@goondocks/myco 0.19.4 → 0.19.5

package/dist/{agent-run-OGWPNU43.js → agent-run-3IQXE5PI.js}

@@ -1,16 +1,20 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   connectToDaemon
-} from "./chunk-5B2ORGTF.js";
+} from "./chunk-5WPTS6A4.js";
 import "./chunk-SAKJMNSR.js";
-import "./chunk-WYOE4IAX.js";
+import "./chunk-27ZDDWIA.js";
 import "./chunk-PMT2LSTQ.js";
+import "./chunk-UTSCRMJE.js";
 import "./chunk-MYX5NCRH.js";
-import "./chunk-W3P6MHLQ.js";
-import "./chunk-NTWJR6KH.js";
+import "./chunk-2QJCV3UL.js";
+import "./chunk-VH7XYQFL.js";
 import "./chunk-LPUQPDC2.js";
 import "./chunk-I54KLC6H.js";
 import "./chunk-UUHLLQXO.js";
+import "./chunk-6LQIMRTC.js";
+import "./chunk-ODXLRR4U.js";
+import "./chunk-U6PF3YII.js";
 import "./chunk-PZUWP5VK.js";
 
 // src/cli/agent-run.ts
@@ -32,4 +36,4 @@ async function run(args, vaultDir) {
 export {
   run
 };
-//# sourceMappingURL=agent-run-OGWPNU43.js.map
+//# sourceMappingURL=agent-run-3IQXE5PI.js.map

package/dist/{agent-run-OGWPNU43.js.map → agent-run-3IQXE5PI.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/cli/agent-run.ts"],"sourcesContent":["/**\n * CLI `agent` command — trigger an intelligence agent run via daemon API.\n *\n * Routes through the daemon HTTP API for centralized processing.\n * The daemon's /api/agent/run endpoint fires-and-forgets the run.\n */\n\nimport { connectToDaemon } from './shared.js';\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const task = args.find((_, i) => args[i - 1] === '--task');\n  const instruction = args.find((_, i) => args[i - 1] === '--instruction');\n\n  const client = await connectToDaemon(vaultDir);\n\n  console.log('Starting agent...');\n  const result = await client.post('/api/agent/run', { task, instruction });\n\n  if (!result.ok) {\n    console.error('Failed to start agent run');\n    process.exit(1);\n  }\n\n  console.log('Agent run dispatched to daemon');\n  if (result.data?.message) {\n    console.log(`  ${result.data.message}`);\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;AASA,eAAsB,IAAI,MAAgB,UAAiC;AACzE,QAAM,OAAO,KAAK,KAAK,CAAC,GAAG,MAAM,KAAK,IAAI,CAAC,MAAM,QAAQ;AACzD,QAAM,cAAc,KAAK,KAAK,CAAC,GAAG,MAAM,KAAK,IAAI,CAAC,MAAM,eAAe;AAEvE,QAAM,SAAS,MAAM,gBAAgB,QAAQ;AAE7C,UAAQ,IAAI,mBAAmB;AAC/B,QAAM,SAAS,MAAM,OAAO,KAAK,kBAAkB,EAAE,MAAM,YAAY,CAAC;AAExE,MAAI,CAAC,OAAO,IAAI;AACd,YAAQ,MAAM,2BAA2B;AACzC,YAAQ,KAAK,CAAC;AAAA,EAChB;AAEA,UAAQ,IAAI,gCAAgC;AAC5C,MAAI,OAAO,MAAM,SAAS;AACxB,YAAQ,IAAI,KAAK,OAAO,KAAK,OAAO,EAAE;AAAA,EACxC;AACF;","names":[]}
+{"version":3,"sources":["../src/cli/agent-run.ts"],"sourcesContent":["/**\n * CLI `agent` command — trigger an intelligence agent run via daemon API.\n *\n * Routes through the daemon HTTP API for centralized processing.\n * The daemon's /api/agent/run endpoint fires-and-forgets the run.\n */\n\nimport { connectToDaemon } from './shared.js';\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const task = args.find((_, i) => args[i - 1] === '--task');\n  const instruction = args.find((_, i) => args[i - 1] === '--instruction');\n\n  const client = await connectToDaemon(vaultDir);\n\n  console.log('Starting agent...');\n  const result = await client.post('/api/agent/run', { task, instruction });\n\n  if (!result.ok) {\n    console.error('Failed to start agent run');\n    process.exit(1);\n  }\n\n  console.log('Agent run dispatched to daemon');\n  if (result.data?.message) {\n    console.log(`  ${result.data.message}`);\n  }\n}\n"],"mappings":";;;;;;;;;;;;;;;;;;;;AASA,eAAsB,IAAI,MAAgB,UAAiC;AACzE,QAAM,OAAO,KAAK,KAAK,CAAC,GAAG,MAAM,KAAK,IAAI,CAAC,MAAM,QAAQ;AACzD,QAAM,cAAc,KAAK,KAAK,CAAC,GAAG,MAAM,KAAK,IAAI,CAAC,MAAM,eAAe;AAEvE,QAAM,SAAS,MAAM,gBAAgB,QAAQ;AAE7C,UAAQ,IAAI,mBAAmB;AAC/B,QAAM,SAAS,MAAM,OAAO,KAAK,kBAAkB,EAAE,MAAM,YAAY,CAAC;AAExE,MAAI,CAAC,OAAO,IAAI;AACd,YAAQ,MAAM,2BAA2B;AACzC,YAAQ,KAAK,CAAC;AAAA,EAChB;AAEA,UAAQ,IAAI,gCAAgC;AAC5C,MAAI,OAAO,MAAM,SAAS;AACxB,YAAQ,IAAI,KAAK,OAAO,KAAK,OAAO,EAAE;AAAA,EACxC;AACF;","names":[]}

package/dist/{agent-tasks-XWMDAEPG.js → agent-tasks-5DIA3CE5.js}

@@ -1,16 +1,20 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   connectToDaemon
-} from "./chunk-5B2ORGTF.js";
+} from "./chunk-5WPTS6A4.js";
 import "./chunk-SAKJMNSR.js";
-import "./chunk-WYOE4IAX.js";
+import "./chunk-27ZDDWIA.js";
 import "./chunk-PMT2LSTQ.js";
+import "./chunk-UTSCRMJE.js";
 import "./chunk-MYX5NCRH.js";
-import "./chunk-W3P6MHLQ.js";
-import "./chunk-NTWJR6KH.js";
+import "./chunk-2QJCV3UL.js";
+import "./chunk-VH7XYQFL.js";
 import "./chunk-LPUQPDC2.js";
 import "./chunk-I54KLC6H.js";
 import "./chunk-UUHLLQXO.js";
+import "./chunk-6LQIMRTC.js";
+import "./chunk-ODXLRR4U.js";
+import "./chunk-U6PF3YII.js";
 import "./chunk-PZUWP5VK.js";
 
