@goondocks/myco 0.16.2 → 0.17.1

package/dist/{chunk-TIAYBVSI.js → chunk-VVGZL2HX.js}

@@ -209,9 +209,8 @@ function writeOrDeleteJsonFile(filePath, data) {
 import fs2 from "fs";
 import path2 from "path";
 var MYCO_HOOK_COMMAND_PREFIX = "myco-run";
-var MYCO_HOOK_GUARD_PREFIX = "node .agents/myco-hook.cjs";
 function isMycoHookCommand(command) {
-  return command.startsWith(MYCO_HOOK_COMMAND_PREFIX) || command.startsWith(MYCO_HOOK_GUARD_PREFIX);
+  return command.startsWith(MYCO_HOOK_COMMAND_PREFIX) || command.includes(".agents/myco-hook.cjs");
 }
 function isMycoHookGroup(group) {
   if (Array.isArray(group.hooks) && group.hooks.some((h) => h.command && isMycoHookCommand(h.command))) return true;
@@ -257,6 +256,8 @@ var HOOK_GUARD_PROJECT_PATH = `.agents/${HOOK_GUARD_INSTALLED_FILENAME}`;
 var SKILLS_SUBDIR = "skills";
 var CANONICAL_SKILLS_DIR = ".agents/skills";
 var MYCO_MCP_SERVER_NAME = "myco";
+var MYCO_PLUGIN_FILE_MARKER = "myco:plugin-marker";
+var HOOKS_FORMAT_PLUGIN_FILE = "plugin-file";
 var INSTRUCTIONS_STUB_MARKER = "Edit AGENTS.md, not this file";
 var INSTRUCTIONS_REF_START = "<!-- myco:agents-ref:start -->";
 var INSTRUCTIONS_REF_END = "<!-- myco:agents-ref:end -->";
@@ -271,6 +272,39 @@ var SymbiontInstaller = class {
     this.projectRoot = projectRoot;
     this.packageRoot = packageRoot;
   }
+  /**
+   * Read a template file as raw text, checking both source and dist layouts.
+   * `relPath` is relative to `TEMPLATES_SUBDIR` — e.g. `'hook-guard.cjs'` for
+   * a shared template or `'opencode/plugin.ts'` for a per-agent template.
+   */
+  readTemplateFile(relPath) {
+    const candidates = [
+      path3.join(this.packageRoot, TEMPLATES_SUBDIR, relPath),
+      // tsup preserves the src/ prefix under dist/, so the same subdir works in both layouts
+      path3.join(this.packageRoot, "dist", TEMPLATES_SUBDIR, relPath)
+    ];
+    for (const filePath of candidates) {
+      try {
+        return fs3.readFileSync(filePath, "utf-8");
+      } catch {
+      }
+    }
+    return null;
+  }
+  /**
+   * Write a Myco-managed file with a content-diff gate. Creates parent dirs as
+   * needed. Returns `true` if the file was written (new or updated), `false` if
+   * the on-disk content already matches and the write was skipped.
+   */
+  writeManagedFile(absPath, content) {
+    try {
+      if (fs3.readFileSync(absPath, "utf-8") === content) return false;
+    } catch {
+    }
+    fs3.mkdirSync(path3.dirname(absPath), { recursive: true });
+    fs3.writeFileSync(absPath, content, "utf-8");
+    return true;
+  }
   /**
    * Copy the hook-guard script into .agents/myco-hook.cjs.
    * Returns true if the file was written (or updated); false if skipped or N/A.
@@ -278,16 +312,12 @@ var SymbiontInstaller = class {
   installHookGuard() {
     const reg = this.manifest.registration;
     if (!reg?.hooksTarget) return false;
-    const guardTemplate = this.loadHookGuardTemplate();
+    const guardTemplate = this.readTemplateFile(HOOK_GUARD_TEMPLATE_FILENAME);
     if (!guardTemplate) return false;
-    const targetPath = path3.join(this.projectRoot, HOOK_GUARD_PROJECT_PATH);
-    try {
-      if (fs3.readFileSync(targetPath, "utf-8") === guardTemplate) return false;
-    } catch {
-    }
-    fs3.mkdirSync(path3.dirname(targetPath), { recursive: true });
-    fs3.writeFileSync(targetPath, guardTemplate, "utf-8");
-    return true;
+    return this.writeManagedFile(
+      path3.join(this.projectRoot, HOOK_GUARD_PROJECT_PATH),
+      guardTemplate
+    );
   }
   /**
    * Remove the hook-guard script from .agents/myco-hook.cjs.
@@ -304,34 +334,23 @@ var SymbiontInstaller = class {
       return false;
     }
   }
-  /** Load the hook-guard template from package root. */
-  loadHookGuardTemplate() {
-    const candidates = [
-      path3.join(this.packageRoot, TEMPLATES_SUBDIR, HOOK_GUARD_TEMPLATE_FILENAME),
-      path3.join(this.packageRoot, "dist", TEMPLATES_SUBDIR, HOOK_GUARD_TEMPLATE_FILENAME)
-    ];
-    for (const p of candidates) {
-      try {
-        return fs3.readFileSync(p, "utf-8");
-      } catch {
-      }
-    }
-    return null;
-  }
   /** Load a JSON template file for this symbiont. Returns null if not found. */
   loadTemplate(name) {
-    const candidates = [
-      path3.join(this.packageRoot, TEMPLATES_SUBDIR, this.manifest.name, `${name}.json`),
-      // tsup preserves the src/ prefix under dist/, so the same subdir works in both layouts
-      path3.join(this.packageRoot, "dist", TEMPLATES_SUBDIR, this.manifest.name, `${name}.json`)
-    ];
-    for (const filePath of candidates) {
-      try {
-        return JSON.parse(fs3.readFileSync(filePath, "utf-8"));
-      } catch {
-      }
+    const raw = this.readTemplateFile(path3.join(this.manifest.name, `${name}.json`));
+    if (raw === null) return null;
+    try {
+      return JSON.parse(raw);
+    } catch {
+      return null;
     }
-    return null;
+  }
+  /**
+   * Load a template file verbatim (no JSON parsing).
+   * Used for plugin-file hook templates (e.g., opencode's plugin.ts) and any
+   * other template that is copied to the project without structural merging.
+   */
+  loadTemplateRaw(filename) {
+    return this.readTemplateFile(path3.join(this.manifest.name, filename));
   }
   /** Run all registration steps. */
   install() {
@@ -342,7 +361,8 @@ var SymbiontInstaller = class {
       mcp: this.installMcp(),
       skills: this.installSkills(),
       settings: this.installSettings(),
-      instructions: this.installInstructions()
+      instructions: this.installInstructions(),
+      pluginPackage: this.installPluginPackage()
     };
     this.updateGitignore();
     return result;
@@ -351,6 +371,9 @@ var SymbiontInstaller = class {
    * Check if ALL non-null JSON targets share the same file (e.g., Gemini).
    * Only batches when every target resolves to one path — partial overlaps
    * (e.g., Claude Code: hooks+settings share but MCP is separate) use normal path.
+   *
+   * Plugin-file hooks (e.g., opencode) naturally fall out of batching because their
+   * hooksTarget is a distinct .ts file path, yielding a Set size ≥ 2.
    */
   shouldBatchJsonTargets(reg) {
     if (!reg) return false;
@@ -383,11 +406,12 @@ var SymbiontInstaller = class {
     }
     const mcpTemplate = reg.mcpTarget ? this.loadTemplate("mcp") : null;
     if (mcpTemplate) {
-      const servers = data.mcpServers ?? {};
+      const serversKey = reg.mcpServersKey ?? "mcpServers";
+      const servers = data[serversKey] ?? {};
       for (const [name, def] of Object.entries(mcpTemplate)) {
         servers[name] = def;
       }
-      data.mcpServers = servers;
+      data[serversKey] = servers;
       mcp = true;
     }
     const settingsTemplate = reg.settingsTarget ? this.loadTemplate("settings") : null;
@@ -401,7 +425,8 @@ var SymbiontInstaller = class {
       mcp,
       skills: this.installSkills(),
       settings,
-      instructions: this.installInstructions()
+      instructions: this.installInstructions(),
+      pluginPackage: this.installPluginPackage()
     };
   }
   /** Remove all Myco registration from this symbiont's project files. */
@@ -412,7 +437,8 @@ var SymbiontInstaller = class {
       mcp: this.uninstallMcp(),
       skills: this.uninstallSkills(),
       settings: this.uninstallSettings(),
-      instructions: this.uninstallInstructions()
+      instructions: this.uninstallInstructions(),
+      pluginPackage: false
     };
     this.uninstallHookGuard();
     this.cleanGitignore();
@@ -425,7 +451,14 @@ var SymbiontInstaller = class {
     const targetPath = path3.join(this.projectRoot, reg.hooksTarget ?? reg.mcpTarget ?? reg.settingsTarget);
     const data = readJsonFile(targetPath);
     if (Object.keys(data).length === 0) {
-      return { hooks: false, mcp: false, skills: this.uninstallSkills(), settings: false, instructions: this.uninstallInstructions() };
+      return {
+        hooks: false,
+        mcp: false,
+        skills: this.uninstallSkills(),
+        settings: false,
+        instructions: this.uninstallInstructions(),
+        pluginPackage: false
+      };
     }
     let hooks = false, mcp = false, settings = false;
     if (reg.hooksTarget) {
@@ -445,11 +478,12 @@ var SymbiontInstaller = class {
       }
     }
     if (reg.mcpTarget) {
-      const servers = data.mcpServers ?? {};
+      const serversKey = reg.mcpServersKey ?? "mcpServers";
+      const servers = data[serversKey] ?? {};
       if (servers[MYCO_MCP_SERVER_NAME]) {
         delete servers[MYCO_MCP_SERVER_NAME];
-        if (Object.keys(servers).length === 0) delete data.mcpServers;
-        else data.mcpServers = servers;
+        if (Object.keys(servers).length === 0) delete data[serversKey];
+        else data[serversKey] = servers;
         mcp = true;
       }
     }
@@ -458,7 +492,14 @@ var SymbiontInstaller = class {
       settings = deepRemoveSettings(data, settingsTemplate);
     }
     writeOrDeleteJsonFile(targetPath, data);
-    return { hooks, mcp, skills: this.uninstallSkills(), settings, instructions: this.uninstallInstructions() };
+    return {
+      hooks,
+      mcp,
+      skills: this.uninstallSkills(),
+      settings,
+      instructions: this.uninstallInstructions(),
+      pluginPackage: false
+    };
   }
   /**
    * Ensure the instruction file references AGENTS.md.
