          Check vault health and repair issues\n  open                     Open the dashboard in your browser\n  restart                  Restart the daemon\n  version                  Show plugin version\n  mcp                     Start the MCP stdio server\n  hook <name>             Run a hook (session-start, session-end, stop, user-prompt-submit, post-tool-use, post-tool-use-failure, subagent-start, subagent-stop, stop-failure, task-completed, pre-compact, post-compact)\n  daemon --vault <dir>    Start the daemon process\n`;\n\nasync function main(): Promise<void> {\n  const [cmd, ...args] = process.argv.slice(2);\n  if (!cmd || cmd === '--help' || cmd === '-h') {\n    process.stdout.write(USAGE);\n    return;\n  }\n\n  if (cmd === 'init') return (await import('./cli/init.js')).run(args);\n  if (cmd === 'detect-providers') return (await import('./cli/detect-providers.js')).run(args);\n  if (cmd === 'version' || cmd === '--version' || cmd === '-v') {\n    const { getPluginVersion } = await import('./version.js');\n    console.log(getPluginVersion());\n    return;\n  }\n  if (cmd === 'mcp') return (await import('./mcp/server.js')).main();\n  if (cmd === 'hook') {\n    const hookName = args[0];\n    const HOOK_DISPATCH: Record<string, () => Promise<{ main: () => Promise<void> }>> = {\n      'session-start': () => import('./hooks/session-start.js'),\n      'session-end': () => import('./hooks/session-end.js'),\n      'stop': () => import('./hooks/stop.js'),\n      'user-prompt-submit': () => import('./hooks/user-prompt-submit.js'),\n      'post-tool-use': () => import('./hooks/post-tool-use.js'),\n      'post-tool-use-failure': () => import('./hooks/post-tool-use-failure.js'),\n      'subagent-start': () => import('./hooks/subagent-start.js'),\n      'subagent-stop': () => import('./hooks/subagent-stop.js'),\n      'stop-failure': () => import('./hooks/stop-failure.js'),\n      'task-completed': () => import('./hooks/task-completed.js'),\n      'pre-compact': () => import('./hooks/pre-compact.js'),\n      'post-compact': () => import('./hooks/post-compact.js'),\n    };\n    const loader = HOOK_DISPATCH[hookName];\n    if (!loader) {\n      console.error(`Unknown hook: ${hookName}. Available: ${Object.keys(HOOK_DISPATCH).join(', ')}`);\n      process.exit(1);\n    }\n    return (await loader()).main();\n  }\n  if (cmd === 'daemon') return (await import('./daemon/main.js')).main();\n\n  if (cmd === 'doctor') {\n    const vaultDir = resolveVaultDir();\n    return (await import('./cli/doctor.js')).run(args, vaultDir);\n  }\n\n  if (cmd === 'update') return (await import('./cli/update.js')).run(args);\n  if (cmd === 'remove') return (await import('./cli/remove.js')).run(args);\n\n  const vaultDir = resolveVaultDir();\n  if (!fs.existsSync(path.join(vaultDir, 'myco.yaml'))) {\n    console.error(`No myco.yaml found in ${vaultDir}. Run 'myco init' first.`);\n    process.exit(1);\n  }\n\n  switch (cmd) {\n    case 'config': return (await import('./cli/config.js')).run(args, vaultDir);\n    case 'verify': return (await import('./cli/verify.js')).run(args, vaultDir);\n    case 'stats': return (await import('./cli/stats.js')).run(args, vaultDir);\n    case 'search': return (await import('./cli/search.js')).run(args, vaultDir);\n    case 'vectors': return (await import('./cli/search.js')).runVectors(args, vaultDir);\n    case 'session': return (await import('./cli/session.js')).run(args, vaultDir);\n    case 'setup-llm': return (await import('./cli/setup-llm.js')).run(args, vaultDir);\n    case 'setup-digest': return (await import('./cli/setup-digest.js')).run(args, vaultDir);\n    case 'agent': {\n      if (args[0] === 'eval') {\n        return (await import('./cli/agent-eval.js')).run(args.slice(1), vaultDir);\n      }\n      return (await import('./cli/agent-run.js')).run(args, vaultDir);\n    }\n    case 'task': return (await import('./cli/agent-tasks.js')).run(args, vaultDir);\n    case 'team': {\n      const sub = args[0];\n      if (sub === 'init') return (await import('./cli/team.js')).teamInit(vaultDir);\n      if (sub === 'upgrade') return (await import('./cli/team.js')).teamUpgrade(vaultDir);\n      console.error('Usage: myco team <init|upgrade>');\n      process.exit(1);\n      break;\n    }\n    case 'open': return (await import('./cli/open.js')).run(args, vaultDir);\n    case 'restart': return (await import('./cli/restart.js')).run(args, vaultDir);\n    case 'logs': return (await import('./cli/logs.js')).run(args, vaultDir);\n    default:\n      console.error(`Unknown command: ${cmd}`);\n      process.stdout.write(USAGE);\n      process.exit(1);\n  }\n}\n\nmain().catch((err) => {\n  console.error(`myco: ${(err as Error).message}`);\n  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package/dist/{client-YXQUTXVZ.js → client-Z43DNLJH.js}