 // src/cli/agent-tasks.ts
@@ -178,4 +182,4 @@ async function run(args, vaultDir) {
 export {
   run
 };
-//# sourceMappingURL=agent-tasks-XWMDAEPG.js.map
+//# sourceMappingURL=agent-tasks-5DIA3CE5.js.map

package/dist/{agent-tasks-XWMDAEPG.js.map → agent-tasks-5DIA3CE5.js.map}

@@ -1 +1 @@
-{"version":3,"sources":["../src/cli/agent-tasks.ts"],"sourcesContent":["/**\n * CLI `task` subcommands — manage agent task definitions via daemon API.\n *\n * Routes through the daemon HTTP API for centralized processing.\n *\n * Subcommands:\n *   task list [--source built-in|user]   List all tasks\n *   task show <name>                     Show a single task with phases\n *   task create <name> --from <template> Copy a template task to user dir\n *   task delete <name>                   Delete a user task\n *   task run <name> [--instruction TEXT] Run a task via the agent\n */\n\nimport { connectToDaemon } from './shared.js';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Column widths for the task list table. */\nconst COL_NAME_WIDTH = 22;\nconst COL_SOURCE_WIDTH = 10;\nconst COL_PHASES_WIDTH = 7;\n\n/** Marker displayed in the Default column for the default task. */\nconst DEFAULT_MARKER = '*';\n\n// ---------------------------------------------------------------------------\n// Types (local — mirrors the API response shape)\n// ---------------------------------------------------------------------------\n\ninterface PhaseRow {\n  name: string;\n  maxTurns: number;\n  required: boolean;\n  model?: string;\n  tools: string[];\n}\n\ninterface TaskRow {\n  name: string;\n  displayName: string;\n  description: string;\n  agent: string;\n  prompt: string;\n  isDefault: boolean;\n  source: string;\n  isBuiltin: boolean;\n  phases?: PhaseRow[];\n  model?: string;\n  maxTurns?: number;\n}\n\n// ---------------------------------------------------------------------------\n// Formatting helpers\n// ---------------------------------------------------------------------------\n\nfunction padRight(s: string, width: number): string {\n  return s.length >= width ? s : s + ' '.repeat(width - s.length);\n}\n\nfunction printTaskTable(tasks: TaskRow[]): void {\n  const header =\n    padRight('Name', COL_NAME_WIDTH) +\n    padRight('Source', COL_SOURCE_WIDTH) +\n    padRight('Phases', COL_PHASES_WIDTH) +\n    'Default';\n  console.log(header);\n  console.log('-'.repeat(header.length));\n\n  for (const t of tasks) {\n    const phaseCount = t.phases?.length ?? 0;\n    const row =\n      padRight(t.name, COL_NAME_WIDTH) +\n      padRight(t.source, COL_SOURCE_WIDTH) +\n      padRight(String(phaseCount), COL_PHASES_WIDTH) +\n      (t.isDefault ? DEFAULT_MARKER : '');\n    console.log(row);\n  }\n}\n\nfunction printTaskDetail(task: TaskRow): void {\n  console.log(`Name:        ${task.name}`);\n  console.log(`Display:     ${task.displayName}`);\n  console.log(`Description: ${task.description}`);\n  console.log(`Agent:       ${task.agent}`);\n  console.log(`Source:      ${task.source}`);\n  console.log(`Default:     ${task.isDefault ? 'yes' : 'no'}`);\n  if (task.model) console.log(`Model:       ${task.model}`);\n  if (task.maxTurns !== undefined) console.log(`Max turns:   ${task.maxTurns}`);\n  console.log(`Prompt:      ${task.prompt}`);\n\n  const phases = task.phases ?? [];\n  if (phases.length > 0) {\n    console.log(`\\nPhases (${phases.length}):`);\n    for (let i = 0; i < phases.length; i++) {\n      const p = phases[i];\n      const req = p.required ? 'required' : 'optional';\n      const model = p.model ? ` [${p.model}]` : '';\n      console.log(`  ${i + 1}. ${p.name} — ${p.maxTurns} turns, ${req}${model}`);\n      if (p.tools.length > 0) {\n        console.log(`     tools: ${p.tools.join(', ')}`);\n      }\n    }\n  }\n}\n\n// ---------------------------------------------------------------------------\n// Subcommand handlers\n// ---------------------------------------------------------------------------\n\nasync function listTasks(args: string[], vaultDir: string): Promise<void> {\n  const source = args.find((_, i) => args[i - 1] === '--source');\n  const endpoint = source\n    ? `/api/agent/tasks?source=${encodeURIComponent(source)}`\n    : '/api/agent/tasks';\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.get(endpoint);\n\n  if (!result.ok || !result.data) {\n    console.error('Failed to fetch tasks from daemon');\n    process.exit(1);\n  }\n\n  const tasks = result.data as TaskRow[];\n  if (tasks.length === 0) {\n    console.log('No tasks found');\n    return;\n  }\n\n  printTaskTable(tasks);\n}\n\nasync function showTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  if (!name) {\n    console.error('Usage: myco task show <name>');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.get(`/api/agent/tasks/${encodeURIComponent(name)}`);\n\n  if (!result.ok || !result.data) {\n    console.error(`Task not found: ${name}`);\n    process.exit(1);\n  }\n\n  printTaskDetail(result.data as TaskRow);\n}\n\nasync function createTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  const from = args.find((_, i) => args[i - 1] === '--from');\n\n  if (!name || !from) {\n    console.error('Usage: myco task create <name> --from <template>');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.post(`/api/agent/tasks/${encodeURIComponent(from)}/copy`, { name });\n\n  if (!result.ok) {\n    console.error(`Failed to create task '${name}' from template '${from}'`);\n    if (result.data?.error) {\n      console.error(`  ${result.data.error}`);\n    }\n    process.exit(1);\n  }\n\n  console.log(`Task '${name}' created from '${from}'`);\n}\n\nasync function deleteTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  if (!name) {\n    console.error('Usage: myco task delete <name>');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.delete(`/api/agent/tasks/${encodeURIComponent(name)}`);\n\n  if (!result.ok) {\n    const errCode = result.data?.error as string | undefined;\n    if (errCode === 'cannot_delete_builtin') {\n      console.error(`Cannot delete built-in task: ${name}`);\n    } else if (errCode === 'task_not_found') {\n      console.error(`Task not found: ${name}`);\n    } else {\n      console.error(`Failed to delete task: ${name}`);\n    }\n    process.exit(1);\n  }\n\n  console.log(`Task '${name}' deleted`);\n}\n\nasync function runTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  const instruction = args.find((_, i) => args[i - 1] === '--instruction');\n\n  if (!name) {\n    console.error('Usage: myco task run <name> [--instruction TEXT]');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  console.log('Starting agent...');\n  const result = await client.post('/api/agent/run', { task: name, instruction });\n\n  if (!result.ok) {\n    console.error('Failed to start agent run');\n    process.exit(1);\n  }\n\n  console.log('Agent run dispatched to daemon');\n  if (result.data?.message) {\n    console.log(`  ${result.data.message}`);\n  }\n}\n\n// ---------------------------------------------------------------------------\n// Dispatch\n// 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+{"version":3,"sources":["../src/cli/agent-tasks.ts"],"sourcesContent":["/**\n * CLI `task` subcommands — manage agent task definitions via daemon API.\n *\n * Routes through the daemon HTTP API for centralized processing.