@@ -599,10 +640,14 @@ ${desired.join("\n")}
   /**
    * Merge hooks template into the target settings file.
    * Replaces all Myco-owned hook groups; preserves non-Myco hooks.
+   *
+   * For plugin-file agents (e.g., opencode) this dispatches to `installPluginHookFile()`
+   * which writes a verbatim .ts plugin source to hooksTarget instead of merging JSON.
    */
   installHooks() {
     const reg = this.manifest.registration;
     if (!reg?.hooksTarget) return false;
+    if (reg.hooksFormat === HOOKS_FORMAT_PLUGIN_FILE) return this.installPluginHookFile();
     const template = this.loadTemplate("hooks");
     if (!template) return false;
     const targetPath = path3.join(this.projectRoot, reg.hooksTarget);
@@ -624,6 +669,62 @@ ${desired.join("\n")}
     writeJsonFile(targetPath, settings);
     return true;
   }
+  /**
+   * Install a plugin-file hook target by copying a verbatim template.
+   * Used for agents whose hook system is plugin-based rather than JSON entry-based
+   * (e.g., opencode's TypeScript plugin system).
+   */
+  installPluginHookFile() {
+    const reg = this.manifest.registration;
+    if (!reg?.hooksTarget) return false;
+    const templateContent = this.loadTemplateRaw("plugin.ts");
+    if (templateContent === null) return false;
+    return this.writeManagedFile(
+      path3.join(this.projectRoot, reg.hooksTarget),
+      templateContent
+    );
+  }
+  /**
+   * Remove a plugin-file hook target.
+   * Only deletes files whose content contains the Myco plugin marker — contributors
+   * who hand-edit the plugin file without removing the marker are protected.
+   */
+  uninstallPluginHookFile() {
+    const reg = this.manifest.registration;
+    if (!reg?.hooksTarget) return false;
+    const targetPath = path3.join(this.projectRoot, reg.hooksTarget);
+    let content;
+    try {
+      content = fs3.readFileSync(targetPath, "utf-8");
+    } catch {
+      return false;
+    }
+    if (!content.includes(MYCO_PLUGIN_FILE_MARKER)) return false;
+    try {
+      fs3.unlinkSync(targetPath);
+      try {
+        fs3.rmdirSync(path3.dirname(targetPath));
+      } catch {
+      }
+      return true;
+    } catch {
+      return false;
+    }
+  }
+  /**
+   * Install a plugin deps package.json for plugin-file agents (e.g., opencode).
+   * Writes the template verbatim so the agent's package manager can install the SDK.
+   */
+  installPluginPackage() {
+    const reg = this.manifest.registration;
+    if (!reg?.pluginPackageTarget) return false;
+    const templateContent = this.loadTemplateRaw("package.json");
+    if (templateContent === null) return false;
+    return this.writeManagedFile(
+      path3.join(this.projectRoot, reg.pluginPackageTarget),
+      templateContent
+    );
+  }
   /**
    * Merge MCP server template into the target config file.
    * Replaces the `myco` server entry; preserves other servers.
@@ -634,20 +735,26 @@ ${desired.join("\n")}
     const template = this.loadTemplate("mcp");
     if (!template) return false;
     const targetPath = path3.join(this.projectRoot, reg.mcpTarget);
-    const mcpFormat = reg.mcpFormat ?? "json";
-    if (mcpFormat === "toml") {
+    if (reg.mcpFormat === "toml") {
       return this.installMcpToml(targetPath, template);
     }
     return this.installMcpJson(targetPath, template);
   }
-  /** Write MCP servers to a JSON config file. */
+  /**
+   * Write MCP servers to a JSON config file under the manifest-configured key.
+   * Most agents use the canonical `mcpServers` key; opencode uses `mcp`.
+   *
+   * The `?? 'mcpServers'` fallback protects against test fixtures that construct
+   * manifests as plain object literals and bypass the schema's default.
+   */
   installMcpJson(targetPath, template) {
+    const serversKey = this.manifest.registration.mcpServersKey ?? "mcpServers";
     const config = readJsonFile(targetPath);
-    const servers = config.mcpServers ?? {};
+    const servers = config[serversKey] ?? {};
     for (const [name, def] of Object.entries(template)) {
       servers[name] = def;
     }
-    config.mcpServers = servers;
+    config[serversKey] = servers;
     writeJsonFile(targetPath, config);
     return true;
   }
@@ -795,10 +902,16 @@ ${desired.join("\n")}
     }
     return true;
   }
-  /** Remove Myco hook groups from the target settings file. */
+  /**
+   * Remove Myco hook groups from the target settings file.
+   *
+   * For plugin-file agents (e.g., opencode) this dispatches to `uninstallPluginHookFile()`
+   * which deletes the verbatim plugin file (guarded by the Myco plugin marker).
+   */
   uninstallHooks() {
     const reg = this.manifest.registration;
     if (!reg?.hooksTarget) return false;
+    if (reg.hooksFormat === HOOKS_FORMAT_PLUGIN_FILE) return this.uninstallPluginHookFile();
     const targetPath = path3.join(this.projectRoot, reg.hooksTarget);
     const settings = readJsonFile(targetPath);
     const existingHooks = settings.hooks ?? {};
@@ -825,21 +938,21 @@ ${desired.join("\n")}
     const reg = this.manifest.registration;
     if (!reg?.mcpTarget) return false;
     const targetPath = path3.join(this.projectRoot, reg.mcpTarget);
-    const mcpFormat = reg.mcpFormat ?? "json";
-    if (mcpFormat === "toml") {
+    if (reg.mcpFormat === "toml") {
       return this.uninstallMcpToml(targetPath);
     }
     return this.uninstallMcpJson(targetPath);
   }
   uninstallMcpJson(targetPath) {
+    const serversKey = this.manifest.registration.mcpServersKey ?? "mcpServers";
     const config = readJsonFile(targetPath);
-    const servers = config.mcpServers ?? {};
+    const servers = config[serversKey] ?? {};
     if (!servers[MYCO_MCP_SERVER_NAME]) return false;
     delete servers[MYCO_MCP_SERVER_NAME];
     if (Object.keys(servers).length === 0) {
-      delete config.mcpServers;
+      delete config[serversKey];
     } else {
-      config.mcpServers = servers;
+      config[serversKey] = servers;
     }
     writeOrDeleteJsonFile(targetPath, config);
     return true;
@@ -989,4 +1102,4 @@ export {
   SymbiontInstaller,
   syncSkillSymlinks
 };
-//# sourceMappingURL=chunk-TIAYBVSI.js.map
+//# sourceMappingURL=chunk-VVGZL2HX.js.map

package/dist/chunk-VVGZL2HX.js.map

@@ -0,0 +1 @@
+{"version":3,"sources":["../src/symbionts/installer.ts","../src/symbionts/toml-helpers.ts","../src/symbionts/settings-merge.ts","../src/symbionts/json-helpers.ts","../src/symbionts/install-helpers.ts"],"sourcesContent":["import type { SymbiontManifest } from './manifest-schema.js';\nimport fs from 'node:fs';\nimport path from 'node:path';\nimport { findTomlSectionEnd, buildTomlMcpSection, upsertTomlSection, removeTomlSectionKeys } from './toml-helpers.js';\nimport { deepMergeSettings, deepRemoveSettings } from './settings-merge.js';\nimport { readJsonFile, writeJsonFile, writeOrDeleteJsonFile } from './json-helpers.js';\nimport { ensureAgentsMd, ensureSymlink, isMycoHookGroup } from './install-helpers.js';\n\n/** Current comment header for Myco-managed .gitignore block. */\nconst GITIGNORE_COMMENT = '# Myco managed (machine-specific)';\n\n/** Legacy comment header — recognized for cleanup during reconciliation. */\nconst GITIGNORE_SKILLS_COMMENT_LEGACY = '# Myco skill symlinks (machine-specific)';\n\n/** Wrangler cache directory created by team sync operations. */\nconst WRANGLER_CACHE_DIR = '.wrangler/';\n\n/** Subdirectory within the package where symbiont templates live. */\nconst TEMPLATES_SUBDIR = 'src/symbionts/templates';\n\n/** Filename of the hook guard template in the templates directory. */\nconst HOOK_GUARD_TEMPLATE_FILENAME = 'hook-guard.cjs';\n\n/** Filename when installed into the project .agents/ directory. */\nconst HOOK_GUARD_INSTALLED_FILENAME = 'myco-hook.cjs';\n\n/** Project-relative path where the hook guard is installed. */\nconst HOOK_GUARD_PROJECT_PATH = `.agents/${HOOK_GUARD_INSTALLED_FILENAME}`;\n\n/** Subdirectory within the package where skills live. */\nconst SKILLS_SUBDIR = 'skills';\n\n/** Canonical cross-agent skills directory. */\nconst CANONICAL_SKILLS_DIR = '.agents/skills';\n\n/** MCP server name used by Myco in all symbiont configurations. */\nexport const MYCO_MCP_SERVER_NAME = 'myco';\n\n/**\n * Marker substring written into plugin-file hook templates (e.g., opencode's plugin.ts).\n * Uninstall only deletes plugin files whose content contains this marker, so\n * contributors who hand-edit a plugin file without removing the marker are protected.