@@ -2,14 +2,14 @@ import { createRequire as __cr } from 'node:module'; const require = __cr(import
 import {
   DaemonClient,
   resolveCliEntryPath
-} from "./chunk-VVNL26WX.js";
-import "./chunk-XG5RRUYF.js";
+} from "./chunk-KTTSXYEK.js";
+import "./chunk-ENZR5NG7.js";
 import "./chunk-LPUQPDC2.js";
-import "./chunk-FLLBJLHM.js";
+import "./chunk-6C6QZ4PM.js";
 import "./chunk-UUHLLQXO.js";
 import "./chunk-PZUWP5VK.js";
 export {
   DaemonClient,
   resolveCliEntryPath
 };
-//# sourceMappingURL=client-YXQUTXVZ.js.map
+//# sourceMappingURL=client-Z43DNLJH.js.map

package/dist/{config-OMCYHG2S.js → config-VC4ACP42.js}

@@ -1,15 +1,17 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   withValue
-} from "./chunk-US4LNCAT.js";
+} from "./chunk-IPPMYQ2Y.js";
 import {
   loadConfig,
   updateConfig
-} from "./chunk-OD4AA7PV.js";
+} from "./chunk-53RPGOEN.js";
+import "./chunk-OUJSQSKE.js";
+import "./chunk-POEPHBQK.js";
 import {
   getAtPath
 } from "./chunk-ZXZPJJN3.js";
-import "./chunk-FLLBJLHM.js";
+import "./chunk-6C6QZ4PM.js";
 import "./chunk-UUHLLQXO.js";
 import "./chunk-6LQIMRTC.js";
 import "./chunk-ODXLRR4U.js";
@@ -79,4 +81,4 @@ function parseValue(raw) {
 export {
   run
 };
-//# sourceMappingURL=config-OMCYHG2S.js.map
+//# sourceMappingURL=config-VC4ACP42.js.map

package/dist/{config-OMCYHG2S.js.map → config-VC4ACP42.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/cli/config.ts"],"sourcesContent":["import fs from 'node:fs';\nimport path from 'node:path';\nimport { loadConfig, updateConfig } from '../config/loader.js';\nimport { withValue } from '../config/updates.js';\nimport { getAtPath } from '../utils/dot-path.js';\n\nconst DAEMON_STATE_FILENAME = 'daemon.json';\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const [subcommand, key, ...rest] = args;\n\n  if (subcommand === 'get') {\n    if (!key) {\n      console.error('Usage: myco config get <dot.path.key>');\n      process.exit(1);\n    }\n    return configGet(key, vaultDir);\n  }\n\n  if (subcommand === 'set') {\n    const value = rest[0];\n    if (!key || value === undefined) {\n      console.error('Usage: myco config set <dot.path.key> <value>');\n      process.exit(1);\n    }\n    return configSet(key, value, vaultDir);\n  }\n\n  console.error('Usage: myco config <get|set> <dot.path.key> [value]');\n  process.exit(1);\n}\n\nfunction configGet(dotPath: string, vaultDir: string): void {\n  const config = loadConfig(vaultDir);\n  const value = getAtPath(config as Record<string, unknown>, dotPath);\n  if (value === undefined) {\n    console.error(`Key not found: ${dotPath}`);\n    process.exit(1);\n  }\n  console.log(typeof value === 'object' ? JSON.stringify(value, null, 2) : String(value));\n}\n\nfunction configSet(dotPath: string, rawValue: string, vaultDir: string): void {\n  const value = parseValue(rawValue);\n\n  try {\n    updateConfig(vaultDir, (config) => withValue(config, dotPath, value));\n  } catch (err) {\n    if (err instanceof Error && 'issues' in err) {\n      const issues = (err as { issues: Array<{ path: (string | number)[]; message: string }> }).issues;\n      console.error('Validation error:');\n      for (const issue of issues) {\n        console.error(`  ${issue.path.join('.')}: ${issue.message}`);\n      }\n      process.exit(1);\n    }\n    throw err;\n  }\n\n  console.log(`Set ${dotPath} = ${JSON.stringify(value)}`);\n\n  if (fs.existsSync(path.join(vaultDir, DAEMON_STATE_FILENAME))) {\n    console.log('Note: restart the daemon for changes to take effect (myco restart)');\n  }\n}\n\n/** Parse a string value as JSON (number, boolean, array, object), falling back to raw string. */\nfunction parseValue(raw: string): unknown {\n  try {\n    return JSON.parse(raw);\n  } catch {\n    return