\n *\n * Subcommands:\n *   task list [--source built-in|user]   List all tasks\n *   task show <name>                     Show a single task with phases\n *   task create <name> --from <template> Copy a template task to user dir\n *   task delete <name>                   Delete a user task\n *   task run <name> [--instruction TEXT] Run a task via the agent\n */\n\nimport { connectToDaemon } from './shared.js';\n\n// ---------------------------------------------------------------------------\n// Constants\n// ---------------------------------------------------------------------------\n\n/** Column widths for the task list table. */\nconst COL_NAME_WIDTH = 22;\nconst COL_SOURCE_WIDTH = 10;\nconst COL_PHASES_WIDTH = 7;\n\n/** Marker displayed in the Default column for the default task. */\nconst DEFAULT_MARKER = '*';\n\n// ---------------------------------------------------------------------------\n// Types (local — mirrors the API response shape)\n// ---------------------------------------------------------------------------\n\ninterface PhaseRow {\n  name: string;\n  maxTurns: number;\n  required: boolean;\n  model?: string;\n  tools: string[];\n}\n\ninterface TaskRow {\n  name: string;\n  displayName: string;\n  description: string;\n  agent: string;\n  prompt: string;\n  isDefault: boolean;\n  source: string;\n  isBuiltin: boolean;\n  phases?: PhaseRow[];\n  model?: string;\n  maxTurns?: number;\n}\n\n// ---------------------------------------------------------------------------\n// Formatting helpers\n// ---------------------------------------------------------------------------\n\nfunction padRight(s: string, width: number): string {\n  return s.length >= width ? s : s + ' '.repeat(width - s.length);\n}\n\nfunction printTaskTable(tasks: TaskRow[]): void {\n  const header =\n    padRight('Name', COL_NAME_WIDTH) +\n    padRight('Source', COL_SOURCE_WIDTH) +\n    padRight('Phases', COL_PHASES_WIDTH) +\n    'Default';\n  console.log(header);\n  console.log('-'.repeat(header.length));\n\n  for (const t of tasks) {\n    const phaseCount = t.phases?.length ?? 0;\n    const row =\n      padRight(t.name, COL_NAME_WIDTH) +\n      padRight(t.source, COL_SOURCE_WIDTH) +\n      padRight(String(phaseCount), COL_PHASES_WIDTH) +\n      (t.isDefault ? DEFAULT_MARKER : '');\n    console.log(row);\n  }\n}\n\nfunction printTaskDetail(task: TaskRow): void {\n  console.log(`Name:        ${task.name}`);\n  console.log(`Display:     ${task.displayName}`);\n  console.log(`Description: ${task.description}`);\n  console.log(`Agent:       ${task.agent}`);\n  console.log(`Source:      ${task.source}`);\n  console.log(`Default:     ${task.isDefault ? 'yes' : 'no'}`);\n  if (task.model) console.log(`Model:       ${task.model}`);\n  if (task.maxTurns !== undefined) console.log(`Max turns:   ${task.maxTurns}`);\n  console.log(`Prompt:      ${task.prompt}`);\n\n  const phases = task.phases ?? [];\n  if (phases.length > 0) {\n    console.log(`\\nPhases (${phases.length}):`);\n    for (let i = 0; i < phases.length; i++) {\n      const p = phases[i];\n      const req = p.required ? 'required' : 'optional';\n      const model = p.model ? ` [${p.model}]` : '';\n      console.log(`  ${i + 1}. ${p.name} — ${p.maxTurns} turns, ${req}${model}`);\n      if (p.tools.length > 0) {\n        console.log(`     tools: ${p.tools.join(', ')}`);\n      }\n    }\n  }\n}\n\n// ---------------------------------------------------------------------------\n// Subcommand handlers\n// ---------------------------------------------------------------------------\n\nasync function listTasks(args: string[], vaultDir: string): Promise<void> {\n  const source = args.find((_, i) => args[i - 1] === '--source');\n  const endpoint = source\n    ? `/api/agent/tasks?source=${encodeURIComponent(source)}`\n    : '/api/agent/tasks';\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.get(endpoint);\n\n  if (!result.ok || !result.data) {\n    console.error('Failed to fetch tasks from daemon');\n    process.exit(1);\n  }\n\n  const tasks = result.data as TaskRow[];\n  if (tasks.length === 0) {\n    console.log('No tasks found');\n    return;\n  }\n\n  printTaskTable(tasks);\n}\n\nasync function showTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  if (!name) {\n    console.error('Usage: myco task show <name>');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.get(`/api/agent/tasks/${encodeURIComponent(name)}`);\n\n  if (!result.ok || !result.data) {\n    console.error(`Task not found: ${name}`);\n    process.exit(1);\n  }\n\n  printTaskDetail(result.data as TaskRow);\n}\n\nasync function createTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  const from = args.find((_, i) => args[i - 1] === '--from');\n\n  if (!name || !from) {\n    console.error('Usage: myco task create <name> --from <template>');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.post(`/api/agent/tasks/${encodeURIComponent(from)}/copy`, { name });\n\n  if (!result.ok) {\n    console.error(`Failed to create task '${name}' from template '${from}'`);\n    if (result.data?.error) {\n      console.error(`  ${result.data.error}`);\n    }\n    process.exit(1);\n  }\n\n  console.log(`Task '${name}' created from '${from}'`);\n}\n\nasync function deleteTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  if (!name) {\n    console.error('Usage: myco task delete <name>');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  const result = await client.delete(`/api/agent/tasks/${encodeURIComponent(name)}`);\n\n  if (!result.ok) {\n    const errCode = result.data?.error as string | undefined;\n    if (errCode === 'cannot_delete_builtin') {\n      console.error(`Cannot delete built-in task: ${name}`);\n    } else if (errCode === 'task_not_found') {\n      console.error(`Task not found: ${name}`);\n    } else {\n      console.error(`Failed to delete task: ${name}`);\n    }\n    process.exit(1);\n  }\n\n  console.log(`Task '${name}' deleted`);\n}\n\nasync function runTask(args: string[], vaultDir: string): Promise<void> {\n  const name = args[0];\n  const instruction = args.find((_, i) => args[i - 1] === '--instruction');\n\n  if (!name) {\n    console.error('Usage: myco task run <name> [--instruction TEXT]');\n    process.exit(1);\n  }\n\n  const client = await connectToDaemon(vaultDir);\n  console.log('Starting agent...');\n  const result = await client.post('/api/agent/run', { task: name, instruction });\n\n  if (!result.ok) {\n    console.error('Failed to start agent run');\n    process.exit(1);\n  }\n\n  console.log('Agent run dispatched to daemon');\n  if (result.data?.message) {\n    console.log(`  ${result.data.message}`);\n  }\n}\n\n// ---------------------------------------------------------------------------\n// Dispatch\n// ---------------------------------------------------------------------------\n\nconst TASK_USAGE = `Usage: myco task <subcommand> [args]\n\nSubcommands:\n  list [--source built-in|user]   List all tasks\n  show <name>                     Show task details and phases\n  create <name> --from <template> Copy a task template to your user dir\n  delete <name>                   Delete a user task\n  run <name> [--instruction TEXT] Run a task via the agent\n`;\n\nexport async function run(args: string[], vaultDir: string): Promise<void> {\n  const subcommand = args[0];\n  const subArgs = args.slice(1);\n\n  switch (subcommand) {\n    case 'list': return listTasks(subArgs, vaultDir);\n    case 'show': return showTask(subArgs, vaultDir);\n    case 'create': return createTask(subArgs, vaultDir);\n    case 'delete': return deleteTask(subArgs, vaultDir);\n    case 'run': return runTask(subArgs, vaultDir);\n    default:\n      if (subcommand) {\n        console.error(`Unknown task subcommand: ${subcommand}`);\n      }\n      process.stdout.write(TASK_USAGE);\n      if (subcommand) process.exit(1);\n  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package/dist/{chunk-WYOE4IAX.js → chunk-27ZDDWIA.js}