\n */\nconst MYCO_PLUGIN_FILE_MARKER = 'myco:plugin-marker';\n\n/** `hooksFormat` value selecting verbatim plugin-file install over JSON merge. */\nconst HOOKS_FORMAT_PLUGIN_FILE = 'plugin-file';\n\n/** Marker text used to identify unmodified instruction stubs. */\nconst INSTRUCTIONS_STUB_MARKER = 'Edit AGENTS.md, not this file';\n\n/** Start/end markers for the reference block prepended to existing instruction files. */\nconst INSTRUCTIONS_REF_START = '<!-- myco:agents-ref:start -->';\nconst INSTRUCTIONS_REF_END = '<!-- myco:agents-ref:end -->';\n\n/** Reference block prepended to existing instruction files. */\nconst INSTRUCTIONS_REF_BLOCK = `${INSTRUCTIONS_REF_START}\n> **Project intelligence:** This project uses [Myco](https://myco.sh). The canonical project rules are in [\\`AGENTS.md\\`](AGENTS.md) — read and follow it alongside this file.\n${INSTRUCTIONS_REF_END}\n\n`;\n\nexport interface InstallResult {\n  hooks: boolean;\n  mcp: boolean;\n  skills: boolean;\n  settings: boolean;\n  instructions: boolean;\n  /**\n   * Plugin deps package.json (e.g., .opencode/package.json). Only present for agents\n   * with `registration.pluginPackageTarget` set. False otherwise.\n   */\n  pluginPackage: boolean;\n}\n\nexport class SymbiontInstaller {\n  constructor(\n    private manifest: SymbiontManifest,\n    private projectRoot: string,\n    private packageRoot: string,\n  ) {}\n\n  /**\n   * Read a template file as raw text, checking both source and dist layouts.\n   * `relPath` is relative to `TEMPLATES_SUBDIR` — e.g. `'hook-guard.cjs'` for\n   * a shared template or `'opencode/plugin.ts'` for a per-agent template.\n   */\n  private readTemplateFile(relPath: string): string | null {\n    const candidates = [\n      path.join(this.packageRoot, TEMPLATES_SUBDIR, relPath),\n      // tsup preserves the src/ prefix under dist/, so the same subdir works in both layouts\n      path.join(this.packageRoot, 'dist', TEMPLATES_SUBDIR, relPath),\n    ];\n    for (const filePath of candidates) {\n      try { return fs.readFileSync(filePath, 'utf-8'); } catch { /* try next */ }\n    }\n    return null;\n  }\n\n  /**\n   * Write a Myco-managed file with a content-diff gate. Creates parent dirs as\n   * needed. Returns `true` if the file was written (new or updated), `false` if\n   * the on-disk content already matches and the write was skipped.\n   */\n  private writeManagedFile(absPath: string, content: string): boolean {\n    try {\n      if (fs.readFileSync(absPath, 'utf-8') === content) return false;\n    } catch { /* doesn't exist — proceed */ }\n    fs.mkdirSync(path.dirname(absPath), { recursive: true });\n    fs.writeFileSync(absPath, content, 'utf-8');\n    return true;\n  }\n\n  /**\n   * Copy the hook-guard script into .agents/myco-hook.cjs.\n   * Returns true if the file was written (or updated); false if skipped or N/A.\n   */\n  installHookGuard(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.hooksTarget) return false;\n\n    const guardTemplate = this.readTemplateFile(HOOK_GUARD_TEMPLATE_FILENAME);\n    if (!guardTemplate) return false;\n\n    return this.writeManagedFile(\n      path.join(this.projectRoot, HOOK_GUARD_PROJECT_PATH),\n      guardTemplate,\n    );\n  }\n\n  /**\n   * Remove the hook-guard script from .agents/myco-hook.cjs.\n   * Returns true if the file was removed; false otherwise.\n   */\n  uninstallHookGuard(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.hooksTarget) return false;\n\n    const targetPath = path.join(this.projectRoot, HOOK_GUARD_PROJECT_PATH);\n    try {\n      fs.unlinkSync(targetPath);\n      return true;\n    } catch {\n      return false;\n    }\n  }\n\n  /** Load a JSON template file for this symbiont. Returns null if not found. */\n  loadTemplate(name: string): Record<string, unknown> | null {\n    const raw = this.readTemplateFile(path.join(this.manifest.name, `${name}.json`));\n    if (raw === null) return null;\n    try { return JSON.parse(raw); } catch { return null; }\n  }\n\n  /**\n   * Load a template file verbatim (no JSON parsing).\n   * Used for plugin-file hook templates (e.g., opencode's plugin.ts) and any\n   * other template that is copied to the project without structural merging.\n   */\n  loadTemplateRaw(filename: string): string | null {\n    return this.readTemplateFile(path.join(this.manifest.name, filename));\n  }\n\n  /** Run all registration steps. */\n  install(): InstallResult {\n    const reg = this.manifest.registration;\n    // Install hook guard before hooks so the guard script is in place when hooks reference it\n    this.installHookGuard();\n    const result = this.shouldBatchJsonTargets(reg)\n      ? this.installBatchedJson(reg!)\n      : {\n          hooks: this.installHooks(),\n          mcp: this.installMcp(),\n          skills: this.installSkills(),\n          settings: this.installSettings(),\n          instructions: this.installInstructions(),\n          pluginPackage: this.installPluginPackage(),\n        };\n    this.updateGitignore();\n    return result;\n  }\n\n  /**\n   * Check if ALL non-null JSON targets share the same file (e.g., Gemini).\n   * Only batches when every target resolves to one path — partial overlaps\n   * (e.g., Claude Code: hooks+settings share but MCP is separate) use normal path.\n   *\n   * Plugin-file hooks (e.g., opencode) naturally fall out of batching because their\n   * hooksTarget is a distinct .ts file path, yielding a Set size ≥ 2.\n   */\n  private shouldBatchJsonTargets(reg: typeof this.manifest.registration): boolean {\n    if (!reg) return false;\n    const mcpFormat = reg.mcpFormat ?? 'json';\n    if (mcpFormat !== 'json') return false;\n    const targets = [reg.hooksTarget, reg.mcpTarget, reg.settingsTarget].filter(Boolean);\n    return targets.length > 1 && new Set(targets).size === 1;\n  }\n\n  /**\n   * Batched install for agents where hooks, MCP, and settings share one JSON file.\n   * Single read → apply all transforms in memory → single write.\n   */\n  private installBatchedJson(reg: NonNullable<typeof this.manifest.registration>): InstallResult {\n    const targetPath = path.join(this.projectRoot, reg.hooksTarget ?? reg.mcpTarget ?? reg.settingsTarget!);\n    let data = readJsonFile(targetPath);\n    let hooks = false, mcp = false, settings = false;\n\n    // Apply hooks transform\n    const hooksTemplate = reg.hooksTarget ? this.loadTemplate('hooks') : null;\n    if (hooksTemplate) {\n      const existingHooks = (data.hooks ?? {}) as Record<string, unknown[]>;\n      const mergedHooks: Record<string, unknown[]> = {};\n      for (const [event, groups] of Object.entries(existingHooks)) {\n        const nonMyco = (groups as Array<Record<string, unknown>>).filter((g) => !isMycoHookGroup(g));\n        if (nonMyco.length > 0) mergedHooks[event] = nonMyco;\n      }\n      for (const [event, groups] of Object.entries(hooksTemplate)) {\n        mergedHooks[event] = [...(mergedHooks[event] ?? []), ...(groups as unknown[])];\n      }\n      data.hooks = mergedHooks;\n      hooks = true;\n    }\n\n    // Apply MCP transform\n    const mcpTemplate = reg.mcpTarget ? this.loadTemplate('mcp') : null;\n    if (mcpTemplate) {\n      const serversKey = reg.mcpServersKey ?? 'mcpServers';\n      const servers = (data[serversKey] ?? {}) as Record<string, unknown>;\n      for (const [name, def] of Object.entries(mcpTemplate)) {\n        servers[name] = def;\n      }\n      data[serversKey] = servers;\n      mcp = true;\n    }\n\n    // Apply settings transform\n    const settingsTemplate = reg.settingsTarget ? this.loadTemplate('settings') : null;\n    if (settingsTemplate) {\n      data = deepMergeSettings(data, settingsTemplate);\n      settings = true;\n    }\n\n    writeJsonFile(targetPath, data);\n\n    return {\n      hooks,\n      mcp,\n      skills: this.installSkills(),\n      settings,\n      instructions: this.installInstructions(),\n      pluginPackage: this.installPluginPackage(),\n    };\n  }\n\n  /** Remove all Myco registration from this symbiont's project files. */\n  uninstall(): InstallResult {\n    const reg = this.manifest.registration;\n    const result = this.shouldBatchJsonTargets(reg)\n      ? this.uninstallBatchedJson(reg!)\n      : {\n          hooks: this.uninstallHooks(),\n          mcp: this.uninstallMcp(),\n          skills: this.uninstallSkills(),\n          settings: this.uninstallSettings(),\n          instructions: this.uninstallInstructions(),\n          pluginPackage: false,\n        };\n    // Remove hook guard after hooks/settings so the file is cleaned up last\n    this.uninstallHookGuard();\n    this.cleanGitignore();\n    return result;\n  }\n\n  /**\n   * Batched uninstall for agents where hooks, MCP, and settings share one JSON file.