feat(engine): 添加MCP连接管理和工具集成功能

- 集成MCP连接管理器，支持MCP服务器连接
- 添加多种内置工具：ClarifyTool、CronTool、DelegateTool、ExecuteCodeTool、
  PatchFileTool、ProcessTool、SendMessageTool、SpawnTool、TerminalTool、
  TodoTool、WebFetchTool、WebSearchTool、WriteFileTool等
- 实现工具注册和装配功能
- 添加技能选择上下文参数
- 支持思考模式控制参数thinking_enabled

feat(coordinator): 重构任务执行计划器参数命名

- 将learning_candidate_enabled重命名为allow_candidate_generation
- 更新TeamGraphScheduler中的参数传递
- 修改LocalAgentRunner中的相关参数处理
- 更新README文档中的相应描述

refactor(context): 标准化工具调用参数格式

- 添加_json导入用于参数序列化
- 实现_provider_tool_calls方法标准化OpenAI兼容的工具调用载荷
- 修复工具调用中参数非字符串类型的序列化问题

refactor(session): 优化消息历史记录过滤逻辑

- 修改get_messages_as_conversation为基于运行状态过滤消息
- 排除未完成、失败或错误结束的运行记录
- 改进对话历史的可见性控制机制

fix(store): 修复FTS索引重建逻辑

- 添加异常处理防止FTS索引创建失败
- 实现_rebuild_fts_index方法重新构建全文搜索索引
- 优化索引触发器和表的维护流程

app-instance/backend/beaver/engine/loader.py

@@ -2,6 +2,7 @@
 
 from __future__ import annotations
 
+import asyncio
 import os
 from dataclasses import dataclass, field
 from pathlib import Path
@@ -11,6 +12,7 @@ from beaver.coordinator.registry import AgentRegistry
 from beaver.engine.context import ContextBuilder
 from beaver.engine.session import SessionManager
 from beaver.foundation.config import BeaverConfig, load_config
+from beaver.integrations.mcp import MCPConnectionManager
 from beaver.memory.curated.store import MemoryStore
 from beaver.memory.runs import RunMemoryStore
 from beaver.memory.skills import SkillLearningStore
@@ -27,13 +29,27 @@ from beaver.tasks.skill_resolver import TaskSkillResolver
 from beaver.skills import SkillAssembler, SkillsLoader
 from beaver.tools import ObjectBackedTool, ToolAssembler, ToolExecutor, ToolRegistry
 from beaver.tools.builtins import (
+    ClarifyTool,
+    CronTool,
+    DelegateTool,
     EchoTool,
+    ExecuteCodeTool,
     ListDirectoryTool,
     MemoryTool,
+    PatchFileTool,
+    ProcessTool,
     ReadFileTool,
     SearchFilesTool,
+    SendMessageTool,
+    SpawnTool,
     SessionSearchTool,
-    SkillViewTool,
+    SkillManageTool,
+    SkillsListTool,
+    TerminalTool,
+    TodoTool,
+    WebFetchTool,
+    WebSearchTool,
+    WriteFileTool,
 )
 
 
@@ -76,6 +92,8 @@ class EngineLoadResult:
     task_service: TaskService | None = None
     task_execution_planner: TaskExecutionPlanner | None = None
     validation_service: ValidationService | None = None
+    mcp_manager: MCPConnectionManager | None = None
+    mcp_report: dict[str, dict] = field(default_factory=dict)
     closeables: list[tuple[str, Callable[[], None]]] = field(default_factory=list, repr=False)
     closed: bool = False
 
@@ -198,11 +216,25 @@ class EngineLoader:
                 [
                     ObjectBackedTool(EchoTool()),
                     ObjectBackedTool(MemoryTool(store=memory_service.get_store())),
-                    ObjectBackedTool(SkillViewTool(loader=skills_loader)),
                     ObjectBackedTool(SessionSearchTool(db=session_manager)),
                     ObjectBackedTool(ListDirectoryTool()),
                     ObjectBackedTool(ReadFileTool()),
                     ObjectBackedTool(SearchFilesTool()),
+                    ObjectBackedTool(WriteFileTool()),
+                    ObjectBackedTool(PatchFileTool()),
+                    ObjectBackedTool(WebFetchTool()),
+            ObjectBackedTool(WebSearchTool()),
+            ObjectBackedTool(TerminalTool()),
+            ObjectBackedTool(ProcessTool()),
+            ObjectBackedTool(ExecuteCodeTool()),
+            ObjectBackedTool(TodoTool()),
+            ObjectBackedTool(ClarifyTool()),
+            ObjectBackedTool(SendMessageTool()),
+            ObjectBackedTool(DelegateTool()),
+            ObjectBackedTool(SpawnTool()),
+            SkillsListTool(),
+                    SkillManageTool(),
+                    CronTool(),
                 ]
             )
 
@@ -240,6 +272,11 @@ class EngineLoader:
         task_service = self._task_service or TaskService(workspace / "tasks")
         task_execution_planner = self._task_execution_planner or TaskExecutionPlanner(task_skill_resolver=task_skill_resolver)
         validation_service = self._validation_service or ValidationService()
+        mcp_manager = MCPConnectionManager(
+            self.config.tools.mcp_servers,
+            authz_config=self.config.authz,
+            backend_identity=self.config.backend_identity,
+        )
 
         result = EngineLoadResult(
             workspace=workspace,
@@ -270,7 +307,18 @@ class EngineLoader:
             task_service=task_service,
             task_execution_planner=task_execution_planner,
             validation_service=validation_service,
+            mcp_manager=mcp_manager,
         )
         if self._session_manager is None:
             result.register_closeable("session_manager", session_manager.close)
+        result.register_closeable("mcp_manager", lambda: _close_mcp_manager(mcp_manager))
         return result
+
+
+def _close_mcp_manager(manager: MCPConnectionManager) -> None:
+    try:
+        loop = asyncio.get_running_loop()
+    except RuntimeError:
+        asyncio.run(manager.close())
+        return
+    loop.create_task(manager.close())