@cmkk/agentlink 0.1.0-beta.1 → 0.1.0-beta.3

package/CHANGELOG.md

@@ -4,7 +4,50 @@
 
 ## [Unreleased]
 
-## [0.1.0] - 2026-05-11
+## [0.1.0-beta.3] - 2026-06-09
+
+### 变更
+
+- **移除 `AGENTLINK_SOURCE` 环境变量**：持久化 source 请用 `agentlink.config.json` 的 `source` 字段；临时覆盖仍可用 `--source`。解析链简化为 `--source` → `config.source` → `./.agents` → `~/.agents`
+- **移除 `AGENTLINK_CONFIG` 环境变量**：指定 config 请用 `--config`；否则走就近发现或 `~/agentlink.config.json`
+
+### 修复
+
+- **config.source 优先于 `./.agents`**：config 里显式写了 `source` 时，不再被仓库里零散的 `.agents/commands/` 等局部目录挡住；未写 `source` 时仍走 `./.agents` → `~/.agents` 自动发现
+- **CLI `--version` 与 npm 包版本不一致**：改为从 `package.json` 读取 `name` / `version`，不再硬编码
+
+### 改进
+
+- `init` 非默认 source 提示去掉已废弃的环境变量，改为 config / `--source` / symlink 三种方式
+
+### 文档
+
+- README 更新 source / config 解析链，移除对已删环境变量的说明
+
+## [0.1.0-beta.2] - 2026-06-09
+
+### 新增
+
+- **config 持久化路径**：`agentlink.config.json` 支持可选的 `source`、`target`、`user` 字段，避免每次 `sync` 都带 flag；CLI flag / 环境变量仍优先于 config
+- **source / destination 解析链扩展**：`config.source` 位于 flag/env 之后、`cwd/.agents` 之前；`config.target` / `config.user` 位于 CLI flag 与默认 `cwd` 之间
+- **测试基础设施**：`tests/helpers/` 共享 sandbox / fs / io 工具；`load-context` 与 config 驱动 `sync` 集成测
+
+### 改进
+
+- `loadContext` 先解析 config 再解析路径，避免重复读配置文件
+- `init` 自定义 source 时写入 config 的 `source` 优先使用相对路径或 `~/…` 形式，便于跨机器移植
+- `SourceNotFoundError` 诊断区分「config 未加载」「config 里未设置 source」等状态
+- 发布脚本：`preversion` / `publish:beta` / `publish:latest`；发布手册移至根目录 `RELEASE.md`
+
+### 文档
+
+- README 补充 destination 解析链、config 字段说明及「整文件生效、不按字段合并」语义
+
+### 工程
+
+- vitest 用例增至 121 个（11 个测试文件）
+
+## [0.1.0-beta.1] - 2026-05-11
 
 首次公开发布。
 
@@ -29,5 +72,7 @@
 - ESM-only，tsup 打包，dts 同步生成
 - Node ≥ 18
 
-[Unreleased]: https://github.com/rankangkang/dot-agents/compare/agentlink-v0.1.0...HEAD
-[0.1.0]: https://github.com/rankangkang/dot-agents/releases/tag/agentlink-v0.1.0
+[Unreleased]: https://github.com/rankangkang/agentlink/compare/v0.1.0-beta.3...HEAD
+[0.1.0-beta.3]: https://github.com/rankangkang/agentlink/compare/v0.1.0-beta.2...v0.1.0-beta.3
+[0.1.0-beta.2]: https://github.com/rankangkang/agentlink/compare/v0.1.0-beta.1...v0.1.0-beta.2
+[0.1.0-beta.1]: https://github.com/rankangkang/agentlink/releases/tag/v0.1.0-beta.1

package/README.md

@@ -62,8 +62,8 @@ agentlink init [--local | --source <path>] [--force] [--yes]
     （--local 写 cwd，否则写 ~），不在 source 内部。
 
 agentlink sync [--source <path>] [--target <dir> | --user] [-n] [-f] [--strict]
-    刷新所有 symlink。source 按以下优先级解析：
-        --source flag → $AGENTLINK_SOURCE → ./.agents → ~/.agents
+    刷新所有 symlink。source / destination 见下方解析链；也可写在
+    agentlink.config.json 的 source / target / user 字段里持久化。
     destination root 默认是 cwd；--user / -u 改为 $HOME（把 source
     投影到 ~/.cursor / ~/.claude / ...），--target <dir> 指定任意项目根。
     --dry-run / -n      预览将做什么，不动文件系统
@@ -85,27 +85,39 @@ agentlink doctor
 
 ## source 与 config 解析
 
-agentlink 把"**对什么数据操作**"（`.agents/` source）与"**怎么操作**"（`agentlink.config.json`）解耦：两者各有独立解析链，可以共享同一份 source 但每个项目用自己的 config 覆盖行为。
+agentlink 把"**对什么数据操作**"（`.agents/` source）与"**怎么操作**"（`agentlink.config.json`）大体解耦：config 主要描述投影行为，也可选地持久化 `source` / `target` 默认值。两者各有独立解析链。
+
+**配置文件是整文件生效**——从 cwd 向上找到最近的一份 `agentlink.config.json` 后，**整份**用于 adapters / include 等；不会把「项目 config 的 adapters」和「全局 config 的 source」按字段合并。若项目目录里已有 config 文件，就不会再去读 `~/agentlink.config.json`。
 
 ### source 解析
 
 | # | 来源 | 说明 |
 |---|---|---|
 | 1 | `--source <path>` | 显式 flag |
-| 2 | `AGENTLINK_SOURCE` 环境变量 | 适合写在 shell rc |
-| 3 | `./.agents` | **本地优先** — 克隆的项目自带 `.agents/` 时压过个人全局 |
+| 2 | `config.source` | 来自**已解析的那份** config；显式设置时**优先于** `./.agents`（避免仓库里只有几条运维 command 却挡住个人全局源） |
+| 3 | `./.agents` | 项目内完整 source（config 未写 `source` 时生效） |
 | 4 | `~/.agents` | 个人推荐默认 |
 | 5 | _(报错)_ | 提示用户跑 `agentlink init` |
 
-### config 解析
+### destination 解析
+
+| # | 来源 | 说明 |
+|---|---|---|
+| 1 | `--target <dir>` | 显式 flag |
+| 2 | `--user` / `-u` | 投影根改为 `$HOME` |
+| 3 | `config.target` / `config.user` | 来自已解析的那份 config；`target` 相对路径同样相对 config 文件目录 |
+| 4 | `cwd` | 默认 |
+
+`config.target` 与 `config.user` 互斥（schema 校验）。
+
+### config 文件位置
 
 | # | 来源 | 说明 |
 |---|---|---|
 | 1 | `--config <path>` | 显式 flag |
-| 2 | `AGENTLINK_CONFIG` 环境变量 | |
-| 3 | 从 cwd 向上找最近的 `agentlink.config.json` | cwd 在 home 内时停在 home；cwd 在 home 外时走到 fs 根 |
-| 4 | `~/agentlink.config.json` | 全局兜底 |
-| 5 | _(默认值)_ | 没找到 = 视为空配置 `{}` |
+| 2 | 从 cwd 向上找最近的 `agentlink.config.json` | cwd 在 home 内时停在 home；cwd 在 home 外时走到 fs 根 |
+| 3 | `~/agentlink.config.json` | 全局兜底 |
+| 4 | _(默认值)_ | 没找到 = 视为空配置 `{}` |
 