\n   */\n  private uninstallBatchedJson(reg: NonNullable<typeof this.manifest.registration>): InstallResult {\n    const targetPath = path.join(this.projectRoot, reg.hooksTarget ?? reg.mcpTarget ?? reg.settingsTarget!);\n    const data = readJsonFile(targetPath);\n    if (Object.keys(data).length === 0) {\n      return {\n        hooks: false,\n        mcp: false,\n        skills: this.uninstallSkills(),\n        settings: false,\n        instructions: this.uninstallInstructions(),\n        pluginPackage: false,\n      };\n    }\n\n    let hooks = false, mcp = false, settings = false;\n\n    // Remove hooks\n    if (reg.hooksTarget) {\n      const existingHooks = (data.hooks ?? {}) as Record<string, unknown[]>;\n      if (Object.keys(existingHooks).length > 0) {\n        const cleaned: Record<string, unknown[]> = {};\n        for (const [event, groups] of Object.entries(existingHooks)) {\n          const nonMyco = (groups as Array<Record<string, unknown>>).filter((g) => !isMycoHookGroup(g));\n          if (nonMyco.length > 0) cleaned[event] = nonMyco;\n        }\n        if (Object.keys(cleaned).length === 0) {\n          delete data.hooks;\n        } else {\n          data.hooks = cleaned;\n        }\n        hooks = true;\n      }\n    }\n\n    // Remove MCP\n    if (reg.mcpTarget) {\n      const serversKey = reg.mcpServersKey ?? 'mcpServers';\n      const servers = (data[serversKey] ?? {}) as Record<string, unknown>;\n      if (servers[MYCO_MCP_SERVER_NAME]) {\n        delete servers[MYCO_MCP_SERVER_NAME];\n        if (Object.keys(servers).length === 0) delete data[serversKey];\n        else data[serversKey] = servers;\n        mcp = true;\n      }\n    }\n\n    // Remove settings\n    const settingsTemplate = reg.settingsTarget ? this.loadTemplate('settings') : null;\n    if (settingsTemplate) {\n      settings = deepRemoveSettings(data, settingsTemplate);\n    }\n\n    writeOrDeleteJsonFile(targetPath, data);\n\n    return {\n      hooks,\n      mcp,\n      skills: this.uninstallSkills(),\n      settings,\n      instructions: this.uninstallInstructions(),\n      pluginPackage: false,\n    };\n  }\n\n  /**\n   * Ensure the instruction file references AGENTS.md.\n   * - File doesn't exist: write the full stub template.\n   * - File exists without reference: prepend a reference block.\n   * - File already has reference: skip (idempotent).\n   *\n   * Also ensures AGENTS.md exists — creates a starter if missing.\n   */\n  installInstructions(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.instructionsFile) return false;\n\n    // Ensure AGENTS.md exists before creating stubs that reference it\n    ensureAgentsMd(this.projectRoot, this.packageRoot);\n\n    const targetPath = path.join(this.projectRoot, reg.instructionsFile);\n\n    // Check if file already exists\n    let existing: string | null = null;\n    try { existing = fs.readFileSync(targetPath, 'utf-8'); } catch { /* doesn't exist */ }\n\n    if (existing !== null) {\n      // File exists — check if it already has our reference\n      if (existing.includes(INSTRUCTIONS_REF_START) || existing.includes(INSTRUCTIONS_STUB_MARKER)) {\n        return false; // Already has reference — idempotent\n      }\n      // Prepend reference block to existing content\n      fs.writeFileSync(targetPath, INSTRUCTIONS_REF_BLOCK + existing, 'utf-8');\n      return true;\n    }\n\n    // File doesn't exist — write the full stub template\n    const templateCandidates = [\n      path.join(this.packageRoot, 'src/symbionts/templates/instructions-stub.md'),\n      path.join(this.packageRoot, 'dist/src/symbionts/templates/instructions-stub.md'),\n    ];\n    let stub: string | null = null;\n    for (const p of templateCandidates) {\n      try { stub = fs.readFileSync(p, 'utf-8'); break; } catch { /* try next */ }\n    }\n    if (!stub) return false;\n\n    stub = stub.replace('{agentDisplayName}', this.manifest.displayName);\n    fs.mkdirSync(path.dirname(targetPath), { recursive: true });\n    fs.writeFileSync(targetPath, stub, 'utf-8');\n    return true;\n  }\n\n  /**\n   * Remove Myco's instruction file reference.\n   * - If file is the full stub (only Myco content): delete it.\n   * - If file has user content + prepended reference: remove just the reference block.\n   */\n  uninstallInstructions(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.instructionsFile) return false;\n\n    const targetPath = path.join(this.projectRoot, reg.instructionsFile);\n    let content: string;\n    try { content = fs.readFileSync(targetPath, 'utf-8'); } catch { return false; }\n\n    // Case 1: Full stub — delete the file entirely\n    if (content.includes(INSTRUCTIONS_STUB_MARKER)) {\n      fs.unlinkSync(targetPath);\n      return true;\n    }\n\n    // Case 2: Prepended reference block — remove just the block\n    if (content.includes(INSTRUCTIONS_REF_START)) {\n      const startIdx = content.indexOf(INSTRUCTIONS_REF_START);\n      const endIdx = content.indexOf(INSTRUCTIONS_REF_END);\n      if (endIdx > startIdx) {\n        // Remove from start marker through end marker + trailing whitespace\n        const afterEnd = endIdx + INSTRUCTIONS_REF_END.length;\n        const cleaned = (content.slice(0, startIdx) + content.slice(afterEnd)).replace(/^\\n+/, '');\n        fs.writeFileSync(targetPath, cleaned, 'utf-8');\n        return true;\n      }\n    }\n\n    return false;\n  }\n\n  /** List skill directory names from the package root. Returns empty array if not found. */\n  private listSkillDirs(): string[] {\n    try {\n      return fs.readdirSync(path.join(this.packageRoot, SKILLS_SUBDIR), { withFileTypes: true })\n        .filter((d) => d.isDirectory())\n        .map((d) => d.name);\n    } catch { return []; }\n  }\n\n  /**\n   * Reconcile Myco-owned skill entries in project .gitignore.\n   * Computes the desired entry set, strips any existing Myco block\n   * (and legacy entries), then writes the current block if changed.\n   */\n  private updateGitignore(): void {\n    const reg = this.manifest.registration;\n    if (!reg?.skillsTarget) return;\n\n    const skillNames = this.listSkillDirs();\n\n    // Desired state: canonical per-skill entries + infrastructure artifacts.\n    // Agent-specific targets (e.g. .claude/skills/) use local .gitignore files\n    // instead of polluting the project-level .gitignore.\n    const desired = [\n      ...skillNames.map((name) => `${CANONICAL_SKILLS_DIR}/${name}`),\n      WRANGLER_CACHE_DIR,\n    ];\n\n    const gitignorePath = path.join(this.projectRoot, '.gitignore');\n    let content = '';\n    try { content = fs.readFileSync(gitignorePath, 'utf-8'); } catch { /* doesn't exist yet */ }\n\n    // Strip existing Myco block and any legacy entries\n    const stripped = this.stripMycoGitignoreBlock(content, skillNames);\n\n    // Build the new block\n    const desiredBlock = desired.length > 0\n      ? `${GITIGNORE_COMMENT}\\n${desired.join('\\n')}\\n`\n      : '';\n\n    // Check if anything changed\n    if (stripped === content && desiredBlock === '') return;\n    const separator = stripped.length > 0 && !stripped.endsWith('\\n') ? '\\n' : '';\n    const spacer = stripped.length > 0 && desiredBlock.length > 0 ? '\\n' : '';\n    const result = stripped + separator + spacer + desiredBlock;\n    if (result === content) return;\n\n    fs.writeFileSync(gitignorePath, result, 'utf-8');\n  }\n\n  /**\n   * Remove all Myco-owned gitignore entries: the comment header, per-skill\n   * entries for both canonical and agent-specific paths, and legacy blanket\n   * directory entries. Returns the cleaned content.\n   */\n  private stripMycoGitignoreBlock(content: string, skillNames: string[]): string {\n    const reg = this.manifest.registration;\n    const ownedLines = new Set<string>([\n      GITIGNORE_COMMENT,\n      GITIGNORE_SKILLS_COMMENT_LEGACY,\n      `${CANONICAL_SKILLS_DIR}/`, // legacy blanket entry\n      WRANGLER_CACHE_DIR,\n    ]);\n    for (const name of skillNames) {\n      ownedLines.add(`${CANONICAL_SKILLS_DIR}/${name}`);\n      if (reg?.skillsTarget && reg.skillsTarget !== CANONICAL_SKILLS_DIR) {\n        ownedLines.add(`${reg.skillsTarget}/${name}`);\n      }\n    }\n\n    const lines = content.split('\\n');\n    const filtered = lines.filter((line) => !ownedLines.has(line));\n    return filtered.join('\\n').replace(/\\n{3,}/g, '\\n\\n').trimEnd() + (filtered.length > 0 ? '\\n' : '');\n  }\n\n  /**\n   * Merge hooks template into the target settings file.