feat: 工具层及 mcp 大重构 (#252)

* feat: 第一版大重构

* fix: 修复类型问题

* chore: 更新版本到 1.3.2

* Add brave as alternative WebSearchTool

* fix: 修正顺序

* fix: 修复对穷鬼模式的 auto dream 和 session memory 越过

* feat: 穷鬼模式去除 session-summary

* feat: 创建 builtin-tools 包，搬运所有工具实现

将 src/tools/ 下的全部 60 个工具目录迁移至 packages/builtin-tools/src/tools/，
内部导入路径已更新为 src/ alias 模式。

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

* refactor: 更新 src/ 中所有工具引用至 builtin-tools 包，删除 src/tools/

- src/tools.ts 及 178 个 src/ 文件的 import 路径从 ./tools/ 改为 builtin-tools/tools/
- 删除 src/tools/ 整个目录（已迁移至 packages/builtin-tools/）

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

* chore: 添加 builtin-tools 路径别名至 tsconfig，更新 bun.lock

- tsconfig.json 新增 builtin-tools/* 和 builtin-tools 路径映射
- 新增 packages/builtin-tools/src 至 include

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

* refactor: 为 builtin-tools、mcp-client、agent-tools 添加 @claude-code-best 作用域前缀

所有包名及 import 路径统一添加 @claude-code-best/ 前缀：
- builtin-tools → @claude-code-best/builtin-tools
- mcp-client → @claude-code-best/mcp-client
- agent-tools → @claude-code-best/agent-tools

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

* fix: 修复 node 环境没有 bun 的问题

---------

Co-authored-by: Eric-Guo <eric.guocz@gmail.com>
Co-authored-by: Claude Opus 4.6 <noreply@anthropic.com>

packages/builtin-tools/src/tools/REPLTool/primitiveTools.ts

@@ -0,0 +1,39 @@
+import type { Tool } from 'src/Tool.js'
+import { AgentTool } from '../AgentTool/AgentTool.js'
+import { BashTool } from '../BashTool/BashTool.js'
+import { FileEditTool } from '../FileEditTool/FileEditTool.js'
+import { FileReadTool } from '../FileReadTool/FileReadTool.js'
+import { FileWriteTool } from '../FileWriteTool/FileWriteTool.js'
+import { GlobTool } from '../GlobTool/GlobTool.js'
+import { GrepTool } from '../GrepTool/GrepTool.js'
+import { NotebookEditTool } from '../NotebookEditTool/NotebookEditTool.js'
+
+let _primitiveTools: readonly Tool[] | undefined
+
+/**
+ * Primitive tools hidden from direct model use when REPL mode is on
+ * (REPL_ONLY_TOOLS) but still accessible inside the REPL VM context.
+ * Exported so display-side code (collapseReadSearch, renderers) can
+ * classify/render virtual messages for these tools even when they're
+ * absent from the filtered execution tools list.
+ *
+ * Lazy getter — the import chain collapseReadSearch.ts → primitiveTools.ts
+ * → FileReadTool.tsx → ... loops back through the tool registry, so a
+ * top-level const hits "Cannot access before initialization". Deferring
+ * to call time avoids the TDZ.
+ *
+ * Referenced directly rather than via getAllBaseTools() because that
+ * excludes Glob/Grep when hasEmbeddedSearchTools() is true.
+ */
+export function getReplPrimitiveTools(): readonly Tool[] {
+  return (_primitiveTools ??= [
+    FileReadTool,
+    FileWriteTool,
+    FileEditTool,
+    GlobTool,
+    GrepTool,
+    BashTool,
+    NotebookEditTool,
+    AgentTool,
+  ])
+}