raw;\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;;AAAA,OAAO,QAAQ;AACf,OAAO,UAAU;AAKjB,IAAM,wBAAwB;AAE9B,eAAsB,IAAI,MAAgB,UAAiC;AACzE,QAAM,CAAC,YAAY,KAAK,GAAG,IAAI,IAAI;AAEnC,MAAI,eAAe,OAAO;AACxB,QAAI,CAAC,KAAK;AACR,cAAQ,MAAM,uCAAuC;AACrD,cAAQ,KAAK,CAAC;AAAA,IAChB;AACA,WAAO,UAAU,KAAK,QAAQ;AAAA,EAChC;AAEA,MAAI,eAAe,OAAO;AACxB,UAAM,QAAQ,KAAK,CAAC;AACpB,QAAI,CAAC,OAAO,UAAU,QAAW;AAC/B,cAAQ,MAAM,+CAA+C;AAC7D,cAAQ,KAAK,CAAC;AAAA,IAChB;AACA,WAAO,UAAU,KAAK,OAAO,QAAQ;AAAA,EACvC;AAEA,UAAQ,MAAM,qDAAqD;AACnE,UAAQ,KAAK,CAAC;AAChB;AAEA,SAAS,UAAU,SAAiB,UAAwB;AAC1D,QAAM,SAAS,WAAW,QAAQ;AAClC,QAAM,QAAQ,UAAU,QAAmC,OAAO;AAClE,MAAI,UAAU,QAAW;AACvB,YAAQ,MAAM,kBAAkB,OAAO,EAAE;AACzC,YAAQ,KAAK,CAAC;AAAA,EAChB;AACA,UAAQ,IAAI,OAAO,UAAU,WAAW,KAAK,UAAU,OAAO,MAAM,CAAC,IAAI,OAAO,KAAK,CAAC;AACxF;AAEA,SAAS,UAAU,SAAiB,UAAkB,UAAwB;AAC5E,QAAM,QAAQ,WAAW,QAAQ;AAEjC,MAAI;AACF,iBAAa,UAAU,CAAC,WAAW,UAAU,QAAQ,SAAS,KAAK,CAAC;AAAA,EACtE,SAAS,KAAK;AACZ,QAAI,eAAe,SAAS,YAAY,KAAK;AAC3C,YAAM,SAAU,IAA0E;AAC1F,cAAQ,MAAM,mBAAmB;AACjC,iBAAW,SAAS,QAAQ;AAC1B,gBAAQ,MAAM,KAAK,MAAM,KAAK,KAAK,GAAG,CAAC,KAAK,MAAM,OAAO,EAAE;AAAA,MAC7D;AACA,cAAQ,KAAK,CAAC;AAAA,IAChB;AACA,UAAM;AAAA,EACR;AAEA,UAAQ,IAAI,OAAO,OAAO,MAAM,KAAK,UAAU,KAAK,CAAC,EAAE;AAEvD,MAAI,GAAG,WAAW,KAAK,KAAK,UAAU,qBAAqB,CAAC,GAAG;AAC7D,YAAQ,IAAI,oEAAoE;AAAA,EAClF;AACF;AAGA,SAAS,WAAW,KAAsB;AACxC,MAAI;AACF,WAAO,KAAK,MAAM,GAAG;AAAA,EACvB,QAAQ;AACN,WAAO;AAAA,EACT;AACF;","names":[]}
+{"version":3,"sources":["../src/cli/config.ts"],"sourcesContent":["import fs from 'node:fs';\nimport path from 'node:path';\nimport { loadConfig, updateConfig } from '../config/loader.js';\nimport { withValue } from '../config/updates.js';\nimport { getAtPath } from '../utils/dot-path.js';\n\nconst DAEMON_STATE_FILENAME = 'daemon.json';\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const [subcommand, key, ...rest] = args;\n\n  if (subcommand === 'get') {\n    if (!key) {\n      console.error('Usage: myco config get <dot.path.key>');\n      process.exit(1);\n    }\n    return configGet(key, vaultDir);\n  }\n\n  if (subcommand === 'set') {\n    const value = rest[0];\n    if (!key || value === undefined) {\n      console.error('Usage: myco config set <dot.path.key> <value>');\n      process.exit(1);\n    }\n    return configSet(key, value, vaultDir);\n  }\n\n  console.error('Usage: myco config <get|set> <dot.path.key> [value]');\n  process.exit(1);\n}\n\nfunction configGet(dotPath: string, vaultDir: string): void {\n  const config = loadConfig(vaultDir);\n  const value = getAtPath(config as Record<string, unknown>, dotPath);\n  if (value === undefined) {\n    console.error(`Key not found: ${dotPath}`);\n    process.exit(1);\n  }\n  console.log(typeof value === 'object' ? JSON.stringify(value, null, 2) : String(value));\n}\n\nfunction configSet(dotPath: string, rawValue: string, vaultDir: string): void {\n  const value = parseValue(rawValue);\n\n  try {\n    updateConfig(vaultDir, (config) => withValue(config, dotPath, value));\n  } catch (err) {\n    if (err instanceof Error && 'issues' in err) {\n      const issues = (err as { issues: Array<{ path: (string | number)[]; message: string }> }).issues;\n      console.error('Validation error:');\n      for (const issue of issues) {\n        console.error(`  ${issue.path.join('.')}: ${issue.message}`);\n      }\n      process.exit(1);\n    }\n    throw err;\n  }\n\n  console.log(`Set ${dotPath} = ${JSON.stringify(value)}`);\n\n  if (fs.existsSync(path.join(vaultDir, DAEMON_STATE_FILENAME))) {\n    console.log('Note: restart the daemon for changes to take effect (myco restart)');\n  }\n}\n\n/** Parse a string value as JSON (number, boolean, array, object), falling back to raw string. */\nfunction parseValue(raw: string): unknown {\n  try {\n    return JSON.parse(raw);\n  } catch {\n    return raw;\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;;;;AAAA,OAAO,QAAQ;AACf,OAAO,UAAU;AAKjB,IAAM,wBAAwB;AAE9B,eAAsB,IAAI,MAAgB,UAAiC;AACzE,QAAM,CAAC,YAAY,KAAK,GAAG,IAAI,IAAI;AAEnC,MAAI,eAAe,OAAO;AACxB,QAAI,CAAC,KAAK;AACR,cAAQ,MAAM,uCAAuC;AACrD,cAAQ,KAAK,CAAC;AAAA,IAChB;AACA,WAAO,UAAU,KAAK,QAAQ;AAAA,EAChC;AAEA,MAAI,eAAe,OAAO;AACxB,UAAM,QAAQ,KAAK,CAAC;AACpB,QAAI,CAAC,OAAO,UAAU,QAAW;AAC/B,cAAQ,MAAM,+CAA+C;AAC7D,cAAQ,KAAK,CAAC;AAAA,IAChB;AACA,WAAO,UAAU,KAAK,OAAO,QAAQ;AAAA,EACvC;AAEA,UAAQ,MAAM,qDAAqD;AACnE,UAAQ,KAAK,CAAC;AAChB;AAEA,SAAS,UAAU,SAAiB,UAAwB;AAC1D,QAAM,SAAS,WAAW,QAAQ;AAClC,QAAM,QAAQ,UAAU,QAAmC,OAAO;AAClE,MAAI,UAAU,QAAW;AACvB,YAAQ,MAAM,kBAAkB,OAAO,EAAE;AACzC,YAAQ,KAAK,CAAC;AAAA,EAChB;AACA,UAAQ,IAAI,OAAO,UAAU