 类似 git / eslint / tsconfig 的就近发现机制。
 
@@ -117,8 +129,13 @@ agentlink 把"**对什么数据操作**"（`.agents/` source）与"**怎么操
 
 ```jsonc
 {
+  // 可选。持久化 source / destination，省得每次带 flag。
+  // 相对路径相对于本文件所在目录解析。
+  // "source": "~/.dotfiles/agents",
+  // "target": ".",
+  // "user": true,   // 与 target 二选一，等价于 --user
+
   // asset 类型白名单。默认：["skills", "rules", "commands"]
-  // 想启用 prompts / templates / agents 在这里加上即可
   "include": ["skills", "rules", "commands"],
 
   // asset 类型黑名单（永远压过 include）

package/dist/cli.js

@@ -1,3 +1,87 @@
+// package.json
+var package_default = {
+  name: "@cmkk/agentlink",
+  version: "0.1.0-beta.3",
+  description: "Symlink your .agents/ assets into .cursor / .claude / .codebuddy and other AI agent directories with a single npx.",
+  keywords: [
+    "ai",
+    "agent",
+    "agents",
+    "skills",
+    "cursor",
+    "claude",
+    "codebuddy",
+    "symlink",
+    "cli",
+    "dotfiles"
+  ],
+  license: "MIT",
+  author: "rankangkang <rankangkang@foxmail.com>",
+  homepage: "https://github.com/rankangkang/agentlink#readme",
+  repository: {
+    type: "git",
+    url: "git+https://github.com/rankangkang/agentlink.git"
+  },
+  bugs: {
+    url: "https://github.com/rankangkang/agentlink/issues"
+  },
+  type: "module",
+  engines: {
+    node: ">=18"
+  },
+  bin: {
+    agentlink: "bin/agentlink.js"
+  },
+  main: "./dist/index.js",
+  module: "./dist/index.js",
+  types: "./dist/index.d.ts",
+  exports: {
+    ".": {
+      types: "./dist/index.d.ts",
+      import: "./dist/index.js"
+    }
+  },
+  files: [
+    "bin",
+    "dist",
+    "templates",
+    "README.md",
+    "CHANGELOG.md",
+    "LICENSE"
+  ],
+  scripts: {
+    build: "tsup",
+    dev: "tsup --watch",
+    test: "vitest run",
+    "test:watch": "vitest",
+    typecheck: "tsc --noEmit",
+    preversion: "pnpm typecheck && pnpm test && pnpm build",
+    prepublishOnly: "pnpm build && pnpm test && pnpm typecheck",
+    "publish:beta": "pnpm publish --tag beta --access public",
+    "publish:latest": "pnpm publish --access public"
+  },
+  publishConfig: {
+    access: "public"
+  },
+  dependencies: {
+    cac: "^7.0.0",
+    picocolors: "^1.1.1",
+    picomatch: "^4.0.4",
+    prompts: "^2.4.2",
+    "strip-json-comments": "^5.0.3",
+    zod: "^4.4.3"
+  },
+  devDependencies: {
+    "@types/node": "^25.6.2",
+    "@types/picomatch": "^4.0.3",
+    "@types/prompts": "^2.4.9",
+    "@vitest/coverage-v8": "^4.1.5",
+    tsup: "^8.5.1",
+    typescript: "^6.0.3",
+    vitest: "^4.1.5"
+  }
+};
+
 // src/cli.ts
 import { cac } from "cac";
 import pc7 from "picocolors";
@@ -204,7 +288,6 @@ var DEFAULT_INCLUDE = ["skills", "rules", "commands"];
 
 // src/core/config.ts
 var CONFIG_FILENAME = "agentlink.config.json";
-var ENV_CONFIG_KEY = "AGENTLINK_CONFIG";
 var ASSET_TYPE_VALUES = ["skills", "rules", "commands", "prompts", "templates", "agents"];
 var ASSET_TYPE_SET = new Set(ASSET_TYPE_VALUES);
 var assetTypeSchema = z.enum(ASSET_TYPE_VALUES);
@@ -231,11 +314,23 @@ var adapterOverrideSchema = z.union([
 var adapterNameSchema = z.enum(
   Object.keys(adapterRegistry)
 );
+var rootPathSchema = z.string().min(1);
 var configSchema = z.object({
+  source: rootPathSchema.optional(),
+  target: rootPathSchema.optional(),
+  user: z.boolean().optional(),
   include: z.array(assetTypeSchema).optional(),
   exclude: z.array(assetTypeSchema).optional(),
   adapters: z.partialRecord(adapterNameSchema, adapterOverrideSchema).optional()
-}).strict();
+}).strict().superRefine((val, ctx) => {
+  if (val.target !== void 0 && val.user === true) {
+    ctx.addIssue({
+      code: "custom",
+      message: "`target` and `user` are mutually exclusive",
+      path: ["target"]
+    });
+  }
+});
 var ConfigParseError = class extends AgentlinkError {
   issues;
   constructor(filePath, issues) {
@@ -245,13 +340,17 @@ ${lines.join("\n")}`);
     this.issues = issues;
   }
 };
-async function loadConfig(opts) {
+async function loadConfigBundle(opts = {}) {
   const location = await resolveConfigPath(opts);
-  const userConfig = location.path ? await readUserConfig(location.path) : {};
+  const parsed = location.path ? await readUserConfig(location.path) : {};
+  const configBase = location.path ? path2.dirname(location.path) : null;
+  return { location, parsed, configBase };
+}
+function resolveConfigFromParsed(userConfig, location, source) {
   const adapters = mergeAdapters(userConfig.adapters);
   const assetTypes = resolveAssetTypes(userConfig.include, userConfig.exclude);
   return {
-    source: opts.source,
+    source,
     adapters,
     assetTypes,
     configPath: location.path,
@@ -261,16 +360,10 @@ async function loadConfig(opts) {
 async function resolveConfigPath(opts = {}) {
   const cwd = opts.cwd ?? process.cwd();
   const home = opts.home ?? os.homedir();
-  const env = opts.env ?? process.env;
   if (opts.config !== void 0 && opts.config !== "") {
     const abs = await assertConfigFile(expandTilde(opts.config, home), "--config", cwd);
     return { path: abs, origin: "flag" };
   }
-  const envValue = env[ENV_CONFIG_KEY];
-  if (envValue !== void 0 && envValue !== "") {
-    const abs = await assertConfigFile(expandTilde(envValue, home), `$${ENV_CONFIG_KEY}`, cwd);
-    return { path: abs, origin: "env" };
-  }
   const ancestor = await searchAncestors(path2.resolve(cwd), home);
   if (ancestor) {
     return { path: ancestor, origin: "cwd-ancestor" };
@@ -425,7 +518,6 @@ function resolveAssetTypes(include, exclude) {
 import { promises as fs3 } from "fs";
 import os2 from "os";
 import path3 from "path";
-var ENV_SOURCE_KEY = "AGENTLINK_SOURCE";
 var AGENTS_DIRNAME = ".agents";
 async function resolvePaths(opts = {}) {
   const [src, dst] = await Promise.all([resolveSource(opts), resolveDestRoot(opts)]);
@@ -445,15 +537,19 @@ async function resolvePaths(opts = {}) {
 async function resolveSource(opts = {}) {
   const cwd = opts.cwd ?? process.cwd();
   const home = opts.home ?? os2.homedir();
-  const env = opts.env ?? process.env;
   if (opts.source !== void 0 && opts.source !== "") {
     const abs = await assertDir(expandTilde2(opts.source, home), "--source", cwd);
     return { path: abs, origin: "flag" };
   }
-  const envValue = env[ENV_SOURCE_KEY];
-  if (envValue !== void 0 && envValue !== "") {
-    const abs = await assertDir(expandTilde2(envValue, home), `$${ENV_SOURCE_KEY}`, cwd);
-    return { path: abs, origin: "env" };
+  const configSource = opts.configSource;
+  if (configSource !== void 0 && configSource !== "") {
+    const base = opts.configBase ?? cwd;
+    const abs = await assertDir(
+      resolveConfigPathValue(configSource, base, home),
+      "config.source",
+      cwd
+    );
+    return { path: abs, origin: "config" };
   }
   const local = path3.join(cwd, AGENTS_DIRNAME);
   if (await isDir(local)) {
@@ -465,11 +561,23 @@ async function resolveSource(opts = {}) {
   }
   throw new SourceNotFoundError([
     { origin: "--source flag", status: "not provided" },
-    { origin: `$${ENV_SOURCE_KEY}`, status: "not set" },
-    { origin: local, status: "missing" },
+    { origin: "config.source", status: configSourceStatus(opts) },
+    { origin: local, status: localProbeStatus(local) },
     { origin: homeAgents, status: "missing" }
   ]);
 }
+function localProbeStatus(_local) {
+  return "missing (used when config.source is not set)";
+}
+function configSourceStatus(opts) {
+  if (opts.configSource !== void 0 && opts.configSource !== "") {
+    return "not reached";
+  }
+  if (opts.resolvedConfigPath) {
+    return `not set in ${opts.resolvedConfigPath}`;
+  }
+  return "no config file loaded";
+}
 async function resolveDestRoot(opts = {}) {
   const cwd = opts.cwd ?? process.cwd();
   const home = opts.home ?? os2.homedir();
@@ -483,8 +591,27 @@ async function resolveDestRoot(opts = {}) {
   if (opts.user) {
     return { path: home, origin: "user" };
   }
+  if (opts.configTarget !== void 0 && opts.configTarget !== "" && opts.configUser) {
+    throw new ConflictError("config `target` and `user` are mutually exclusive");
+  }
+  if (opts.configTarget !== void 0 && opts.configTarget !== "") {
+    const base = opts.configBase ?? cwd;
+    const abs = await assertDir(
+      resolveConfigPathValue(opts.configTarget, base, home),
+      "config.target",
+      cwd
+    );
+    return { path: abs, origin: "config" };
+  }
+  if (opts.configUser) {
+    return { path: home, origin: "config" };
+  }
   return { path: cwd, origin: "cwd" };
 }
+function resolveConfigPathValue(input, configBase, home) {
+  const expanded = expandTilde2(input, home);
+  return path3.isAbsolute(expanded) ? expanded : path3.resolve(configBase, expanded);
+}
 function expandTilde2(p, home) {
   if (p === "~") return home;
   if (p.startsWith("~/")) return path3.join(home, p.slice(2));
@@ -511,15 +638,20 @@ function isInside2(child, parent) {
 
 // src/commands/_shared.ts
 async function loadContext(flags) {
+  const bundle = await loadConfigBundle({
+    ...flags.config !== void 0 ? { config: flags.config } : {}
+  });
   const paths = await resolvePaths({
     ...flags.source !== void 0 ? { source: flags.source } : {},
     ...flags.target !== void 0 ? { target: flags.target } : {},
-    ...flags.user !== void 0 ? { user: flags.user } : {}
-  });
-  const rawConfig = await loadConfig({
-    source: paths.source,
-    ...flags.config !== void 0 ? { config: flags.config } : {}
+    ...flags.user !== void 0 ? { user: flags.user } : {},
+    ...bundle.parsed.source !== void 0 ? { configSource: bundle.parsed.source } : {},
+    ...bundle.parsed.target !== void 0 ? { configTarget: bundle.parsed.target } : {},
+    ...bundle.parsed.user !== void 0 ? { configUser: bundle.parsed.user } : {},
+    ...bundle.configBase !== null ? { configBase: bundle.configBase } : {},
+    resolvedConfigPath: bundle.location.path
   });
+  const rawConfig = resolveConfigFromParsed(bundle.parsed, bundle.location, paths.source);
   const config = await gateAdapters(rawConfig, paths.destRoot);
   return { paths, config };
 }
@@ -1175,14 +1307,32 @@ async function writeConfigFile(answers, quiet, dryRun) {
   if (!quiet) console.log(`${pc5.green("[NEW]")}   ${configPath}`);
   return 1;
 }
+function formatSourceForConfig(target, configPath) {
+  const resolved = path8.resolve(target);
+  const configDir = path8.resolve(path8.dirname(configPath));
+  const home = path8.resolve(os3.homedir());
+  const rel = path8.relative(configDir, resolved);
+  if (rel !== "" && !rel.startsWith("..") && !path8.isAbsolute(rel)) {
+    return rel;
+  }
+  if (resolved === home || resolved.startsWith(home + path8.sep)) {
+    const tail = path8.relative(home, resolved);
+    return tail === "" ? "~" : `~/${tail}`;
+  }
+  return resolved;
+}
 function renderConfig(answers) {
   const includeJson = JSON.stringify(answers.include);
   const adapterLines = ALL_ADAPTER_NAMES.map((name) => {
     const value = answers.adapters.includes(name) ? "true" : "false";
     return `    "${name}": ${value}`;
   }).join(",\n");
+  const sourceBlock = answers.targetCategory === "custom" ? `  // Persistent default for \`agentlink sync\` (relative paths resolve from this file).
+  "source": ${JSON.stringify(formatSourceForConfig(answers.target, answers.configPath))},
+
+` : "";
   return `{
-  // Asset type allowlist. Default: ["skills", "rules", "commands"].
+${sourceBlock}  // Asset type allowlist. Default: ["skills", "rules", "commands"].
   // Add "prompts", "templates" or "agents" here to opt them in.
   "include": ${includeJson},
 
@@ -1207,9 +1357,9 @@ function printNonDefaultLocationHint(target) {
   console.log(pc5.bold("Tip \u2014 your source is at a non-default location:"));
   console.log(`  ${target}`);
   console.log("");
-  console.log("Future invocations of `agentlink sync` need to know about it. Either:");
-  console.log(`  - pass ${pc5.cyan(`--source ${target}`)} each time, or`);
-  console.log(`  - export ${pc5.cyan(`AGENTLINK_SOURCE=${target}`)} in your shell rc, or`);
+  console.log("Future invocations of `agentlink sync` will read `source` from your");
+  console.log("`agentlink.config.json` (written during init). You can also:");
+  console.log(`  - pass ${pc5.cyan(`--source ${target}`)} to override, or`);
   console.log(`  - symlink it: ${pc5.cyan(`ln -s ${target} ~/.agents`)}`);
 }
 
@@ -1256,8 +1406,8 @@ async function runUnlink(flags = {}) {
 }
 
 // src/cli.ts
-var PKG_NAME = "@cmkk/agentlink";
-var PKG_VERSION = "0.1.0";
+var PKG_NAME = package_default.name;
+var PKG_VERSION = package_default.version;
 function applyGlobalOptions(cli) {
   cli.option("--source <path>", "Override the source .agents/ location").option("-t, --target <dir>", "Run against a specific destination root").option("-u, --user", "Link into $HOME (user-level install target)").option("--config <path>", "Load a specific agentlink.config.json").option("-n, --dry-run", "Preview changes without touching the filesystem").option("-f, --force", "Replace symlinks that point somewhere unexpected").option("-q, --quiet", "Only print changes and errors").option("-v, --verbose", "Print debug-level output").option("--strict", "Treat collisions as errors instead of warnings");
 }
@@ -1292,6 +1442,7 @@ function renderError(err) {
     console.error("Hints:");
     console.error("  - run `agentlink init` to scaffold ~/.agents/");
     console.error("  - run `agentlink init --local` to scaffold ./.agents/");
+    console.error('  - set `"source"` in `agentlink.config.json`');
     console.error("  - or pass `--source <path>` explicitly");
     return;
   }

package/dist/cli.js.map

@@ -1 +1 @@
-{"version":3,"sources":["../src/cli.ts","../src/commands/clean.ts","../src/core/linker.ts","../src/commands/_shared.ts","../src/adapters/claude.ts","../src/adapters/codebuddy.ts","../src/adapters/cursor.ts","../src/adapters/index.ts","../src/core/config.ts","../src/core/errors.ts","../src/core/types.ts","../src/core/resolve.ts","../src/commands/doctor.ts","../src/core/layout.ts","../src/commands/init.ts","../src/commands/sync.ts","../src/commands/unlink.ts"],"sourcesContent":["import { cac } from 'cac';\nimport pc from 'picocolors';\n\nimport { runClean } from './commands/clean.js';\nimport { runDoctor } from './commands/doctor.js';\nimport { runInit } from './commands/init.js';\nimport { runSync } from './commands/sync.js';\nimport { runUnlink } from './commands/unlink.js';\nimport type { CommandFlags } from './commands/_shared.js';\nimport {\n  AgentlinkError,\n  ConflictError,\n  InvalidPathError,\n  SourceNotFoundError,\n} from './core/errors.js';\nimport { ConfigParseError } from './core/config.js';\nimport { StrictModeViolation } from './commands/sync.js';\n\nconst PKG_NAME = '@cmkk/agentlink';\nconst PKG_VERSION = '0.1.0';\n\nfunction applyGlobalOptions(cli: ReturnType<typeof cac>): void {\n  cli\n    .option('--source <path>', 'Override the source .agents/ location')\n    .option('-t, --target <dir>', 'Run against a specific destination root')\n    .option('-u, --user', 'Link into $HOME (user-level install target)')\n    .option('--config <path>', 'Load a specific agentlink.config.json')\n    .option('-n, --dry-run', 'Preview changes without touching the filesystem')\n    .option('-f, --force', 'Replace symlinks that point somewhere unexpected')\n    .option('-q, --quiet', 'Only print changes and errors')\n    .option('-v, --verbose', 'Print debug-level output')\n    .option('--strict', 'Treat collisions as errors instead of warnings');\n}\n\nasync function main(): Promise<void> {\n  const cli = cac('agentlink');\n\n  cli\n    .command('init', 'Create an empty .agents/ scaffold and run sync once')\n    .option('--local', 'Scaffold into ./.agents instead of ~/.agents')\n    .option('-y, --yes', 'Skip interactive prompts and use defaults (CI-friendly)')\n    .action((flags: CommandFlags & { local?: boolean; yes?: boolean }) => runInit(flags));\n\n  cli\n    .command('sync', 'Refresh all symlinks (default command)')\n    .action((flags: CommandFlags) => runSync(flags));\n\n  cli\n    .command('clean', 'Remove dangling agentlink-managed symlinks')\n    .action((flags: CommandFlags) => runClean(flags));\n\n  cli\n    .command('unlink', 'Remove every symlink agentlink ever created')\n    .action((flags: CommandFlags) => runUnlink(flags));\n\n  cli\n    .command('doctor', 'Diagnose configuration, adapters, and link health')\n    .action((flags: CommandFlags) => runDoctor(flags));\n\n  cli\n    .command('', 'Default command (alias for `sync`)')\n    .action((flags: CommandFlags) => runSync(flags));\n\n  applyGlobalOptions(cli);\n  cli.help();\n  cli.version(PKG_VERSION);\n\n  try {\n    cli.parse(process.argv, { run: false });\n    await cli.runMatchedCommand();\n  } catch (err) {\n    renderError(err);\n    process.exit(1);\n  }\n}\n\nfunction renderError(err: unknown): void {\n  if (err instanceof SourceNotFoundError) {\n    console.error(pc.red(`[${PKG_NAME}] no source .agents/ directory found.\\n`));\n    console.error('Searched:');\n    for (const { origin, status } of err.searched) {\n      console.error(`  ${origin.padEnd(40)} ${pc.dim(status)}`);\n    }\n    console.error('');\n    console.error('Hints:');\n    console.error('  - run `agentlink init` to scaffold ~/.agents/');\n    console.error('  - run `agentlink init --local` to scaffold ./.agents/');\n    console.error('  - or pass `--source <path>` explicitly');\n    return;\n  }\n\n  if (err instanceof StrictModeViolation) {\n    console.error(pc.red(`[${PKG_NAME}] aborted: ${err.message}`));\n    console.error(pc.dim('  rerun without --strict to accept the warnings, or fix the source.'));\n    return;\n  }\n\n  if (err instanceof ConfigParseError) {\n    console.error(pc.red(`[${PKG_NAME}] ${err.message}`));\n    return;\n  }\n\n  if (err instanceof InvalidPathError || err instanceof ConflictError) {\n    console.error(pc.red(`[${PKG_NAME}] ${err.message}`));\n    return;\n  }\n\n  if (err instanceof AgentlinkError) {\n    console.error(pc.red(`[${PKG_NAME}] ${err.message}`));\n    return;\n  }\n\n  const msg = err instanceof Error ? err.message : String(err);\n  console.error(pc.red(`[${PKG_NAME}] ${msg}`));\n  if (process.env['AGENTLINK_DEBUG']) {\n    console.error(err);\n  }\n}\n\nawait main();\n","import pc from 'picocolors';\n\nimport { findStaleLinks, removeLinks } from '../core/linker.js';\nimport {\n  enumerateTargetDirs,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport async function runClean(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'clean', flags);\n\n  const targets = enumerateTargetDirs(ctx).map((t) => t.targetDir);\n  const stale = (await Promise.all(targets.map(findStaleLinks))).flat();\n\n  if (stale.length === 0) {\n    console.log(pc.dim('  no dangling symlinks found'));\n    return;\n  }\n\n  const outcomes = await removeLinks(stale, flags.dryRun ? { dryRun: true } : {});\n\n  let cleaned = 0;\n  let dry = 0;\n  let errored = 0;\n  for (const o of outcomes) {\n    if (o.status === 'removed') {\n      cleaned++;\n      if (!flags.quiet) console.log(`${pc.yellow('[CLEAN]')} ${o.path}`);\n    } else if (o.status === 'dry-remove') {\n      dry++;\n      if (!flags.quiet) console.log(`${pc.dim('[DRY]')}   would clean ${o.path}`);\n    } else if (o.status === 'errored') {\n      errored++;\n      console.error(`${pc.red('[ERR]')}   ${o.path} ${pc.dim(`(${o.message ?? ''})`)}`);\n    }\n  }\n\n  console.log('');\n  const parts: string[] = [];\n  if (cleaned) parts.push(pc.yellow(`${cleaned} cleaned`));\n  if (dry) parts.push(pc.dim(`${dry} dry-run`));\n  if (errored) parts.push(pc.red(`${errored} errored`));\n  console.log(parts.length === 0 ? pc.dim('  no changes') : `  ${parts.join(', ')}`);\n\n  if (errored > 0) process.exitCode = 1;\n}\n","/**\n * Filesystem layer for agentlink. All symlink reads/writes funnel through this\n * module so command implementations stay declarative and the test suite can\n * exercise edge cases against a real tmpdir.\n *\n * Conventions:\n *   - Symlinks are written **relatively** (`path.relative(targetDir, source)`)\n *     so they survive moving the project root, mirroring the legacy\n *     `init.sh` behaviour.\n *   - Existing real files / directories are never overwritten — they always\n *     produce a `warned` outcome so the user can decide.\n *   - `dry-run` is a hard mode switch: no writes, but every check still runs\n *     so the user sees exactly what `sync` _would_ do.\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\n\nimport type { LinkPlan } from './layout.js';\n\nexport type LinkStatus =\n  | 'created' // new symlink written\n  | 'skipped' // already pointed at the right place\n  | 'fixed' // existed but pointed elsewhere; replaced (force)\n  | 'warned' // exists with conflicting kind; left untouched\n  | 'errored' // unexpected fs failure\n  | 'dry-create' // dry-run: would create\n  | 'dry-fix'; // dry-run: would replace\n\nexport interface LinkOutcome {\n  plan: LinkPlan;\n  status: LinkStatus;\n  message?: string;\n}\n\nexport interface ApplyOptions {\n  dryRun?: boolean;\n  /** Replace symlinks that point somewhere unexpected. */\n  force?: boolean;\n}\n\n/**\n * Apply each plan exactly once, returning per-plan outcomes in input order.\n * Never throws on per-plan errors; surfaces them as `errored` outcomes so a\n * single bad file does not halt a large sync.\n */\nexport async function applyPlans(\n  plans: readonly LinkPlan[],\n  options: ApplyOptions = {},\n): Promise<LinkOutcome[]> {\n  const outcomes: LinkOutcome[] = [];\n  for (const plan of plans) {\n    outcomes.push(await applyOne(plan, options));\n  }\n  return outcomes;\n}\n\nasync function applyOne(plan: LinkPlan, options: ApplyOptions): Promise<LinkOutcome> {\n  const { dryRun = false, force = false } = options;\n  const targetDir = path.dirname(plan.target);\n  const expected = path.relative(targetDir, plan.source);\n\n  try {\n    const lstat = await fs.lstat(plan.target).catch(() => null);\n\n    if (lstat?.isSymbolicLink()) {\n      const current = await fs.readlink(plan.target);\n      if (current === expected) return { plan, status: 'skipped' };\n      if (force) {\n        if (dryRun) {\n          return { plan, status: 'dry-fix', message: `${current} -> ${expected}` };\n        }\n        await fs.unlink(plan.target);\n        await fs.symlink(expected, plan.target);\n        return { plan, status: 'fixed', message: `${current} -> ${expected}` };\n      }\n      return {\n        plan,\n        status: 'warned',\n        message: `points to ${current} (use --force to repair)`,\n      };\n    }\n\n    if (lstat) {\n      const kind = lstat.isDirectory() ? 'directory' : 'file';\n      return { plan, status: 'warned', message: `${kind} already exists at target` };\n    }\n\n    if (dryRun) {\n      return { plan, status: 'dry-create' };\n    }\n\n    await fs.mkdir(targetDir, { recursive: true });\n    await fs.symlink(expected, plan.target);\n    return { plan, status: 'created' };\n  } catch (err) {\n    return { plan, status: 'errored', message: err instanceof Error ? err.message : String(err) };\n  }\n}\n\n/* ──────────────────────────  Stale link detection  ─────────────────────── */\n\n/**\n * Inspect a directory and return the absolute paths of every entry that is a\n * symlink whose target no longer resolves (`fs.stat` fails — dangling).\n *\n * Non-recursive: only the top level of `targetDir` is scanned, matching the\n * legacy `init.sh` behaviour. Symlinks pointing to nested-but-existing files\n * are left alone.\n */\nexport async function findStaleLinks(targetDir: string): Promise<string[]> {\n  const entries = await fs.readdir(targetDir, { withFileTypes: true }).catch(() => null);\n  if (!entries) return [];\n\n  const stale: string[] = [];\n  for (const entry of entries) {\n    if (!entry.isSymbolicLink()) continue;\n    const full = path.join(targetDir, entry.name);\n    const exists = await fs.stat(full).catch(() => null);\n    if (!exists) stale.push(full);\n  }\n  return stale;\n}\n\n/* ──────────────────────────  Managed-link detection (unlink)  ──────────── */\n\n/**\n * Inspect a directory and return symlinks whose resolved target lives under\n * `sourceRoot`. Used by `agentlink unlink` to find every symlink we ever\n * created without requiring a \"manifest\" file.\n *\n * Resolves the symlink target lexically (no `realpath`) so the user can swap\n * the source directory at any time without bricking the unlink path.\n *\n * Defaults to a non-recursive single-directory scan (mirroring what sync\n * publishes one level deep). Pass `{ recursive: true }` to descend into every\n * subdirectory — used by `unlink` and `doctor` to catch links that live in\n * asset subdirs the current config has dropped.\n */\nexport async function findManagedLinks(\n  targetDir: string,\n  sourceRoot: string,\n  options: { recursive?: boolean } = {},\n): Promise<string[]> {\n  const sourceAbs = path.resolve(sourceRoot);\n  const out: string[] = [];\n\n  await (async function descend(dir: string): Promise<void> {\n    const entries = await fs.readdir(dir, { withFileTypes: true }).catch(() => null);\n    if (!entries) return;\n    for (const entry of entries) {\n      const full = path.join(dir, entry.name);\n      if (entry.isSymbolicLink()) {\n        const raw = await fs.readlink(full).catch(() => null);\n        if (!raw) continue;\n        const resolved = path.isAbsolute(raw) ? path.normalize(raw) : path.resolve(dir, raw);\n        if (resolved === sourceAbs || resolved.startsWith(sourceAbs + path.sep)) {\n          out.push(full);\n        }\n      } else if (options.recursive && entry.isDirectory()) {\n        await descend(full);\n      }\n    }\n  })(targetDir);\n\n  return out;\n}\n\n/* ──────────────────────────  Removal helpers  ─────────────────────────── */\n\nexport type RemovalStatus = 'removed' | 'dry-remove' | 'errored';\n\nexport interface RemovalOutcome {\n  path: string;\n  status: RemovalStatus;\n  message?: string;\n}\n\nexport interface RemoveOptions {\n  dryRun?: boolean;\n}\n\n/**\n * Delete the supplied symlinks. Errors are returned per-path rather than\n * thrown, mirroring `applyPlans`.\n */\nexport async function removeLinks(\n  paths: readonly string[],\n  options: RemoveOptions = {},\n): Promise<RemovalOutcome[]> {\n  const { dryRun = false } = options;\n  const out: RemovalOutcome[] = [];\n  for (const p of paths) {\n    if (dryRun) {\n      out.push({ path: p, status: 'dry-remove' });\n      continue;\n    }\n    try {\n      await fs.unlink(p);\n      out.push({ path: p, status: 'removed' });\n    } catch (err) {\n      out.push({\n        path: p,\n        status: 'errored',\n        message: err instanceof Error ? err.message : String(err),\n      });\n    }\n  }\n  return out;\n}\n\n/**\n * Best-effort `rmdir` of empty managed directories left behind by `unlink`.\n * Failure to remove (e.g. user-owned siblings inside) is silent — the goal is\n * tidiness, not enforcement.