\n   * Replaces all Myco-owned hook groups; preserves non-Myco hooks.\n   *\n   * For plugin-file agents (e.g., opencode) this dispatches to `installPluginHookFile()`\n   * which writes a verbatim .ts plugin source to hooksTarget instead of merging JSON.\n   */\n  installHooks(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.hooksTarget) return false;\n\n    if (reg.hooksFormat === HOOKS_FORMAT_PLUGIN_FILE) return this.installPluginHookFile();\n\n    const template = this.loadTemplate('hooks');\n    if (!template) return false;\n\n    const targetPath = path.join(this.projectRoot, reg.hooksTarget);\n    const settings = readJsonFile(targetPath);\n    const existingHooks = (settings.hooks ?? {}) as Record<string, unknown[]>;\n\n    // Build merged hooks: for each event, keep non-Myco groups + add template groups\n    const mergedHooks: Record<string, unknown[]> = {};\n\n    // Preserve non-Myco hooks from existing config\n    for (const [event, groups] of Object.entries(existingHooks)) {\n      const nonMycoGroups = (groups as Array<Record<string, unknown>>).filter(\n        (group) => !isMycoHookGroup(group),\n      );\n      if (nonMycoGroups.length > 0) {\n        mergedHooks[event] = nonMycoGroups;\n      }\n    }\n\n    // Add template hooks\n    for (const [event, groups] of Object.entries(template)) {\n      mergedHooks[event] = [...(mergedHooks[event] ?? []), ...(groups as unknown[])];\n    }\n\n    settings.hooks = mergedHooks;\n    writeJsonFile(targetPath, settings);\n    return true;\n  }\n\n  /**\n   * Install a plugin-file hook target by copying a verbatim template.\n   * Used for agents whose hook system is plugin-based rather than JSON entry-based\n   * (e.g., opencode's TypeScript plugin system).\n   */\n  private installPluginHookFile(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.hooksTarget) return false;\n\n    const templateContent = this.loadTemplateRaw('plugin.ts');\n    if (templateContent === null) return false;\n\n    return this.writeManagedFile(\n      path.join(this.projectRoot, reg.hooksTarget),\n      templateContent,\n    );\n  }\n\n  /**\n   * Remove a plugin-file hook target.\n   * Only deletes files whose content contains the Myco plugin marker — contributors\n   * who hand-edit the plugin file without removing the marker are protected.\n   */\n  private uninstallPluginHookFile(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.hooksTarget) return false;\n\n    const targetPath = path.join(this.projectRoot, reg.hooksTarget);\n    let content: string;\n    try { content = fs.readFileSync(targetPath, 'utf-8'); } catch { return false; }\n\n    if (!content.includes(MYCO_PLUGIN_FILE_MARKER)) return false;\n\n    try {\n      fs.unlinkSync(targetPath);\n      // Remove parent plugins dir if now empty\n      try { fs.rmdirSync(path.dirname(targetPath)); } catch { /* not empty or missing */ }\n      return true;\n    } catch {\n      return false;\n    }\n  }\n\n  /**\n   * Install a plugin deps package.json for plugin-file agents (e.g., opencode).\n   * Writes the template verbatim so the agent's package manager can install the SDK.\n   */\n  private installPluginPackage(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.pluginPackageTarget) return false;\n\n    const templateContent = this.loadTemplateRaw('package.json');\n    if (templateContent === null) return false;\n\n    return this.writeManagedFile(\n      path.join(this.projectRoot, reg.pluginPackageTarget),\n      templateContent,\n    );\n  }\n\n  /**\n   * Merge MCP server template into the target config file.\n   * Replaces the `myco` server entry; preserves other servers.\n   */\n  installMcp(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.mcpTarget) return false;\n\n    const template = this.loadTemplate('mcp');\n    if (!template) return false;\n\n    const targetPath = path.join(this.projectRoot, reg.mcpTarget);\n    if (reg.mcpFormat === 'toml') {\n      return this.installMcpToml(targetPath, template);\n    }\n    return this.installMcpJson(targetPath, template);\n  }\n\n  /**\n   * Write MCP servers to a JSON config file under the manifest-configured key.\n   * Most agents use the canonical `mcpServers` key; opencode uses `mcp`.\n   *\n   * The `?? 'mcpServers'` fallback protects against test fixtures that construct\n   * manifests as plain object literals and bypass the schema's default.\n   */\n  private installMcpJson(targetPath: string, template: Record<string, unknown>): boolean {\n    const serversKey = this.manifest.registration!.mcpServersKey ?? 'mcpServers';\n    const config = readJsonFile(targetPath);\n    const servers = (config[serversKey] ?? {}) as Record<string, unknown>;\n\n    for (const [name, def] of Object.entries(template)) {\n      servers[name] = def;\n    }\n\n    config[serversKey] = servers;\n    writeJsonFile(targetPath, config);\n    return true;\n  }\n\n  /** Write MCP servers to a TOML config file. */\n  private installMcpToml(targetPath: string, template: Record<string, unknown>): boolean {\n    let raw = '';\n    try { raw = fs.readFileSync(targetPath, 'utf-8'); } catch { /* doesn't exist */ }\n\n    for (const [name, def] of Object.entries(template)) {\n      raw = buildTomlMcpSection(raw, name, def as Record<string, unknown>);\n    }\n\n    fs.mkdirSync(path.dirname(targetPath), { recursive: true });\n    fs.writeFileSync(targetPath, raw, 'utf-8');\n    return true;\n  }\n\n  /**\n   * Create symlinks for skills through .agents/skills/ canonical layer.\n   * Canonical: .agents/skills/<name> -> <packageRoot>/skills/<name>\n   * Agent-specific: <skillsTarget>/<name> -> ../../.agents/skills/<name>\n   */\n  installSkills(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.skillsTarget) return false;\n\n    const skillNames = this.listSkillDirs();\n    if (skillNames.length === 0) return false;\n\n    const skillsSrc = path.join(this.packageRoot, SKILLS_SUBDIR);\n\n    // Create canonical symlinks: .agents/skills/<name> -> package skills\n    const canonicalDir = path.join(this.projectRoot, CANONICAL_SKILLS_DIR);\n    fs.mkdirSync(canonicalDir, { recursive: true });\n\n    for (const name of skillNames) {\n      const canonicalLink = path.join(canonicalDir, name);\n      const target = path.join(skillsSrc, name);\n      ensureSymlink(canonicalLink, target);\n    }\n\n    // Create agent-specific symlinks if skillsTarget differs from canonical\n    const agentSkillsDir = path.join(this.projectRoot, reg.skillsTarget);\n    const canonicalRel = path.relative(agentSkillsDir, canonicalDir);\n\n    if (reg.skillsTarget !== CANONICAL_SKILLS_DIR) {\n      fs.mkdirSync(agentSkillsDir, { recursive: true });\n      for (const name of skillNames) {\n        const agentLink = path.join(agentSkillsDir, name);\n        const relTarget = path.join(canonicalRel, name);\n        ensureSymlink(agentLink, relTarget);\n      }\n      ensureLocalSkillsGitignore(agentSkillsDir);\n    }\n\n    return true;\n  }\n\n  /**\n   * Merge settings template into the target settings file.\n   * JSON targets: deep-merges objects and deduplicates arrays.\n   * TOML targets: emits each top-level template key as a [section] with scalar children.\n   */\n  installSettings(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.settingsTarget) return false;\n\n    const template = this.loadTemplate('settings');\n    if (!template) return false;\n\n    const targetPath = path.join(this.projectRoot, reg.settingsTarget);\n    const settingsFormat = reg.settingsFormat ?? 'json';\n\n    if (settingsFormat === 'toml') {\n      return this.installSettingsToml(targetPath, template);\n    }\n\n    const existing = readJsonFile(targetPath);\n    const merged = deepMergeSettings(existing, template);\n    writeJsonFile(targetPath, merged);\n    return true;\n  }\n\n  /**\n   * Merge a settings template into a TOML config file.\n   * Each top-level key in the template becomes a [section] header, with its\n   * children written as scalar key = value lines. Existing sections and keys\n   * outside the template (including unrelated sections like [mcp_servers.*])\n   * are preserved.\n   */\n  private installSettingsToml(targetPath: string, template: Record<string, unknown>): boolean {\n    let raw = '';\n    try { raw = fs.readFileSync(targetPath, 'utf-8'); } catch { /* doesn't exist */ }\n\n    for (const [sectionName, values] of Object.entries(template)) {\n      if (!values || typeof values !