,WAAW,KAAK,UAAU,OAAO,MAAM,CAAC,IAAI,OAAO,KAAK,CAAC;AACxF;AAEA,SAAS,UAAU,SAAiB,UAAkB,UAAwB;AAC5E,QAAM,QAAQ,WAAW,QAAQ;AAEjC,MAAI;AACF,iBAAa,UAAU,CAAC,WAAW,UAAU,QAAQ,SAAS,KAAK,CAAC;AAAA,EACtE,SAAS,KAAK;AACZ,QAAI,eAAe,SAAS,YAAY,KAAK;AAC3C,YAAM,SAAU,IAA0E;AAC1F,cAAQ,MAAM,mBAAmB;AACjC,iBAAW,SAAS,QAAQ;AAC1B,gBAAQ,MAAM,KAAK,MAAM,KAAK,KAAK,GAAG,CAAC,KAAK,MAAM,OAAO,EAAE;AAAA,MAC7D;AACA,cAAQ,KAAK,CAAC;AAAA,IAChB;AACA,UAAM;AAAA,EACR;AAEA,UAAQ,IAAI,OAAO,OAAO,MAAM,KAAK,UAAU,KAAK,CAAC,EAAE;AAEvD,MAAI,GAAG,WAAW,KAAK,KAAK,UAAU,qBAAqB,CAAC,GAAG;AAC7D,YAAQ,IAAI,oEAAoE;AAAA,EAClF;AACF;AAGA,SAAS,WAAW,KAAsB;AACxC,MAAI;AACF,WAAO,KAAK,MAAM,GAAG;AAAA,EACvB,QAAQ;AACN,WAAO;AAAA,EACT;AACF;","names":[]}

package/dist/{detect-PXNM6TA7.js → detect-7NUD5B5R.js}

@@ -3,7 +3,7 @@ import {
   detectSymbionts,
   loadManifests,
   resolvePackageRoot
-} from "./chunk-NGROSFOH.js";
+} from "./chunk-Z66IT5KL.js";
 import "./chunk-LPUQPDC2.js";
 import "./chunk-6LQIMRTC.js";
 import "./chunk-ODXLRR4U.js";
@@ -14,4 +14,4 @@ export {
   loadManifests,
   resolvePackageRoot
 };
-//# sourceMappingURL=detect-PXNM6TA7.js.map
+//# sourceMappingURL=detect-7NUD5B5R.js.map

package/dist/{detect-providers-5KOPZ7J2.js → detect-providers-ILLQZROY.js}

@@ -1,9 +1,9 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   checkLocalProvider
-} from "./chunk-BPRIYNLE.js";
-import "./chunk-FMRZ26U5.js";
-import "./chunk-FLLBJLHM.js";
+} from "./chunk-TKAJ3JVF.js";
+import "./chunk-X3IGT5RV.js";
+import "./chunk-6C6QZ4PM.js";
 import "./chunk-UUHLLQXO.js";
 import "./chunk-PZUWP5VK.js";
 
@@ -23,4 +23,4 @@ async function run(_args) {
 export {
   run
 };
-//# sourceMappingURL=detect-providers-5KOPZ7J2.js.map
+//# sourceMappingURL=detect-providers-ILLQZROY.js.map

package/dist/{doctor-5JXJ36KA.js → doctor-HJCWHAU4.js}

@@ -1,18 +1,21 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   isProcessAlive
-} from "./chunk-KESLPBKV.js";
+} from "./chunk-QDLVIW2O.js";
 import "./chunk-SAKJMNSR.js";
 import {
-  MYCO_MCP_SERVER_NAME
-} from "./chunk-Q36VMZST.js";
-import "./chunk-FMRZ26U5.js";
-import "./chunk-OD4AA7PV.js";
+  MYCO_MCP_SERVER_NAME,
+  isMycoHookGroup
+} from "./chunk-OTQH5KZW.js";
+import "./chunk-X3IGT5RV.js";
+import "./chunk-53RPGOEN.js";
+import "./chunk-OUJSQSKE.js";
+import "./chunk-POEPHBQK.js";
 import "./chunk-MYX5NCRH.js";
-import "./chunk-VVNL26WX.js";
-import "./chunk-XG5RRUYF.js";
+import "./chunk-KTTSXYEK.js";
+import "./chunk-ENZR5NG7.js";
 import "./chunk-LPUQPDC2.js";
-import "./chunk-FLLBJLHM.js";
+import "./chunk-6C6QZ4PM.js";
 import "./chunk-UUHLLQXO.js";
 import "./chunk-6LQIMRTC.js";
 import "./chunk-ODXLRR4U.js";
@@ -27,13 +30,14 @@ var DAEMON_STATE_FILENAME = "daemon.json";
 var DB_FILENAME = "myco.db";
 var NAME_COL_WIDTH = 17;
 var CONTINUATION_INDENT = " ".repeat(NAME_COL_WIDTH);
+var MYCO_PLUGIN_FILE_MARKER = "myco:plugin-marker";
 async function checkVault(vaultDir) {
   const configPath = path.join(vaultDir, CONFIG_FILENAME);
   if (!fs.existsSync(configPath)) {
     return { check: { name: "Vault", status: "fail", detail: `${CONFIG_FILENAME} not found in ${vaultDir}`, fixable: false }, config: null };
   }
   try {
-    const { loadMergedConfig } = await import("./loader-CQYTFHEW.js");
+    const { loadMergedConfig } = await import("./loader-LX7TFRM6.js");
     const config = loadMergedConfig(vaultDir);
     return { check: { name: "Vault", status: "ok", detail: `.myco/ (v${config.version})`, fixable: false }, config };
   } catch (err) {
@@ -72,7 +76,7 @@ async function checkIntelligence(config) {
       return { name: "Intelligence", status: "ok", detail: `${label} (SDK handles auth)`, fixable: false };
     }
     if (provider.type === "ollama" || provider.type === "lmstudio") {
-      const { checkLocalProvider } = await import("./provider-check-43LAMSMH.js");
+      const { checkLocalProvider } = await import("./provider-check-ZEV5P4KM.js");
       const status = await checkLocalProvider(provider.type, provider.base_url);
       if (!status.available) {
         return { name: "Intelligence", status: "warn", detail: `${label} (not reachable)`, fixable: false };
@@ -86,7 +90,7 @@ async function checkIntelligence(config) {
 }
 async function checkEmbeddings(config) {
   try {
-    const { createEmbeddingProvider } = await import("./llm-TH4NLIRM.js");
+    const { createEmbeddingProvider } = await import("./llm-AGVEF5XD.js");