\n */\nexport async function pruneEmptyDirs(dirs: readonly string[]): Promise<void> {\n  for (const dir of dirs) {\n    await fs.rmdir(dir).catch(() => undefined);\n  }\n}\n","/**\n * Shared scaffolding for command implementations:\n *   - flag plumbing (every command takes the same global flags)\n *   - context loading (resolve paths + load config)\n *   - common header printing\n *   - target-directory enumeration used by clean / unlink\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport pc from 'picocolors';\n\nimport { adapterRegistry } from '../adapters/index.js';\nimport { loadConfig } from '../core/config.js';\nimport { resolvePaths, type ResolvedPaths } from '../core/resolve.js';\nimport type { Adapter, AssetType, ResolvedConfig } from '../core/types.js';\n\nexport interface CommandFlags {\n  source?: string;\n  target?: string;\n  user?: boolean;\n  config?: string;\n  dryRun?: boolean;\n  force?: boolean;\n  quiet?: boolean;\n  verbose?: boolean;\n  strict?: boolean;\n}\n\nexport interface CommandContext {\n  paths: ResolvedPaths;\n  config: ResolvedConfig;\n}\n\nexport async function loadContext(flags: CommandFlags): Promise<CommandContext> {\n  const paths = await resolvePaths({\n    ...(flags.source !== undefined ? { source: flags.source } : {}),\n    ...(flags.target !== undefined ? { target: flags.target } : {}),\n    ...(flags.user !== undefined ? { user: flags.user } : {}),\n  });\n  const rawConfig = await loadConfig({\n    source: paths.source,\n    ...(flags.config !== undefined ? { config: flags.config } : {}),\n  });\n  const config = await gateAdapters(rawConfig, paths.destRoot);\n  return { paths, config };\n}\n\n/**\n * Drop adapters whose `rootDir` does not exist under the destination root.\n *\n * This mirrors the legacy `init.sh` \"auto-detect\" behaviour: a missing\n * `.cursor` directory is treated as \"this user does not use cursor on this\n * machine\" rather than \"create one for them\". Users opt-in by `mkdir\n * .cursor` (or running their AI tool which does so).\n */\nasync function gateAdapters(config: ResolvedConfig, destRoot: string): Promise<ResolvedConfig> {\n  const live: Adapter[] = [];\n  for (const adapter of config.adapters) {\n    const root = path.join(destRoot, adapter.rootDir);\n    const stat = await fs.stat(root).catch(() => null);\n    if (stat?.isDirectory()) live.push(adapter);\n  }\n  if (live.length === config.adapters.length) return config;\n  return { ...config, adapters: live };\n}\n\nexport function printHeader(ctx: CommandContext, mode: string, flags: CommandFlags): void {\n  if (flags.quiet) return;\n  console.log('');\n  console.log(pc.bold(`[agentlink] ${mode}`));\n  console.log(`  source:   ${ctx.paths.source} ${pc.dim(`(${ctx.paths.sourceOrigin})`)}`);\n  console.log(`  target:   ${ctx.paths.destRoot} ${pc.dim(`(${ctx.paths.destOrigin})`)}`);\n  const configLine = ctx.config.configPath\n    ? `${ctx.config.configPath} ${pc.dim(`(${ctx.config.configOrigin})`)}`\n    : pc.dim('(defaults)');\n  console.log(`  config:   ${configLine}`);\n  console.log(`  adapters: ${ctx.config.adapters.map((a) => a.name).join(', ') || pc.dim('(none)')}`);\n  if (flags.dryRun) console.log(pc.yellow('  mode:     dry-run'));\n  console.log('');\n}\n\n/**\n * Walk the (adapter × assetType) combinations relevant for the run, returning\n * each adapter's set of `targetAssetDir`s. Used by clean / unlink to know\n * which directories to inspect without re-deriving the layout themselves.\n */\nexport function enumerateTargetDirs(ctx: CommandContext): {\n  adapter: Adapter;\n  assetType: AssetType;\n  targetDir: string;\n  rootDir: string;\n}[] {\n  const out: { adapter: Adapter; assetType: AssetType; targetDir: string; rootDir: string }[] = [];\n  const root = ctx.paths.destRoot;\n  for (const adapter of ctx.config.adapters) {\n    for (const assetType of ctx.config.assetTypes as ReadonlySet<AssetType>) {\n      const slot = adapter.layout[assetType];\n      if (slot === undefined || slot === false) continue;\n      out.push({\n        adapter,\n        assetType,\n        targetDir: path.join(root, adapter.rootDir, slot.targetSubdir),\n        rootDir: path.join(root, adapter.rootDir),\n      });\n    }\n  }\n  return out;\n}\n\n/**\n * Return every built-in adapter rootDir that exists under `destRoot`,\n * regardless of whether the user has currently enabled it in config.\n *\n * Used by `unlink` and `doctor`'s orphan sweep: those operations must not\n * skip directories that the user just disabled — otherwise the legacy links\n * created when the adapter *was* enabled would be unreachable.\n *\n * `enumerateTargetDirs` (above) keeps gate semantics for sync / clean,\n * which legitimately operate only on what the current config selects.\n */\nexport async function enumerateAllAdapterRoots(\n  destRoot: string,\n): Promise<{ name: string; rootDir: string }[]> {\n  const out: { name: string; rootDir: string }[] = [];\n  for (const [name, preset] of Object.entries(adapterRegistry)) {\n    const rootDir = path.join(destRoot, preset.rootDir);\n    const stat = await fs.stat(rootDir).catch(() => null);\n    if (stat?.isDirectory()) out.push({ name, rootDir });\n  }\n  return out;\n}\n","import type { Adapter } from '../core/types.js';\n\n/**\n * Claude Code's conventions: nested directories are fine across all asset\n * types, no special suffix requirements.\n */\nexport const claude: Adapter = {\n  name: 'claude',\n  rootDir: '.claude',\n  layout: {\n    skills: { targetSubdir: 'skills' },\n    rules: { targetSubdir: 'rules' },\n    commands: { targetSubdir: 'commands' },\n  },\n};\n","import type { Adapter } from '../core/types.js';\n\n/**\n * CodeBuddy supports nested commands and the same `<root>/<asset>/` shape as\n * claude. Kept symmetric with the claude adapter for now; will diverge if the\n * agent gets stricter conventions.\n */\nexport const codebuddy: Adapter = {\n  name: 'codebuddy',\n  rootDir: '.codebuddy',\n  layout: {\n    skills: { targetSubdir: 'skills' },\n    rules: { targetSubdir: 'rules' },\n    commands: { targetSubdir: 'commands' },\n  },\n};\n","import type { Adapter } from '../core/types.js';\n\n/**\n * Cursor's filesystem conventions:\n *   - `.cursor/skills/<name>/SKILL.md` recursive (nested OK)\n *   - `.cursor/rules/<file>.mdc` flat, must use `.mdc` suffix\n *   - `.cursor/commands/<file>.md` flat (no nested subdirs)\n *   - prompts: not consumed; explicitly skipped\n */\nexport const cursor: Adapter = {\n  name: 'cursor',\n  rootDir: '.cursor',\n  layout: {\n    skills: { targetSubdir: 'skills' },\n    rules: { targetSubdir: 'rules', flatten: true, ext: '.mdc' },\n    commands: { targetSubdir: 'commands', flatten: true },\n    prompts: false,\n  },\n};\n","import type { Adapter } from '../core/types.js';\nimport { claude } from './claude.js';\nimport { codebuddy } from './codebuddy.js';\nimport { cursor } from './cursor.js';\n\n/**\n * v1 ships with three built-in adapters. The keys here are also the only valid\n * names accepted in `agentlink.config.json`'s `adapters` field — supporting a\n * new agent requires publishing a new package version.\n */\nexport const adapterRegistry = {\n  cursor,\n  claude,\n  codebuddy,\n} as const satisfies Record<string, Adapter>;\n\nexport type AdapterName = keyof typeof adapterRegistry;\n\nexport { claude, codebuddy, cursor };\n","/**\n * Locate, validate, and merge `agentlink.config.json` with built-in adapter\n * presets to produce a {@link ResolvedConfig}.\n *\n * Config and source are **decoupled** — config tells agentlink _what to do_,\n * source tells it _what data to operate on_. Each has its own resolution chain.\n *\n * Config resolution chain (highest first):\n *   1. `--config <path>` flag\n *   2. `AGENTLINK_CONFIG` env var\n *   3. nearest `agentlink.config.json` from cwd up to (but not past) the\n *      home directory or filesystem root\n *   4. `~/agentlink.config.json`\n *   5. (none) — fall back to all defaults\n *\n * Validation philosophy:\n *   - **Closed asset-type universe**: keys must be one of the literal\n *     {@link AssetType} values. Unknown names yield a friendly zod error.\n *   - **Closed adapter universe** (v1): `adapters` keys must match a built-in\n *     name (cursor / claude / codebuddy).\n *   - **Tolerant defaults**: every field is optional; missing config equals\n *     an empty `{}`.\n */\n\nimport { promises as fs } from 'node:fs';\nimport os from 'node:os';\nimport path from 'node:path';\nimport stripJsonComments from 'strip-json-comments';\nimport { z } from 'zod';\n\nimport { adapterRegistry, type AdapterName } from '../adapters/index.js';\nimport { AgentlinkError, InvalidPathError } from './errors.js';\nimport {\n  DEFAULT_INCLUDE,\n  type Adapter,\n  type AssetLayout,\n  type AssetType,\n  type ResolvedConfig,\n} from './types.js';\n\nexport const CONFIG_FILENAME = 'agentlink.config.json';\nconst ENV_CONFIG_KEY = 'AGENTLINK_CONFIG';\n\nconst ASSET_TYPE_VALUES = ['skills', 'rules', 'commands', 'prompts', 'templates', 'agents'] as const;\nconst ASSET_TYPE_SET: ReadonlySet<AssetType> = new Set(ASSET_TYPE_VALUES);\n\nconst assetTypeSchema = z.enum(ASSET_TYPE_VALUES);\n\n/**\n * `targetSubdir` is `path.join`'d under each adapter's rootDir. Letting users\n * write `..`, absolute paths, or path separators here would let them escape\n * the rootDir sandbox (and silently smear symlinks across the destination).\n *\n * We reject the obviously bad shapes at the schema layer so zod produces a\n * focused, path-aware error message instead of a generic ConfigPatchError\n * later in mergeLayout.\n */\nconst targetSubdirSchema = z\n  .string()\n  .min(1)\n  .refine((s) => !path.isAbsolute(s), {\n    message: 'targetSubdir must be relative (no leading `/` or drive letter)',\n  })\n  .refine((s) => !s.split(/[\\\\/]/).some((seg) => seg === '..'), {\n    message: 'targetSubdir cannot traverse upward (`..` segment forbidden)',\n  });\n\nconst assetLayoutSchema = z.object({\n  targetSubdir: targetSubdirSchema.optional(),\n  flatten: z.boolean().optional(),\n  include: z.array(z.string().min(1)).optional(),\n  exclude: z.array(z.string().min(1)).optional(),\n  ext: z.string().min(1).optional(),\n});\n\nconst adapterOverrideSchema = z.union([\n  z.boolean(),\n  z\n    .object({\n      // partialRecord: zod v4 z.record(enum,…) is exhaustive by default;\n      // partialRecord lets each key be optional, which is what users expect.\n      layout: z.partialRecord(assetTypeSchema, assetLayoutSchema).optional(),\n    })\n    .strict(),\n]);\n\nconst adapterNameSchema = z.enum(\n  Object.keys(adapterRegistry) as [AdapterName, ...AdapterName[]],\n);\n\n/**\n * Strict closed-world schema. Unknown root keys, unknown adapter names, and\n * unknown asset types all surface as friendly zod errors.\n */\nconst configSchema = z\n  .object({\n    include: z.array(assetTypeSchema).optional(),\n    exclude: z.array(assetTypeSchema).optional(),\n    adapters: z.partialRecord(adapterNameSchema, adapterOverrideSchema).optional(),\n  })\n  .strict();\n\ntype ParsedConfig = z.infer<typeof configSchema>;\n\nexport class ConfigParseError extends AgentlinkError {\n  readonly issues: ReadonlyArray<{ path: string; message: string }>;\n\n  constructor(filePath: string, issues: ReadonlyArray<{ path: string; message: string }>) {\n    const lines = issues.map(({ path: p, message }) => `  at ${p || '<root>'}: ${message}`);\n    super(`invalid agentlink config at ${filePath}\\n${lines.join('\\n')}`);\n    this.issues = issues;\n  }\n}\n\nexport type ConfigOrigin = 'flag' | 'env' | 'cwd-ancestor' | 'home-global' | 'defaults';\n\nexport interface ResolveConfigOptions {\n  /** `--config` flag value. */\n  config?: string;\n  /** Override `process.cwd()`. */\n  cwd?: string;\n  /** Override `os.homedir()`. */\n  home?: string;\n  /** Override `process.env`. */\n  env?: NodeJS.ProcessEnv;\n}\n\nexport interface ConfigLocation {\n  /** Absolute path that was loaded — `null` if no config file exists. */\n  path: string | null;\n  origin: ConfigOrigin;\n}\n\nexport interface LoadConfigOptions extends ResolveConfigOptions {\n  /** Absolute path to the source `.agents/` — only used to populate ResolvedConfig. */\n  source: string;\n}\n\n/**\n * Read + validate + merge the config. Returns a fully resolved view that is\n * safe to feed into command implementations.\n */\nexport async function loadConfig(opts: LoadConfigOptions): Promise<ResolvedConfig> {\n  const location = await resolveConfigPath(opts);\n  const userConfig = location.path ? await readUserConfig(location.path) : ({} as ParsedConfig);\n\n  const adapters = mergeAdapters(userConfig.adapters);\n  const assetTypes = resolveAssetTypes(userConfig.include, userConfig.exclude);\n\n  return {\n    source: opts.source,\n    adapters,\n    assetTypes,\n    configPath: location.path,\n    configOrigin: location.origin,\n  };\n}\n\n/**\n * Resolve the location of the config file (independent of source). Pure with\n * respect to everything except `fs.stat` — easy to unit-test.\n */\nexport async function resolveConfigPath(opts: ResolveConfigOptions = {}): Promise<ConfigLocation> {\n  const cwd = opts.cwd ?? process.cwd();\n  const home = opts.home ?? os.homedir();\n  const env = opts.env ?? process.env;\n\n  if (opts.config !== undefined && opts.config !== '') {\n    const abs = await assertConfigFile(expandTilde(opts.config, home), '--config', cwd);\n    return { path: abs, origin: 'flag' };\n  }\n\n  const envValue = env[ENV_CONFIG_KEY];\n  if (envValue !== undefined && envValue !== '') {\n    const abs = await assertConfigFile(expandTilde(envValue, home), `$${ENV_CONFIG_KEY}`, cwd);\n    return { path: abs, origin: 'env' };\n  }\n\n  const ancestor = await searchAncestors(path.resolve(cwd), home);\n  if (ancestor) {\n    return { path: ancestor, origin: 'cwd-ancestor' };\n  }\n\n  const homeConfig = path.join(home, CONFIG_FILENAME);\n  if (await isFile(homeConfig)) {\n    return { path: homeConfig, origin: 'home-global' };\n  }\n\n  return { path: null, origin: 'defaults' };\n}\n\n/**\n * Walk up the directory tree from `start`, looking for `agentlink.config.json`.\n * Stops as soon as we leave the home directory (or hit the filesystem root) so\n * configs from unrelated trees never leak in.\n */\nasync function searchAncestors(start: string, home: string): Promise<string | null> {\n  const homeAbs = path.resolve(home);\n  let current = start;\n  while (true) {\n    if (current === homeAbs) {\n      // Don't probe `~/agentlink.config.json` here — it has its own dedicated\n      // tier so the diagnostic origin reads as \"home-global\", not \"ancestor\".\n      return null;\n    }\n\n    const candidate = path.join(current, CONFIG_FILENAME);\n    if (await isFile(candidate)) return candidate;\n\n    const parent = path.dirname(current);\n    if (parent === current) return null; // hit filesystem root\n\n    // Stop ascending if we are about to leave the home tree (only when start\n    // was inside home). If start was outside home all along, keep walking up.\n    if (isInside(current, homeAbs) && !isInside(parent, homeAbs) && parent !== homeAbs) {\n      return null;\n    }\n    current = parent;\n  }\n}\n\nasync function assertConfigFile(input: string, flag: string, cwd: string): Promise<string> {\n  const abs = path.isAbsolute(input) ? input : path.resolve(cwd, input);\n  const stat = await fs.stat(abs).catch(() => null);\n  if (!stat) throw new InvalidPathError(flag, abs, 'missing');\n  if (!stat.isFile()) throw new InvalidPathError(flag, abs, 'not-a-file');\n  return abs;\n}\n\nasync function isFile(p: string): Promise<boolean> {\n  const stat = await fs.stat(p).catch(() => null);\n  return stat?.isFile() ?? false;\n}\n\nfunction expandTilde(p: string, home: string): string {\n  if (p === '~') return home;\n  if (p.startsWith('~/')) return path.join(home, p.slice(2));\n  return p;\n}\n\nfunction isInside(child: string, parent: string): boolean {\n  const c = path.resolve(child);\n  const p = path.resolve(parent);\n  if (c === p) return true;\n  const rel = path.relative(p, c);\n  return rel !== '' && !rel.startsWith('..') && !path.isAbsolute(rel);\n}\n\n/**\n * Read the *raw* user config and report which adapter names the user\n * explicitly opted into (i.e. anything not literally `false`). Best-effort —\n * returns an empty set on any IO/parse error so callers (e.g. doctor) can\n * fall back gracefully without hiding the real validation error from the\n * primary {@link loadConfig} pipeline.\n *\n * Centralised here so the JSONC tolerance stays consistent with `loadConfig`\n * (same comment + trailing-comma stripping) — earlier drafts had doctor.ts\n * hand-roll its own regex, which was both wrong on URLs and inconsistent\n * with the loader.\n */\nexport async function readExplicitAdapters(\n  configPath: string | null,\n): Promise<ReadonlySet<string>> {\n  if (!configPath) return new Set();\n  const raw = await fs.readFile(configPath, 'utf8').catch(() => null);\n  if (raw === null) return new Set();\n  try {\n    const parsed = JSON.parse(stripJsonComments(raw, { trailingCommas: true })) as {\n      adapters?: Record<string, unknown>;\n    };\n    if (!parsed.adapters) return new Set();\n    return new Set(Object.keys(parsed.adapters).filter((k) => parsed.adapters?.[k] !== false));\n  } catch {\n    return new Set();\n  }\n}\n\nasync function readUserConfig(filePath: string): Promise<ParsedConfig> {\n  const raw = await fs.readFile(filePath, 'utf8').catch((err: NodeJS.ErrnoException) => {\n    if (err.code === 'ENOENT') return null;\n    throw err;\n  });\n  if (raw === null) return {};\n\n  let parsed: unknown;\n  try {\n    // JSONC: tolerate `//` and `/* */` comments plus trailing commas. The\n    // template ships annotated so users can discover schema by reading.\n    parsed = JSON.parse(stripJsonComments(raw, { trailingCommas: true }));\n  } catch (err) {\n    const message = err instanceof Error ? err.message : String(err);\n    throw new ConfigParseError(filePath, [{ path: '', message: `not valid JSON: ${message}` }]);\n  }\n\n  const result = configSchema.safeParse(parsed);\n  if (!result.success) {\n    const issues = result.error.issues.map((issue) => ({\n      path: issue.path.map((seg) => String(seg)).join('.'),\n      message: issue.message,\n    }));\n    throw new ConfigParseError(filePath, issues);\n  }\n  return result.data;\n}\n\n/**\n * Apply user overrides to built-in adapter presets, returning only the adapters\n * that are enabled. Disabled adapters (`false` override) drop out entirely;\n * adapters not mentioned in user config keep their preset.\n */\nfunction mergeAdapters(\n  overrides: ParsedConfig['adapters'] | undefined,\n): readonly Adapter[] {\n  const result: Adapter[] = [];\n\n  for (const [name, preset] of Object.entries(adapterRegistry) as Array<[AdapterName, Adapter]>) {\n    const override = overrides?.[name];\n\n    if (override === false) continue;\n\n    if (override === undefined || override === true) {\n      result.push(preset);\n      continue;\n    }\n\n    result.push({\n      name: preset.name,\n      rootDir: preset.rootDir,\n      layout: mergeLayout(preset.layout, override.layout),\n    });\n  }\n\n  return result;\n}\n\n/**\n * Shape of a single `layout[<assetType>]` entry as it comes out of zod parse.\n * Differs from `Partial<AssetLayout>` because `exactOptionalPropertyTypes`\n * distinguishes \"may be omitted\" from \"may be `undefined`\".\n */\ninterface LayoutPatchValue {\n  targetSubdir?: string | undefined;\n  flatten?: boolean | undefined;\n  include?: string[] | undefined;\n  exclude?: string[] | undefined;\n  ext?: string | undefined;\n}\n\ntype LayoutPatch = Partial<Record<AssetType, LayoutPatchValue>>;\n\nfunction mergeLayout(\n  base: Adapter['layout'],\n  patch: LayoutPatch | undefined,\n): Adapter['layout'] {\n  if (!patch) return base;\n\n  const merged: Adapter['layout'] = { ...base };\n  for (const key of Object.keys(patch) as AssetType[]) {\n    const value = patch[key];\n    if (value === undefined) continue;\n\n    const baseLayout = base[key];\n    if (baseLayout === undefined || baseLayout === false) {\n      const targetSubdir = value.targetSubdir;\n      if (targetSubdir === undefined) {\n        throw new ConfigPatchError(\n          `adapter override for \"${key}\" needs a targetSubdir because the built-in adapter does not define one`,\n        );\n      }\n      merged[key] = compactLayout(targetSubdir, value);\n      continue;\n    }\n    merged[key] = mergeIntoBase(baseLayout, value);\n  }\n  return merged;\n}\n\n/** Strip `undefined` so the result respects exactOptionalPropertyTypes. */\nfunction compactLayout(targetSubdir: string, v: LayoutPatchValue): AssetLayout {\n  const out: { -readonly [K in keyof AssetLayout]: AssetLayout[K] } = { targetSubdir };\n  if (v.flatten !== undefined) out.flatten = v.flatten;\n  if (v.include !== undefined) out.include = v.include;\n  if (v.exclude !== undefined) out.exclude = v.exclude;\n  if (v.ext !== undefined) out.ext = v.ext;\n  return out;\n}\n\nfunction mergeIntoBase(base: AssetLayout, patch: LayoutPatchValue): AssetLayout {\n  const out: { -readonly [K in keyof AssetLayout]: AssetLayout[K] } = { ...base };\n  if (patch.targetSubdir !== undefined) out.targetSubdir = patch.targetSubdir;\n  if (patch.flatten !== undefined) out.flatten = patch.flatten;\n  if (patch.include !== undefined) out.include = patch.include;\n  if (patch.exclude !== undefined) out.exclude = patch.exclude;\n  if (patch.ext !== undefined) out.ext = patch.ext;\n  return out;\n}\n\nclass ConfigPatchError extends AgentlinkError {}\n\n/**\n * Compute the set of asset types that should participate in this run.\n * `include` defaults to {@link DEFAULT_INCLUDE}; `exclude` is always a hard\n * subtraction applied last.\n */\nfunction resolveAssetTypes(\n  include: readonly AssetType[] | undefined,\n  exclude: readonly AssetType[] | undefined,\n): ReadonlySet<string> {\n  const candidates = new Set<string>(include ?? DEFAULT_INCLUDE);\n  for (const denied of exclude ?? []) {\n    candidates.delete(denied);\n  }\n  return candidates;\n}\n\nexport const __test__ = {\n  ASSET_TYPE_SET,\n  CONFIG_FILENAME,\n};\n","/**\n * Domain-specific error types thrown by agentlink core modules.\n *\n * Using a small class hierarchy (rather than plain `Error` with codes) so the\n * CLI layer can `instanceof`-match and render targeted help text without\n * coupling to error message strings.\n */\n\nexport class AgentlinkError extends Error {\n  constructor(message: string) {\n    super(message);\n    this.name = new.target.name;\n  }\n}\n\n/**\n * No `.agents/` directory could be located via any resolution channel.\n * `searched` records every probe and its outcome so the CLI can render a\n * \"Searched: …\" diagnostic block.\n */\nexport class SourceNotFoundError extends AgentlinkError {\n  readonly searched: ReadonlyArray<{ origin: string; status: string }>;\n\n  constructor(searched: ReadonlyArray<{ origin: string; status: string }>) {\n    super('no source .agents/ directory found');\n    this.searched = searched;\n  }\n}\n\n/**\n * A user-supplied path (via flag or env) is missing or has the wrong shape.\n * `flag` is the originating channel name as the user would recognize it\n * (e.g. `--source`, `AGENTLINK_SOURCE`).\n */\nexport class InvalidPathError extends AgentlinkError {\n  readonly flag: string;\n  readonly path: string;\n  readonly reason: 'missing' | 'not-a-directory' | 'not-a-file';\n\n  constructor(flag: string, p: string, reason: 'missing' | 'not-a-directory' | 'not-a-file') {\n    super(InvalidPathError.message(flag, p, reason));\n    this.flag = flag;\n    this.path = p;\n    this.reason = reason;\n  }\n\n  private static message(\n    flag: string,\n    p: string,\n    reason: 'missing' | 'not-a-directory' | 'not-a-file',\n  ): string {\n    if (reason === 'missing') return `${flag} does not exist: ${p}`;\n    if (reason === 'not-a-directory') return `${flag} is not a directory: ${p}`;\n    return `${flag} is not a file: ${p}`;\n  }\n}\n\n/** Two mutually exclusive options were supplied together (e.g. --target and --user). */\nexport class ConflictError extends AgentlinkError {}\n","/**\n * Asset categories agentlink knows how to symlink.\n * Extend cautiously — adding a value here is a breaking change for adapters.\n */\nexport type AssetType = 'skills' | 'rules' | 'commands' | 'prompts' | 'templates' | 'agents';\n\n/**\n * Per-asset-type projection rule. Sentinel `false` (\"skip this asset entirely\")\n * is represented at the {@link Adapter.layout} value level rather than inside\n * AssetLayout, so that `keyof AssetLayout` stays meaningful for code that maps\n * over its fields.\n */\nexport interface AssetLayout {\n  /** Subdirectory under the adapter's `rootDir`, e.g. 'skills' / 'commands'. */\n  targetSubdir: string;\n  /**\n   * If true, source files in nested subdirectories are flattened into the target\n   * directory using `__` as the path separator (e.g. `git/commit.md` → `git__commit.md`).\n   * Use this for agents that don't support nested command/rule directories (e.g. cursor).\n   */\n  flatten?: boolean;\n  /** Glob patterns (relative to source asset dir) to include. Defaults to all files. */\n  include?: readonly string[];\n  /** Glob patterns to exclude. Applied after `include`. */\n  exclude?: readonly string[];\n  /** Force a specific file extension on the link target (e.g. `.mdc` for cursor rules). */\n  ext?: string;\n  /**\n   * Custom rename hook. Receives the relative source path; returns the target file name\n   * (without `targetSubdir`). v1: only used by built-in adapters; not exposed via JSON config.\n   */\n  rename?: (relPath: string) => string;\n}\n\n/** A layout slot is either a real layout or `false` to mean \"skip this asset type\". */\nexport type LayoutSlot = AssetLayout | false;\n\n/**\n * Built-in or user-supplied adapter describing how to project `.agents/` into one AI agent's\n * directory layout.\n */\nexport interface Adapter {\n  /** Stable identifier, e.g. 'cursor' / 'claude' / 'codebuddy'. */\n  name: string;\n  /** Directory under target root, e.g. '.cursor'. */\n  rootDir: string;\n  /** Per-asset-type projection rules. */\n  layout: Partial<Record<AssetType, LayoutSlot>>;\n}\n\n/**\n * Per-adapter overrides as written by the user in JSON config.\n * Value semantics:\n *   - `true`           : enable built-in adapter with default layout\n *   - `false`          : disable adapter even if its rootDir exists\n *   - `{ layout }`     : enable + deep-merge layout overrides onto built-in defaults\n */\nexport type AdapterOverride =\n  | boolean\n  | { layout?: Partial<Record<AssetType, AssetLayout>> };\n\n/**\n * User-facing JSON configuration loaded from `<source>/agentlink.config.json`.\n * Every field is optional; sensible defaults apply.\n */\nexport interface AgentlinkConfig {\n  /**\n   * Asset type allowlist. When omitted, falls back to the built-in default\n   * (`['skills', 'rules', 'commands']`). Use this to opt into less-common\n   * asset types like `prompts` / `templates` / `agents`.\n   */\n  include?: readonly string[];\n  /**\n   * Asset type denylist applied AFTER `include`. Always wins over `include`,\n   * useful for temporarily silencing one type without rewriting the allowlist.