== 'object' || Array.isArray(values)) continue;\n      raw = upsertTomlSection(raw, sectionName, values as Record<string, unknown>);\n    }\n\n    fs.mkdirSync(path.dirname(targetPath), { recursive: true });\n    fs.writeFileSync(targetPath, raw, 'utf-8');\n    return true;\n  }\n\n  /**\n   * Remove Myco entries from the target settings file.\n   * Template-driven: loads the settings template and removes matching values.\n   * JSON: arrays filtered by template values, object keys deleted by name.\n   * TOML: removes each template key from its section; empty sections are dropped.\n   */\n  uninstallSettings(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.settingsTarget) return false;\n\n    const template = this.loadTemplate('settings');\n    if (!template) return false;\n\n    const targetPath = path.join(this.projectRoot, reg.settingsTarget);\n    const settingsFormat = reg.settingsFormat ?? 'json';\n\n    if (settingsFormat === 'toml') {\n      return this.uninstallSettingsToml(targetPath, template);\n    }\n\n    const settings = readJsonFile(targetPath);\n    if (Object.keys(settings).length === 0) return false;\n\n    const changed = deepRemoveSettings(settings, template);\n    if (!changed) return false;\n\n    writeOrDeleteJsonFile(targetPath, settings);\n    return true;\n  }\n\n  /**\n   * Remove template-defined keys from TOML settings file.\n   * For each section in the template, deletes only the keys the template owns;\n   * other keys and unrelated sections stay intact. Empty sections are stripped.\n   * Deletes the file entirely if no TOML content remains.\n   */\n  private uninstallSettingsToml(targetPath: string, template: Record<string, unknown>): boolean {\n    let raw = '';\n    try { raw = fs.readFileSync(targetPath, 'utf-8'); } catch { return false; }\n    if (!raw.trim()) return false;\n\n    let changed = false;\n    for (const [sectionName, values] of Object.entries(template)) {\n      if (!values || typeof values !== 'object' || Array.isArray(values)) continue;\n      const keys = Object.keys(values as Record<string, unknown>);\n      const next = removeTomlSectionKeys(raw, sectionName, keys);\n      if (next !== raw) {\n        raw = next;\n        changed = true;\n      }\n    }\n\n    if (!changed) return false;\n\n    if (!raw.trim()) {\n      try { fs.unlinkSync(targetPath); } catch { /* ignore */ }\n    } else {\n      fs.writeFileSync(targetPath, raw, 'utf-8');\n    }\n    return true;\n  }\n\n  /**\n   * Remove Myco hook groups from the target settings file.\n   *\n   * For plugin-file agents (e.g., opencode) this dispatches to `uninstallPluginHookFile()`\n   * which deletes the verbatim plugin file (guarded by the Myco plugin marker).\n   */\n  uninstallHooks(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.hooksTarget) return false;\n\n    if (reg.hooksFormat === HOOKS_FORMAT_PLUGIN_FILE) return this.uninstallPluginHookFile();\n\n    const targetPath = path.join(this.projectRoot, reg.hooksTarget);\n    const settings = readJsonFile(targetPath);\n    const existingHooks = (settings.hooks ?? {}) as Record<string, unknown[]>;\n    if (Object.keys(existingHooks).length === 0) return false;\n\n    const cleaned: Record<string, unknown[]> = {};\n    for (const [event, groups] of Object.entries(existingHooks)) {\n      const nonMyco = (groups as Array<Record<string, unknown>>).filter(\n        (group) => !isMycoHookGroup(group),\n      );\n      if (nonMyco.length > 0) {\n        cleaned[event] = nonMyco;\n      }\n    }\n\n    if (Object.keys(cleaned).length === 0) {\n      delete settings.hooks;\n    } else {\n      settings.hooks = cleaned;\n    }\n\n    writeOrDeleteJsonFile(targetPath, settings);\n    return true;\n  }\n\n  /** Remove Myco MCP server entry from the target config file. */\n  uninstallMcp(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.mcpTarget) return false;\n\n    const targetPath = path.join(this.projectRoot, reg.mcpTarget);\n    if (reg.mcpFormat === 'toml') {\n      return this.uninstallMcpToml(targetPath);\n    }\n    return this.uninstallMcpJson(targetPath);\n  }\n\n  private uninstallMcpJson(targetPath: string): boolean {\n    // Fallback matches the schema default; protects test fixtures that bypass .parse().\n    const serversKey = this.manifest.registration!.mcpServersKey ?? 'mcpServers';\n    const config = readJsonFile(targetPath);\n    const servers = (config[serversKey] ?? {}) as Record<string, unknown>;\n    if (!servers[MYCO_MCP_SERVER_NAME]) return false;\n\n    delete servers[MYCO_MCP_SERVER_NAME];\n\n    if (Object.keys(servers).length === 0) {\n      delete config[serversKey];\n    } else {\n      config[serversKey] = servers;\n    }\n\n    writeOrDeleteJsonFile(targetPath, config);\n    return true;\n  }\n\n  private uninstallMcpToml(targetPath: string): boolean {\n    let raw = '';\n    try { raw = fs.readFileSync(targetPath, 'utf-8'); } catch { return false; }\n\n    const sectionHeader = `[mcp_servers.${MYCO_MCP_SERVER_NAME}]`;\n    if (!raw.includes(sectionHeader)) return false;\n\n    const startIdx = raw.indexOf(sectionHeader);\n    const endIdx = findTomlSectionEnd(raw, startIdx + sectionHeader.length, `mcp_servers.${MYCO_MCP_SERVER_NAME}`);\n    const before = raw.slice(0, startIdx).trimEnd();\n    const after = raw.slice(endIdx).trimStart();\n    const updated = (before + (before && after ? '\\n\\n' : '') + after).trimEnd();\n\n    if (!updated.trim()) {\n      try { fs.unlinkSync(targetPath); } catch { /* ignore */ }\n    } else {\n      fs.writeFileSync(targetPath, updated + '\\n', 'utf-8');\n    }\n    return true;\n  }\n\n  /** Remove skill symlinks (canonical + agent-specific). */\n  uninstallSkills(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.skillsTarget) return false;\n\n    const skillNames = this.listSkillDirs();\n    if (skillNames.length === 0) return false;\n\n    let removed = false;\n\n    // Remove agent-specific symlinks\n    if (reg.skillsTarget !== CANONICAL_SKILLS_DIR) {\n      for (const name of skillNames) {\n        const link = path.join(this.projectRoot, reg.skillsTarget, name);\n        try { fs.unlinkSync(link); removed = true; } catch { /* doesn't exist */ }\n      }\n      // Remove agent skills dir if now empty (rmdirSync fails atomically if non-empty)\n      try { fs.rmdirSync(path.join(this.projectRoot, reg.skillsTarget)); } catch { /* not empty or missing */ }\n    }\n\n    // Remove canonical symlinks\n    const canonicalDir = path.join(this.projectRoot, CANONICAL_SKILLS_DIR);\n    for (const name of skillNames) {\n      const link = path.join(canonicalDir, name);\n      try { fs.unlinkSync(link); removed = true; } catch { /* doesn't exist */ }\n    }\n    // Remove empty dirs (rmdirSync fails atomically if non-empty)\n    try { fs.rmdirSync(canonicalDir); } catch { /* not empty or missing */ }\n    try { fs.rmdirSync(path.join(this.projectRoot, '.agents')); } catch { /* not empty or missing */ }\n\n    return removed;\n  }\n\n  /** Remove Myco entries from project .gitignore. */\n  private cleanGitignore(): void {\n    const gitignorePath = path.join(this.projectRoot, '.gitignore');\n    let content = '';\n    try { content = fs.readFileSync(gitignorePath, 'utf-8'); } catch { return; }\n\n    const cleaned = this.stripMycoGitignoreBlock(content, this.listSkillDirs()).trim();\n    if (cleaned) {\n      fs.writeFileSync(gitignorePath, cleaned + '\\n', 'utf-8');\n    } else {\n      try { fs.unlinkSync(gitignorePath); } catch { /* ignore */ }\n    }\n  }\n}\n\n/**\n * Create agent-specific symlinks for a skill in `.agents/skills/<name>`.\n *\n * Reads all symbiont manifests to find skillsTarget paths that differ\n * from the canonical `.agents/skills/` directory, then creates relative\n * symlinks from each target to the canonical location.\n *\n * Called by vault_write_skill after writing a generated skill to disk.\n * Also handles removal: when `remove` is true, deletes the symlinks.\n */\nexport function syncSkillSymlinks(\n  projectRoot: string,\n  skillName: string,\n  opts?: { remove?: boolean },\n): void {\n  // Resolve manifests dir — try sibling (source layout) then dist layout\n  // (tsup bundles into dist/chunk-*.js, but manifests are at dist/src/symbionts/manifests/)\n  const selfDir = path.dirname(new URL(import.meta.url).pathname);\n  const candidates = [\n    path.join(selfDir, 'manifests'),\n    path.join(selfDir, 'src', 'symbionts', 'manifests'),\n  ];\n  const manifestDir = candidates.find((d) => fs.existsSync(d));\n  if (!manifestDir) return;\n\n  const targets = new Set<string>();\n  for (const file of fs.readdirSync(manifestDir).filter((f) => f.endsWith('.yaml'))) {\n    try {\n      const content = fs.readFileSync(path.join(manifestDir, file), 'utf-8');\n      const match = content.match(/skillsTarget:\\s*(.