     const provider = createEmbeddingProvider(config.embedding);
     const available = await provider.isAvailable();
     const label = `${config.embedding.provider} / ${config.embedding.model}`;
@@ -100,8 +104,8 @@ async function checkEmbeddings(config) {
 }
 async function checkAgents(vaultDir, config) {
   try {
-    const { detectSymbionts } = await import("./detect-PXNM6TA7.js");
-    const { getEnabledSymbiontNames } = await import("./loader-CQYTFHEW.js");
+    const { detectSymbionts } = await import("./detect-7NUD5B5R.js");
+    const { getEnabledSymbiontNames } = await import("./loader-LX7TFRM6.js");
     const projectRoot = path.dirname(vaultDir);
     const detected = detectSymbionts(projectRoot);
     const enabledNames = config ? getEnabledSymbiontNames(config) : null;
@@ -151,9 +155,18 @@ async function checkAgents(vaultDir, config) {
   }
 }
 function isSymbiontRegistered(d, projectRoot) {
+  const registration = d.manifest.registration;
+  if (!registration) return false;
+  if (registration.mcpTarget) {
+    return isMcpRegistered(d, projectRoot, registration.mcpTarget);
+  }
+  if (registration.hooksTarget) {
+    return isHooksRegistered(d, projectRoot, registration.hooksTarget);
+  }
+  return false;
+}
+function isMcpRegistered(d, projectRoot, mcpTarget) {
   try {
-    const mcpTarget = d.manifest.registration?.mcpTarget;
-    if (!mcpTarget) return false;
     const mcpFile = path.join(projectRoot, mcpTarget);
     const raw = fs.readFileSync(mcpFile, "utf-8");
     if (mcpTarget.endsWith(".toml")) {
@@ -167,6 +180,25 @@ function isSymbiontRegistered(d, projectRoot) {
   }
   return false;
 }
+function isHooksRegistered(d, projectRoot, hooksTarget) {
+  try {
+    const hooksFile = path.join(projectRoot, hooksTarget);
+    const raw = fs.readFileSync(hooksFile, "utf-8");
+    if (d.manifest.registration?.hooksFormat === "plugin-file") {
+      return raw.includes(MYCO_PLUGIN_FILE_MARKER);
+    }
+    const config = JSON.parse(raw);
+    const hooks = config.hooks;
+    if (!hooks) return false;
+    return Object.values(hooks).some(
+      (groups) => Array.isArray(groups) && groups.some(
+        (group) => typeof group === "object" && group !== null && isMycoHookGroup(group)
+      )
+    );
+  } catch {
+  }
+  return false;
+}
 async function checkDaemon(vaultDir) {
   const daemonFile = path.join(vaultDir, DAEMON_STATE_FILENAME);
   if (!fs.existsSync(daemonFile)) {
@@ -272,7 +304,8 @@ async function run(args, vaultDir) {
 }
 export {
   fix,
+  isSymbiontRegistered,
   run,
   runChecks
 };
-//# sourceMappingURL=doctor-5JXJ36KA.js.map
+//# sourceMappingURL=doctor-HJCWHAU4.js.map

package/dist/doctor-HJCWHAU4.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/cli/doctor.ts"],"sourcesContent":["/**\n * CLI: myco doctor — check vault health and auto-repair fixable issues.\n *\n * Runs a series of health checks against the vault directory and reports\n * status. With --fix, attempts to repair issues it can handle automatically.\n */\n\nimport fs from 'node:fs';\nimport path from 'node:path';\nimport { isProcessAlive } from './shared.js';\nimport { MYCO_MCP_SERVER_NAME } from '../symbionts/installer.js';\nimport { isMycoHookGroup } from '../symbionts/install-helpers.js';\n\n// --- Named constants (no magic literals) ---\n\n\n/** Filename of the vault config file. */\nconst CONFIG_FILENAME = 'myco.yaml';\n\n/** Filename of the daemon state file. */\nconst DAEMON_STATE_FILENAME = 'daemon.json';\n\n/** Filename of the SQLite database. */\nconst DB_FILENAME = 'myco.db';\n\n/** Column width for the check name in output. */\nconst NAME_COL_WIDTH = 17;\n\n/** Prefix for indented continuation lines (e.g. multi-line agent output). */\nconst CONTINUATION_INDENT = ' '.repeat(NAME_COL_WIDTH);\n\n/** Marker embedded in Myco-managed plugin-file hook targets (Pi, opencode). */\nconst MYCO_PLUGIN_FILE_MARKER = 'myco:plugin-marker';\n\n// --- Types ---\n\nexport interface DoctorCheck {\n  name: string;\n  status: 'ok' | 'fail' | 'warn';\n  detail: string;\n  fixable: boolean;\n}\n\n// --- Checks ---\n\n/** Check that myco.yaml exists and parses. Returns the parsed config on success. */\nasync function checkVault(vaultDir: string): Promise<{ check: DoctorCheck; config: import('../config/schema.js').MycoConfig | null }> {\n  const configPath = path.join(vaultDir, CONFIG_FILENAME);\n  