@@ -1,4 +1,7 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
+import {
+  loadConfig
+} from "./chunk-UTSCRMJE.js";
 
 // src/symbionts/installer.ts
 import fs3 from "fs";
@@ -208,6 +211,12 @@ function writeOrDeleteJsonFile(filePath, data) {
 // src/symbionts/install-helpers.ts
 import fs2 from "fs";
 import path2 from "path";
+var DEFAULT_AGENTS_STARTER = `# Project Rules
+
+<!-- This starter file was created by Myco. Replace it with your project's rules and conventions. -->
+
+Rules haven't been defined yet. Use the /rules skill to generate project rules, or edit this file directly.
+`;
 function isMycoHookCommand(command) {
   return command.includes(".agents/myco-run.cjs") || command.includes(".agents/myco-hook.cjs") || command.startsWith("myco-run");
 }
@@ -231,6 +240,7 @@ function ensureAgentsMd(projectRoot, packageRoot) {
     } catch {
     }
   }
+  fs2.writeFileSync(agentsMdPath, DEFAULT_AGENTS_STARTER, "utf-8");
 }
 function ensureSymlink(linkPath, target) {
   try {
@@ -248,6 +258,15 @@ function ensureSymlink(linkPath, target) {
 var GITIGNORE_COMMENT = "# Myco managed (machine-specific)";
 var GITIGNORE_SKILLS_COMMENT_LEGACY = "# Myco skill symlinks (machine-specific)";
 var WRANGLER_CACHE_DIR = ".wrangler/";
+var AGENTS_MANAGED_START = "<!-- myco:managed:start -->";
+var AGENTS_MANAGED_END = "<!-- myco:managed:end -->";
+var AGENTS_MANAGED_BLOCK = `${AGENTS_MANAGED_START}
+## Myco Managed Guidance
+
+- When \`capture.ignore_plan_dirs_in_git\` is enabled, custom directories in \`capture.plan_dirs\` may be intentionally gitignored after capture into Myco.
+- Do not force-add files from intentionally gitignored custom plan directories unless the user explicitly asks.
+${AGENTS_MANAGED_END}
+`;
 var TEMPLATES_SUBDIR = "src/symbionts/templates";
 var HOOK_GUARD_TEMPLATE_FILENAME = "myco-run.cjs";
 var HOOK_GUARD_INSTALLED_FILENAME = "myco-run.cjs";
@@ -369,6 +388,7 @@ var SymbiontInstaller = class {
   /** Run all registration steps. */
   install() {
     const reg = this.manifest.registration;
+    this.reconcileAgentsMd();
     this.installHookGuard();
     this.cleanupLegacyMycoCmdEntries();
     const result = this.shouldBatchJsonTargets(reg) ? this.installBatchedJson(reg) : {
@@ -382,6 +402,54 @@ var SymbiontInstaller = class {
     this.updateGitignore();
     return result;
   }
+  reconcileAgentsMd() {
+    ensureAgentsMd(this.projectRoot, this.packageRoot);
+    const agentsPath = path3.join(this.projectRoot, "AGENTS.md");
+    let content = "";
+    try {
+      content = fs3.readFileSync(agentsPath, "utf-8");
+    } catch {
+      return;
+    }
+    const stripped = this.stripManagedAgentsBlock(content);
+    const separator = stripped.length > 0 && !stripped.endsWith("\n") ? "\n" : "";
+    const spacer = stripped.trimEnd().length > 0 ? "\n\n" : "";
+    const result = `${stripped}${separator}${spacer}${AGENTS_MANAGED_BLOCK}`;
+    if (result === content) return;
+    fs3.writeFileSync(agentsPath, result, "utf-8");
+  }
+  stripManagedAgentsBlock(content) {
+    const startIdx = content.indexOf(AGENTS_MANAGED_START);
+    if (startIdx === -1) return content.trimEnd();
+    const endIdx = content.indexOf(AGENTS_MANAGED_END, startIdx);
+    if (endIdx === -1) return content.trimEnd();
+    const afterEnd = endIdx + AGENTS_MANAGED_END.length;
+    return (content.slice(0, startIdx) + content.slice(afterEnd)).trimEnd();
+  }
+  getCustomPlanGitignoreEntries() {
+    const config = this.loadProjectConfig();
+    if (!config?.capture.ignore_plan_dirs_in_git) return [];
+    return [...new Set(
+      config.capture.plan_dirs.map((dir) => this.normalizeProjectRelativeDir(dir)).filter((dir) => dir !== null)
+    )];
+  }
+  loadProjectConfig() {
+    try {
+      return loadConfig(path3.join(this.projectRoot, ".myco"));
+    } catch {
+      return null;
+    }
+  }
+  normalizeProjectRelativeDir(dir) {
+    const slashNormalized = dir.trim().replaceAll("\\", "/");
+    if (!slashNormalized) return null;
+    if (slashNormalized.startsWith("~/")) return null;
+    if (path3.posix.isAbsolute(slashNormalized) || path3.win32.isAbsolute(slashNormalized)) return null;
+    const withoutDotPrefix = slashNormalized.replace(/^\.\//, "");
+    const normalized = path3.posix.normalize(withoutDotPrefix);
+    if (normalized === "." || normalized === ".." || normalized.startsWith("../")) return null;
+    return normalized.endsWith("/") ? normalized : `${normalized}/`;
+  }
   /**
    * Sweep legacy `MYCO_CMD` env-var writes and `myco-run` command-name
    * entries from this symbiont's installed config files.
@@ -732,6 +800,7 @@ var SymbiontInstaller = class {
     const skillNames = this.listSkillDirs();
     const desired = [
       ...skillNames.map((name) => `${CANONICAL_SKILLS_DIR}/${name}`),
+      ...this.getCustomPlanGitignoreEntries(),
       WRANGLER_CACHE_DIR
     ];
     const gitignorePath = path3.join(this.projectRoot, ".gitignore");
@@ -757,22 +826,26 @@ ${desired.join("\n")}
    * directory entries. Returns the cleaned content.
    */
   stripMycoGitignoreBlock(content, skillNames) {
+    let stripped = content;
+    const managedStart = stripped.indexOf(GITIGNORE_COMMENT);
+    if (managedStart !== -1) {
+      const managedEndMatch = stripped.slice(managedStart).match(/\n\n/);
+      const managedEnd = managedEndMatch ? managedStart + managedEndMatch.index + managedEndMatch[0].length : stripped.length;
+      stripped = stripped.slice(0, managedStart) + stripped.slice(managedEnd);
+    }
     const reg = this.manifest.registration;
-    const ownedLines = /* @__PURE__ */ new Set([
-      GITIGNORE_COMMENT,
+    const legacyOwnedLines = /* @__PURE__ */ new Set([
       GITIGNORE_SKILLS_COMMENT_LEGACY,
       `${CANONICAL_SKILLS_DIR}/`,
-      // legacy blanket entry
       WRANGLER_CACHE_DIR
     ]);
     for (const name of skillNames) {
-      ownedLines.add(`${CANONICAL_SKILLS_DIR}/${name}`);
+      legacyOwnedLines.add(`${CANONICAL_SKILLS_DIR}/${name}`);
       if (reg?.skillsTarget && reg.skillsTarget !== CANONICAL_SKILLS_DIR) {
-        ownedLines.add(`${reg.skillsTarget}/${name}`);
+        legacyOwnedLines.add(`${reg.skillsTarget}/${name}`);
       }
     }
-    const lines = content.split("\n");
-    const filtered = lines.filter((line) => !ownedLines.has(line));
+    const filtered = stripped.split("\n").filter((line) => !legacyOwnedLines.has(line));
     return filtered.join("\n").replace(/\n{3,}/g, "\n\n").trimEnd() + (filtered.length > 0 ? "\n" : "");
   }
   /**
@@ -1240,4 +1313,4 @@ export {
   SymbiontInstaller,
   syncSkillSymlinks
 };
-//# sourceMappingURL=chunk-WYOE4IAX.js.map
+//# sourceMappingURL=chunk-27ZDDWIA.js.map