\n   */\n  exclude?: readonly string[];\n  /** Per-adapter overrides; see {@link AdapterOverride}. */\n  adapters?: Record<string, AdapterOverride>;\n}\n\n/**\n * Result of {@link loadConfig}: raw JSON has been validated, defaults filled,\n * and built-in adapter presets merged with user overrides. This is what every\n * runtime command (sync/clean/unlink/doctor) consumes.\n */\nexport interface ResolvedConfig {\n  /** Absolute path to the source `.agents/` directory. */\n  source: string;\n  /** Adapters that are enabled, with overrides already applied to layouts. */\n  adapters: readonly Adapter[];\n  /** Asset type names that should participate in this run. */\n  assetTypes: ReadonlySet<string>;\n  /** Absolute path of the config file actually loaded; null when no file existed. */\n  configPath: string | null;\n  /** Where the config came from. `'defaults'` means no file was found. */\n  configOrigin: 'flag' | 'env' | 'cwd-ancestor' | 'home-global' | 'defaults';\n}\n\n/** Built-in default for {@link AgentlinkConfig.include}. */\nexport const DEFAULT_INCLUDE = ['skills', 'rules', 'commands'] as const;\n","/**\n * Locate the source `.agents/` directory and the destination root for a sync run.\n *\n * Two independent resolution chains share the same {@link ResolveOptions} and\n * produce a {@link ResolvedPaths} record. Both chains are pure with respect to\n * everything except `fs.stat` probes, so they are easy to unit-test with a\n * tmpdir + injected `cwd / home / env`.\n *\n * Source chain (highest first):\n *   1. `--source <path>` flag\n *   2. `AGENTLINK_SOURCE` environment variable\n *   3. `<cwd>/.agents/`     — local-first so team repos override personal globals\n *   4. `<home>/.agents/`    — recommended default for the npx workflow\n *   5. (none) → SourceNotFoundError\n *\n * Destination chain (highest first):\n *   1. `--target <path>` flag\n *   2. `--user`             → home (user-level install target)\n *   3. (default) cwd\n */\n\nimport { promises as fs } from 'node:fs';\nimport os from 'node:os';\nimport path from 'node:path';\n\nimport { ConflictError, InvalidPathError, SourceNotFoundError } from './errors.js';\n\nexport type SourceOrigin = 'flag' | 'env' | 'cwd-local' | 'home-global';\nexport type DestOrigin = 'flag' | 'user' | 'cwd';\n\nexport interface ResolveOptions {\n  /** `--source` flag value. */\n  source?: string;\n  /** `--target` flag value. */\n  target?: string;\n  /** `--user` flag value — link into $HOME. */\n  user?: boolean;\n  /** Override `process.cwd()`. */\n  cwd?: string;\n  /** Override `os.homedir()`. */\n  home?: string;\n  /** Override `process.env`. */\n  env?: NodeJS.ProcessEnv;\n}\n\nexport interface ResolvedPaths {\n  source: string;\n  sourceOrigin: SourceOrigin;\n  destRoot: string;\n  destOrigin: DestOrigin;\n}\n\nconst ENV_SOURCE_KEY = 'AGENTLINK_SOURCE';\nconst AGENTS_DIRNAME = '.agents';\n\n/**\n * Top-level entry. Resolves source and destination concurrently and emits a\n * Node warning if `destRoot` lives inside `source` (likely a self-link mistake).\n */\nexport async function resolvePaths(opts: ResolveOptions = {}): Promise<ResolvedPaths> {\n  const [src, dst] = await Promise.all([resolveSource(opts), resolveDestRoot(opts)]);\n\n  if (isInside(dst.path, src.path)) {\n    process.emitWarning(\n      `destination root \"${dst.path}\" lives inside source \"${src.path}\" — this may create self-references.`,\n      { code: 'AGENTLINK_NESTED_DEST' },\n    );\n  }\n\n  return {\n    source: src.path,\n    sourceOrigin: src.origin,\n    destRoot: dst.path,\n    destOrigin: dst.origin,\n  };\n}\n\nexport async function resolveSource(\n  opts: ResolveOptions = {},\n): Promise<{ path: string; origin: SourceOrigin }> {\n  const cwd = opts.cwd ?? process.cwd();\n  const home = opts.home ?? os.homedir();\n  const env = opts.env ?? process.env;\n\n  if (opts.source !== undefined && opts.source !== '') {\n    const abs = await assertDir(expandTilde(opts.source, home), '--source', cwd);\n    return { path: abs, origin: 'flag' };\n  }\n\n  const envValue = env[ENV_SOURCE_KEY];\n  if (envValue !== undefined && envValue !== '') {\n    const abs = await assertDir(expandTilde(envValue, home), `$${ENV_SOURCE_KEY}`, cwd);\n    return { path: abs, origin: 'env' };\n  }\n\n  const local = path.join(cwd, AGENTS_DIRNAME);\n  if (await isDir(local)) {\n    return { path: local, origin: 'cwd-local' };\n  }\n\n  // Note: `homeAgents` is the source path under home; unrelated to the\n  // destination `--user` flag (which maps the *target* root to home).\n  const homeAgents = path.join(home, AGENTS_DIRNAME);\n  if (await isDir(homeAgents)) {\n    return { path: homeAgents, origin: 'home-global' };\n  }\n\n  throw new SourceNotFoundError([\n    { origin: '--source flag', status: 'not provided' },\n    { origin: `$${ENV_SOURCE_KEY}`, status: 'not set' },\n    { origin: local, status: 'missing' },\n    { origin: homeAgents, status: 'missing' },\n  ]);\n}\n\nexport async function resolveDestRoot(\n  opts: ResolveOptions = {},\n): Promise<{ path: string; origin: DestOrigin }> {\n  const cwd = opts.cwd ?? process.cwd();\n  const home = opts.home ?? os.homedir();\n\n  if (opts.target !== undefined && opts.target !== '' && opts.user) {\n    throw new ConflictError('--target and --user are mutually exclusive');\n  }\n\n  if (opts.target !== undefined && opts.target !== '') {\n    const abs = await assertDir(expandTilde(opts.target, home), '--target', cwd);\n    return { path: abs, origin: 'flag' };\n  }\n\n  if (opts.user) {\n    return { path: home, origin: 'user' };\n  }\n\n  return { path: cwd, origin: 'cwd' };\n}\n\n/**\n * Expand a leading `~` or `~/` to the supplied home directory.\n * Intentionally narrower than shell tilde expansion (no `~user` lookup).\n */\nexport function expandTilde(p: string, home: string): string {\n  if (p === '~') return home;\n  if (p.startsWith('~/')) return path.join(home, p.slice(2));\n  return p;\n}\n\nasync function assertDir(input: string, flag: string, cwd: string): Promise<string> {\n  const abs = path.isAbsolute(input) ? input : path.resolve(cwd, input);\n  const stat = await fs.stat(abs).catch(() => null);\n  if (!stat) throw new InvalidPathError(flag, abs, 'missing');\n  if (!stat.isDirectory()) throw new InvalidPathError(flag, abs, 'not-a-directory');\n  return abs;\n}\n\nasync function isDir(p: string): Promise<boolean> {\n  const stat = await fs.stat(p).catch(() => null);\n  return stat?.isDirectory() ?? false;\n}\n\n/**\n * `true` iff `child` is inside `parent` (or equal).\n *\n * Compares lexically — neither path is realpath-resolved, matching the rest of\n * the resolver's \"preserve symlinks\" stance.\n */\nexport function isInside(child: string, parent: string): boolean {\n  const c = path.resolve(child);\n  const p = path.resolve(parent);\n  if (c === p) return true;\n  const rel = path.relative(p, c);\n  return rel !== '' && !rel.startsWith('..') && !path.isAbsolute(rel);\n}\n","/**\n * `agentlink doctor` — read-only health check for the current source/destination\n * pair. Designed to answer \"would `agentlink sync` do something useful here,\n * and would it run cleanly?\" without writing anything to disk.\n *\n * Reports four sections:\n *   1. Adapter availability (rootDir present / config-disabled / missing)\n *   2. Link plan (count + any target-path collisions)\n *   3. Existing links (dangling, orphan)\n *   4. Aggregate verdict — sets `process.exitCode = 1` only on errors;\n *      warnings are non-blocking so doctor can be wired into pre-commit\n *      hooks without false positives.\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport pc from 'picocolors';\n\nimport { adapterRegistry } from '../adapters/index.js';\nimport { readExplicitAdapters } from '../core/config.js';\nimport { buildLinkPlans } from '../core/layout.js';\nimport { findManagedLinks, findStaleLinks } from '../core/linker.js';\nimport {\n  enumerateAllAdapterRoots,\n  enumerateTargetDirs,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport async function runDoctor(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'doctor', flags);\n\n  let warnings = 0;\n  let errors = 0;\n\n  // Read the *raw* user config so we can distinguish \"user explicitly opted\n  // into this adapter\" (warn when its rootDir is missing) from \"default\n  // pickup\" (dim when missing — most users don't have all three agents).\n  const explicitlyEnabled = await readExplicitAdapters(ctx.config.configPath);\n\n  // ── 1. Adapter availability ──────────────────────────────────────────────\n  console.log(pc.bold('Adapters'));\n  for (const [name, preset] of Object.entries(adapterRegistry)) {\n    const root = path.join(ctx.paths.destRoot, preset.rootDir);\n    const stat = await fs.stat(root).catch(() => null);\n    if (stat?.isDirectory()) {\n      console.log(\n        `  ${pc.green('✓')} ${name.padEnd(11)} ${pc.dim(preset.rootDir + '/')} ${pc.dim('(active)')}`,\n      );\n    } else if (explicitlyEnabled.has(name)) {\n      warnings++;\n      console.log(\n        `  ${pc.yellow('⚠')} ${name.padEnd(11)} ${pc.dim(preset.rootDir + '/')} ${pc.yellow('rootDir not found — sync will skip')}`,\n      );\n    } else {\n      console.log(\n        `  ${pc.dim('—')} ${name.padEnd(11)} ${pc.dim(preset.rootDir + '/')} ${pc.dim('not in use on this machine')}`,\n      );\n    }\n  }\n  console.log('');\n\n  // ── 2. Link plan ────────────────────────────────────────────────────────\n  const { plans, collisions } = await buildLinkPlans({\n    source: ctx.paths.source,\n    destRoot: ctx.paths.destRoot,\n    config: ctx.config,\n  });\n\n  console.log(pc.bold('Link plan'));\n  console.log(`  ${plans.length} plan${plans.length === 1 ? '' : 's'}`);\n  if (collisions.length === 0) {\n    console.log(`  ${pc.green('✓')} no collisions`);\n  } else {\n    warnings += collisions.length;\n    console.log(`  ${pc.yellow('⚠')} ${collisions.length} collision(s):`);\n    for (const c of collisions) {\n      console.log(`     ${pc.dim(c.adapterName + '/' + c.assetType)}  ${c.target}`);\n      for (const s of c.sources) console.log(`       ${pc.dim('←')} ${s}`);\n    }\n  }\n  console.log('');\n\n  // ── 3. Existing links ───────────────────────────────────────────────────\n  const targetDirs = enumerateTargetDirs(ctx).map((t) => t.targetDir);\n  const stale = (await Promise.all(targetDirs.map(findStaleLinks))).flat();\n\n  // Recursive sweep — orphans can live in asset subdirs that the current\n  // config no longer mentions, AND in adapter rootDirs the user has just\n  // disabled. Walk every built-in adapter rootDir that exists, ignoring the\n  // current `ctx.config.adapters` gate so doctor stays comprehensive.\n  const allRoots = await enumerateAllAdapterRoots(ctx.paths.destRoot);\n  const managed = (\n    await Promise.all(\n      allRoots.map((r) => findManagedLinks(r.rootDir, ctx.paths.source, { recursive: true })),\n    )\n  ).flat();\n  const staleSet = new Set(stale);\n  const planTargets = new Set(plans.map((p) => p.target));\n  const orphans = managed.filter((p) => !planTargets.has(p) && !staleSet.has(p));\n\n  console.log(pc.bold('Existing links'));\n  if (stale.length === 0 && orphans.length === 0) {\n    console.log(`  ${pc.green('✓')} all clear`);\n  } else {\n    if (stale.length > 0) {\n      warnings += stale.length;\n      console.log(\n        `  ${pc.yellow('⚠')} ${stale.length} dangling ${pc.dim('(run `agentlink clean` to drop):')}`,\n      );\n      for (const p of stale) console.log(`     ${p}`);\n    }\n    if (orphans.length > 0) {\n      warnings += orphans.length;\n      console.log(\n        `  ${pc.yellow('⚠')} ${orphans.length} orphan ${pc.dim('(linked into source but not in current plan; `unlink` then `sync` will rebuild):')}`,\n      );\n      for (const p of orphans) console.log(`     ${p}`);\n    }\n  }\n  console.log('');\n\n  // ── 4. Verdict ──────────────────────────────────────────────────────────\n  if (warnings + errors === 0) {\n    console.log(pc.green('Healthy'));\n    return;\n  }\n  const parts: string[] = [];\n  if (warnings > 0) parts.push(pc.yellow(`${warnings} warning${warnings === 1 ? '' : 's'}`));\n  if (errors > 0) parts.push(pc.red(`${errors} error${errors === 1 ? '' : 's'}`));\n  console.log(`Issues: ${parts.join(', ')}`);\n  if (errors > 0) process.exitCode = 1;\n}\n\n","/**\n * Translate a {@link ResolvedConfig} into a flat list of {@link LinkPlan}s\n * that the linker module can execute one symlink at a time.\n *\n * For each `(adapter, assetType)` pair this module:\n *   - resolves the source asset directory under `<source>/<assetType>`\n *   - resolves the target directory under `<destRoot>/<rootDir>/<targetSubdir>`\n *   - applies `flatten` / `ext` / `rename` / `include` / `exclude`\n *   - detects target-path collisions and surfaces them as {@link Conflict}s\n *\n * Conflict policy is intentionally _diagnostic only_ here — the caller decides\n * whether to warn (default) or fail (`--strict`).\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport picomatch from 'picomatch';\n\nimport type {\n  Adapter,\n  AssetLayout,\n  AssetType,\n  ResolvedConfig,\n} from './types.js';\n\nexport interface LinkPlan {\n  /** Absolute source path (file when flattened, file-or-directory otherwise). */\n  source: string;\n  /** Absolute target path the symlink will live at. */\n  target: string;\n  /** Asset type bucket this plan came from. */\n  assetType: AssetType;\n  /** Name of the adapter that produced this plan. */\n  adapterName: string;\n  /** True when source enumeration recursed into nested files. */\n  flattened: boolean;\n}\n\nexport interface Conflict {\n  /** Target path that two or more plans claim. */\n  target: string;\n  /** Source paths competing for the same target. */\n  sources: readonly string[];\n  /** Asset type / adapter the collision happened in (for diagnostics). */\n  adapterName: string;\n  assetType: AssetType;\n}\n\nexport interface BuildResult {\n  /** Plans whose targets are unique. Safe to apply. */\n  plans: readonly LinkPlan[];\n  /** Plans dropped because their target collided with another (default policy). */\n  collisions: readonly Conflict[];\n}\n\nexport interface BuildOptions {\n  /** Absolute path to the source `.agents/` directory. */\n  source: string;\n  /** Absolute path to the destination root. */\n  destRoot: string;\n  /** Resolved config (loaded via {@link loadConfig}). */\n  config: ResolvedConfig;\n}\n\n/**\n * Build the flat plan list. Pure function — only reads the filesystem; never\n * writes. Safe to call from `--dry-run`.\n */\nexport async function buildLinkPlans(opts: BuildOptions): Promise<BuildResult> {\n  const { source, destRoot, config } = opts;\n  const draft: LinkPlan[] = [];\n\n  for (const adapter of config.adapters) {\n    for (const assetType of config.assetTypes as ReadonlySet<AssetType>) {\n      const slot = adapter.layout[assetType];\n      if (slot === undefined || slot === false) continue;\n\n      const sourceAssetDir = path.join(source, assetType);\n      if (!(await isDir(sourceAssetDir))) continue;\n\n      const targetAssetDir = path.join(destRoot, adapter.rootDir, slot.targetSubdir);\n      const planned = slot.flatten\n        ? await planFlattened(sourceAssetDir, targetAssetDir, slot, adapter, assetType)\n        : await planShallow(sourceAssetDir, targetAssetDir, slot, adapter, assetType);\n\n      draft.push(...planned);\n    }\n  }\n\n  return splitByCollision(draft);\n}\n\n/* ──────────────────────────  flatten = true  ───────────────────────────── */\n\nasync function planFlattened(\n  sourceAssetDir: string,\n  targetAssetDir: string,\n  layout: AssetLayout,\n  adapter: Adapter,\n  assetType: AssetType,\n): Promise<LinkPlan[]> {\n  const files = await walkFiles(sourceAssetDir);\n  const includeMatch = makeIncludeMatcher(layout.include);\n  const excludeMatch = makeExcludeMatcher(layout.exclude);\n  const out: LinkPlan[] = [];\n\n  for (const abs of files) {\n    const rel = path.relative(sourceAssetDir, abs);\n    if (!includeMatch(rel)) continue;\n    if (excludeMatch(rel)) continue;\n\n    const targetName = applyRename(rel, layout, /* flatten */ true);\n    out.push({\n      source: abs,\n      target: path.join(targetAssetDir, targetName),\n      adapterName: adapter.name,\n      assetType,\n      flattened: true,\n    });\n  }\n  return out;\n}\n\n/* ──────────────────────────  flatten = false (default)  ───────────────── */\n\nasync function planShallow(\n  sourceAssetDir: string,\n  targetAssetDir: string,\n  layout: AssetLayout,\n  adapter: Adapter,\n  assetType: AssetType,\n): Promise<LinkPlan[]> {\n  const items = await listFirstLevel(sourceAssetDir);\n  const includeMatch = makeIncludeMatcher(layout.include);\n  const excludeMatch = makeExcludeMatcher(layout.exclude);\n  const out: LinkPlan[] = [];\n\n  for (const entry of items) {\n    if (!includeMatch(entry.name)) continue;\n    if (excludeMatch(entry.name)) continue;\n\n    const targetName = applyRename(entry.name, layout, /* flatten */ false);\n    out.push({\n      source: path.join(sourceAssetDir, entry.name),\n      target: path.join(targetAssetDir, targetName),\n      adapterName: adapter.name,\n      assetType,\n      flattened: false,\n    });\n  }\n  return out;\n}\n\n/* ──────────────────────────  Naming helpers  ──────────────────────────── */\n\nconst PATH_SEPARATOR_RE = /[\\\\/]/g;\n\nfunction applyRename(relPath: string, layout: AssetLayout, flatten: boolean): string {\n  if (layout.rename) return layout.rename(relPath);\n\n  let name = flatten ? relPath.replace(PATH_SEPARATOR_RE, '__') : relPath;\n  if (layout.ext) {\n    const ext = path.extname(name);\n    name = ext ? name.slice(0, -ext.length) + layout.ext : name + layout.ext;\n  }\n  return name;\n}\n\n/* ──────────────────────────  Filesystem walkers  ──────────────────────── */\n\nasync function walkFiles(root: string): Promise<string[]> {\n  const out: string[] = [];\n  await (async function descend(dir: string): Promise<void> {\n    const entries = await fs.readdir(dir, { withFileTypes: true });\n    for (const entry of entries) {\n      // Hidden entries (`.gitkeep`, `.DS_Store`, etc.) are placeholder/system\n      // files, never real assets. Mirrors `listFirstLevel` behaviour.\n      if (entry.name.startsWith('.')) continue;\n      const full = path.join(dir, entry.name);\n      if (entry.isDirectory()) {\n        await descend(full);\n      } else if (entry.isFile() || entry.isSymbolicLink()) {\n        out.push(full);\n      }\n    }\n  })(root);\n  return out;\n}\n\nasync function listFirstLevel(root: string): Promise<readonly { name: string; isDir: boolean }[]> {\n  const entries = await fs.readdir(root, { withFileTypes: true });\n  return entries\n    .filter((e) => !e.name.startsWith('.'))\n    .map((e) => ({ name: e.name, isDir: e.isDirectory() }));\n}\n\nasync function isDir(p: string): Promise<boolean> {\n  const stat = await fs.stat(p).catch(() => null);\n  return stat?.isDirectory() ?? false;\n}\n\n/* ──────────────────────────  Glob matchers  ───────────────────────────── */\n\n/**\n * `include` matcher: empty/missing list means \"everything passes\".\n */\nfunction makeIncludeMatcher(patterns: readonly string[] | undefined): (rel: string) => boolean {\n  if (!patterns || patterns.length === 0) return () => true;\n  const fns = patterns.map((p) => picomatch(p, { dot: true }));\n  return (rel) => fns.some((fn) => fn(rel));\n}\n\n/**\n * `exclude` matcher: empty/missing list means \"nothing is excluded\".\n */\nfunction makeExcludeMatcher(patterns: readonly string[] | undefined): (rel: string) => boolean {\n  if (!patterns || patterns.length === 0) return () => false;\n  const fns = patterns.map((p) => picomatch(p, { dot: true }));\n  return (rel) => fns.some((fn) => fn(rel));\n}\n\n/* ──────────────────────────  Collision detection  ─────────────────────── */\n\nfunction splitByCollision(plans: readonly LinkPlan[]): BuildResult {\n  const byTarget = new Map<string, LinkPlan[]>();\n  for (const plan of plans) {\n    const bucket = byTarget.get(plan.target);\n    if (bucket) bucket.push(plan);\n    else byTarget.set(plan.target, [plan]);\n  }\n\n  const accepted: LinkPlan[] = [];\n  const collisions: Conflict[] = [];\n  for (const [target, bucket] of byTarget) {\n    if (bucket.length === 1) {\n      accepted.push(bucket[0]!);\n      continue;\n    }\n    const head = bucket[0]!;\n    collisions.push({\n      target,\n      sources: bucket.map((p) => p.source),\n      adapterName: head.adapterName,\n      assetType: head.assetType,\n    });\n  }\n  return { plans: accepted, collisions };\n}\n","/**\n * `agentlink init` — interactively scaffold a `.agents/` directory and run\n * sync once so the user gets working symlinks immediately.\n *\n * Three knobs the user can tweak via prompts:\n *   1. **Target location** (only when neither `--local` nor `--source` is set):\n *        `~/.agents` (recommended) vs `./.agents`.\n *   2. **Asset types** to include — multi-select; defaults to skills/rules/commands.\n *   3. **Adapters** to enable — multi-select; defaults to all three.\n *\n * Non-interactive degrade rules:\n *   - `--yes / -y` ⇒ everything defaults, no prompts\n *   - stdin not a TTY ⇒ same (suitable for CI / piping)\n *   - any flag that already answers a question ⇒ skip that prompt\n *\n * Refuses to clobber a non-empty target unless `--force`.\n */\n\nimport { promises as fs } from 'node:fs';\nimport os from 'node:os';\nimport path from 'node:path';\nimport { fileURLToPath } from 'node:url';\nimport pc from 'picocolors';\nimport prompts from 'prompts';\n\nimport { adapterRegistry, type AdapterName } from '../adapters/index.js';\nimport { AgentlinkError } from '../core/errors.js';\nimport { runSync } from './sync.js';\nimport type { CommandFlags } from './_shared.js';\n\nexport interface InitFlags extends CommandFlags {\n  local?: boolean;\n  yes?: boolean;\n}\n\nexport class InitTargetExistsError extends AgentlinkError {\n  constructor(targetPath: string) {\n    super(`refusing to scaffold into a non-empty directory: ${targetPath}\\n  use --force to merge into the existing files`);\n  }\n}\n\nconst ALL_ASSET_TYPES = ['skills', 'rules', 'commands', 'prompts', 'templates', 'agents'] as const;\nconst DEFAULT_ASSET_TYPES = ['skills', 'rules', 'commands'] as const;\nconst ALL_ADAPTER_NAMES = Object.keys(adapterRegistry) as AdapterName[];\n\nconst HERE = path.dirname(fileURLToPath(import.meta.url));\nconst TEMPLATE_CANDIDATES = [\n  path.resolve(HERE, '..', 'templates', 'v1'),\n  path.resolve(HERE, '..', '..', 'templates', 'v1'),\n];\n\nasync function findTemplatesDir(): Promise<string> {\n  for (const candidate of TEMPLATE_CANDIDATES) {\n    const stat = await fs.stat(candidate).catch(() => null);\n    if (stat?.isDirectory()) return candidate;\n  }\n  throw new AgentlinkError(\n    `agentlink templates dir not found; searched:\\n  ${TEMPLATE_CANDIDATES.join('\\n  ')}`,\n  );\n}\n\ninterface InitAnswers {\n  /** Where the source `.agents/` directory is created. */\n  target: string;\n  targetCategory: 'home' | 'cwd' | 'custom';\n  /** Where the `agentlink.config.json` is written (independent of source). */\n  configPath: string;\n  configCategory: 'home' | 'cwd';\n  include: readonly string[];\n  adapters: readonly AdapterName[];\n}\n\nexport async function runInit(flags: InitFlags = {}): Promise<void> {\n  const answers = await collectAnswers(flags);\n\n  if (!flags.quiet) {\n    console.log('');\n    console.log(pc.bold('[agentlink] init'));\n    console.log(`  target:   ${answers.target}`);\n    console.log('');\n  }\n\n  const created = await scaffoldInto(answers, {\n    force: flags.force ?? false,\n    quiet: flags.quiet ?? false,\n    dryRun: flags.dryRun ?? false,\n  });\n  if (!created.touched && !flags.quiet) {\n    console.log(pc.dim('  no files written; .agents/ already populated'));\n  }\n\n  if (answers.targetCategory === 'custom' && !flags.quiet) {\n    printNonDefaultLocationHint(answers.target);\n  }\n\n  if (!flags.quiet) console.log('');\n\n  // In dry-run mode the source directory was never actually created, so a\n  // follow-up sync would just throw on resolveSource. Tell the user what\n  // a real run would have done and exit cleanly instead.\n  if (flags.dryRun) {\n    if (!flags.quiet) {\n      console.log(\n        pc.dim(\n          `  (dry-run) would run \\`agentlink sync\\` against ${answers.target} after scaffolding`,\n        ),\n      );\n    }\n    return;\n  }\n\n  // Best-effort follow-up sync so the user gets immediate symlinks if they\n  // already have `.cursor` / `.claude` / `.codebuddy` in cwd. The adapter\n  // gate makes this a no-op when none exist.\n  await runSync({\n    source: answers.target,\n    ...(flags.target !== undefined ? { target: flags.target } : {}),\n    ...(flags.user !== undefined ? { user: flags.user } : {}),\n    ...(flags.quiet !== undefined ? { quiet: flags.quiet } : {}),\n  });\n}\n\n/* ──────────────────────────  Prompt orchestration  ─────────────────────── */\n\nasync function collectAnswers(flags: InitFlags): Promise<InitAnswers> {\n  const skipPrompts = flags.yes || !process.stdin.isTTY;\n\n  // 1) Target location\n  let target: string;\n  let targetCategory: InitAnswers['targetCategory'];\n  if (flags.source !== undefined && flags.source !== '') {\n    target = path.resolve(expandTilde(flags.source));\n    targetCategory = categorizeTarget(target);\n  } else if (flags.local) {\n    target = path.resolve(process.cwd(), '.agents');\n    targetCategory = 'cwd';\n  } else if (skipPrompts) {\n    target = path.resolve(os.homedir(), '.agents');\n    targetCategory = 'home';\n  } else {\n    const choice = await ask<{ kind: 'home' | 'cwd' }>({\n      type: 'select',\n      name: 'kind',\n      message: 'Where should agentlink put your .agents/ directory?',\n      choices: [\n        {\n          title: 'Personal global (~/.agents)',\n          description: 'Recommended — share assets across every project',\n          value: 'home',\n        },\n        {\n          title: 'Repo-local (./.agents)',\n          description: 'Ship a curated .agents/ inside this repository',\n          value: 'cwd',\n        },\n      ],\n      initial: 0,\n    });\n    target =\n      choice.kind === 'home'\n        ? path.resolve(os.homedir(), '.agents')\n        : path.resolve(process.cwd(), '.agents');\n    targetCategory = choice.kind;\n  }\n\n  // 2) Asset types\n  let include: readonly string[];\n  if (skipPrompts) {\n    include = DEFAULT_ASSET_TYPES;\n  } else {\n    const { values } = await ask<{ values: string[] }>({\n      type: 'multiselect',\n      name: 'values',\n      message: 'Which asset types do you want to manage?',\n      hint: 'space to toggle, enter to confirm',\n      choices: ALL_ASSET_TYPES.map((name) => ({\n        title: name,\n        value: name,\n        selected: (DEFAULT_ASSET_TYPES as readonly string[]).includes(name),\n      })),\n      min: 1,\n      instructions: false,\n    });\n    include = values;\n  }\n\n  // 3) Adapters\n  let adapters: readonly AdapterName[];\n  if (skipPrompts) {\n    adapters = ALL_ADAPTER_NAMES;\n  } else {\n    const { values } = await ask<{ values: AdapterName[] }>({\n      type: 'multiselect',\n      name: 'values',\n      message: 'Which AI agents do you want to target?',\n      hint: 'space to toggle, enter to confirm',\n      choices: ALL_ADAPTER_NAMES.map((name) => ({\n        title: name,\n        value: name,\n        selected: true,\n      })),\n      min: 1,\n      instructions: false,\n    });\n    adapters = values;\n  }\n\n  // Decide where the config file lands. Config is decoupled from source —\n  // whichever location a future `agentlink sync` is most likely to run from.