if (!fs.existsSync(configPath)) {\n    return { check: { name: 'Vault', status: 'fail', detail: `${CONFIG_FILENAME} not found in ${vaultDir}`, fixable: false }, config: null };\n  }\n  try {\n    const { loadMergedConfig } = await import('../config/loader.js');\n    const config = loadMergedConfig(vaultDir);\n    return { check: { name: 'Vault', status: 'ok', detail: `.myco/ (v${config.version})`, fixable: false }, config };\n  } catch (err) {\n    return { check: { name: 'Vault', status: 'fail', detail: `${CONFIG_FILENAME} parse error: ${(err as Error).message}`, fixable: false }, config: null };\n  }\n}\n\n/** Check that the SQLite database exists and can be queried. */\nasync function checkDatabase(vaultDir: string): Promise<DoctorCheck> {\n  const dbPath = path.join(vaultDir, DB_FILENAME);\n  if (!fs.existsSync(dbPath)) {\n    return { name: 'Database', status: 'fail', detail: `${DB_FILENAME} not found — run \\`myco init\\``, fixable: false };\n  }\n  try {\n    const { initDatabase, closeDatabase, vaultDbPath } = await import('../db/client.js');\n    const db = initDatabase(vaultDbPath(vaultDir));\n    const row = db.prepare('SELECT count(*) AS cnt FROM sessions').get() as { cnt: number } | undefined;\n    const count = row?.cnt ?? 0;\n    closeDatabase();\n    return { name: 'Database', status: 'ok', detail: `${DB_FILENAME} (${count.toLocaleString()} sessions)`, fixable: false };\n  } catch (err) {\n    // Ensure DB is closed even on error\n    try { const { closeDatabase } = await import('../db/client.js'); closeDatabase(); } catch { /* ignore */ }\n    return { name: 'Database', status: 'fail', detail: `Database error: ${(err as Error).message}`, fixable: false };\n  }\n}\n\n/** Check that the intelligence (agent) provider is configured. */\nasync function checkIntelligence(config: import('../config/schema.js').MycoConfig): Promise<DoctorCheck> {\n  try {\n    const provider = config.agent.provider;\n\n    if (!provider) {\n      return { name: 'Intelligence', status: 'warn', detail: 'No agent provider configured — run `myco init` to set up', fixable: false };\n    }\n\n    const label = `${provider.type}${provider.model ? ` / ${provider.model}` : ''}`;\n\n    if (provider.type === 'anthropic') {\n      return { name: 'Intelligence', status: 'ok', detail: `${label} (SDK handles auth)`, fixable: false };\n    }\n\n    // Local provider — check reachability\n    if (provider.type === 'ollama' || provider.type === 'lmstudio') {\n      const { checkLocalProvider } = await import('../intelligence/provider-check.js');\n      const status = await checkLocalProvider(provider.type, provider.base_url);\n      if (!status.available) {\n        return { name: 'Intelligence', status: 'warn', detail: `${label} (not reachable)`, fixable: false };\n      }\n      return { name: 'Intelligence', status: 'ok', detail: label, fixable: false };\n    }\n\n    return { name: 'Intelligence', status: 'ok', detail: label, fixable: false };\n  } catch (err) {\n    return { name: 'Intelligence', status: 'fail', detail: `Intelligence check failed: ${(err as Error).message}`, fixable: false };\n  }\n}\n\n/** Check that the embedding provider is configured and reachable. */\nasync function checkEmbeddings(config: import('../config/schema.js').MycoConfig): Promise<DoctorCheck> {\n  try {\n    const { createEmbeddingProvider } = await import('../intelligence/llm.js');\n    const provider = createEmbeddingProvider(config.embedding);\n    const available = await provider.isAvailable();\n    const label = `${config.embedding.provider} / ${config.embedding.model}`;\n    if (available) {\n      return { name: 'Embeddings', status: 'ok', detail: label, fixable: false };\n    }\n    return { name: 'Embeddings', status: 'warn', detail: `${label} (not reachable)`, fixable: false };\n  } catch (err) {\n    return { name: 'Embeddings', status: 'fail', detail: `Embedding check failed: ${(err as Error).message}`, fixable: false };\n  }\n}\n\n/** Check symbiont detection and registration status. */\nasync function checkAgents(vaultDir: string, config: import('../config/schema.js').MycoConfig | null): Promise<DoctorCheck[]> {\n  try {\n    const { detectSymbionts } = await import('../symbionts/detect.js');\n    const { getEnabledSymbiontNames } = await import('../config/loader.js');\n    const projectRoot = path.dirname(vaultDir);\n    const detected = detectSymbionts(projectRoot);\n\n    const enabledNames = config ? getEnabledSymbiontNames(config) : null;\n\n    if (detected.length === 0 && !enabledNames) {\n      return [{ name: 'Agents', status: 'warn', detail: 'No symbionts detected', fixable: false }];\n    }\n\n    const checks: DoctorCheck[] = [];\n    for (const d of detected) {\n      const registered = isSymbiontRegistered(d, projectRoot);\n      const enabled = enabledNames ? enabledNames.has(d.manifest.name) : registered;\n\n      if (enabled && registered) {\n        checks.push({\n          name: checks.length === 0 ? 