package/dist/chunk-27ZDDWIA.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';\nimport { loadConfig } from '../config/loader.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/';\nconst AGENTS_MANAGED_START = '<!-- myco:managed:start -->';\nconst AGENTS_MANAGED_END = '<!-- myco:managed:end -->';\nconst AGENTS_MANAGED_BLOCK = `${AGENTS_MANAGED_START}\n## Myco Managed Guidance\n\n- When \\`capture.ignore_plan_dirs_in_git\\` is enabled, custom directories in \\`capture.plan_dirs\\` may be intentionally gitignored after capture into Myco.\n- Do not force-add files from intentionally gitignored custom plan directories unless the user explicitly asks.\n${AGENTS_MANAGED_END}\n`;\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 = 'myco-run.cjs';\n\n/** Filename when installed into the project .agents/ directory. */\nconst HOOK_GUARD_INSTALLED_FILENAME = 'myco-run.cjs';\n\n/** Project-relative path where the hook guard is installed. */\nconst HOOK_GUARD_PROJECT_PATH = `.agents/${HOOK_GUARD_INSTALLED_FILENAME}`;\n\n/**\n * Legacy guard filename we still delete on install to clean up previous\n * installations that used `.agents/myco-hook.cjs` before the rename.\n */\nconst LEGACY_HOOK_GUARD_PATH = '.agents/myco-hook.cjs';\n\n/** Subdirectory within the package where skills live. */\nconst SKILLS_SUBDIR = 'skills';\n\n/** Canonical cross-agent skills directory. */\nconst CANONICAL_SKILLS_DIR = '.agents/skills';\n\n/** MCP server name used by Myco in all symbiont configurations. */\nexport const MYCO_MCP_SERVER_NAME = 'myco';\n\n/**\n * Marker substring written into plugin-file hook templates (e.g., opencode's plugin.ts).\n * Uninstall only deletes plugin files whose content contains this marker, so\n * contributors who hand-edit a plugin file without removing the marker are protected.\n */\nconst MYCO_PLUGIN_FILE_MARKER = 'myco:plugin-marker';\n\n/** `hooksFormat` value selecting verbatim plugin-file install over JSON merge. */\nconst HOOKS_FORMAT_PLUGIN_FILE = 'plugin-file';\n\n/** Marker text used to identify unmodified instruction stubs. */\nconst INSTRUCTIONS_STUB_MARKER = 'Edit AGENTS.md, not this file';\n\n/** Start/end markers for the reference block prepended to existing instruction files. */\nconst INSTRUCTIONS_REF_START = '<!-- myco:agents-ref:start -->';\nconst INSTRUCTIONS_REF_END = '<!-- myco:agents-ref:end -->';\n\n/** Reference block prepended to existing instruction files. */\nconst INSTRUCTIONS_REF_BLOCK = `${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-run.cjs and delete the\n   * legacy .agents/myco-hook.cjs if present.\n   *\n   * The guard is the cross-platform entry point for lifecycle hooks.\n   * Hook commands invoke `node .agents/myco-run.cjs …`, and the guard\n   * resolves which myco binary to exec via `.myco/runtime.command`.\n   * MCP server spawn continues to use the published `myco-run` binary.\n   * Returns true if the file was written (or updated); false if skipped\n   * 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    // Sweep legacy guard file on every install — harmless no-op if absent.\n    // Prevents the old and new guard files coexisting for projects that\n    // were last installed under the `myco-hook.cjs` naming.\n    try {\n      fs.unlinkSync(path.join(this.projectRoot, LEGACY_HOOK_GUARD_PATH));\n    } catch { /* no legacy file present */ }\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-run.cjs.\n   * Also deletes the legacy .agents/myco-hook.cjs if present.\n   * Returns true if any file was removed; false otherwise.\n   */\n  uninstallHookGuard(): boolean {\n    const reg = this.manifest.registration;\n    if (!reg?.hooksTarget) return false;\n\n    let removed = false;\n    for (const relPath of [HOOK_GUARD_PROJECT_PATH, LEGACY_HOOK_GUARD_PATH]) {\n      try {\n        fs.unlinkSync(path.join(this.projectRoot, relPath));\n        removed = true;\n      } catch { /* not present */ }\n    }\n    return removed;\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    this.reconcileAgentsMd();\n    // Install hook guard before hooks so the guard script is in place when hooks reference it\n    this.installHookGuard();\n    // One-time migration: sweep legacy MYCO_CMD / myco-run entries that\n    // the pre-runtime.command dispatch pattern wrote into symbiont config\n    // files. Idempotent — no-op on clean files. Runs before installSettings\n    // so the stale entries don't survive a deep-merge into the new template.