\n  const configCategory: InitAnswers['configCategory'] =\n    targetCategory === 'cwd' ? 'cwd' : 'home';\n  const configPath =\n    configCategory === 'home'\n      ? path.resolve(os.homedir(), 'agentlink.config.json')\n      : path.resolve(process.cwd(), 'agentlink.config.json');\n\n  return { target, targetCategory, configPath, configCategory, include, adapters };\n}\n\n/**\n * Wrapper that turns user-cancellation (Ctrl-C) into a thrown error rather\n * than letting `prompts` resolve with `{}` and silently producing an empty\n * config.\n */\nasync function ask<T extends Record<string, unknown>>(\n  question: prompts.PromptObject,\n): Promise<T> {\n  let cancelled = false;\n  const answer = await prompts(question, {\n    onCancel: () => {\n      cancelled = true;\n      return false;\n    },\n  });\n  if (cancelled) throw new AgentlinkError('init cancelled');\n  return answer as T;\n}\n\nfunction categorizeTarget(target: string): InitAnswers['targetCategory'] {\n  const home = path.resolve(os.homedir(), '.agents');\n  const cwd = path.resolve(process.cwd(), '.agents');\n  if (target === home) return 'home';\n  if (target === cwd) return 'cwd';\n  return 'custom';\n}\n\nfunction expandTilde(p: string): string {\n  if (p === '~') return os.homedir();\n  if (p.startsWith('~/')) return path.join(os.homedir(), p.slice(2));\n  return p;\n}\n\n/* ──────────────────────────  Scaffolding  ─────────────────────────────── */\n\ninterface ScaffoldResult {\n  touched: boolean;\n}\n\ninterface ScaffoldOptions {\n  force: boolean;\n  quiet: boolean;\n  /** When true: probe and report what would happen, never touch the filesystem. */\n  dryRun: boolean;\n}\n\nasync function scaffoldInto(\n  answers: InitAnswers,\n  options: ScaffoldOptions,\n): Promise<ScaffoldResult> {\n  const { force, quiet, dryRun } = options;\n  const target = answers.target;\n  const stat = await fs.stat(target).catch(() => null);\n  if (stat && !stat.isDirectory()) {\n    throw new AgentlinkError(`init target exists but is not a directory: ${target}`);\n  }\n\n  if (stat && !force) {\n    const entries = await fs.readdir(target);\n    if (entries.length > 0) throw new InitTargetExistsError(target);\n  }\n\n  if (!dryRun) {\n    await fs.mkdir(target, { recursive: true });\n  } else if (!stat && !quiet) {\n    console.log(`${pc.dim('[DRY]')}   would create ${target}/`);\n  }\n\n  const templatesDir = await findTemplatesDir();\n\n  let written = 0;\n  written += await copyStaticAssets(templatesDir, target, answers.include, quiet, dryRun);\n  written += await writeConfigFile(answers, quiet, dryRun);\n  return { touched: written > 0 };\n}\n\n/**\n * Copy README and `.gitkeep` placeholders for each user-selected asset type.\n * The config file is rendered separately by `writeConfigFile` because its\n * contents depend on the user's answers.\n */\nasync function copyStaticAssets(\n  templatesDir: string,\n  target: string,\n  include: readonly string[],\n  quiet: boolean,\n  dryRun: boolean,\n): Promise<number> {\n  let written = 0;\n\n  // README — copy as-is if not already present.\n  const readmeSrc = path.join(templatesDir, 'README.md');\n  const readmeDest = path.join(target, 'README.md');\n  if ((await fs.stat(readmeSrc).catch(() => null)) && !(await fs.stat(readmeDest).catch(() => null))) {\n    if (dryRun) {\n      if (!quiet) console.log(`${pc.dim('[DRY]')}   would create ${readmeDest}`);\n    } else {\n      await fs.copyFile(readmeSrc, readmeDest);\n      if (!quiet) console.log(`${pc.green('[NEW]')}   ${readmeDest}`);\n    }\n    written++;\n  }\n\n  // Per-asset-type empty directories with a placeholder so they survive `git add`.\n  for (const assetType of include) {\n    const dir = path.join(target, assetType);\n    const keep = path.join(dir, '.gitkeep');\n    const keepExists = await fs.stat(keep).catch(() => null);\n    if (keepExists) continue;\n\n    if (dryRun) {\n      if (!quiet) console.log(`${pc.dim('[DRY]')}   would create ${keep}`);\n    } else {\n      await fs.mkdir(dir, { recursive: true });\n      await fs.writeFile(keep, '');\n      if (!quiet) console.log(`${pc.green('[NEW]')}   ${keep}`);\n    }\n    written++;\n  }\n\n  return written;\n}\n\nasync function writeConfigFile(\n  answers: InitAnswers,\n  quiet: boolean,\n  dryRun: boolean,\n): Promise<number> {\n  const configPath = answers.configPath;\n  if (await fs.stat(configPath).catch(() => null)) {\n    if (!quiet) console.log(`${pc.cyan('[SKIP]')}  ${configPath} (already exists)`);\n    return 0;\n  }\n  if (dryRun) {\n    if (!quiet) console.log(`${pc.dim('[DRY]')}   would create ${configPath}`);\n    return 1;\n  }\n  await fs.mkdir(path.dirname(configPath), { recursive: true });\n  await fs.writeFile(configPath, renderConfig(answers), 'utf8');\n  if (!quiet) console.log(`${pc.green('[NEW]')}   ${configPath}`);\n  return 1;\n}\n\n/**\n * Render `agentlink.config.json` as JSONC with explanatory comments. We hand-\n * format this rather than `JSON.stringify`-ing because the comments are the\n * whole point — users learn the schema by reading the seed file.\n */\nexport function renderConfig(answers: InitAnswers): string {\n  const includeJson = JSON.stringify(answers.include);\n  const adapterLines = ALL_ADAPTER_NAMES.map((name) => {\n    const value = answers.adapters.includes(name) ? 'true' : 'false';\n    return `    \"${name}\": ${value}`;\n  }).join(',\\n');\n\n  return `{\n  // Asset type allowlist. Default: [\"skills\", \"rules\", \"commands\"].\n  // Add \"prompts\", \"templates\" or \"agents\" here to opt them in.\n  \"include\": ${includeJson},\n\n  // Asset type denylist (always wins over \\`include\\`).\n  \"exclude\": [],\n\n  // Per-adapter overrides. Each value can be:\n  //   - true                       : enable with built-in defaults\n  //   - false                      : disable even if its rootDir exists\n  //   - { \"layout\": { … } }        : enable + override specific asset layouts\n  //\n  // Example: keep cursor commands nested instead of flattened\n  //   \"cursor\": { \"layout\": { \"commands\": { \"flatten\": false } } }\n  \"adapters\": {\n${adapterLines}\n  }\n}\n`;\n}\n\n/* ──────────────────────────  Hints  ───────────────────────────────────── */\n\nfunction printNonDefaultLocationHint(target: string): void {\n  console.log('');\n  console.log(pc.bold('Tip — your source is at a non-default location:'));\n  console.log(`  ${target}`);\n  console.log('');\n  console.log('Future invocations of `agentlink sync` need to know about it. Either:');\n  console.log(`  - pass ${pc.cyan(`--source ${target}`)} each time, or`);\n  console.log(`  - export ${pc.cyan(`AGENTLINK_SOURCE=${target}`)} in your shell rc, or`);\n  console.log(`  - symlink it: ${pc.cyan(`ln -s ${target} ~/.agents`)}`);\n}\n","import path from 'node:path';\nimport pc from 'picocolors';\n\nimport { buildLinkPlans, type Conflict } from '../core/layout.js';\nimport { applyPlans, findStaleLinks, removeLinks, type LinkOutcome } from '../core/linker.js';\nimport { AgentlinkError } from '../core/errors.js';\nimport {\n  enumerateTargetDirs,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport class StrictModeViolation extends AgentlinkError {\n  constructor(public readonly conflicts: readonly Conflict[]) {\n    super(`${conflicts.length} link target collision(s) under --strict`);\n  }\n}\n\nexport async function runSync(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'sync', flags);\n\n  const { plans, collisions } = await buildLinkPlans({\n    source: ctx.paths.source,\n    destRoot: ctx.paths.destRoot,\n    config: ctx.config,\n  });\n\n  if (collisions.length > 0) {\n    reportCollisions(collisions, flags.quiet ?? false);\n    if (flags.strict) {\n      throw new StrictModeViolation(collisions);\n    }\n  }\n\n  const outcomes = await applyPlans(plans, {\n    ...(flags.dryRun !== undefined ? { dryRun: flags.dryRun } : {}),\n    ...(flags.force !== undefined ? { force: flags.force } : {}),\n  });\n\n  // Sweep up dangling links left from previous syncs whose source files were\n  // deleted. Mirrors the legacy init.sh behaviour where every run also cleans.\n  const targetDirs = enumerateTargetDirs(ctx).map((t) => t.targetDir);\n  const stale = (await Promise.all(targetDirs.map(findStaleLinks))).flat();\n  const removed = await removeLinks(stale, flags.dryRun ? { dryRun: true } : {});\n\n  reportOutcomes(outcomes, ctx.paths.destRoot, flags.quiet ?? false);\n  reportRemovals(removed, flags.quiet ?? false);\n  printSummary(outcomes, removed, collisions);\n\n  // Any individual link operation that errored should fail the whole run so\n  // CI / pre-commit hooks can detect a partially-broken sync. Conflicts are\n  // already either warned (default) or thrown (via --strict above), so we\n  // only consider link-level failures here.\n  const errored =\n    outcomes.filter((o) => o.status === 'errored').length +\n    removed.filter((r) => r.status === 'errored').length;\n  if (errored > 0) process.exitCode = 1;\n}\n\n/* ──────────────────────────  Reporting helpers  ────────────────────────── */\n\nfunction reportCollisions(collisions: readonly Conflict[], quiet: boolean): void {\n  if (quiet) return;\n  for (const c of collisions) {\n    console.warn(\n      pc.yellow(`[WARN] target collision under ${c.adapterName}/${c.assetType}: ${c.target}`),\n    );\n    for (const s of c.sources) console.warn(pc.dim(`        source: ${s}`));\n  }\n}\n\nfunction reportOutcomes(\n  outcomes: readonly LinkOutcome[],\n  destRoot: string,\n  quiet: boolean,\n): void {\n  for (const o of outcomes) {\n    const display = path.relative(destRoot, o.plan.target);\n    switch (o.status) {\n      case 'created':\n        if (!quiet) console.log(`${pc.green('[OK]')}    ${display}`);\n        break;\n      case 'fixed':\n        console.log(`${pc.green('[FIX]')}   ${display} ${pc.dim(`(${o.message})`)}`);\n        break;\n      case 'skipped':\n        if (!quiet) console.log(`${pc.cyan('[SKIP]')}  ${display}`);\n        break;\n      case 'warned':\n        console.warn(`${pc.yellow('[WARN]')}  ${display} ${pc.dim(`(${o.message ?? ''})`)}`);\n        break;\n      case 'errored':\n        console.error(`${pc.red('[ERR]')}   ${display} ${pc.dim(`(${o.message ?? ''})`)}`);\n        break;\n      case 'dry-create':\n        if (!quiet) console.log(`${pc.dim('[DRY]')}   ${display}`);\n        break;\n      case 'dry-fix':\n        console.log(`${pc.dim('[DRY]')}   ${display} ${pc.dim(`(would fix: ${o.message})`)}`);\n        break;\n    }\n  }\n}\n\nfunction reportRemovals(\n  removals: readonly { path: string; status: string; message?: string }[],\n  quiet: boolean,\n): void {\n  for (const r of removals) {\n    if (r.status === 'removed' && !quiet) {\n      console.log(`${pc.yellow('[CLEAN]')} ${r.path}`);\n    } else if (r.status === 'dry-remove' && !quiet) {\n      console.log(`${pc.dim('[DRY]')}   would clean ${r.path}`);\n    } else if (r.status === 'errored') {\n      console.error(`${pc.red('[ERR]')}   ${r.path} ${pc.dim(`(${r.message ?? ''})`)}`);\n    }\n  }\n}\n\nfunction printSummary(\n  outcomes: readonly LinkOutcome[],\n  removals: readonly { status: string }[],\n  collisions: readonly Conflict[],\n): void {\n  const counts: Record<string, number> = {};\n  for (const o of outcomes) counts[o.status] = (counts[o.status] ?? 0) + 1;\n  const cleaned = removals.filter((r) => r.status === 'removed' || r.status === 'dry-remove').length;\n\n  const parts: string[] = [];\n  if (counts['created']) parts.push(pc.green(`${counts['created']} created`));\n  if (counts['fixed']) parts.push(pc.green(`${counts['fixed']} fixed`));\n  if (counts['skipped']) parts.push(pc.cyan(`${counts['skipped']} skipped`));\n  if (counts['warned']) parts.push(pc.yellow(`${counts['warned']} warned`));\n  if (counts['errored']) parts.push(pc.red(`${counts['errored']} errored`));\n  if (counts['dry-create'] || counts['dry-fix']) {\n    parts.push(pc.dim(`${(counts['dry-create'] ?? 0) + (counts['dry-fix'] ?? 0)} dry-run`));\n  }\n  if (cleaned) parts.push(pc.yellow(`${cleaned} cleaned`));\n  if (collisions.length) parts.push(pc.yellow(`${collisions.length} collision(s)`));\n\n  console.log('');\n  console.log(parts.length === 0 ? pc.dim('  no changes') : `  ${parts.join(', ')}`);\n}\n","import pc from 'picocolors';\n\nimport { findManagedLinks, pruneEmptyDirs, removeLinks } from '../core/linker.js';\nimport {\n  enumerateAllAdapterRoots,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport async function runUnlink(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'unlink', flags);\n\n  // `unlink` must be a \"remove everything we ever wrote\" operation. Walk\n  // *all* built-in adapter rootDirs that exist under destRoot — not only\n  // the ones currently enabled by config — and recurse into each so we\n  // also catch links living in asset subdirs that the current `include`\n  // list no longer mentions. Otherwise users who disabled an adapter or\n  // narrowed `include` would leave orphan symlinks behind.\n  const roots = await enumerateAllAdapterRoots(ctx.paths.destRoot);\n  const sourceRoot = ctx.paths.source;\n\n  const owned = (\n    await Promise.all(\n      roots.map(({ rootDir }) => findManagedLinks(rootDir, sourceRoot, { recursive: true })),\n    )\n  ).flat();\n\n  if (owned.length === 0) {\n    console.log(pc.dim('  no agentlink-managed links found'));\n    return;\n  }\n\n  const outcomes = await removeLinks(owned, flags.dryRun ? { dryRun: true } : {});\n\n  let removed = 0;\n  let dry = 0;\n  let errored = 0;\n  for (const o of outcomes) {\n    if (o.status === 'removed') {\n      removed++;\n      if (!flags.quiet) console.log(`${pc.yellow('[UNLINK]')} ${o.path}`);\n    } else if (o.status === 'dry-remove') {\n      dry++;\n      if (!flags.quiet) console.log(`${pc.dim('[DRY]')}    would remove ${o.path}`);\n    } else if (o.status === 'errored') {\n      errored++;\n      console.error(`${pc.red('[ERR]')}    ${o.path} ${pc.dim(`(${o.message ?? ''})`)}`);\n    }\n  }\n\n  // Best-effort: prune now-empty adapter rootDirs. `pruneEmptyDirs` is silent\n  // on non-empty / missing dirs, so we don't bother filtering.\n  if (!flags.dryRun) {\n    await pruneEmptyDirs(roots.map((r) => r.rootDir));\n  }\n\n  console.log('');\n  const parts: string[] = [];\n  if (removed) parts.push(pc.yellow(`${removed} removed`));\n  if (dry) parts.push(pc.dim(`${dry} dry-run`));\n  if (errored) parts.push(pc.red(`${errored} errored`));\n  console.log(parts.length === 0 ? pc.dim('  no changes') : `  ${parts.join(', ')}`);\n\n  if (errored > 0) process.exitCode = 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+{"version":3,"sources":["../package.json","../src/cli.ts","../src/commands/clean.ts","../src/core/linker.ts","../src/commands/_shared.ts","../src/adapters/claude.ts","../src/adapters/codebuddy.ts","../src/adapters/cursor.ts","../src/adapters/index.ts","../src/core/config.ts","../src/core/errors.ts","../src/core/types.ts","../src/core/resolve.ts","../src/commands/doctor.ts","../src/core/layout.ts","../src/commands/init.ts","../src/commands/sync.ts","../src/commands/unlink.ts"],"sourcesContent":["{\n  \"name\": \"@cmkk/agentlink\",\n  \"version\": \"0.1.0-beta.3\",\n  \"description\": \"Symlink your .agents/ assets into .cursor / .claude / .codebuddy and other AI agent directories with a single npx.\",\n  \"keywords\": [\n    \"ai\",\n    \"agent\",\n    \"agents\",\n    \"skills\",\n    \"cursor\",\n    \"claude\",\n    \"codebuddy\",\n    \"symlink\",\n    \"cli\",\n    \"dotfiles\"\n  ],\n  \"license\": \"MIT\",\n  \"author\": \"rankangkang <rankangkang@foxmail.com>\",\n  \"homepage\": \"https://github.com/rankangkang/agentlink#readme\",\n  \"repository\": {\n    \"type\": \"git\",\n    \"url\": \"git+https://github.com/rankangkang/agentlink.git\"\n  },\n  \"bugs\": {\n    \"url\": \"https://github.com/rankangkang/agentlink/issues\"\n  },\n  \"type\": \"module\",\n  \"engines\": {\n    \"node\": \">=18\"\n  },\n  \"bin\": {\n    \"agentlink\": \"bin/agentlink.js\"\n  },\n  \"main\": \"./dist/index.js\",\n  \"module\": \"./dist/index.js\",\n  \"types\": \"./dist/index.d.ts\",\n  \"exports\": {\n    \".\": {\n      \"types\": \"./dist/index.d.ts\",\n      \"import\": \"./dist/index.js\"\n    }\n  },\n  \"files\": [\n    \"bin\",\n    \"dist\",\n    \"templates\",\n    \"README.md\",\n    \"CHANGELOG.md\",\n    \"LICENSE\"\n  ],\n  \"scripts\": {\n    \"build\": \"tsup\",\n    \"dev\": \"tsup --watch\",\n    \"test\": \"vitest run\",\n    \"test:watch\": \"vitest\",\n    \"typecheck\": \"tsc --noEmit\",\n    \"preversion\": \"pnpm typecheck && pnpm test && pnpm build\",\n    \"prepublishOnly\": \"pnpm build && pnpm test && pnpm typecheck\",\n    \"publish:beta\": \"pnpm publish --tag beta --access public\",\n    \"publish:latest\": \"pnpm publish --access public\"\n  },\n  \"publishConfig\": {\n    \"access\": \"public\"\n  },\n  \"dependencies\": {\n    \"cac\": \"^7.0.0\",\n    \"picocolors\": \"^1.1.1\",\n    \"picomatch\": \"^4.0.4\",\n    \"prompts\": \"^2.4.2\",\n    \"strip-json-comments\": \"^5.0.3\",\n    \"zod\": \"^4.4.3\"\n  },\n  \"devDependencies\": {\n    \"@types/node\": \"^25.6.2\",\n    \"@types/picomatch\": \"^4.0.3\",\n    \"@types/prompts\": \"^2.4.9\",\n    \"@vitest/coverage-v8\": \"^4.1.5\",\n    \"tsup\": \"^8.5.1\",\n    \"typescript\": \"^6.0.3\",\n    \"vitest\": \"^4.1.5\"\n  }\n}\n","import packageJson from '../package.json' with { type: 'json' };\n\nimport { cac } from 'cac';\nimport pc from 'picocolors';\n\nimport { runClean } from './commands/clean.js';\nimport { runDoctor } from './commands/doctor.js';\nimport { runInit } from './commands/init.js';\nimport { runSync } from './commands/sync.js';\nimport { runUnlink } from './commands/unlink.js';\nimport type { CommandFlags } from './commands/_shared.js';\nimport {\n  AgentlinkError,\n  ConflictError,\n  InvalidPathError,\n  SourceNotFoundError,\n} from './core/errors.js';\nimport { ConfigParseError } from './core/config.js';\nimport { StrictModeViolation } from './commands/sync.js';\n\nconst PKG_NAME = packageJson.name;\nconst PKG_VERSION = packageJson.version;\n\nfunction applyGlobalOptions(cli: ReturnType<typeof cac>): void {\n  cli\n    .option('--source <path>', 'Override the source .agents/ location')\n    .option('-t, --target <dir>', 'Run against a specific destination root')\n    .option('-u, --user', 'Link into $HOME (user-level install target)')\n    .option('--config <path>', 'Load a specific agentlink.config.json')\n    .option('-n, --dry-run', 'Preview changes without touching the filesystem')\n    .option('-f, --force', 'Replace symlinks that point somewhere unexpected')\n    .option('-q, --quiet', 'Only print changes and errors')\n    .option('-v, --verbose', 'Print debug-level output')\n    .option('--strict', 'Treat collisions as errors instead of warnings');\n}\n\nasync function main(): Promise<void> {\n  const cli = cac('agentlink');\n\n  cli\n    .command('init', 'Create an empty .agents/ scaffold and run sync once')\n    .option('--local', 'Scaffold into ./.agents instead of ~/.agents')\n    .option('-y, --yes', 'Skip interactive prompts and use defaults (CI-friendly)')\n    .action((flags: CommandFlags & { local?: boolean; yes?: boolean }) => runInit(flags));\n\n  cli\n    .command('sync', 'Refresh all symlinks (default command)')\n    .action((flags: CommandFlags) => runSync(flags));\n\n  cli\n    .command('clean', 'Remove dangling agentlink-managed symlinks')\n    .action((flags: CommandFlags) => runClean(flags));\n\n  cli\n    .command('unlink', 'Remove every symlink agentlink ever created')\n    .action((flags: CommandFlags) => runUnlink(flags));\n\n  cli\n    .command('doctor', 'Diagnose configuration, adapters, and link health')\n    .action((flags: CommandFlags) => runDoctor(flags));\n\n  cli\n    .command('', 'Default command (alias for `sync`)')\n    .action((flags: CommandFlags) => runSync(flags));\n\n  applyGlobalOptions(cli);\n  cli.help();\n  cli.version(PKG_VERSION);\n\n  try {\n    cli.parse(process.argv, { run: false });\n    await cli.runMatchedCommand();\n  } catch (err) {\n    renderError(err);\n    process.exit(1);\n  }\n}\n\nfunction renderError(err: unknown): void {\n  if (err instanceof SourceNotFoundError) {\n    console.error(pc.red(`[${PKG_NAME}] no source .agents/ directory found.\\n`));\n    console.error('Searched:');\n    for (const { origin, status } of err.searched) {\n      console.error(`  ${origin.padEnd(40)} ${pc.dim(status)}`);\n    }\n    console.error('');\n    console.error('Hints:');\n    console.error('  - run `agentlink init` to scaffold ~/.agents/');\n    console.error('  - run `agentlink init --local` to scaffold ./.agents/');\n    console.error('  - set `\"source\"` in `agentlink.config.json`');\n    console.error('  - or pass `--source <path>` explicitly');\n    return;\n  }\n\n  if (err instanceof StrictModeViolation) {\n    console.error(pc.red(`[${PKG_NAME}] aborted: ${err.message}`));\n    console.error(pc.dim('  rerun without --strict to accept the warnings, or fix the source.'));\n    return;\n  }\n\n  if (err instanceof ConfigParseError) {\n    console.error(pc.red(`[${PKG_NAME}] ${err.message}`));\n    return;\n  }\n\n  if (err instanceof InvalidPathError || err instanceof ConflictError) {\n    console.error(pc.red(`[${PKG_NAME}] ${err.message}`));\n    return;\n  }\n\n  if (err instanceof AgentlinkError) {\n    console.error(pc.red(`[${PKG_NAME}] ${err.message}`));\n    return;\n  }\n\n  const msg = err instanceof Error ? err.message : String(err);\n  console.error(pc.red(`[${PKG_NAME}] ${msg}`));\n  if (process.env['AGENTLINK_DEBUG']) {\n    console.error(err);\n  }\n}\n\nawait main();\n","import pc from 'picocolors';\n\nimport { findStaleLinks, removeLinks } from '../core/linker.js';\nimport {\n  enumerateTargetDirs,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport async function runClean(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'clean', flags);\n\n  const targets = enumerateTargetDirs(ctx).map((t) => t.targetDir);\n  const stale = (await Promise.all(targets.map(findStaleLinks))).flat();\n\n  if (stale.length === 0) {\n    console.log(pc.dim('  no dangling symlinks found'));\n    return;\n  }\n\n  const outcomes = await removeLinks(stale, flags.dryRun ? { dryRun: true } : {});\n\n  let cleaned = 0;\n  let dry = 0;\n  let errored = 0;\n  for (const o of outcomes) {\n    if (o.status === 'removed') {\n      cleaned++;\n      if (!flags.quiet) console.log(`${pc.yellow('[CLEAN]')} ${o.path}`);\n    } else if (o.status === 'dry-remove') {\n      dry++;\n      if (!flags.quiet) console.log(`${pc.dim('[DRY]')}   would clean ${o.path}`);\n    } else if (o.status === 'errored') {\n      errored++;\n      console.error(`${pc.red('[ERR]')}   ${o.path} ${pc.dim(`(${o.message ?? ''})`)}`);\n    }\n  }\n\n  console.log('');\n  const parts: string[] = [];\n  if (cleaned) parts.push(pc.yellow(`${cleaned} cleaned`));\n  if (dry) parts.push(pc.dim(`${dry} dry-run`));\n  if (errored) parts.push(pc.red(`${errored} errored`));\n  console.log(parts.length === 0 ? pc.dim('  no changes') : `  ${parts.join(', ')}`);\n\n  if (errored > 0) process.exitCode = 1;\n}\n","/**\n * Filesystem layer for agentlink. All symlink reads/writes funnel through this\n * module so command implementations stay declarative and the test suite can\n * exercise edge cases against a real tmpdir.\n *\n * Conventions:\n *   - Symlinks are written **relatively** (`path.relative(targetDir, source)`)\n *     so they survive moving the project root, mirroring the legacy\n *     `init.sh` behaviour.\n *   - Existing real files / directories are never overwritten — they always\n *     produce a `warned` outcome so the user can decide.\n *   - `dry-run` is a hard mode switch: no writes, but every check still runs\n *     so the user sees exactly what `sync` _would_ do.\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\n\nimport type { LinkPlan } from './layout.js';\n\nexport type LinkStatus =\n  | 'created' // new symlink written\n  | 'skipped' // already pointed at the right place\n  | 'fixed' // existed but pointed elsewhere; replaced (force)\n  | 'warned' // exists with conflicting kind; left untouched\n  | 'errored' // unexpected fs failure\n  | 'dry-create' // dry-run: would create\n  | 'dry-fix'; // dry-run: would replace\n\nexport interface LinkOutcome {\n  plan: LinkPlan;\n  status: LinkStatus;\n  message?: string;\n}\n\nexport interface ApplyOptions {\n  dryRun?: boolean;\n  /** Replace symlinks that point somewhere unexpected. */\n  force?: boolean;\n}\n\n/**\n * Apply each plan exactly once, returning per-plan outcomes in input order.\n * Never throws on per-plan errors; surfaces them as `errored` outcomes so a\n * single bad file does not halt a large sync.\n */\nexport async function applyPlans(\n  plans: readonly LinkPlan[],\n  options: ApplyOptions = {},\n): Promise<LinkOutcome[]> {\n  const outcomes: LinkOutcome[] = [];\n  for (const plan of plans) {\n    outcomes.push(await applyOne(plan, options));\n  }\n  return outcomes;\n}\n\nasync function applyOne(plan: LinkPlan, options: ApplyOptions): Promise<LinkOutcome> {\n  const { dryRun = false, force = false } = options;\n  const targetDir = path.dirname(plan.target);\n  const expected = path.relative(targetDir, plan.source);\n\n  try {\n    const lstat = await fs.lstat(plan.target).catch(() => null);\n\n    if (lstat?.isSymbolicLink()) {\n      const current = await fs.readlink(plan.target);\n      if (current === expected) return { plan, status: 'skipped' };\n      if (force) {\n        if (dryRun) {\n          return { plan, status: 'dry-fix', message: `${current} -> ${expected}` };\n        }\n        await fs.unlink(plan.target);\n        await fs.symlink(expected, plan.target);\n        return { plan, status: 'fixed', message: `${current} -> ${expected}` };\n      }\n      return {\n        plan,\n        status: 'warned',\n        message: `points to ${current} (use --force to repair)`,\n      };\n    }\n\n    if (lstat) {\n      const kind = lstat.isDirectory() ? 'directory' : 'file';\n      return { plan, status: 'warned', message: `${kind} already exists at target` };\n    }\n\n    if (dryRun) {\n      return { plan, status: 'dry-create' };\n    }\n\n    await fs.mkdir(targetDir, { recursive: true });\n    await fs.symlink(expected, plan.target);\n    return { plan, status: 'created' };\n  } catch (err) {\n    return { plan, status: 'errored', message: err instanceof Error ? err.message : String(err) };\n  }\n}\n\n/* ──────────────────────────  Stale link detection  ─────────────────────── */\n\n/**\n * Inspect a directory and return the absolute paths of every entry that is a\n * symlink whose target no longer resolves (`fs.stat` fails — dangling).