'Agents' : '',\n          status: 'ok',\n          detail: `${d.manifest.displayName} (enabled, registered)`,\n          fixable: false,\n        });\n      } else if (enabled && !registered) {\n        checks.push({\n          name: checks.length === 0 ? 'Agents' : '',\n          status: 'warn',\n          detail: `${d.manifest.displayName} (enabled but not registered — run \\`myco update\\`)`,\n          fixable: false,\n        });\n      } else if (!enabled && registered) {\n        checks.push({\n          name: checks.length === 0 ? 'Agents' : '',\n          status: 'warn',\n          detail: `${d.manifest.displayName} (registered but not enabled — run \\`myco remove --symbiont ${d.manifest.name}\\`)`,\n          fixable: false,\n        });\n      } else {\n        // Detected but neither enabled nor registered\n        checks.push({\n          name: checks.length === 0 ? 'Agents' : '',\n          status: 'ok',\n          detail: `${d.manifest.displayName} (detected, not enabled)`,\n          fixable: false,\n        });\n      }\n    }\n\n    if (checks.length === 0) {\n      return [{ name: 'Agents', status: 'warn', detail: 'No symbionts detected or enabled', fixable: false }];\n    }\n\n    return checks;\n  } catch (err) {\n    return [{ name: 'Agents', status: 'fail', detail: `Agent check failed: ${(err as Error).message}`, fixable: false }];\n  }\n}\n\n/** Check if a symbiont has Myco registration artifacts installed. */\nexport function isSymbiontRegistered(\n  d: import('../symbionts/detect.js').DetectedSymbiont,\n  projectRoot: string,\n): boolean {\n  const registration = d.manifest.registration;\n  if (!registration) return false;\n\n  // Most symbionts have native MCP registration. For agents like Pi and\n  // Windsurf that intentionally omit mcpTarget, treat their hook/plugin\n  // registration as the source of truth instead of forcing a false warning.\n  if (registration.mcpTarget) {\n    return isMcpRegistered(d, projectRoot, registration.mcpTarget);\n  }\n  if (registration.hooksTarget) {\n    return isHooksRegistered(d, projectRoot, registration.hooksTarget);\n  }\n  return false;\n}\n\nfunction isMcpRegistered(\n  d: import('../symbionts/detect.js').DetectedSymbiont,\n  projectRoot: string,\n  mcpTarget: string,\n): boolean {\n  try {\n    const mcpFile = path.join(projectRoot, mcpTarget);\n    const raw = fs.readFileSync(mcpFile, 'utf-8');\n\n    // TOML: check for section header\n    if (mcpTarget.endsWith('.toml')) {\n      return raw.includes(`[mcp_servers.${MYCO_MCP_SERVER_NAME}]`);\n    }\n\n    // JSON: check for server entry under the configured key (defaults to 'mcpServers').\n    // opencode uses 'mcp' — without the manifest lookup, doctor reports opencode as\n    // unregistered even after a successful install.\n    const config = JSON.parse(raw) as Record<string, unknown>;\n    const serversKey = d.manifest.registration?.mcpServersKey ?? 'mcpServers';\n    const servers = config[serversKey] as Record<string, unknown> | undefined;\n    return !!servers?.[MYCO_MCP_SERVER_NAME];\n  } catch { /* config missing or malformed */ }\n  return false;\n}\n\nfunction isHooksRegistered(\n  d: import('../symbionts/detect.js').DetectedSymbiont,\n  projectRoot: string,\n  hooksTarget: string,\n): boolean {\n  try {\n    const hooksFile = path.join(projectRoot, hooksTarget);\n    const raw = fs.readFileSync(hooksFile, 'utf-8');\n\n    if (d.manifest.registration?.hooksFormat === 'plugin-file') {\n      return raw.includes(MYCO_PLUGIN_FILE_MARKER);\n    }\n\n    const config = JSON.parse(raw) as Record<string, unknown>;\n    const hooks = config.hooks as Record<string, unknown[]> | undefined;\n    if (!hooks) return false;\n\n    return Object.values(hooks).some((groups) =>\n      Array.isArray(groups) &&\n      groups.some((group) =>\n        typeof group === 'object' &&\n        group !