\n    this.cleanupLegacyMycoCmdEntries();\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  private reconcileAgentsMd(): void {\n    ensureAgentsMd(this.projectRoot, this.packageRoot);\n    const agentsPath = path.join(this.projectRoot, 'AGENTS.md');\n    let content = '';\n    try {\n      content = fs.readFileSync(agentsPath, 'utf-8');\n    } catch {\n      return;\n    }\n\n    const stripped = this.stripManagedAgentsBlock(content);\n    const separator = stripped.length > 0 && !stripped.endsWith('\\n') ? '\\n' : '';\n    const spacer = stripped.trimEnd().length > 0 ? '\\n\\n' : '';\n    const result = `${stripped}${separator}${spacer}${AGENTS_MANAGED_BLOCK}`;\n    if (result === content) return;\n    fs.writeFileSync(agentsPath, result, 'utf-8');\n  }\n\n  private stripManagedAgentsBlock(content: string): string {\n    const startIdx = content.indexOf(AGENTS_MANAGED_START);\n    if (startIdx === -1) return content.trimEnd();\n    const endIdx = content.indexOf(AGENTS_MANAGED_END, startIdx);\n    if (endIdx === -1) return content.trimEnd();\n    const afterEnd = endIdx + AGENTS_MANAGED_END.length;\n    return (content.slice(0, startIdx) + content.slice(afterEnd)).trimEnd();\n  }\n\n  private getCustomPlanGitignoreEntries(): string[] {\n    const config = this.loadProjectConfig();\n    if (!config?.capture.ignore_plan_dirs_in_git) return [];\n\n    return [...new Set(\n      config.capture.plan_dirs\n        .map((dir) => this.normalizeProjectRelativeDir(dir))\n        .filter((dir): dir is string => dir !== null),\n    )];\n  }\n\n  private loadProjectConfig() {\n    try {\n      return loadConfig(path.join(this.projectRoot, '.myco'));\n    } catch {\n      return null;\n    }\n  }\n\n  private normalizeProjectRelativeDir(dir: string): string | null {\n    const slashNormalized = dir.trim().replaceAll('\\\\', '/');\n    if (!slashNormalized) return null;\n    if (slashNormalized.startsWith('~/')) return null;\n    if (path.posix.isAbsolute(slashNormalized) || path.win32.isAbsolute(slashNormalized)) return null;\n\n    const withoutDotPrefix = slashNormalized.replace(/^\\.\\//, '');\n    const normalized = path.posix.normalize(withoutDotPrefix);\n    if (normalized === '.' || normalized === '..' || normalized.startsWith('../')) return null;\n    return normalized.endsWith('/') ? normalized : `${normalized}/`;\n  }\n\n  /**\n   * Sweep legacy `MYCO_CMD` env-var writes and `myco-run` command-name\n   * entries from this symbiont's installed config files.\n   *\n   * Background: prior to the `.myco/runtime.command` refactor, `make\n   * dev-link` injected `MYCO_CMD=myco-dev` into each symbiont's env\n   * block (`.claude/settings.json` → `env`, `.cursor/mcp.json` →\n   * `mcp.myco.env`, `.codex/config.toml` →\n   * `[shell_environment_policy.set]`), and each symbiont's template\n   * permission allowlist listed `myco-run` as a callable command. The\n   * env-var pattern is now obsolete — `.myco/runtime.command` is the\n   * hook-side source of truth — while the old allowlist entries remain\n   * legacy noise after the permissions refactor.\n   *\n   * This cleanup runs automatically on every install/update pass so\n   * contributors upgrading across this refactor don't need to manually\n   * edit any config file. Idempotent: a second run after cleanup is a\n   * no-op. Safe to remove from the install pipeline once every known\n   * contributor has updated at least once.\n   */\n  private cleanupLegacyMycoCmdEntries(): void {\n    const reg = this.manifest.registration;\n    if (!reg) return;\n\n    if (reg.settingsTarget) {\n      const settingsPath = path.join(this.projectRoot, reg.settingsTarget);\n      const format = reg.settingsFormat ?? 'json';\n      if (format === 'toml') {\n        this.stripLegacyFromToml(settingsPath);\n      } else {\n        this.stripLegacyFromJson(settingsPath);\n      }\n    }\n\n    if (reg.mcpTarget && reg.mcpFormat !== 'toml') {\n      // MCP server env blocks — cursor writes MYCO_CMD here under\n      // `mcp.myco.env` / `mcpServers.myco.env`. TOML MCP targets live\n      // inside the same config.toml already handled above.\n      this.stripLegacyFromJson(path.join(this.projectRoot, reg.mcpTarget));\n    }\n  }\n\n  /**\n   * Walk a JSON settings/MCP file and delete legacy MYCO_CMD + myco-run\n   * entries. Writes back only if something changed.\n   *\n   * Removes:\n   * - `MYCO_CMD` key from any object named `env` anywhere in the tree\n   * - `myco-run` / `myco-run *` / `myco-run:*` / `Bash(myco-run *)` /\n   *   `Bash(myco-run:*)` / `ShellTool(myco-run *)` from string arrays\n   * - `myco-run` / `myco-run *` keys from object-boolean maps like\n   *   `chat.tools.terminal.autoApprove`\n   */\n  private stripLegacyFromJson(filePath: string): void {\n    let raw: string;\n    try { raw = fs.readFileSync(filePath, 'utf-8'); } catch { return; }\n    let data: unknown;\n    try { data = JSON.parse(raw); } catch { return; }\n\n    let changed = false;\n    const LEGACY_STRINGS = new Set([\n      'myco-run',\n      'myco-run *',\n      'myco-run:*',\n      'Bash(myco-run *)',\n      'Bash(myco-run:*)',\n      'ShellTool(myco-run *)',\n    ]);\n    const LEGACY_OBJECT_KEYS = ['myco-run', 'myco-run *'];\n    // Fields whose array values are exec argvs (process invocation arrays),\n    // NOT allowlist tokens. The cleanup sweep must not touch these because\n    // `myco-run` remains the PUBLISHED MCP launcher command — stripping it\n    // from an opencode-style `command: [\"myco-run\", \"mcp\"]` array would\n    // corrupt the MCP spawn. Only works today because installMcp() deep-\n    // merges the template back in after cleanup; don't rely on that mask.