+)/);\n      if (match) targets.add(match[1].trim());\n    } catch { /* skip unreadable manifests */ }\n  }\n\n  for (const target of targets) {\n    if (target === CANONICAL_SKILLS_DIR) continue; // canonical is the source, not a link target\n\n    const agentSkillsDir = path.join(projectRoot, target);\n    const linkPath = path.join(agentSkillsDir, skillName);\n\n    if (opts?.remove) {\n      try { fs.unlinkSync(linkPath); } catch { /* doesn't exist */ }\n      try { fs.rmdirSync(agentSkillsDir); } catch { /* not empty or missing */ }\n    } else {\n      fs.mkdirSync(agentSkillsDir, { recursive: true });\n      const canonicalDir = path.join(projectRoot, CANONICAL_SKILLS_DIR);\n      const relTarget = path.join(path.relative(agentSkillsDir, canonicalDir), skillName);\n      ensureSymlink(linkPath, relTarget);\n      // Ensure a local .gitignore ignores all symlinks in this directory.\n      // Localized to the agent's skills dir — doesn't pollute the project .gitignore.\n      ensureLocalSkillsGitignore(agentSkillsDir);\n    }\n  }\n}\n\n/** Content for the local .gitignore that ignores Myco-created symlinks. */\nconst LOCAL_SKILLS_GITIGNORE = `# Myco-managed symlinks — generated skills are symlinked here automatically.\n# The canonical location for all skills is .agents/skills/.\n#\n# To add your own skill to this directory, un-ignore it:\n#   !my-skill\n*\n!.gitignore\n`;\n\n/**\n * Write a .gitignore inside an agent's skills directory that ignores all\n * symlinks Myco creates there. Idempotent — skips if already present.\n */\nfunction ensureLocalSkillsGitignore(agentSkillsDir: string): void {\n  const gitignorePath = path.join(agentSkillsDir, '.gitignore');\n  try {\n    if (fs.readFileSync(gitignorePath, 'utf-8') === LOCAL_SKILLS_GITIGNORE) return;\n  } catch { /* doesn't exist — proceed */ }\n  fs.writeFileSync(gitignorePath, LOCAL_SKILLS_GITIGNORE, 'utf-8');\n}\n","/** TOML section header pattern. */\nconst TOML_SECTION_RE = /^\\[([^\\]]+)\\]/;\n\n/**\n * Find where a named TOML section ends.\n *\n * Walks forward from `searchStart` until it hits a section header that is\n * NEITHER the named section itself NOR any of its subtables (headers that\n * start with `${sectionName}.`). Returns `raw.length` if the section extends\n * to the end of the file.\n */\nexport function findTomlSectionEnd(\n  raw: string,\n  searchStart: number,\n  sectionName: string,\n): number {\n  const subsectionPrefix = `${sectionName}.`;\n  const rawLines = raw.slice(searchStart).split('\\n');\n  let offset = searchStart;\n  for (const line of rawLines) {\n    offset += line.length + 1;\n    const m = line.match(TOML_SECTION_RE);\n    if (m && !m[1].startsWith(subsectionPrefix) && m[1] !== sectionName) {\n      return offset - line.length - 1;\n    }\n  }\n  return raw.length;\n}\n\n/** Format a single TOML key = value line from a JS value. Skips unsupported types. */\nfunction formatTomlScalarLine(key: string, val: unknown): string | null {\n  if (typeof val === 'string') return `${key} = \"${val}\"`;\n  if (typeof val === 'boolean') return `${key} = ${val}`;\n  if (typeof val === 'number' && Number.isFinite(val)) return `${key} = ${val}`;\n  if (Array.isArray(val)) {\n    return `${key} = [${val.map((v: unknown) => `\"${v}\"`).join(', ')}]`;\n  }\n  return null;\n}\n\n/**\n * Insert or replace a top-level TOML section with the given scalar key/value pairs.\n *\n * - Scalar values (string, boolean, number, string[]) are written as `key = value`.\n * - Nested objects are ignored — use {@link buildTomlMcpSection} or call\n *   `upsertTomlSection` once per subtable if you need nested tables.\n * - Idempotent: running twice with the same inputs produces identical output.\n * - Preserves content before and after the section.\n */\nexport function upsertTomlSection(\n  raw: string,\n  sectionName: string,\n  values: Record<string, unknown>,\n): string {\n  const sectionHeader = `[${sectionName}]`;\n\n  const lines: string[] = [sectionHeader];\n  for (const [key, val] of Object.entries(values)) {\n    const line = formatTomlScalarLine(key, val);\n    if (line !== null) lines.push(line);\n  }\n  const block = lines.join('\\n');\n\n  if (raw.includes(sectionHeader)) {\n    const startIdx = raw.indexOf(sectionHeader);\n    const endIdx = findTomlSectionEnd(raw, startIdx + sectionHeader.length, sectionName);\n    const before = raw.slice(0, startIdx).trimEnd();\n    const after = raw.slice(endIdx);\n    const separator = before ? '\\n\\n' : '';\n    return (before + separator + block + after).trimEnd() + '\\n';\n  }\n\n  const separator = raw.trim() ? '\\n\\n' : '';\n  return (raw.trimEnd() + separator + block).trimEnd() + '\\n';\n}\n\n/**\n * Remove specific keys from a top-level TOML section.\n *\n * - Only the listed keys are removed. Other keys in the section are preserved.\n * - If the section ends up with no content after removal, the whole section\n *   (header and body) is stripped.\n * - Returns the updated string; equal to the input if no changes were made.\n */\nexport function removeTomlSectionKeys(\n  raw: string,\n  sectionName: string,\n  keys: string[],\n): string {\n  const sectionHeader = `[${sectionName}]`;\n  if (!raw.includes(sectionHeader)) return raw;\n\n  const startIdx = raw.indexOf(sectionHeader);\n  const endIdx = findTomlSectionEnd(raw, startIdx + sectionHeader.length, sectionName);\n  const sectionBody = raw.slice(startIdx + sectionHeader.length, endIdx);\n\n  const keyRes = keys.map((k) => new RegExp(`^\\\\s*${escapeRegExp(k)}\\\\s*=`));\n  const bodyLines = sectionBody.split('\\n');\n  const kept: string[] = [];\n  let removedAny = false;\n  let subtableSeen = false;\n  for (const line of bodyLines) {\n    // Once we hit a subtable header, everything after stays (keys belong to the parent)\n    if (subtableSeen || TOML_SECTION_RE.test(line.trim())) {\n      subtableSeen = true;\n      kept.push(line);\n      continue;\n    }\n    if (keyRes.some((re) => re.test(line))) {\n      removedAny = true;\n      continue;\n    }\n    kept.push(line);\n  }\n  if (!removedAny) return raw;\n\n  // Determine whether the parent section still has any key = value lines.\n  const hasRemainingKeys = kept.some((line) => {\n    const trimmed = line.trim();\n    if (!trimmed || trimmed.startsWith('#')) return false;\n    if (TOML_SECTION_RE.test(trimmed)) return false;\n    return /=/.test(trimmed);\n  });\n\n  const before = raw.slice(0, startIdx).trimEnd();\n  let rebuilt: string;\n  if (hasRemainingKeys) {\n    const newBody = kept.join('\\n');\n    const separator = before ? '\\n\\n' : '';\n    rebuilt = before + separator + sectionHeader + newBody;\n  } else {\n    // Drop the header entirely; keep any trailing subtables we preserved above.\n    const trailing = kept.join('\\n').trimStart();\n    const separator = before && trailing ? '\\n\\n' : '';\n    rebuilt = before + separator + trailing;\n  }\n  return rebuilt.trimEnd() + (rebuilt.trim() ? '\\n' : '');\n}\n\nfunction escapeRegExp(s: string): string {\n  return s.replace(/[.*+?^${}()|[\\]\\\\]/g, '\\\\$&');\n}\n\n/**\n * Build/update a specific mcp_servers entry in a TOML string.\n * Pure transformation — returns updated content without writing to disk.\n *\n * Handles the MCP-specific `env` subtable pattern; for plain sections use\n * {@link upsertTomlSection}.\n */\nexport function buildTomlMcpSection(\n  raw: string,\n  serverName: string,\n  server: Record<string, unknown>,\n): string {\n  const sectionName = `mcp_servers.${serverName}`;\n  const sectionHeader = `[${sectionName}]`;\n\n  // Build the TOML block for this server\n  const lines: string[] = [sectionHeader];\n  for (const [key, val] of Object.entries(server)) {\n    if (key === 'env' && typeof val === 'object' && val !== null) continue; // Handle env as subtable\n    const line = formatTomlScalarLine(key, val);\n    if (line !