== null &&\n        isMycoHookGroup(group as Record<string, unknown>),\n      ),\n    );\n  } catch { /* config missing or malformed */ }\n  return false;\n}\n\n/** Check the daemon state file and process liveness. */\nasync function checkDaemon(vaultDir: string): Promise<DoctorCheck> {\n  const daemonFile = path.join(vaultDir, DAEMON_STATE_FILENAME);\n  if (!fs.existsSync(daemonFile)) {\n    return { name: 'Daemon', status: 'warn', detail: 'Not running (no daemon.json)', fixable: false };\n  }\n  try {\n    const state = JSON.parse(fs.readFileSync(daemonFile, 'utf-8')) as { pid?: number; port?: number };\n    if (!state.pid) {\n      return { name: 'Daemon', status: 'warn', detail: 'daemon.json exists but no PID', fixable: true };\n    }\n    if (isProcessAlive(state.pid)) {\n      return { name: 'Daemon', status: 'ok', detail: `PID ${state.pid}, port ${state.port ?? 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Returns descriptions of actions taken. */\nexport async function fix(vaultDir: string, checks: DoctorCheck[]): Promise<string[]> {\n  const actions: string[] = [];\n\n  for (const check of checks) {\n    if (!check.fixable || check.status === 'ok') continue;\n\n    // Fix stale daemon.json\n    if (check.name === 'Daemon' && check.detail.includes('Stale')) {\n      const daemonFile = path.join(vaultDir, DAEMON_STATE_FILENAME);\n      fs.unlinkSync(daemonFile);\n      actions.push('Removed stale daemon.json');\n    }\n\n    // Fix malformed daemon.json\n    if (check.name === 'Daemon' && check.detail.includes('parse error')) {\n      const daemonFile = path.join(vaultDir, DAEMON_STATE_FILENAME);\n      fs.unlinkSync(daemonFile);\n      actions.push('Removed malformed daemon.json');\n    }\n\n    // Advise on database issues\n    if (check.name === 'Database' && check.status === 'fail') {\n      actions.push('Run `myco init` to initialize the database');\n    }\n  }\n\n  return actions;\n}\n\n// --- Output formatting ---\n\n/** Status label width (visible characters). */\nconst STATUS_COL_WIDTH = 6;\n\nconst STATUS_LABELS: Record<DoctorCheck['status'], { text: string; color: string }> = {\n  ok: { text: 'ok', color: '\\x1b[32m' },\n  fail: { text: 'FAIL', color: '\\x1b[31m' },\n  warn: { text: '!!', color: '\\x1b[33m' },\n};\n\nfunction formatCheck(check: DoctorCheck): string {\n  const name = check.name ? check.name.padEnd(NAME_COL_WIDTH) : CONTINUATION_INDENT;\n  const { text, color } = STATUS_LABELS[check.status];\n  const paddedText = text.padEnd(STATUS_COL_WIDTH);\n  return `  ${name}${color}${paddedText}\\x1b[0m${check.detail}`;\n}\n\n// --- CLI entry point ---\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const shouldFix = args.includes('--fix');\n\n  console.log('\\nmyco doctor\\n');\n\n  const checks = await runChecks(vaultDir);\n\n  for (const check of checks) {\n    console.log(formatCheck(check));\n  }\n\n  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package/dist/executor-DO6QFC6G.js

@@ -0,0 +1,45 @@
+import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
+import {
+  cleanupOnTaskFailure,
+  composePhasePrompt,
+  composeTaskPrompt,
+  computeWaves,
+  finalizeOnTaskSuccess,
+  resolvePhaseExecution,
+  runAgent
+} from "./chunk-X2IRGXGF.js";
+import "./chunk-QATYARI5.js";
+import "./chunk-QLLBJEM7.js";
+import "./chunk-USVFEWYL.js";
+import "./chunk-AUIXX33A.js";
+import "./chunk-LQIPXVDH.js";
+import "./chunk-FCJ5JV54.js";
+import "./chunk-U5EW2VIQ.js";
+import "./chunk-CISWUP5W.js";
+import "./chunk-X3IGT5RV.js";
+import "./chunk-N7Z3LUEZ.js";
+import "./chunk-RQSJLWP4.js";
+import "./chunk-EEOJWLMP.js";
+import "./chunk-DTWUHHFI.js";
+import "./chunk-53RPGOEN.js";
+import "./chunk-OUJSQSKE.js";
+import "./chunk-POEPHBQK.js";
+import "./chunk-MYX5NCRH.js";
+import "./chunk-ENZR5NG7.js";
+import "./chunk-LPUQPDC2.js";
+import "./chunk-6C6QZ4PM.js";
+import "./chunk-UUHLLQXO.js";
+import "./chunk-6LQIMRTC.js";
+import "./chunk-ODXLRR4U.js";
+import "./chunk-U6PF3YII.js";
+import "./chunk-PZUWP5VK.js";
+export {
+  cleanupOnTaskFailure,
+  composePhasePrompt,
+  composeTaskPrompt,
+  computeWaves,
+  finalizeOnTaskSuccess,
+  resolvePhaseExecution,
+  runAgent
+};
+//# sourceMappingURL=executor-DO6QFC6G.js.map