\n    const EXEC_ARGV_KEYS = new Set(['command', 'args']);\n\n    const walk = (node: unknown, parentKey?: string): void => {\n      if (node === null || typeof node !== 'object') return;\n      if (Array.isArray(node)) {\n        // Exec argv arrays are process invocations (e.g. opencode's\n        // `command: [\"myco-run\", \"mcp\"]`). Never strip tokens from these\n        // — `myco-run` is the intended MCP command.\n        if (parentKey !== undefined && EXEC_ARGV_KEYS.has(parentKey)) return;\n        // String arrays: filter out legacy allowlist tokens in place.\n        for (let i = node.length - 1; i >= 0; i--) {\n          if (typeof node[i] === 'string' && LEGACY_STRINGS.has(node[i] as string)) {\n            node.splice(i, 1);\n            changed = true;\n          } else {\n            walk(node[i]);\n          }\n        }\n        return;\n      }\n      const obj = node as Record<string, unknown>;\n      // Env blocks: strip MYCO_CMD specifically. We check by key name so\n      // we match any `env` object at any nesting level.\n      if (parentKey === 'env' && 'MYCO_CMD' in obj) {\n        delete obj.MYCO_CMD;\n        changed = true;\n      }\n      // Object-boolean maps keyed on command name: strip legacy keys.\n      // Skip inside exec argv scalar fields (e.g. `command: \"myco-run\"`)\n      // would be caught by the LEGACY_OBJECT_KEYS lookup only when the\n      // key is literally `myco-run`, which is a command-name key in\n      // allowlist objects — exec argv scalars are fine because the\n      // scalar value `\"myco-run\"` is walked as a string and skipped.\n      for (const key of LEGACY_OBJECT_KEYS) {\n        if (key in obj) {\n          delete obj[key];\n          changed = true;\n        }\n      }\n      for (const [k, v] of Object.entries(obj)) {\n        walk(v, k);\n      }\n    };\n\n    walk(data);\n\n    if (changed) {\n      fs.writeFileSync(filePath, JSON.stringify(data, null, 2) + '\\n', 'utf-8');\n    }\n  }\n\n  /**\n   * Strip `MYCO_CMD = \"...\"` from the `[shell_environment_policy.set]`\n   * section of a TOML settings file. Leaves the rest of the file\n   * untouched. Drops the `[shell_environment_policy.set]` header entirely\n   * when the section becomes empty.\n   */\n  private stripLegacyFromToml(filePath: string): void {\n    let raw: string;\n    try { raw = fs.readFileSync(filePath, 'utf-8'); } catch { return; }\n    const next = removeTomlSectionKeys(raw, 'shell_environment_policy.set', ['MYCO_CMD']);\n    if (next !== raw) {\n      fs.writeFileSync(filePath, next, 'utf-8');\n    }\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}/${name}`),\n      ...this.getCustomPlanGitignoreEntries(),\n      WRANGLER_CACHE_DIR,\n    ];\n\n    const gitignorePath = path.join(this.projectRoot, '.gitignore');\n    let content = '';\n    try { content = fs.readFileSync(gitignorePath, 'utf-8'); } catch { /* doesn't exist yet */ }\n\n    // Strip existing Myco block and any legacy entries\n    const stripped = this.stripMycoGitignoreBlock(content, skillNames);\n\n    // Build the new block\n    const desiredBlock = desired.length > 0\n      ? `${GITIGNORE_COMMENT}\\n${desired.join('\\n')}\\n`\n      : '';\n\n    // Check if anything changed\n    if (stripped === content && desiredBlock === '') return;\n    const separator = stripped.length > 0 && !stripped.endsWith('\\n') ? '\\n' : '';\n    const spacer = stripped.length > 0 && desiredBlock.length > 0 ? '\\n' : '';\n    const result = stripped + separator + spacer + desiredBlock;\n    if (result === content) return;\n\n    fs.writeFileSync(gitignorePath, result, 'utf-8');\n  }\n\n  /**\n   * Remove all Myco-owned gitignore entries: the comment header, per-skill\n   * entries for both canonical and agent-specific paths, and legacy blanket\n   * directory entries. Returns the cleaned content.\n   */\n  private stripMycoGitignoreBlock(content: string, skillNames: string[]): string {\n    let stripped = content;\n\n    const managedStart = stripped.indexOf(GITIGNORE_COMMENT);\n    if (managedStart !== -1) {\n      const managedEndMatch = stripped.slice(managedStart).match(/\\n\\n/);\n      const managedEnd = managedEndMatch\n        ? managedStart + managedEndMatch.index! + managedEndMatch[0].length\n        : stripped.length;\n      stripped = stripped.slice(0, managedStart) + stripped.slice(managedEnd);\n    }\n\n    const reg = this.manifest.registration;\n    const legacyOwnedLines = new Set<string>([\n      GITIGNORE_SKILLS_COMMENT_LEGACY,\n      `${CANONICAL_SKILLS_DIR}/`,\n      WRANGLER_CACHE_DIR,\n    ]);\n    for (const name of skillNames) {\n      legacyOwnedLines.add(`${CANONICAL_SKILLS_DIR}/${name}`);\n      if (reg?.skillsTarget && reg.skillsTarget !== CANONICAL_SKILLS_DIR) {\n        legacyOwnedLines.add(`${reg.skillsTarget}/${name}`);\n      }\n    }\n\n    const filtered = stripped\n      .split('\\n')\n      .filter((line) => !legacyOwnedLines.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() ? 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package/dist/{chunk-W3P6MHLQ.js → chunk-2QJCV3UL.js}