== null) lines.push(line);\n  }\n\n  // Add env subtable if present\n  const env = server.env as Record<string, string> | undefined;\n  if (env && Object.keys(env).length > 0) {\n    lines.push('');\n    lines.push(`[${sectionName}.env]`);\n    for (const [key, val] of Object.entries(env)) {\n      lines.push(`${key} = \"${val}\"`);\n    }\n  }\n\n  const block = lines.join('\\n');\n\n  let updated: string;\n  if (raw.includes(sectionHeader)) {\n    const startIdx = raw.indexOf(sectionHeader);\n    const endIdx = findTomlSectionEnd(raw, startIdx + sectionHeader.length, sectionName);\n    const before = raw.slice(0, startIdx).trimEnd();\n    const after = raw.slice(endIdx);\n    const separator = before ? '\\n\\n' : '';\n    updated = (before + separator + block + after).trimEnd() + '\\n';\n  } else {\n    // Append new section\n    const separator = raw.trim() ? '\\n\\n' : '';\n    updated = (raw.trimEnd() + separator + block).trimEnd() + '\\n';\n  }\n\n  return updated;\n}\n","/** Deep merge two settings objects. Arrays are appended + deduplicated; objects recurse. */\nexport function deepMergeSettings(\n  target: Record<string, unknown>,\n  source: Record<string, unknown>,\n): Record<string, unknown> {\n  const result = { ...target };\n  for (const [key, sourceVal] of Object.entries(source)) {\n    const targetVal = result[key];\n    if (Array.isArray(sourceVal) && Array.isArray(targetVal)) {\n      result[key] = [...new Set([...targetVal, ...sourceVal])];\n    } else if (isPlainObject(sourceVal) && isPlainObject(targetVal)) {\n      result[key] = deepMergeSettings(\n        targetVal as Record<string, unknown>,\n        sourceVal as Record<string, unknown>,\n      );\n    } else {\n      result[key] = sourceVal;\n    }\n  }\n  return result;\n}\n\nexport function isPlainObject(val: unknown): val is Record<string, unknown> {\n  return typeof val === 'object' && val !== null && !Array.isArray(val);\n}\n\n/**\n * Remove values from target that match the template structure.\n * Arrays: filter out values present in the template array.\n * Objects: delete keys present in the template object, recurse into nested objects.\n * Returns true if anything was removed.\n */\nexport function deepRemoveSettings(\n  target: Record<string, unknown>,\n  template: Record<string, unknown>,\n): boolean {\n  let changed = false;\n  for (const [key, templateVal] of Object.entries(template)) {\n    const targetVal = target[key];\n    if (targetVal === undefined) continue;\n\n    if (Array.isArray(templateVal) && Array.isArray(targetVal)) {\n      // Filter out values that appear in the template array\n      const templateSet = new Set(templateVal.map(String));\n      const filtered = targetVal.filter((v) => !templateSet.has(String(v)));\n      if (filtered.length !== targetVal.length) {\n        if (filtered.length > 0) {\n          target[key] = filtered;\n        } else {\n          delete target[key];\n        }\n        changed = true;\n      }\n    } else if (isPlainObject(templateVal) && isPlainObject(targetVal)) {\n      // Recurse into nested objects, then prune if empty\n      if (deepRemoveSettings(targetVal, templateVal)) {\n        if (Object.keys(targetVal).length === 0) {\n          delete target[key];\n        }\n        changed = true;\n      }\n    } else {\n      // Scalar: delete if value matches\n      if (String(targetVal) === String(templateVal)) {\n        delete target[key];\n        changed = true;\n      }\n    }\n  }\n  return changed;\n}\n","import fs from 'node:fs';\nimport path from 'node:path';\n\nexport function readJsonFile(filePath: string): Record<string, unknown> {\n  try {\n    return JSON.parse(fs.readFileSync(filePath, 'utf-8'));\n  } catch {\n    return {};\n  }\n}\n\nexport function writeJsonFile(filePath: string, data: Record<string, unknown>): void {\n  fs.mkdirSync(path.dirname(filePath), { recursive: true });\n  fs.writeFileSync(filePath, JSON.stringify(data, null, 2) + '\\n', 'utf-8');\n}\n\n/** Write a JSON file, or delete it if the object is empty. */\nexport function writeOrDeleteJsonFile(filePath: string, data: Record<string, unknown>): void {\n  if (Object.keys(data).length === 0) {\n    try { fs.unlinkSync(filePath); } catch { /* ignore */ }\n  } else {\n    writeJsonFile(filePath, data);\n  }\n}\n","import fs from 'node:fs';\nimport path from 'node:path';\n\n/** Prefix used to identify Myco-owned hooks in settings files. */\nconst MYCO_HOOK_COMMAND_PREFIX = 'myco-run';\n\n/** Check if a command string belongs to Myco (old or new guard format). */\nexport function isMycoHookCommand(command: string): boolean {\n  return command.startsWith(MYCO_HOOK_COMMAND_PREFIX) || command.includes('.agents/myco-hook.cjs');\n}\n\n/**\n * Check if a hook group is Myco-owned.\n * Handles both nested format (Claude Code, Codex, etc.) and flat format (Windsurf).\n *\n * Nested: { hooks: [{ command: \"cd \\\"$(git rev-parse ...)\\\" && node .agents/myco-hook.cjs ...\" }] }\n * Flat:   { command: \"cd \\\"$(git rev-parse ...)\\\" && node .agents/myco-hook.cjs ...\" }\n */\nexport function isMycoHookGroup(group: Record<string, unknown>): boolean {\n  // Nested format: { hooks: [{ command: \"...\" }] }\n  if (Array.isArray(group.hooks) && group.hooks.some((h: { command?: string }) => h.command && isMycoHookCommand(h.command))) return true;\n  // Flat format: { command: \"...\" }\n  if (typeof group.command === 'string' && isMycoHookCommand(group.command)) return true;\n  return false;\n}\n\n/**\n * Create a starter AGENTS.md if the project doesn't have one.\n * Idempotent — skips if AGENTS.md already exists.\n */\nexport function ensureAgentsMd(projectRoot: string, packageRoot: string): void {\n  const agentsMdPath = path.join(projectRoot, 'AGENTS.md');\n  if (fs.existsSync(agentsMdPath)) return;\n\n  const candidates = [\n    path.join(packageRoot, 'src/symbionts/templates/agents-starter.md'),\n    path.join(packageRoot, 'dist/src/symbionts/templates/agents-starter.md'),\n  ];\n  for (const p of candidates) {\n    try {\n      const content = fs.readFileSync(p, 'utf-8');\n      fs.writeFileSync(agentsMdPath, content, 'utf-8');\n      return;\n    } catch { /* try next */ }\n  }\n}\n\nexport function ensureSymlink(linkPath: string, target: string): void {\n  try {\n    if (fs.readlinkSync(linkPath) === target) return;\n  } catch { /* does not exist or is not a symlink — proceed */ }\n  try { fs.rmSync(linkPath, { recursive: true, force: true }); } catch { /* ignore */ }\n  fs.symlinkSync(target, 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package/dist/{chunk-BNAYBGPH.js → chunk-XQHL4GMO.js}

@@ -1,11 +1,11 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   SymbiontInstaller
-} from "./chunk-TIAYBVSI.js";
+} from "./chunk-VVGZL2HX.js";
 import {
   LmStudioBackend,
   OllamaBackend
-} from "./chunk-VWXDSDJU.js";
+} from "./chunk-DKSQMH5X.js";
 import {
   closeDatabase,
   initDatabase,
@@ -13,7 +13,7 @@ import {
 } from "./chunk-MYX5NCRH.js";
 import {
   DaemonClient
-} from "./chunk-RJRRHTAA.js";
+} from "./chunk-N6JNOSBQ.js";
 
 // src/cli/shared.ts
 import fs from "fs";
@@ -86,7 +86,8 @@ function registerSymbionts(manifests, projectRoot, packageRoot, verb) {
         result.mcp && "MCP server",
         result.skills && "skills",
         result.settings && "settings",
-        result.instructions && "instructions"
+        result.instructions && "instructions",
+        result.pluginPackage && "plugin deps"
       ].filter(Boolean);
       if (installed.length > 0) {
         console.log(`  \u2713 ${verb} ${manifest.displayName}: ${installed.join(", ")}`);
@@ -109,4 +110,4 @@ export {
   VAULT_GITIGNORE,
   registerSymbionts
 };
-//# sourceMappingURL=chunk-BNAYBGPH.js.map
+//# sourceMappingURL=chunk-XQHL4GMO.js.map

package/dist/{chunk-BNAYBGPH.js.map → chunk-XQHL4GMO.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/cli/shared.ts"],"sourcesContent":["import fs from 'node:fs';\nimport path from 'node:path';\nimport os from 'node:os';\nimport { OllamaBackend } from '../intelligence/ollama.js';\nimport { LmStudioBackend } from '../intelligence/lm-studio.js';\n\nimport { DaemonClient } from '../hooks/client.js';\nimport { initDatabase, closeDatabase, vaultDbPath } from '../db/client.js';\nimport { SymbiontInstaller } from '../symbionts/installer.js';\nimport type { SymbiontManifest } from '../symbionts/manifest-schema.js';\n\nexport { parseStringFlag, parseIntFlag } from '../logs/format.js';\n\n/**\n * Initialize the singleton database for direct CLI reads.\n * Used by CLI commands that only need reads (stats, search, session).\n * Does NOT require the daemon to be running — WAL mode allows concurrent reads.\n *\n * @returns a cleanup function that closes the database.\n */\nexport function initVaultDb(vaultDir: string): () => void {\n  initDatabase(vaultDbPath(vaultDir));\n  return closeDatabase;\n}\n\n/** Connect to the daemon, ensuring it's running. 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