\n *\n * Non-recursive: only the top level of `targetDir` is scanned, matching the\n * legacy `init.sh` behaviour. Symlinks pointing to nested-but-existing files\n * are left alone.\n */\nexport async function findStaleLinks(targetDir: string): Promise<string[]> {\n  const entries = await fs.readdir(targetDir, { withFileTypes: true }).catch(() => null);\n  if (!entries) return [];\n\n  const stale: string[] = [];\n  for (const entry of entries) {\n    if (!entry.isSymbolicLink()) continue;\n    const full = path.join(targetDir, entry.name);\n    const exists = await fs.stat(full).catch(() => null);\n    if (!exists) stale.push(full);\n  }\n  return stale;\n}\n\n/* ──────────────────────────  Managed-link detection (unlink)  ──────────── */\n\n/**\n * Inspect a directory and return symlinks whose resolved target lives under\n * `sourceRoot`. Used by `agentlink unlink` to find every symlink we ever\n * created without requiring a \"manifest\" file.\n *\n * Resolves the symlink target lexically (no `realpath`) so the user can swap\n * the source directory at any time without bricking the unlink path.\n *\n * Defaults to a non-recursive single-directory scan (mirroring what sync\n * publishes one level deep). Pass `{ recursive: true }` to descend into every\n * subdirectory — used by `unlink` and `doctor` to catch links that live in\n * asset subdirs the current config has dropped.\n */\nexport async function findManagedLinks(\n  targetDir: string,\n  sourceRoot: string,\n  options: { recursive?: boolean } = {},\n): Promise<string[]> {\n  const sourceAbs = path.resolve(sourceRoot);\n  const out: string[] = [];\n\n  await (async function descend(dir: string): Promise<void> {\n    const entries = await fs.readdir(dir, { withFileTypes: true }).catch(() => null);\n    if (!entries) return;\n    for (const entry of entries) {\n      const full = path.join(dir, entry.name);\n      if (entry.isSymbolicLink()) {\n        const raw = await fs.readlink(full).catch(() => null);\n        if (!raw) continue;\n        const resolved = path.isAbsolute(raw) ? path.normalize(raw) : path.resolve(dir, raw);\n        if (resolved === sourceAbs || resolved.startsWith(sourceAbs + path.sep)) {\n          out.push(full);\n        }\n      } else if (options.recursive && entry.isDirectory()) {\n        await descend(full);\n      }\n    }\n  })(targetDir);\n\n  return out;\n}\n\n/* ──────────────────────────  Removal helpers  ─────────────────────────── */\n\nexport type RemovalStatus = 'removed' | 'dry-remove' | 'errored';\n\nexport interface RemovalOutcome {\n  path: string;\n  status: RemovalStatus;\n  message?: string;\n}\n\nexport interface RemoveOptions {\n  dryRun?: boolean;\n}\n\n/**\n * Delete the supplied symlinks. Errors are returned per-path rather than\n * thrown, mirroring `applyPlans`.\n */\nexport async function removeLinks(\n  paths: readonly string[],\n  options: RemoveOptions = {},\n): Promise<RemovalOutcome[]> {\n  const { dryRun = false } = options;\n  const out: RemovalOutcome[] = [];\n  for (const p of paths) {\n    if (dryRun) {\n      out.push({ path: p, status: 'dry-remove' });\n      continue;\n    }\n    try {\n      await fs.unlink(p);\n      out.push({ path: p, status: 'removed' });\n    } catch (err) {\n      out.push({\n        path: p,\n        status: 'errored',\n        message: err instanceof Error ? err.message : String(err),\n      });\n    }\n  }\n  return out;\n}\n\n/**\n * Best-effort `rmdir` of empty managed directories left behind by `unlink`.\n * Failure to remove (e.g. user-owned siblings inside) is silent — the goal is\n * tidiness, not enforcement.\n */\nexport async function pruneEmptyDirs(dirs: readonly string[]): Promise<void> {\n  for (const dir of dirs) {\n    await fs.rmdir(dir).catch(() => undefined);\n  }\n}\n","/**\n * Shared scaffolding for command implementations:\n *   - flag plumbing (every command takes the same global flags)\n *   - context loading (resolve paths + load config)\n *   - common header printing\n *   - target-directory enumeration used by clean / unlink\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport pc from 'picocolors';\n\nimport { adapterRegistry } from '../adapters/index.js';\nimport { loadConfigBundle, resolveConfigFromParsed } from '../core/config.js';\nimport { resolvePaths, type ResolvedPaths } from '../core/resolve.js';\nimport type { Adapter, AssetType, ResolvedConfig } from '../core/types.js';\n\nexport interface CommandFlags {\n  source?: string;\n  target?: string;\n  user?: boolean;\n  config?: string;\n  dryRun?: boolean;\n  force?: boolean;\n  quiet?: boolean;\n  verbose?: boolean;\n  strict?: boolean;\n}\n\nexport interface CommandContext {\n  paths: ResolvedPaths;\n  config: ResolvedConfig;\n}\n\nexport async function loadContext(flags: CommandFlags): Promise<CommandContext> {\n  const bundle = await loadConfigBundle({\n    ...(flags.config !== undefined ? { config: flags.config } : {}),\n  });\n\n  const paths = await resolvePaths({\n    ...(flags.source !== undefined ? { source: flags.source } : {}),\n    ...(flags.target !== undefined ? { target: flags.target } : {}),\n    ...(flags.user !== undefined ? { user: flags.user } : {}),\n    ...(bundle.parsed.source !== undefined ? { configSource: bundle.parsed.source } : {}),\n    ...(bundle.parsed.target !== undefined ? { configTarget: bundle.parsed.target } : {}),\n    ...(bundle.parsed.user !== undefined ? { configUser: bundle.parsed.user } : {}),\n    ...(bundle.configBase !== null ? { configBase: bundle.configBase } : {}),\n    resolvedConfigPath: bundle.location.path,\n  });\n\n  const rawConfig = resolveConfigFromParsed(bundle.parsed, bundle.location, paths.source);\n  const config = await gateAdapters(rawConfig, paths.destRoot);\n  return { paths, config };\n}\n\n/**\n * Drop adapters whose `rootDir` does not exist under the destination root.\n *\n * This mirrors the legacy `init.sh` \"auto-detect\" behaviour: a missing\n * `.cursor` directory is treated as \"this user does not use cursor on this\n * machine\" rather than \"create one for them\". Users opt-in by `mkdir\n * .cursor` (or running their AI tool which does so).\n */\nasync function gateAdapters(config: ResolvedConfig, destRoot: string): Promise<ResolvedConfig> {\n  const live: Adapter[] = [];\n  for (const adapter of config.adapters) {\n    const root = path.join(destRoot, adapter.rootDir);\n    const stat = await fs.stat(root).catch(() => null);\n    if (stat?.isDirectory()) live.push(adapter);\n  }\n  if (live.length === config.adapters.length) return config;\n  return { ...config, adapters: live };\n}\n\nexport function printHeader(ctx: CommandContext, mode: string, flags: CommandFlags): void {\n  if (flags.quiet) return;\n  console.log('');\n  console.log(pc.bold(`[agentlink] ${mode}`));\n  console.log(`  source:   ${ctx.paths.source} ${pc.dim(`(${ctx.paths.sourceOrigin})`)}`);\n  console.log(`  target:   ${ctx.paths.destRoot} ${pc.dim(`(${ctx.paths.destOrigin})`)}`);\n  const configLine = ctx.config.configPath\n    ? `${ctx.config.configPath} ${pc.dim(`(${ctx.config.configOrigin})`)}`\n    : pc.dim('(defaults)');\n  console.log(`  config:   ${configLine}`);\n  console.log(`  adapters: ${ctx.config.adapters.map((a) => a.name).join(', ') || pc.dim('(none)')}`);\n  if (flags.dryRun) console.log(pc.yellow('  mode:     dry-run'));\n  console.log('');\n}\n\n/**\n * Walk the (adapter × assetType) combinations relevant for the run, returning\n * each adapter's set of `targetAssetDir`s. Used by clean / unlink to know\n * which directories to inspect without re-deriving the layout themselves.\n */\nexport function enumerateTargetDirs(ctx: CommandContext): {\n  adapter: Adapter;\n  assetType: AssetType;\n  targetDir: string;\n  rootDir: string;\n}[] {\n  const out: { adapter: Adapter; assetType: AssetType; targetDir: string; rootDir: string }[] = [];\n  const root = ctx.paths.destRoot;\n  for (const adapter of ctx.config.adapters) {\n    for (const assetType of ctx.config.assetTypes as ReadonlySet<AssetType>) {\n      const slot = adapter.layout[assetType];\n      if (slot === undefined || slot === false) continue;\n      out.push({\n        adapter,\n        assetType,\n        targetDir: path.join(root, adapter.rootDir, slot.targetSubdir),\n        rootDir: path.join(root, adapter.rootDir),\n      });\n    }\n  }\n  return out;\n}\n\n/**\n * Return every built-in adapter rootDir that exists under `destRoot`,\n * regardless of whether the user has currently enabled it in config.\n *\n * Used by `unlink` and `doctor`'s orphan sweep: those operations must not\n * skip directories that the user just disabled — otherwise the legacy links\n * created when the adapter *was* enabled would be unreachable.\n *\n * `enumerateTargetDirs` (above) keeps gate semantics for sync / clean,\n * which legitimately operate only on what the current config selects.\n */\nexport async function enumerateAllAdapterRoots(\n  destRoot: string,\n): Promise<{ name: string; rootDir: string }[]> {\n  const out: { name: string; rootDir: string }[] = [];\n  for (const [name, preset] of Object.entries(adapterRegistry)) {\n    const rootDir = path.join(destRoot, preset.rootDir);\n    const stat = await fs.stat(rootDir).catch(() => null);\n    if (stat?.isDirectory()) out.push({ name, rootDir });\n  }\n  return out;\n}\n","import type { Adapter } from '../core/types.js';\n\n/**\n * Claude Code's conventions: nested directories are fine across all asset\n * types, no special suffix requirements.\n */\nexport const claude: Adapter = {\n  name: 'claude',\n  rootDir: '.claude',\n  layout: {\n    skills: { targetSubdir: 'skills' },\n    rules: { targetSubdir: 'rules' },\n    commands: { targetSubdir: 'commands' },\n  },\n};\n","import type { Adapter } from '../core/types.js';\n\n/**\n * CodeBuddy supports nested commands and the same `<root>/<asset>/` shape as\n * claude. Kept symmetric with the claude adapter for now; will diverge if the\n * agent gets stricter conventions.\n */\nexport const codebuddy: Adapter = {\n  name: 'codebuddy',\n  rootDir: '.codebuddy',\n  layout: {\n    skills: { targetSubdir: 'skills' },\n    rules: { targetSubdir: 'rules' },\n    commands: { targetSubdir: 'commands' },\n  },\n};\n","import type { Adapter } from '../core/types.js';\n\n/**\n * Cursor's filesystem conventions:\n *   - `.cursor/skills/<name>/SKILL.md` recursive (nested OK)\n *   - `.cursor/rules/<file>.mdc` flat, must use `.mdc` suffix\n *   - `.cursor/commands/<file>.md` flat (no nested subdirs)\n *   - prompts: not consumed; explicitly skipped\n */\nexport const cursor: Adapter = {\n  name: 'cursor',\n  rootDir: '.cursor',\n  layout: {\n    skills: { targetSubdir: 'skills' },\n    rules: { targetSubdir: 'rules', flatten: true, ext: '.mdc' },\n    commands: { targetSubdir: 'commands', flatten: true },\n    prompts: false,\n  },\n};\n","import type { Adapter } from '../core/types.js';\nimport { claude } from './claude.js';\nimport { codebuddy } from './codebuddy.js';\nimport { cursor } from './cursor.js';\n\n/**\n * v1 ships with three built-in adapters. The keys here are also the only valid\n * names accepted in `agentlink.config.json`'s `adapters` field — supporting a\n * new agent requires publishing a new package version.\n */\nexport const adapterRegistry = {\n  cursor,\n  claude,\n  codebuddy,\n} as const satisfies Record<string, Adapter>;\n\nexport type AdapterName = keyof typeof adapterRegistry;\n\nexport { claude, codebuddy, cursor };\n","/**\n * Locate, validate, and merge `agentlink.config.json` with built-in adapter\n * presets to produce a {@link ResolvedConfig}.\n *\n * Config and source are mostly **decoupled** — config primarily describes _how_\n * to project assets, but may also persist optional `source` / `target` defaults\n * so users need not pass flags on every invocation.\n *\n * Config resolution chain (highest first):\n *   1. `--config <path>` flag\n *   2. nearest `agentlink.config.json` from cwd up to (but not past) the\n *      home directory or filesystem root\n *   3. `~/agentlink.config.json`\n *   4. (none) — fall back to all defaults\n *\n * Validation philosophy:\n *   - **Closed asset-type universe**: keys must be one of the literal\n *     {@link AssetType} values. Unknown names yield a friendly zod error.\n *   - **Closed adapter universe** (v1): `adapters` keys must match a built-in\n *     name (cursor / claude / codebuddy).\n *   - **Tolerant defaults**: every field is optional; missing config equals\n *     an empty `{}`.\n */\n\nimport { promises as fs } from 'node:fs';\nimport os from 'node:os';\nimport path from 'node:path';\nimport stripJsonComments from 'strip-json-comments';\nimport { z } from 'zod';\n\nimport { adapterRegistry, type AdapterName } from '../adapters/index.js';\nimport { AgentlinkError, InvalidPathError } from './errors.js';\nimport {\n  DEFAULT_INCLUDE,\n  type Adapter,\n  type AssetLayout,\n  type AssetType,\n  type ResolvedConfig,\n} from './types.js';\n\nexport const CONFIG_FILENAME = 'agentlink.config.json';\n\nconst ASSET_TYPE_VALUES = ['skills', 'rules', 'commands', 'prompts', 'templates', 'agents'] as const;\nconst ASSET_TYPE_SET: ReadonlySet<AssetType> = new Set(ASSET_TYPE_VALUES);\n\nconst assetTypeSchema = z.enum(ASSET_TYPE_VALUES);\n\n/**\n * `targetSubdir` is `path.join`'d under each adapter's rootDir. Letting users\n * write `..`, absolute paths, or path separators here would let them escape\n * the rootDir sandbox (and silently smear symlinks across the destination).\n *\n * We reject the obviously bad shapes at the schema layer so zod produces a\n * focused, path-aware error message instead of a generic ConfigPatchError\n * later in mergeLayout.\n */\nconst targetSubdirSchema = z\n  .string()\n  .min(1)\n  .refine((s) => !path.isAbsolute(s), {\n    message: 'targetSubdir must be relative (no leading `/` or drive letter)',\n  })\n  .refine((s) => !s.split(/[\\\\/]/).some((seg) => seg === '..'), {\n    message: 'targetSubdir cannot traverse upward (`..` segment forbidden)',\n  });\n\nconst assetLayoutSchema = z.object({\n  targetSubdir: targetSubdirSchema.optional(),\n  flatten: z.boolean().optional(),\n  include: z.array(z.string().min(1)).optional(),\n  exclude: z.array(z.string().min(1)).optional(),\n  ext: z.string().min(1).optional(),\n});\n\nconst adapterOverrideSchema = z.union([\n  z.boolean(),\n  z\n    .object({\n      // partialRecord: zod v4 z.record(enum,…) is exhaustive by default;\n      // partialRecord lets each key be optional, which is what users expect.\n      layout: z.partialRecord(assetTypeSchema, assetLayoutSchema).optional(),\n    })\n    .strict(),\n]);\n\nconst adapterNameSchema = z.enum(\n  Object.keys(adapterRegistry) as [AdapterName, ...AdapterName[]],\n);\n\nconst rootPathSchema = z.string().min(1);\n\n/**\n * Strict closed-world schema. Unknown root keys, unknown adapter names, and\n * unknown asset types all surface as friendly zod errors.\n */\nconst configSchema = z\n  .object({\n    source: rootPathSchema.optional(),\n    target: rootPathSchema.optional(),\n    user: z.boolean().optional(),\n    include: z.array(assetTypeSchema).optional(),\n    exclude: z.array(assetTypeSchema).optional(),\n    adapters: z.partialRecord(adapterNameSchema, adapterOverrideSchema).optional(),\n  })\n  .strict()\n  .superRefine((val, ctx) => {\n    if (val.target !== undefined && val.user === true) {\n      ctx.addIssue({\n        code: 'custom',\n        message: '`target` and `user` are mutually exclusive',\n        path: ['target'],\n      });\n    }\n  });\n\ntype ParsedConfig = z.infer<typeof configSchema>;\n\nexport class ConfigParseError extends AgentlinkError {\n  readonly issues: ReadonlyArray<{ path: string; message: string }>;\n\n  constructor(filePath: string, issues: ReadonlyArray<{ path: string; message: string }>) {\n    const lines = issues.map(({ path: p, message }) => `  at ${p || '<root>'}: ${message}`);\n    super(`invalid agentlink config at ${filePath}\\n${lines.join('\\n')}`);\n    this.issues = issues;\n  }\n}\n\nexport type ConfigOrigin = 'flag' | 'cwd-ancestor' | 'home-global' | 'defaults';\n\nexport interface ResolveConfigOptions {\n  /** `--config` flag value. */\n  config?: string;\n  /** Override `process.cwd()`. */\n  cwd?: string;\n  /** Override `os.homedir()`. */\n  home?: string;\n}\n\nexport interface ConfigLocation {\n  /** Absolute path that was loaded — `null` if no config file exists. */\n  path: string | null;\n  origin: ConfigOrigin;\n}\n\nexport interface LoadConfigOptions extends ResolveConfigOptions {\n  /** Absolute path to the source `.agents/` — only used to populate ResolvedConfig. */\n  source: string;\n}\n\nexport interface ConfigBundle {\n  location: ConfigLocation;\n  parsed: ParsedConfig;\n  /** Directory containing the loaded config file; `null` when defaults apply. */\n  configBase: string | null;\n}\n\n/**\n * Locate and parse the user config once. Used by {@link loadContext} to feed\n * both path resolution and adapter merging without reading the file twice.\n */\nexport async function loadConfigBundle(opts: ResolveConfigOptions = {}): Promise<ConfigBundle> {\n  const location = await resolveConfigPath(opts);\n  const parsed = location.path ? await readUserConfig(location.path) : ({} as ParsedConfig);\n  const configBase = location.path ? path.dirname(location.path) : null;\n  return { location, parsed, configBase };\n}\n\n/**\n * Merge a parsed config with built-in presets. The `source` argument is the\n * already-resolved `.agents/` path from {@link resolveSource}.\n */\nexport function resolveConfigFromParsed(\n  userConfig: ParsedConfig,\n  location: ConfigLocation,\n  source: string,\n): ResolvedConfig {\n  const adapters = mergeAdapters(userConfig.adapters);\n  const assetTypes = resolveAssetTypes(userConfig.include, userConfig.exclude);\n\n  return {\n    source,\n    adapters,\n    assetTypes,\n    configPath: location.path,\n    configOrigin: location.origin,\n  };\n}\n\n/**\n * Read + validate + merge the config. Returns a fully resolved view that is\n * safe to feed into command implementations.\n */\nexport async function loadConfig(opts: LoadConfigOptions): Promise<ResolvedConfig> {\n  const bundle = await loadConfigBundle(opts);\n  return resolveConfigFromParsed(bundle.parsed, bundle.location, opts.source);\n}\n\n/**\n * Resolve the location of the config file (independent of source). Pure with\n * respect to everything except `fs.stat` — easy to unit-test.\n */\nexport async function resolveConfigPath(opts: ResolveConfigOptions = {}): Promise<ConfigLocation> {\n  const cwd = opts.cwd ?? process.cwd();\n  const home = opts.home ?? os.homedir();\n\n  if (opts.config !== undefined && opts.config !== '') {\n    const abs = await assertConfigFile(expandTilde(opts.config, home), '--config', cwd);\n    return { path: abs, origin: 'flag' };\n  }\n\n  const ancestor = await searchAncestors(path.resolve(cwd), home);\n  if (ancestor) {\n    return { path: ancestor, origin: 'cwd-ancestor' };\n  }\n\n  const homeConfig = path.join(home, CONFIG_FILENAME);\n  if (await isFile(homeConfig)) {\n    return { path: homeConfig, origin: 'home-global' };\n  }\n\n  return { path: null, origin: 'defaults' };\n}\n\n/**\n * Walk up the directory tree from `start`, looking for `agentlink.config.json`.\n * Stops as soon as we leave the home directory (or hit the filesystem root) so\n * configs from unrelated trees never leak in.\n */\nasync function searchAncestors(start: string, home: string): Promise<string | null> {\n  const homeAbs = path.resolve(home);\n  let current = start;\n  while (true) {\n    if (current === homeAbs) {\n      // Don't probe `~/agentlink.config.json` here — it has its own dedicated\n      // tier so the diagnostic origin reads as \"home-global\", not \"ancestor\".\n      return null;\n    }\n\n    const candidate = path.join(current, CONFIG_FILENAME);\n    if (await isFile(candidate)) return candidate;\n\n    const parent = path.dirname(current);\n    if (parent === current) return null; // hit filesystem root\n\n    // Stop ascending if we are about to leave the home tree (only when start\n    // was inside home). If start was outside home all along, keep walking up.\n    if (isInside(current, homeAbs) && !isInside(parent, homeAbs) && parent !== homeAbs) {\n      return null;\n    }\n    current = parent;\n  }\n}\n\nasync function assertConfigFile(input: string, flag: string, cwd: string): Promise<string> {\n  const abs = path.isAbsolute(input) ? input : path.resolve(cwd, input);\n  const stat = await fs.stat(abs).catch(() => null);\n  if (!stat) throw new InvalidPathError(flag, abs, 'missing');\n  if (!stat.isFile()) throw new InvalidPathError(flag, abs, 'not-a-file');\n  return abs;\n}\n\nasync function isFile(p: string): Promise<boolean> {\n  const stat = await fs.stat(p).catch(() => null);\n  return stat?.isFile() ?? false;\n}\n\nfunction expandTilde(p: string, home: string): string {\n  if (p === '~') return home;\n  if (p.startsWith('~/')) return path.join(home, p.slice(2));\n  return p;\n}\n\nfunction isInside(child: string, parent: string): boolean {\n  const c = path.resolve(child);\n  const p = path.resolve(parent);\n  if (c === p) return true;\n  const rel = path.relative(p, c);\n  return rel !== '' && !rel.startsWith('..') && !path.isAbsolute(rel);\n}\n\n/**\n * Read the *raw* user config and report which adapter names the user\n * explicitly opted into (i.e. anything not literally `false`). Best-effort —\n * returns an empty set on any IO/parse error so callers (e.g. doctor) can\n * fall back gracefully without hiding the real validation error from the\n * primary {@link loadConfig} pipeline.\n *\n * Centralised here so the JSONC tolerance stays consistent with `loadConfig`\n * (same comment + trailing-comma stripping) — earlier drafts had doctor.ts\n * hand-roll its own regex, which was both wrong on URLs and inconsistent\n * with the loader.\n */\nexport async function readExplicitAdapters(\n  configPath: string | null,\n): Promise<ReadonlySet<string>> {\n  if (!configPath) return new Set();\n  const raw = await fs.readFile(configPath, 'utf8').catch(() => null);\n  if (raw === null) return new Set();\n  try {\n    const parsed = JSON.parse(stripJsonComments(raw, { trailingCommas: true })) as {\n      adapters?: Record<string, unknown>;\n    };\n    if (!parsed.adapters) return new Set();\n    return new Set(Object.keys(parsed.adapters).filter((k) => parsed.adapters?.[k] !== false));\n  } catch {\n    return new Set();\n  }\n}\n\nasync function readUserConfig(filePath: string): Promise<ParsedConfig> {\n  const raw = await fs.readFile(filePath, 'utf8').catch((err: NodeJS.ErrnoException) => {\n    if (err.code === 'ENOENT') return null;\n    throw err;\n  });\n  if (raw === null) return {};\n\n  let parsed: unknown;\n  try {\n    // JSONC: tolerate `//` and `/* */` comments plus trailing commas. The\n    // template ships annotated so users can discover schema by reading.\n    parsed = JSON.parse(stripJsonComments(raw, { trailingCommas: true }));\n  } catch (err) {\n    const message = err instanceof Error ? err.message : String(err);\n    throw new ConfigParseError(filePath, [{ path: '', message: `not valid JSON: ${message}` }]);\n  }\n\n  const result = configSchema.safeParse(parsed);\n  if (!result.success) {\n    const issues = result.error.issues.map((issue) => ({\n      path: issue.path.map((seg) => String(seg)).join('.'),\n      message: issue.message,\n    }));\n    throw new ConfigParseError(filePath, issues);\n  }\n  return result.data;\n}\n\n/**\n * Apply user overrides to built-in adapter presets, returning only the adapters\n * that are enabled. Disabled adapters (`false` override) drop out entirely;\n * adapters not mentioned in user config keep their preset.\n */\nfunction mergeAdapters(\n  overrides: ParsedConfig['adapters'] | undefined,\n): readonly Adapter[] {\n  const result: Adapter[] = [];\n\n  for (const [name, preset] of Object.entries(adapterRegistry) as Array<[AdapterName, Adapter]>) {\n    const override = overrides?.[name];\n\n    if (override === false) continue;\n\n    if (override === undefined || override === true) {\n      result.push(preset);\n      continue;\n    }\n\n    result.push({\n      name: preset.name,\n      rootDir: preset.rootDir,\n      layout: mergeLayout(preset.layout, override.layout),\n    });\n  }\n\n  return result;\n}\n\n/**\n * Shape of a single `layout[<assetType>]` entry as it comes out of zod parse.\n * Differs from `Partial<AssetLayout>` because `exactOptionalPropertyTypes`\n * distinguishes \"may be omitted\" from \"may be `undefined`\".\n */\ninterface LayoutPatchValue {\n  targetSubdir?: string | undefined;\n  flatten?: boolean | undefined;\n  include?: string[] | undefined;\n  exclude?: string[] | undefined;\n  ext?: string | undefined;\n}\n\ntype LayoutPatch = Partial<Record<AssetType, LayoutPatchValue>>;\n\nfunction mergeLayout(\n  base: Adapter['layout'],\n  patch: LayoutPatch | undefined,\n): Adapter['layout'] {\n  if (!patch) return base;\n\n  const merged: Adapter['layout'] = { ...base };\n  for (const key of Object.keys(patch) as AssetType[]) {\n    const value = patch[key];\n    if (value === undefined) continue;\n\n    const baseLayout = base[key];\n    if (baseLayout === undefined || baseLayout === false) {\n      const targetSubdir = value.targetSubdir;\n      if (targetSubdir === undefined) {\n        throw new ConfigPatchError(\n          `adapter override for \"${key}\" needs a targetSubdir because the built-in adapter does not define one`,\n        );\n      }\n      merged[key] = compactLayout(targetSubdir, value);\n      continue;\n    }\n    merged[key] = mergeIntoBase(baseLayout, value);\n  }\n  return merged;\n}\n\n/** Strip `undefined` so the result respects exactOptionalPropertyTypes. */\nfunction compactLayout(targetSubdir: string, v: LayoutPatchValue): AssetLayout {\n  const out: { -readonly [K in keyof AssetLayout]: AssetLayout[K] } = { targetSubdir };\n  if (v.flatten !== undefined) out.flatten = v.flatten;\n  if (v.include !== undefined) out.include = v.include;\n  if (v.exclude !== undefined) out.exclude = v.exclude;\n  if (v.ext !== undefined) out.ext = v.ext;\n  return out;\n}\n\nfunction mergeIntoBase(base: AssetLayout, patch: LayoutPatchValue): AssetLayout {\n  const out: { -readonly [K in keyof AssetLayout]: AssetLayout[K] } = { ...base };\n  if (patch.targetSubdir !== undefined) out.targetSubdir = patch.targetSubdir;\n  if (patch.flatten !== undefined) out.flatten = patch.flatten;\n  if (patch.include !== undefined) out.include = patch.include;\n  if (patch.exclude !== undefined) out.exclude = patch.exclude;\n  if (patch.ext !== undefined) out.ext = patch.ext;\n  return out;\n}\n\nclass ConfigPatchError extends AgentlinkError {}\n\n/**\n * Compute the set of asset types that should participate in this run.\n * `include` defaults to {@link DEFAULT_INCLUDE}; `exclude` is always a hard\n * subtraction applied last.