@@ -1,7 +1,7 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   getPluginVersion
-} from "./chunk-NTWJR6KH.js";
+} from "./chunk-VH7XYQFL.js";
 import {
   DAEMON_CLIENT_TIMEOUT_MS,
   DAEMON_HEALTH_CHECK_TIMEOUT_MS,
@@ -185,4 +185,4 @@ export {
   resolveCliEntryPath,
   DaemonClient
 };
-//# sourceMappingURL=chunk-W3P6MHLQ.js.map
+//# sourceMappingURL=chunk-2QJCV3UL.js.map

package/dist/{chunk-RTNLDAIC.js → chunk-5OXBT5MD.js}

@@ -25,7 +25,7 @@ import {
 } from "./chunk-AULBWINA.js";
 import {
   loadConfig
-} from "./chunk-3C4LT4BW.js";
+} from "./chunk-UTSCRMJE.js";
 import {
   getDatabase
 } from "./chunk-MYX5NCRH.js";
@@ -2222,4 +2222,4 @@ export {
   buildTaskInstruction,
   isInstructionRequiredTask
 };
-//# sourceMappingURL=chunk-RTNLDAIC.js.map
+//# sourceMappingURL=chunk-5OXBT5MD.js.map

package/dist/{chunk-5B2ORGTF.js → chunk-5WPTS6A4.js}

@@ -1,7 +1,7 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   SymbiontInstaller
-} from "./chunk-WYOE4IAX.js";
+} from "./chunk-27ZDDWIA.js";
 import {
   LmStudioBackend,
   OllamaBackend
@@ -13,7 +13,7 @@ import {
 } from "./chunk-MYX5NCRH.js";
 import {
   DaemonClient
-} from "./chunk-W3P6MHLQ.js";
+} from "./chunk-2QJCV3UL.js";
 
 // src/cli/shared.ts
 import fs from "fs";
@@ -123,4 +123,4 @@ export {
   VAULT_GITIGNORE,
   registerSymbionts
 };
-//# sourceMappingURL=chunk-5B2ORGTF.js.map
+//# sourceMappingURL=chunk-5WPTS6A4.js.map

package/dist/{chunk-Y3IJFUVX.js → chunk-IQ5LQTV7.js}

@@ -11,7 +11,7 @@ import {
 } from "./chunk-5ZT2Q6P5.js";
 import {
   DaemonClient
-} from "./chunk-W3P6MHLQ.js";
+} from "./chunk-2QJCV3UL.js";
 
 // src/hooks/send-event.ts
 import fs from "fs";
@@ -39,4 +39,4 @@ async function sendEvent(hookName, buildEvent) {
 export {
   sendEvent
 };
-//# sourceMappingURL=chunk-Y3IJFUVX.js.map
+//# sourceMappingURL=chunk-IQ5LQTV7.js.map

package/dist/{chunk-YDCGI3CS.js → chunk-K2QX43GC.js}

@@ -1,10 +1,10 @@
 import { createRequire as __cr } from 'node:module'; const require = __cr(import.meta.url);
 import {
   isProcessAlive
-} from "./chunk-5B2ORGTF.js";
+} from "./chunk-5WPTS6A4.js";
 import {
   loadConfig
-} from "./chunk-3C4LT4BW.js";
+} from "./chunk-UTSCRMJE.js";
 import {
   getDatabase
 } from "./chunk-MYX5NCRH.js";
@@ -187,4 +187,4 @@ export {
   getEmbeddingQueueDepth,
   gatherStats
 };
-//# sourceMappingURL=chunk-YDCGI3CS.js.map
+//# sourceMappingURL=chunk-K2QX43GC.js.map

package/dist/{chunk-PLYWR5D7.js → chunk-KABTXALI.js}

@@ -5,7 +5,7 @@ import {
 import {
   loadConfig,
   updateTeamConfig
-} from "./chunk-3C4LT4BW.js";
+} from "./chunk-UTSCRMJE.js";
 import {
   TEAM_API_KEY_SECRET,
   TEAM_MCP_TOKEN_SECRET,
@@ -595,4 +595,4 @@ export {
   upgradeWorker,
   teamUpgrade
 };
-//# sourceMappingURL=chunk-PLYWR5D7.js.map
+//# sourceMappingURL=chunk-KABTXALI.js.map