\n */\nfunction resolveAssetTypes(\n  include: readonly AssetType[] | undefined,\n  exclude: readonly AssetType[] | undefined,\n): ReadonlySet<string> {\n  const candidates = new Set<string>(include ?? DEFAULT_INCLUDE);\n  for (const denied of exclude ?? []) {\n    candidates.delete(denied);\n  }\n  return candidates;\n}\n\nexport const __test__ = {\n  ASSET_TYPE_SET,\n  CONFIG_FILENAME,\n};\n","/**\n * Domain-specific error types thrown by agentlink core modules.\n *\n * Using a small class hierarchy (rather than plain `Error` with codes) so the\n * CLI layer can `instanceof`-match and render targeted help text without\n * coupling to error message strings.\n */\n\nexport class AgentlinkError extends Error {\n  constructor(message: string) {\n    super(message);\n    this.name = new.target.name;\n  }\n}\n\n/**\n * No `.agents/` directory could be located via any resolution channel.\n * `searched` records every probe and its outcome so the CLI can render a\n * \"Searched: …\" diagnostic block.\n */\nexport class SourceNotFoundError extends AgentlinkError {\n  readonly searched: ReadonlyArray<{ origin: string; status: string }>;\n\n  constructor(searched: ReadonlyArray<{ origin: string; status: string }>) {\n    super('no source .agents/ directory found');\n    this.searched = searched;\n  }\n}\n\n/**\n * A user-supplied path (via flag or env) is missing or has the wrong shape.\n * `flag` is the originating channel name as the user would recognize it\n * (e.g. `--source`, `config.source`).\n */\nexport class InvalidPathError extends AgentlinkError {\n  readonly flag: string;\n  readonly path: string;\n  readonly reason: 'missing' | 'not-a-directory' | 'not-a-file';\n\n  constructor(flag: string, p: string, reason: 'missing' | 'not-a-directory' | 'not-a-file') {\n    super(InvalidPathError.message(flag, p, reason));\n    this.flag = flag;\n    this.path = p;\n    this.reason = reason;\n  }\n\n  private static message(\n    flag: string,\n    p: string,\n    reason: 'missing' | 'not-a-directory' | 'not-a-file',\n  ): string {\n    if (reason === 'missing') return `${flag} does not exist: ${p}`;\n    if (reason === 'not-a-directory') return `${flag} is not a directory: ${p}`;\n    return `${flag} is not a file: ${p}`;\n  }\n}\n\n/** Two mutually exclusive options were supplied together (e.g. --target and --user). */\nexport class ConflictError extends AgentlinkError {}\n","/**\n * Asset categories agentlink knows how to symlink.\n * Extend cautiously — adding a value here is a breaking change for adapters.\n */\nexport type AssetType = 'skills' | 'rules' | 'commands' | 'prompts' | 'templates' | 'agents';\n\n/**\n * Per-asset-type projection rule. Sentinel `false` (\"skip this asset entirely\")\n * is represented at the {@link Adapter.layout} value level rather than inside\n * AssetLayout, so that `keyof AssetLayout` stays meaningful for code that maps\n * over its fields.\n */\nexport interface AssetLayout {\n  /** Subdirectory under the adapter's `rootDir`, e.g. 'skills' / 'commands'. */\n  targetSubdir: string;\n  /**\n   * If true, source files in nested subdirectories are flattened into the target\n   * directory using `__` as the path separator (e.g. `git/commit.md` → `git__commit.md`).\n   * Use this for agents that don't support nested command/rule directories (e.g. cursor).\n   */\n  flatten?: boolean;\n  /** Glob patterns (relative to source asset dir) to include. Defaults to all files. */\n  include?: readonly string[];\n  /** Glob patterns to exclude. Applied after `include`. */\n  exclude?: readonly string[];\n  /** Force a specific file extension on the link target (e.g. `.mdc` for cursor rules). */\n  ext?: string;\n  /**\n   * Custom rename hook. Receives the relative source path; returns the target file name\n   * (without `targetSubdir`). v1: only used by built-in adapters; not exposed via JSON config.\n   */\n  rename?: (relPath: string) => string;\n}\n\n/** A layout slot is either a real layout or `false` to mean \"skip this asset type\". */\nexport type LayoutSlot = AssetLayout | false;\n\n/**\n * Built-in or user-supplied adapter describing how to project `.agents/` into one AI agent's\n * directory layout.\n */\nexport interface Adapter {\n  /** Stable identifier, e.g. 'cursor' / 'claude' / 'codebuddy'. */\n  name: string;\n  /** Directory under target root, e.g. '.cursor'. */\n  rootDir: string;\n  /** Per-asset-type projection rules. */\n  layout: Partial<Record<AssetType, LayoutSlot>>;\n}\n\n/**\n * Per-adapter overrides as written by the user in JSON config.\n * Value semantics:\n *   - `true`           : enable built-in adapter with default layout\n *   - `false`          : disable adapter even if its rootDir exists\n *   - `{ layout }`     : enable + deep-merge layout overrides onto built-in defaults\n */\nexport type AdapterOverride =\n  | boolean\n  | { layout?: Partial<Record<AssetType, AssetLayout>> };\n\n/**\n * User-facing JSON configuration (`agentlink.config.json`).\n * Every field is optional; sensible defaults apply.\n */\nexport interface AgentlinkConfig {\n  /**\n   * Persistent default for the `.agents/` source directory.\n   * Resolved after `--source`, before `cwd/.agents` and `~/.agents`. When set, beats a sparse repo-local `.agents/` (e.g. a few\n   * project-only commands). Relative paths are resolved against the config file directory.\n   */\n  source?: string;\n  /**\n   * Persistent default destination root (where adapter rootDirs like `.cursor`\n   * are expected). Relative paths are resolved against the config file directory.\n   * Mutually exclusive with {@link AgentlinkConfig.user}.\n   */\n  target?: string;\n  /** When true, project symlinks into `$HOME` (equivalent to `--user`). */\n  user?: boolean;\n  /**\n   * Asset type allowlist. When omitted, falls back to the built-in default\n   * (`['skills', 'rules', 'commands']`). Use this to opt into less-common\n   * asset types like `prompts` / `templates` / `agents`.\n   */\n  include?: readonly string[];\n  /**\n   * Asset type denylist applied AFTER `include`. Always wins over `include`,\n   * useful for temporarily silencing one type without rewriting the allowlist.\n   */\n  exclude?: readonly string[];\n  /** Per-adapter overrides; see {@link AdapterOverride}. */\n  adapters?: Record<string, AdapterOverride>;\n}\n\n/**\n * Result of {@link loadConfig}: raw JSON has been validated, defaults filled,\n * and built-in adapter presets merged with user overrides. This is what every\n * runtime command (sync/clean/unlink/doctor) consumes.\n */\nexport interface ResolvedConfig {\n  /** Absolute path to the source `.agents/` directory. */\n  source: string;\n  /** Adapters that are enabled, with overrides already applied to layouts. */\n  adapters: readonly Adapter[];\n  /** Asset type names that should participate in this run. */\n  assetTypes: ReadonlySet<string>;\n  /** Absolute path of the config file actually loaded; null when no file existed. */\n  configPath: string | null;\n  /** Where the config came from. `'defaults'` means no file was found. */\n  configOrigin: 'flag' | 'cwd-ancestor' | 'home-global' | 'defaults';\n}\n\n/** Built-in default for {@link AgentlinkConfig.include}. */\nexport const DEFAULT_INCLUDE = ['skills', 'rules', 'commands'] as const;\n","/**\n * Locate the source `.agents/` directory and the destination root for a sync run.\n *\n * Two independent resolution chains share the same {@link ResolveOptions} and\n * produce a {@link ResolvedPaths} record. Both chains are pure with respect to\n * everything except `fs.stat` probes, so they are easy to unit-test with a\n * tmpdir + injected `cwd / home / env`.\n *\n * Source chain (highest first):\n *   1. `--source <path>` flag\n *   2. `config.source`      — explicit config beats an incidental `cwd/.agents`\n *   3. `<cwd>/.agents/`     — team repos with a full local source (no config.source)\n *   4. `<home>/.agents/`    — recommended default for the npx workflow\n *   5. (none) → SourceNotFoundError\n *\n * Destination chain (highest first):\n *   1. `--target <path>` flag\n *   2. `--user`             → home (user-level install target)\n *   3. `config.target` / `config.user`\n *   4. (default) cwd\n */\n\nimport { promises as fs } from 'node:fs';\nimport os from 'node:os';\nimport path from 'node:path';\n\nimport { ConflictError, InvalidPathError, SourceNotFoundError } from './errors.js';\n\nexport type SourceOrigin = 'flag' | 'cwd-local' | 'config' | 'home-global';\nexport type DestOrigin = 'flag' | 'user' | 'config' | 'cwd';\n\nexport interface ResolveOptions {\n  /** `--source` flag value. */\n  source?: string;\n  /** `--target` flag value. */\n  target?: string;\n  /** `--user` flag value — link into $HOME. */\n  user?: boolean;\n  /** `source` field from the resolved config file. */\n  configSource?: string;\n  /** `target` field from the resolved config file. */\n  configTarget?: string;\n  /** `user` field from the resolved config file. */\n  configUser?: boolean;\n  /** Directory containing the loaded config; used to resolve relative config paths. */\n  configBase?: string;\n  /** Resolved config file path — diagnostics only (see {@link SourceNotFoundError}). */\n  resolvedConfigPath?: string | null;\n  /** Override `process.cwd()`. */\n  cwd?: string;\n  /** Override `os.homedir()`. */\n  home?: string;\n}\n\nexport interface ResolvedPaths {\n  source: string;\n  sourceOrigin: SourceOrigin;\n  destRoot: string;\n  destOrigin: DestOrigin;\n}\n\nconst AGENTS_DIRNAME = '.agents';\n\n/**\n * Top-level entry. Resolves source and destination concurrently and emits a\n * Node warning if `destRoot` lives inside `source` (likely a self-link mistake).\n */\nexport async function resolvePaths(opts: ResolveOptions = {}): Promise<ResolvedPaths> {\n  const [src, dst] = await Promise.all([resolveSource(opts), resolveDestRoot(opts)]);\n\n  if (isInside(dst.path, src.path)) {\n    process.emitWarning(\n      `destination root \"${dst.path}\" lives inside source \"${src.path}\" — this may create self-references.`,\n      { code: 'AGENTLINK_NESTED_DEST' },\n    );\n  }\n\n  return {\n    source: src.path,\n    sourceOrigin: src.origin,\n    destRoot: dst.path,\n    destOrigin: dst.origin,\n  };\n}\n\nexport async function resolveSource(\n  opts: ResolveOptions = {},\n): Promise<{ path: string; origin: SourceOrigin }> {\n  const cwd = opts.cwd ?? process.cwd();\n  const home = opts.home ?? os.homedir();\n\n  if (opts.source !== undefined && opts.source !== '') {\n    const abs = await assertDir(expandTilde(opts.source, home), '--source', cwd);\n    return { path: abs, origin: 'flag' };\n  }\n\n  const configSource = opts.configSource;\n  if (configSource !== undefined && configSource !== '') {\n    const base = opts.configBase ?? cwd;\n    const abs = await assertDir(\n      resolveConfigPathValue(configSource, base, home),\n      'config.source',\n      cwd,\n    );\n    return { path: abs, origin: 'config' };\n  }\n\n  const local = path.join(cwd, AGENTS_DIRNAME);\n  if (await isDir(local)) {\n    return { path: local, origin: 'cwd-local' };\n  }\n\n  // Note: `homeAgents` is the source path under home; unrelated to the\n  // destination `--user` flag (which maps the *target* root to home).\n  const homeAgents = path.join(home, AGENTS_DIRNAME);\n  if (await isDir(homeAgents)) {\n    return { path: homeAgents, origin: 'home-global' };\n  }\n\n  throw new SourceNotFoundError([\n    { origin: '--source flag', status: 'not provided' },\n    { origin: 'config.source', status: configSourceStatus(opts) },\n    { origin: local, status: localProbeStatus(local) },\n    { origin: homeAgents, status: 'missing' },\n  ]);\n}\n\nfunction localProbeStatus(_local: string): string {\n  return 'missing (used when config.source is not set)';\n}\n\nfunction configSourceStatus(opts: ResolveOptions): string {\n  if (opts.configSource !== undefined && opts.configSource !== '') {\n    return 'not reached';\n  }\n  if (opts.resolvedConfigPath) {\n    return `not set in ${opts.resolvedConfigPath}`;\n  }\n  return 'no config file loaded';\n}\n\nexport async function resolveDestRoot(\n  opts: ResolveOptions = {},\n): Promise<{ path: string; origin: DestOrigin }> {\n  const cwd = opts.cwd ?? process.cwd();\n  const home = opts.home ?? os.homedir();\n\n  if (opts.target !== undefined && opts.target !== '' && opts.user) {\n    throw new ConflictError('--target and --user are mutually exclusive');\n  }\n\n  if (opts.target !== undefined && opts.target !== '') {\n    const abs = await assertDir(expandTilde(opts.target, home), '--target', cwd);\n    return { path: abs, origin: 'flag' };\n  }\n\n  if (opts.user) {\n    return { path: home, origin: 'user' };\n  }\n\n  if (opts.configTarget !== undefined && opts.configTarget !== '' && opts.configUser) {\n    throw new ConflictError('config `target` and `user` are mutually exclusive');\n  }\n\n  if (opts.configTarget !== undefined && opts.configTarget !== '') {\n    const base = opts.configBase ?? cwd;\n    const abs = await assertDir(\n      resolveConfigPathValue(opts.configTarget, base, home),\n      'config.target',\n      cwd,\n    );\n    return { path: abs, origin: 'config' };\n  }\n\n  if (opts.configUser) {\n    return { path: home, origin: 'config' };\n  }\n\n  return { path: cwd, origin: 'cwd' };\n}\n\n/**\n * Resolve a path from config: tilde-expand, then absolute or relative to the\n * config file directory (not cwd).\n */\nexport function resolveConfigPathValue(input: string, configBase: string, home: string): string {\n  const expanded = expandTilde(input, home);\n  return path.isAbsolute(expanded) ? expanded : path.resolve(configBase, expanded);\n}\n\n/**\n * Expand a leading `~` or `~/` to the supplied home directory.\n * Intentionally narrower than shell tilde expansion (no `~user` lookup).\n */\nexport function expandTilde(p: string, home: string): string {\n  if (p === '~') return home;\n  if (p.startsWith('~/')) return path.join(home, p.slice(2));\n  return p;\n}\n\nasync function assertDir(input: string, flag: string, cwd: string): Promise<string> {\n  const abs = path.isAbsolute(input) ? input : path.resolve(cwd, input);\n  const stat = await fs.stat(abs).catch(() => null);\n  if (!stat) throw new InvalidPathError(flag, abs, 'missing');\n  if (!stat.isDirectory()) throw new InvalidPathError(flag, abs, 'not-a-directory');\n  return abs;\n}\n\nasync function isDir(p: string): Promise<boolean> {\n  const stat = await fs.stat(p).catch(() => null);\n  return stat?.isDirectory() ?? false;\n}\n\n/**\n * `true` iff `child` is inside `parent` (or equal).\n *\n * Compares lexically — neither path is realpath-resolved, matching the rest of\n * the resolver's \"preserve symlinks\" stance.\n */\nexport function isInside(child: string, parent: string): boolean {\n  const c = path.resolve(child);\n  const p = path.resolve(parent);\n  if (c === p) return true;\n  const rel = path.relative(p, c);\n  return rel !== '' && !rel.startsWith('..') && !path.isAbsolute(rel);\n}\n","/**\n * `agentlink doctor` — read-only health check for the current source/destination\n * pair. Designed to answer \"would `agentlink sync` do something useful here,\n * and would it run cleanly?\" without writing anything to disk.\n *\n * Reports four sections:\n *   1. Adapter availability (rootDir present / config-disabled / missing)\n *   2. Link plan (count + any target-path collisions)\n *   3. Existing links (dangling, orphan)\n *   4. Aggregate verdict — sets `process.exitCode = 1` only on errors;\n *      warnings are non-blocking so doctor can be wired into pre-commit\n *      hooks without false positives.\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport pc from 'picocolors';\n\nimport { adapterRegistry } from '../adapters/index.js';\nimport { readExplicitAdapters } from '../core/config.js';\nimport { buildLinkPlans } from '../core/layout.js';\nimport { findManagedLinks, findStaleLinks } from '../core/linker.js';\nimport {\n  enumerateAllAdapterRoots,\n  enumerateTargetDirs,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport async function runDoctor(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'doctor', flags);\n\n  let warnings = 0;\n  let errors = 0;\n\n  // Read the *raw* user config so we can distinguish \"user explicitly opted\n  // into this adapter\" (warn when its rootDir is missing) from \"default\n  // pickup\" (dim when missing — most users don't have all three agents).\n  const explicitlyEnabled = await readExplicitAdapters(ctx.config.configPath);\n\n  // ── 1. Adapter availability ──────────────────────────────────────────────\n  console.log(pc.bold('Adapters'));\n  for (const [name, preset] of Object.entries(adapterRegistry)) {\n    const root = path.join(ctx.paths.destRoot, preset.rootDir);\n    const stat = await fs.stat(root).catch(() => null);\n    if (stat?.isDirectory()) {\n      console.log(\n        `  ${pc.green('✓')} ${name.padEnd(11)} ${pc.dim(preset.rootDir + '/')} ${pc.dim('(active)')}`,\n      );\n    } else if (explicitlyEnabled.has(name)) {\n      warnings++;\n      console.log(\n        `  ${pc.yellow('⚠')} ${name.padEnd(11)} ${pc.dim(preset.rootDir + '/')} ${pc.yellow('rootDir not found — sync will skip')}`,\n      );\n    } else {\n      console.log(\n        `  ${pc.dim('—')} ${name.padEnd(11)} ${pc.dim(preset.rootDir + '/')} ${pc.dim('not in use on this machine')}`,\n      );\n    }\n  }\n  console.log('');\n\n  // ── 2. Link plan ────────────────────────────────────────────────────────\n  const { plans, collisions } = await buildLinkPlans({\n    source: ctx.paths.source,\n    destRoot: ctx.paths.destRoot,\n    config: ctx.config,\n  });\n\n  console.log(pc.bold('Link plan'));\n  console.log(`  ${plans.length} plan${plans.length === 1 ? '' : 's'}`);\n  if (collisions.length === 0) {\n    console.log(`  ${pc.green('✓')} no collisions`);\n  } else {\n    warnings += collisions.length;\n    console.log(`  ${pc.yellow('⚠')} ${collisions.length} collision(s):`);\n    for (const c of collisions) {\n      console.log(`     ${pc.dim(c.adapterName + '/' + c.assetType)}  ${c.target}`);\n      for (const s of c.sources) console.log(`       ${pc.dim('←')} ${s}`);\n    }\n  }\n  console.log('');\n\n  // ── 3. Existing links ───────────────────────────────────────────────────\n  const targetDirs = enumerateTargetDirs(ctx).map((t) => t.targetDir);\n  const stale = (await Promise.all(targetDirs.map(findStaleLinks))).flat();\n\n  // Recursive sweep — orphans can live in asset subdirs that the current\n  // config no longer mentions, AND in adapter rootDirs the user has just\n  // disabled. Walk every built-in adapter rootDir that exists, ignoring the\n  // current `ctx.config.adapters` gate so doctor stays comprehensive.\n  const allRoots = await enumerateAllAdapterRoots(ctx.paths.destRoot);\n  const managed = (\n    await Promise.all(\n      allRoots.map((r) => findManagedLinks(r.rootDir, ctx.paths.source, { recursive: true })),\n    )\n  ).flat();\n  const staleSet = new Set(stale);\n  const planTargets = new Set(plans.map((p) => p.target));\n  const orphans = managed.filter((p) => !planTargets.has(p) && !staleSet.has(p));\n\n  console.log(pc.bold('Existing links'));\n  if (stale.length === 0 && orphans.length === 0) {\n    console.log(`  ${pc.green('✓')} all clear`);\n  } else {\n    if (stale.length > 0) {\n      warnings += stale.length;\n      console.log(\n        `  ${pc.yellow('⚠')} ${stale.length} dangling ${pc.dim('(run `agentlink clean` to drop):')}`,\n      );\n      for (const p of stale) console.log(`     ${p}`);\n    }\n    if (orphans.length > 0) {\n      warnings += orphans.length;\n      console.log(\n        `  ${pc.yellow('⚠')} ${orphans.length} orphan ${pc.dim('(linked into source but not in current plan; `unlink` then `sync` will rebuild):')}`,\n      );\n      for (const p of orphans) console.log(`     ${p}`);\n    }\n  }\n  console.log('');\n\n  // ── 4. Verdict ──────────────────────────────────────────────────────────\n  if (warnings + errors === 0) {\n    console.log(pc.green('Healthy'));\n    return;\n  }\n  const parts: string[] = [];\n  if (warnings > 0) parts.push(pc.yellow(`${warnings} warning${warnings === 1 ? '' : 's'}`));\n  if (errors > 0) parts.push(pc.red(`${errors} error${errors === 1 ? '' : 's'}`));\n  console.log(`Issues: ${parts.join(', ')}`);\n  if (errors > 0) process.exitCode = 1;\n}\n\n","/**\n * Translate a {@link ResolvedConfig} into a flat list of {@link LinkPlan}s\n * that the linker module can execute one symlink at a time.\n *\n * For each `(adapter, assetType)` pair this module:\n *   - resolves the source asset directory under `<source>/<assetType>`\n *   - resolves the target directory under `<destRoot>/<rootDir>/<targetSubdir>`\n *   - applies `flatten` / `ext` / `rename` / `include` / `exclude`\n *   - detects target-path collisions and surfaces them as {@link Conflict}s\n *\n * Conflict policy is intentionally _diagnostic only_ here — the caller decides\n * whether to warn (default) or fail (`--strict`).\n */\n\nimport { promises as fs } from 'node:fs';\nimport path from 'node:path';\nimport picomatch from 'picomatch';\n\nimport type {\n  Adapter,\n  AssetLayout,\n  AssetType,\n  ResolvedConfig,\n} from './types.js';\n\nexport interface LinkPlan {\n  /** Absolute source path (file when flattened, file-or-directory otherwise). */\n  source: string;\n  /** Absolute target path the symlink will live at. */\n  target: string;\n  /** Asset type bucket this plan came from. */\n  assetType: AssetType;\n  /** Name of the adapter that produced this plan. */\n  adapterName: string;\n  /** True when source enumeration recursed into nested files. */\n  flattened: boolean;\n}\n\nexport interface Conflict {\n  /** Target path that two or more plans claim. */\n  target: string;\n  /** Source paths competing for the same target. */\n  sources: readonly string[];\n  /** Asset type / adapter the collision happened in (for diagnostics). */\n  adapterName: string;\n  assetType: AssetType;\n}\n\nexport interface BuildResult {\n  /** Plans whose targets are unique. Safe to apply. */\n  plans: readonly LinkPlan[];\n  /** Plans dropped because their target collided with another (default policy). */\n  collisions: readonly Conflict[];\n}\n\nexport interface BuildOptions {\n  /** Absolute path to the source `.agents/` directory. */\n  source: string;\n  /** Absolute path to the destination root. */\n  destRoot: string;\n  /** Resolved config (loaded via {@link loadConfig}). */\n  config: ResolvedConfig;\n}\n\n/**\n * Build the flat plan list. Pure function — only reads the filesystem; never\n * writes. Safe to call from `--dry-run`.\n */\nexport async function buildLinkPlans(opts: BuildOptions): Promise<BuildResult> {\n  const { source, destRoot, config } = opts;\n  const draft: LinkPlan[] = [];\n\n  for (const adapter of config.adapters) {\n    for (const assetType of config.assetTypes as ReadonlySet<AssetType>) {\n      const slot = adapter.layout[assetType];\n      if (slot === undefined || slot === false) continue;\n\n      const sourceAssetDir = path.join(source, assetType);\n      if (!(await isDir(sourceAssetDir))) continue;\n\n      const targetAssetDir = path.join(destRoot, adapter.rootDir, slot.targetSubdir);\n      const planned = slot.flatten\n        ? await planFlattened(sourceAssetDir, targetAssetDir, slot, adapter, assetType)\n        : await planShallow(sourceAssetDir, targetAssetDir, slot, adapter, assetType);\n\n      draft.push(...planned);\n    }\n  }\n\n  return splitByCollision(draft);\n}\n\n/* ──────────────────────────  flatten = true  ───────────────────────────── */\n\nasync function planFlattened(\n  sourceAssetDir: string,\n  targetAssetDir: string,\n  layout: AssetLayout,\n  adapter: Adapter,\n  assetType: AssetType,\n): Promise<LinkPlan[]> {\n  const files = await walkFiles(sourceAssetDir);\n  const includeMatch = makeIncludeMatcher(layout.include);\n  const excludeMatch = makeExcludeMatcher(layout.exclude);\n  const out: LinkPlan[] = [];\n\n  for (const abs of files) {\n    const rel = path.relative(sourceAssetDir, abs);\n    if (!includeMatch(rel)) continue;\n    if (excludeMatch(rel)) continue;\n\n    const targetName = applyRename(rel, layout, /* flatten */ true);\n    out.push({\n      source: abs,\n      target: path.join(targetAssetDir, targetName),\n      adapterName: adapter.name,\n      assetType,\n      flattened: true,\n    });\n  }\n  return out;\n}\n\n/* ──────────────────────────  flatten = false (default)  ───────────────── */\n\nasync function planShallow(\n  sourceAssetDir: string,\n  targetAssetDir: string,\n  layout: AssetLayout,\n  adapter: Adapter,\n  assetType: AssetType,\n): Promise<LinkPlan[]> {\n  const items = await listFirstLevel(sourceAssetDir);\n  const includeMatch = makeIncludeMatcher(layout.include);\n  const excludeMatch = makeExcludeMatcher(layout.exclude);\n  const out: LinkPlan[] = [];\n\n  for (const entry of items) {\n    if (!includeMatch(entry.name)) continue;\n    if (excludeMatch(entry.name)) continue;\n\n    const targetName = applyRename(entry.name, layout, /* flatten */ false);\n    out.push({\n      source: path.join(sourceAssetDir, entry.name),\n      target: path.join(targetAssetDir, targetName),\n      adapterName: adapter.name,\n      assetType,\n      flattened: false,\n    });\n  }\n  return out;\n}\n\n/* ──────────────────────────  Naming helpers  ──────────────────────────── */\n\nconst PATH_SEPARATOR_RE = /[\\\\/]/g;\n\nfunction applyRename(relPath: string, layout: AssetLayout, flatten: boolean): string {\n  if (layout.rename) return layout.rename(relPath);\n\n  let name = flatten ? relPath.replace(PATH_SEPARATOR_RE, '__') : relPath;\n  if (layout.ext) {\n    const ext = path.extname(name);\n    name = ext ? name.slice(0, -ext.length) + layout.ext : name + layout.ext;\n  }\n  return name;\n}\n\n/* ──────────────────────────  Filesystem walkers  ──────────────────────── */\n\nasync function walkFiles(root: string): Promise<string[]> {\n  const out: string[] = [];\n  await (async function descend(dir: string): Promise<void> {\n    const entries = await fs.readdir(dir, { withFileTypes: true });\n    for (const entry of entries) {\n      // Hidden entries (`.gitkeep`, `.DS_Store`, etc.) are placeholder/system\n      // files, never real assets. Mirrors `listFirstLevel` behaviour.\n      if (entry.name.startsWith('.')) continue;\n      const full = path.join(dir, entry.name);\n      if (entry.isDirectory()) {\n        await descend(full);\n      } else if (entry.isFile() || entry.isSymbolicLink()) {\n        out.push(full);\n      }\n    }\n  })(root);\n  return out;\n}\n\nasync function listFirstLevel(root: string): Promise<readonly { name: string; isDir: boolean }[]> {\n  const entries = await fs.readdir(root, { withFileTypes: true });\n  return entries\n    .filter((e) => !e.name.startsWith('.'))\n    .map((e) => ({ name: e.name, isDir: e.isDirectory() }));\n}\n\nasync function isDir(p: string): Promise<boolean> {\n  const stat = await fs.stat(p).catch(() => null);\n  return stat?.isDirectory() ?? false;\n}\n\n/* ──────────────────────────  Glob matchers  ───────────────────────────── */\n\n/**\n * `include` matcher: empty/missing list means \"everything passes\".\n */\nfunction makeIncludeMatcher(patterns: readonly string[] | undefined): (rel: string) => boolean {\n  if (!patterns || patterns.length === 0) return () => true;\n  const fns = patterns.map((p) => picomatch(p, { dot: true }));\n  return (rel) => fns.some((fn) => fn(rel));\n}\n\n/**\n * `exclude` matcher: empty/missing list means \"nothing is excluded\".\n */\nfunction makeExcludeMatcher(patterns: readonly string[] | undefined): (rel: string) => boolean {\n  if (!patterns || patterns.length === 0) return () => false;\n  const fns = patterns.map((p) => picomatch(p, { dot: true }));\n  return (rel) => fns.some((fn) => fn(rel));\n}\n\n/* ──────────────────────────  Collision detection  ─────────────────────── */\n\nfunction splitByCollision(plans: readonly LinkPlan[]): BuildResult {\n  const byTarget = new Map<string, LinkPlan[]>();\n  for (const plan of plans) {\n    const bucket = byTarget.get(plan.target);\n    if (bucket) bucket.push(plan);\n    else byTarget.set(plan.target, [plan]);\n  }\n\n  const accepted: LinkPlan[] = [];\n  const collisions: Conflict[] = [];\n  for (const [target, bucket] of byTarget) {\n    if (bucket.length === 1) {\n      accepted.push(bucket[0]!);\n      continue;\n    }\n    const head = bucket[0]!;\n    collisions.push({\n      target,\n      sources: bucket.map((p) => p.source),\n      adapterName: head.adapterName,\n      assetType: head.assetType,\n    });\n  }\n  return { plans: accepted, collisions };\n}\n","/**\n * `agentlink init` — interactively scaffold a `.agents/` directory and run\n * sync once so the user gets working symlinks immediately.\n *\n * Three knobs the user can tweak via prompts:\n *   1. **Target location** (only when neither `--local` nor `--source` is set):\n *        `~/.agents` (recommended) vs `./.agents`.\n *   2. **Asset types** to include — multi-select; defaults to skills/rules/commands.\n *   3. **Adapters** to enable — multi-select; defaults to all three.\n *\n * Non-interactive degrade rules:\n *   - `--yes / -y` ⇒ everything defaults, no prompts\n *   - stdin not a TTY ⇒ same (suitable for CI / piping)\n *   - any flag that already answers a question ⇒ skip that prompt\n *\n * Refuses to clobber a non-empty target unless `--force`.\n */\n\nimport { promises as fs } from 'node:fs';\nimport os from 'node:os';\nimport path from 'node:path';\nimport { fileURLToPath } from 'node:url';\nimport pc from 'picocolors';\nimport prompts from 'prompts';\n\nimport { adapterRegistry, type AdapterName } from '../adapters/index.js';\nimport { AgentlinkError } from '../core/errors.js';\nimport { runSync } from './sync.js';\nimport type { CommandFlags } from './_shared.js';\n\nexport interface InitFlags extends CommandFlags {\n  local?: boolean;\n  yes?: boolean;\n}\n\nexport class InitTargetExistsError extends AgentlinkError {\n  constructor(targetPath: string) {\n    super(`refusing to scaffold into a non-empty directory: ${targetPath}\\n  use --force to merge into the existing files`);\n  }\n}\n\nconst ALL_ASSET_TYPES = ['skills', 'rules', 'commands', 'prompts', 'templates', 'agents'] as const;\nconst DEFAULT_ASSET_TYPES = ['skills', 'rules', 'commands'] as const;\nconst ALL_ADAPTER_NAMES = Object.keys(adapterRegistry) as AdapterName[];\n\nconst HERE = path.dirname(fileURLToPath(import.meta.url));\nconst TEMPLATE_CANDIDATES = [\n  path.resolve(HERE, '..', 'templates', 'v1'),\n  path.resolve(HERE, '..', '..', 'templates', 'v1'),\n];\n\nasync function findTemplatesDir(): Promise<string> {\n  for (const candidate of TEMPLATE_CANDIDATES) {\n    const stat = await fs.stat(candidate).catch(() => null);\n    if (stat?.isDirectory()) return candidate;\n  }\n  throw new AgentlinkError(\n    `agentlink templates dir not found; searched:\\n  ${TEMPLATE_CANDIDATES.join('\\n  ')}`,\n  );\n}\n\ninterface InitAnswers {\n  /** Where the source `.agents/` directory is created. */\n  target: string;\n  targetCategory: 'home' | 'cwd' | 'custom';\n  /** Where the `agentlink.config.json` is written (independent of source). */\n  configPath: string;\n  configCategory: 'home' | 'cwd';\n  include: readonly string[];\n  adapters: readonly AdapterName[];\n}\n\nexport async function runInit(flags: InitFlags = {}): Promise<void> {\n  const answers = await collectAnswers(flags);\n\n  if (!flags.quiet) {\n    console.log('');\n    console.log(pc.bold('[agentlink] init'));\n    console.log(`  target:   ${answers.target}`);\n    console.log('');\n  }\n\n  const created = await scaffoldInto(answers, {\n    force: flags.force ?? false,\n    quiet: flags.quiet ?? false,\n    dryRun: flags.dryRun ?? false,\n  });\n  if (!created.touched && !flags.quiet) {\n    console.log(pc.dim('  no files written; .agents/ already populated'));\n  }\n\n  if (answers.targetCategory === 'custom' && !flags.quiet) {\n    printNonDefaultLocationHint(answers.target);\n  }\n\n  if (!flags.quiet) console.log('');\n\n  // In dry-run mode the source directory was never actually created, so a\n  // follow-up sync would just throw on resolveSource. Tell the user what\n  // a real run would have done and exit cleanly instead.\n  if (flags.dryRun) {\n    if (!flags.quiet) {\n      console.log(\n        pc.dim(\n          `  (dry-run) would run \\`agentlink sync\\` against ${answers.target} after scaffolding`,\n        ),\n      );\n    }\n    return;\n  }\n\n  // Best-effort follow-up sync so the user gets immediate symlinks if they\n  // already have `.cursor` / `.claude` / `.codebuddy` in cwd. The adapter\n  // gate makes this a no-op when none exist.\n  await runSync({\n    source: answers.target,\n    ...(flags.target !== undefined ? { target: flags.target } : {}),\n    ...(flags.user !== undefined ? { user: flags.user } : {}),\n    ...(flags.quiet !== undefined ? { quiet: flags.quiet } : {}),\n  });\n}\n\n/* ──────────────────────────  Prompt orchestration  ─────────────────────── */\n\nasync function collectAnswers(flags: InitFlags): Promise<InitAnswers> {\n  const skipPrompts = flags.yes || !process.stdin.isTTY;\n\n  // 1) Target location\n  let target: string;\n  let targetCategory: InitAnswers['targetCategory'];\n  if (flags.source !== undefined && flags.source !== '') {\n    target = path.resolve(expandTilde(flags.source));\n    targetCategory = categorizeTarget(target);\n  } else if (flags.local) {\n    target = path.resolve(process.cwd(), '.agents');\n    targetCategory = 'cwd';\n  } else if (skipPrompts) {\n    target = path.resolve(os.homedir(), '.agents');\n    targetCategory = 'home';\n  } else {\n    const choice = await ask<{ kind: 'home' | 'cwd' }>({\n      type: 'select',\n      name: 'kind',\n      message: 'Where should agentlink put your .agents/ directory?',\n      choices: [\n        {\n          title: 'Personal global (~/.agents)',\n          description: 'Recommended — share assets across every project',\n          value: 'home',\n        },\n        {\n          title: 'Repo-local (./.agents)',\n          description: 'Ship a curated .agents/ inside this repository',\n          value: 'cwd',\n        },\n      ],\n      initial: 0,\n    });\n    target =\n      choice.kind === 'home'\n        ? path.resolve(os.homedir(), '.agents')\n        : path.resolve(process.cwd(), '.agents');\n    targetCategory = choice.kind;\n  }\n\n  // 2) Asset types\n  let include: readonly string[];\n  if (skipPrompts) {\n    include = DEFAULT_ASSET_TYPES;\n  } else {\n    const { values } = await ask<{ values: string[] }>({\n      type: 'multiselect',\n      name: 'values',\n      message: 'Which asset types do you want to manage?',\n      hint: 'space to toggle, enter to confirm',\n      choices: ALL_ASSET_TYPES.map((name) => ({\n        title: name,\n        value: name,\n        selected: (DEFAULT_ASSET_TYPES as readonly string[]).includes(name),\n      })),\n      min: 1,\n      instructions: false,\n    });\n    include = values;\n  }\n\n  // 3) Adapters\n  let adapters: readonly AdapterName[];\n  if (skipPrompts) {\n    adapters = ALL_ADAPTER_NAMES;\n  } else {\n    const { values } = await ask<{ values: AdapterName[] }>({\n      type: 'multiselect',\n      name: 'values',\n      message: 'Which AI agents do you want to target?',\n      hint: 'space to toggle, enter to confirm',\n      choices: ALL_ADAPTER_NAMES.map((name) => ({\n        title: name,\n        value: name,\n        selected: true,\n      })),\n      min: 1,\n      instructions: false,\n    });\n    adapters = values;\n  }\n\n  // Decide where the config file lands. Config is decoupled from source —\n  // whichever location a future `agentlink sync` is most likely to run from.\n  const configCategory: InitAnswers['configCategory'] =\n    targetCategory === 'cwd' ? 'cwd' : 'home';\n  const configPath =\n    configCategory === 'home'\n      ? path.resolve(os.homedir(), 'agentlink.config.json')\n      : path.resolve(process.cwd(), 'agentlink.config.json');\n\n  return { target, targetCategory, configPath, configCategory, include, adapters };\n}\n\n/**\n * Wrapper that turns user-cancellation (Ctrl-C) into a thrown error rather\n * than letting `prompts` resolve with `{}` and silently producing an empty\n * config.\n */\nasync function ask<T extends Record<string, unknown>>(\n  question: prompts.PromptObject,\n): Promise<T> {\n  let cancelled = false;\n  const answer = await prompts(question, {\n    onCancel: () => {\n      cancelled = true;\n      return false;\n    },\n  });\n  if (cancelled) throw new AgentlinkError('init cancelled');\n  return answer as T;\n}\n\nfunction categorizeTarget(target: string): InitAnswers['targetCategory'] {\n  const home = path.resolve(os.homedir(), '.agents');\n  const cwd = path.resolve(process.cwd(), '.agents');\n  if (target === home) return 'home';\n  if (target === cwd) return 'cwd';\n  return 'custom';\n}\n\nfunction expandTilde(p: string): string {\n  if (p === '~') return os.homedir();\n  if (p.startsWith('~/')) return path.join(os.homedir(), p.slice(2));\n  return p;\n}\n\n/* ──────────────────────────  Scaffolding  ─────────────────────────────── */\n\ninterface ScaffoldResult {\n  touched: boolean;\n}\n\ninterface ScaffoldOptions {\n  force: boolean;\n  quiet: boolean;\n  /** When true: probe and report what would happen, never touch the filesystem. */\n  dryRun: boolean;\n}\n\nasync function scaffoldInto(\n  answers: InitAnswers,\n  options: ScaffoldOptions,\n): Promise<ScaffoldResult> {\n  const { force, quiet, dryRun } = options;\n  const target = answers.target;\n  const stat = await fs.stat(target).catch(() => null);\n  if (stat && !stat.isDirectory()) {\n    throw new AgentlinkError(`init target exists but is not a directory: ${target}`);\n  }\n\n  if (stat && !force) {\n    const entries = await fs.readdir(target);\n    if (entries.length > 0) throw new InitTargetExistsError(target);\n  }\n\n  if (!dryRun) {\n    await fs.mkdir(target, { recursive: true });\n  } else if (!stat && !quiet) {\n    console.log(`${pc.dim('[DRY]')}   would create ${target}/`);\n  }\n\n  const templatesDir = await findTemplatesDir();\n\n  let written = 0;\n  written += await copyStaticAssets(templatesDir, target, answers.include, quiet, dryRun);\n  written += await writeConfigFile(answers, quiet, dryRun);\n  return { touched: written > 0 };\n}\n\n/**\n * Copy README and `.gitkeep` placeholders for each user-selected asset type.\n * The config file is rendered separately by `writeConfigFile` because its\n * contents depend on the user's answers.\n */\nasync function copyStaticAssets(\n  templatesDir: string,\n  target: string,\n  include: readonly string[],\n  quiet: boolean,\n  dryRun: boolean,\n): Promise<number> {\n  let written = 0;\n\n  // README — copy as-is if not already present.\n  const readmeSrc = path.join(templatesDir, 'README.md');\n  const readmeDest = path.join(target, 'README.md');\n  if ((await fs.stat(readmeSrc).catch(() => null)) && !(await fs.stat(readmeDest).catch(() => null))) {\n    if (dryRun) {\n      if (!quiet) console.log(`${pc.dim('[DRY]')}   would create ${readmeDest}`);\n    } else {\n      await fs.copyFile(readmeSrc, readmeDest);\n      if (!quiet) console.log(`${pc.green('[NEW]')}   ${readmeDest}`);\n    }\n    written++;\n  }\n\n  // Per-asset-type empty directories with a placeholder so they survive `git add`.\n  for (const assetType of include) {\n    const dir = path.join(target, assetType);\n    const keep = path.join(dir, '.gitkeep');\n    const keepExists = await fs.stat(keep).catch(() => null);\n    if (keepExists) continue;\n\n    if (dryRun) {\n      if (!quiet) console.log(`${pc.dim('[DRY]')}   would create ${keep}`);\n    } else {\n      await fs.mkdir(dir, { recursive: true });\n      await fs.writeFile(keep, '');\n      if (!quiet) console.log(`${pc.green('[NEW]')}   ${keep}`);\n    }\n    written++;\n  }\n\n  return written;\n}\n\nasync function writeConfigFile(\n  answers: InitAnswers,\n  quiet: boolean,\n  dryRun: boolean,\n): Promise<number> {\n  const configPath = answers.configPath;\n  if (await fs.stat(configPath).catch(() => null)) {\n    if (!quiet) console.log(`${pc.cyan('[SKIP]')}  ${configPath} (already exists)`);\n    return 0;\n  }\n  if (dryRun) {\n    if (!quiet) console.log(`${pc.dim('[DRY]')}   would create ${configPath}`);\n    return 1;\n  }\n  await fs.mkdir(path.dirname(configPath), { recursive: true });\n  await fs.writeFile(configPath, renderConfig(answers), 'utf8');\n  if (!quiet) console.log(`${pc.green('[NEW]')}   ${configPath}`);\n  return 1;\n}\n\n/**\n * Pick a portable `source` value for config: prefer a path relative to the\n * config file; otherwise `~/…` when under home; fall back to absolute.\n */\nexport function formatSourceForConfig(target: string, configPath: string): string {\n  const resolved = path.resolve(target);\n  const configDir = path.resolve(path.dirname(configPath));\n  const home = path.resolve(os.homedir());\n  const rel = path.relative(configDir, resolved);\n  if (rel !== '' && !rel.startsWith('..') && !path.isAbsolute(rel)) {\n    return rel;\n  }\n  if (resolved === home || resolved.startsWith(home + path.sep)) {\n    const tail = path.relative(home, resolved);\n    return tail === '' ? '~' : `~/${tail}`;\n  }\n  return resolved;\n}\n\n/**\n * Render `agentlink.config.json` as JSONC with explanatory comments. We hand-\n * format this rather than `JSON.stringify`-ing because the comments are the\n * whole point — users learn the schema by reading the seed file.\n */\nexport function renderConfig(answers: InitAnswers): string {\n  const includeJson = JSON.stringify(answers.include);\n  const adapterLines = ALL_ADAPTER_NAMES.map((name) => {\n    const value = answers.adapters.includes(name) ? 'true' : 'false';\n    return `    \"${name}\": ${value}`;\n  }).join(',\\n');\n  const sourceBlock =\n    answers.targetCategory === 'custom'\n      ? `  // Persistent default for \\`agentlink sync\\` (relative paths resolve from this file).\n  \"source\": ${JSON.stringify(formatSourceForConfig(answers.target, answers.configPath))},\n\n`\n      : '';\n\n  return `{\n${sourceBlock}  // Asset type allowlist. Default: [\"skills\", \"rules\", \"commands\"].\n  // Add \"prompts\", \"templates\" or \"agents\" here to opt them in.\n  \"include\": ${includeJson},\n\n  // Asset type denylist (always wins over \\`include\\`).\n  \"exclude\": [],\n\n  // Per-adapter overrides. Each value can be:\n  //   - true                       : enable with built-in defaults\n  //   - false                      : disable even if its rootDir exists\n  //   - { \"layout\": { … } }        : enable + override specific asset layouts\n  //\n  // Example: keep cursor commands nested instead of flattened\n  //   \"cursor\": { \"layout\": { \"commands\": { \"flatten\": false } } }\n  \"adapters\": {\n${adapterLines}\n  }\n}\n`;\n}\n\n/* ──────────────────────────  Hints  ───────────────────────────────────── */\n\nfunction printNonDefaultLocationHint(target: string): void {\n  console.log('');\n  console.log(pc.bold('Tip — your source is at a non-default location:'));\n  console.log(`  ${target}`);\n  console.log('');\n  console.log('Future invocations of `agentlink sync` will read `source` from your');\n  console.log('`agentlink.config.json` (written during init). You can also:');\n  console.log(`  - pass ${pc.cyan(`--source ${target}`)} to override, or`);\n  console.log(`  - symlink it: ${pc.cyan(`ln -s ${target} ~/.agents`)}`);\n}\n","import path from 'node:path';\nimport pc from 'picocolors';\n\nimport { buildLinkPlans, type Conflict } from '../core/layout.js';\nimport { applyPlans, findStaleLinks, removeLinks, type LinkOutcome } from '../core/linker.js';\nimport { AgentlinkError } from '../core/errors.js';\nimport {\n  enumerateTargetDirs,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport class StrictModeViolation extends AgentlinkError {\n  constructor(public readonly conflicts: readonly Conflict[]) {\n    super(`${conflicts.length} link target collision(s) under --strict`);\n  }\n}\n\nexport async function runSync(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'sync', flags);\n\n  const { plans, collisions } = await buildLinkPlans({\n    source: ctx.paths.source,\n    destRoot: ctx.paths.destRoot,\n    config: ctx.config,\n  });\n\n  if (collisions.length > 0) {\n    reportCollisions(collisions, flags.quiet ?? false);\n    if (flags.strict) {\n      throw new StrictModeViolation(collisions);\n    }\n  }\n\n  const outcomes = await applyPlans(plans, {\n    ...(flags.dryRun !== undefined ? { dryRun: flags.dryRun } : {}),\n    ...(flags.force !== undefined ? { force: flags.force } : {}),\n  });\n\n  // Sweep up dangling links left from previous syncs whose source files were\n  // deleted. Mirrors the legacy init.sh behaviour where every run also cleans.\n  const targetDirs = enumerateTargetDirs(ctx).map((t) => t.targetDir);\n  const stale = (await Promise.all(targetDirs.map(findStaleLinks))).flat();\n  const removed = await removeLinks(stale, flags.dryRun ? { dryRun: true } : {});\n\n  reportOutcomes(outcomes, ctx.paths.destRoot, flags.quiet ?? false);\n  reportRemovals(removed, flags.quiet ?? false);\n  printSummary(outcomes, removed, collisions);\n\n  // Any individual link operation that errored should fail the whole run so\n  // CI / pre-commit hooks can detect a partially-broken sync. Conflicts are\n  // already either warned (default) or thrown (via --strict above), so we\n  // only consider link-level failures here.\n  const errored =\n    outcomes.filter((o) => o.status === 'errored').length +\n    removed.filter((r) => r.status === 'errored').length;\n  if (errored > 0) process.exitCode = 1;\n}\n\n/* ──────────────────────────  Reporting helpers  ────────────────────────── */\n\nfunction reportCollisions(collisions: readonly Conflict[], quiet: boolean): void {\n  if (quiet) return;\n  for (const c of collisions) {\n    console.warn(\n      pc.yellow(`[WARN] target collision under ${c.adapterName}/${c.assetType}: ${c.target}`),\n    );\n    for (const s of c.sources) console.warn(pc.dim(`        source: ${s}`));\n  }\n}\n\nfunction reportOutcomes(\n  outcomes: readonly LinkOutcome[],\n  destRoot: string,\n  quiet: boolean,\n): void {\n  for (const o of outcomes) {\n    const display = path.relative(destRoot, o.plan.target);\n    switch (o.status) {\n      case 'created':\n        if (!quiet) console.log(`${pc.green('[OK]')}    ${display}`);\n        break;\n      case 'fixed':\n        console.log(`${pc.green('[FIX]')}   ${display} ${pc.dim(`(${o.message})`)}`);\n        break;\n      case 'skipped':\n        if (!quiet) console.log(`${pc.cyan('[SKIP]')}  ${display}`);\n        break;\n      case 'warned':\n        console.warn(`${pc.yellow('[WARN]')}  ${display} ${pc.dim(`(${o.message ?? ''})`)}`);\n        break;\n      case 'errored':\n        console.error(`${pc.red('[ERR]')}   ${display} ${pc.dim(`(${o.message ?? ''})`)}`);\n        break;\n      case 'dry-create':\n        if (!quiet) console.log(`${pc.dim('[DRY]')}   ${display}`);\n        break;\n      case 'dry-fix':\n        console.log(`${pc.dim('[DRY]')}   ${display} ${pc.dim(`(would fix: ${o.message})`)}`);\n        break;\n    }\n  }\n}\n\nfunction reportRemovals(\n  removals: readonly { path: string; status: string; message?: string }[],\n  quiet: boolean,\n): void {\n  for (const r of removals) {\n    if (r.status === 'removed' && !quiet) {\n      console.log(`${pc.yellow('[CLEAN]')} ${r.path}`);\n    } else if (r.status === 'dry-remove' && !quiet) {\n      console.log(`${pc.dim('[DRY]')}   would clean ${r.path}`);\n    } else if (r.status === 'errored') {\n      console.error(`${pc.red('[ERR]')}   ${r.path} ${pc.dim(`(${r.message ?? ''})`)}`);\n    }\n  }\n}\n\nfunction printSummary(\n  outcomes: readonly LinkOutcome[],\n  removals: readonly { status: string }[],\n  collisions: readonly Conflict[],\n): void {\n  const counts: Record<string, number> = {};\n  for (const o of outcomes) counts[o.status] = (counts[o.status] ?? 0) + 1;\n  const cleaned = removals.filter((r) => r.status === 'removed' || r.status === 'dry-remove').length;\n\n  const parts: string[] = [];\n  if (counts['created']) parts.push(pc.green(`${counts['created']} created`));\n  if (counts['fixed']) parts.push(pc.green(`${counts['fixed']} fixed`));\n  if (counts['skipped']) parts.push(pc.cyan(`${counts['skipped']} skipped`));\n  if (counts['warned']) parts.push(pc.yellow(`${counts['warned']} warned`));\n  if (counts['errored']) parts.push(pc.red(`${counts['errored']} errored`));\n  if (counts['dry-create'] || counts['dry-fix']) {\n    parts.push(pc.dim(`${(counts['dry-create'] ?? 0) + (counts['dry-fix'] ?? 0)} dry-run`));\n  }\n  if (cleaned) parts.push(pc.yellow(`${cleaned} cleaned`));\n  if (collisions.length) parts.push(pc.yellow(`${collisions.length} collision(s)`));\n\n  console.log('');\n  console.log(parts.length === 0 ? pc.dim('  no changes') : `  ${parts.join(', ')}`);\n}\n","import pc from 'picocolors';\n\nimport { findManagedLinks, pruneEmptyDirs, removeLinks } from '../core/linker.js';\nimport {\n  enumerateAllAdapterRoots,\n  loadContext,\n  printHeader,\n  type CommandFlags,\n} from './_shared.js';\n\nexport async function runUnlink(flags: CommandFlags = {}): Promise<void> {\n  const ctx = await loadContext(flags);\n  printHeader(ctx, 'unlink', flags);\n\n  // `unlink` must be a \"remove everything we ever wrote\" operation. Walk\n  // *all* built-in adapter rootDirs that exist under destRoot — not only\n  // the ones currently enabled by config — and recurse into each so we\n  // also catch links living in asset subdirs that the current `include`\n  // list no longer mentions. Otherwise users who disabled an adapter or\n  // narrowed `include` would leave orphan symlinks behind.\n  const roots = await enumerateAllAdapterRoots(ctx.paths.destRoot);\n  const sourceRoot = ctx.paths.source;\n\n  const owned = (\n    await Promise.all(\n      roots.map(({ rootDir }) => findManagedLinks(rootDir, sourceRoot, { recursive: true })),\n    )\n  ).flat();\n\n  if (owned.length === 0) {\n    console.log(pc.dim('  no agentlink-managed links found'));\n    return;\n  }\n\n  const outcomes = await removeLinks(owned, flags.dryRun ? { dryRun: true } : {});\n\n  let removed = 0;\n  let dry = 0;\n  let errored = 0;\n  for (const o of outcomes) {\n    if (o.status === 'removed') {\n      removed++;\n      if (!flags.quiet) console.log(`${pc.yellow('[UNLINK]')} ${o.path}`);\n    } else if (o.status === 'dry-remove') {\n      dry++;\n      if (!flags.quiet) console.log(`${pc.dim('[DRY]')}    would remove ${o.path}`);\n    } else if (o.status === 'errored') {\n      errored++;\n      console.error(`${pc.red('[ERR]')}    ${o.path} ${pc.dim(`(${o.message ?? ''})`)}`);\n    }\n  }\n\n  // Best-effort: prune now-empty adapter rootDirs. `pruneEmptyDirs` is silent\n  // on non-empty / missing dirs, so we don't bother filtering.\n  if (!flags.dryRun) {\n    await pruneEmptyDirs(roots.map((r) => r.rootDir));\n  }\n\n  console.log('');\n  const parts: string[] = [];\n  if (removed) parts.push(pc.yellow(`${removed} removed`));\n  if (dry) parts.push(pc.dim(`${dry} dry-run`));\n  if (errored) parts.push(pc.red(`${errored} errored`));\n  console.log(parts.length === 0 ? pc.dim('  no changes') : `  ${parts.join(', ')}`);\n\n  if (errored > 0) process.exitCode = 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package/dist/index.d.ts

@@ -55,10 +55,24 @@ type AdapterOverride = boolean | {
     layout?: Partial<Record<AssetType, AssetLayout>>;
 };
 /**
- * User-facing JSON configuration loaded from `<source>/agentlink.config.json`.
+ * User-facing JSON configuration (`agentlink.config.json`).
  * Every field is optional; sensible defaults apply.
  */
 interface AgentlinkConfig {
+    /**
+     * Persistent default for the `.agents/` source directory.
+     * Resolved after `--source`, before `cwd/.agents` and `~/.agents`. When set, beats a sparse repo-local `.agents/` (e.g. a few
+     * project-only commands). Relative paths are resolved against the config file directory.
+     */
+    source?: string;
+    /**
+     * Persistent default destination root (where adapter rootDirs like `.cursor`
+     * are expected). Relative paths are resolved against the config file directory.
+     * Mutually exclusive with {@link AgentlinkConfig.user}.
+     */
+    target?: string;
+    /** When true, project symlinks into `$HOME` (equivalent to `--user`). */
+    user?: boolean;
     /**
      * Asset type allowlist. When omitted, falls back to the built-in default
      * (`['skills', 'rules', 'commands']`). Use this to opt into less-common

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@cmkk/agentlink",
-  "version": "0.1.0-beta.1",
+  "version": "0.1.0-beta.3",
   "description": "Symlink your .agents/ assets into .cursor / .claude / .codebuddy and other AI agent directories with a single npx.",
   "keywords": [
     "ai",
@@ -16,14 +16,13 @@
   ],
   "license": "MIT",
   "author": "rankangkang <rankangkang@foxmail.com>",
-  "homepage": "https://github.com/rankangkang/dot-agents/tree/main/packages/agentlink#readme",
+  "homepage": "https://github.com/rankangkang/agentlink#readme",
   "repository": {
     "type": "git",
-    "url": "git+https://github.com/rankangkang/dot-agents.git",
-    "directory": "packages/agentlink"
+    "url": "git+https://github.com/rankangkang/agentlink.git"
   },
   "bugs": {
-    "url": "https://github.com/rankangkang/dot-agents/issues"
+    "url": "https://github.com/rankangkang/agentlink/issues"
   },
   "type": "module",
   "engines": {
@@ -49,15 +48,6 @@
     "CHANGELOG.md",
     "LICENSE"
   ],
-  "scripts": {
-    "build": "tsup",
-    "dev": "tsup --watch",
-    "test": "vitest run",
-    "test:watch": "vitest",
-    "typecheck": "tsc --noEmit",
-    "prepublishOnly": "pnpm build && pnpm test && pnpm typecheck",
-    "publish:beta": "pnpm publish --tag beta"
-  },
   "publishConfig": {
     "access": "public"
   },
@@ -77,5 +67,15 @@
     "tsup": "^8.5.1",
     "typescript": "^6.0.3",
     "vitest": "^4.1.5"
+  },
+  "scripts": {
+    "build": "tsup",
+    "dev": "tsup --watch",
+    "test": "vitest run",
+    "test:watch": "vitest",
+    "typecheck": "tsc --noEmit",
+    "preversion": "pnpm typecheck && pnpm test && pnpm build",
+    "publish:beta": "pnpm publish --tag beta --access public",
+    "publish:latest": "pnpm publish --access public"
   }
-}
+}