✨ feat: Add MCP Reinitialization to MCPPanel (#8418)

* ✨ feat: Add MCP Reinitialization to MCPPanel

- Refactored tool caching to include user-specific tools in various service files.
- Refactored MCPManager class for clarity
- Added a new endpoint for reinitializing MCP servers, allowing for dynamic updates of server configurations.
- Enhanced the MCPPanel component to support server reinitialization with user feedback.

* 🔃 refactor: Simplify Plugin Deduplication and Clear Cache Post-MCP Initialization

- Replaced manual deduplication of tools with the dedicated `filterUniquePlugins` function for improved readability.
- Added back cache clearing for tools after MCP initialization to ensure fresh data is used.
- Removed unused exports from `PluginController.js` to clean up the codebase.

api/models/Agent.js

@@ -61,7 +61,7 @@ const getAgent = async (searchParameter) => await Agent.findOne(searchParameter)
 const loadEphemeralAgent = async ({ req, agent_id, endpoint, model_parameters: _m }) => {
   const { model, ...model_parameters } = _m;
   /** @type {Record<string, FunctionTool>} */
-  const availableTools = await getCachedTools({ includeGlobal: true });
+  const availableTools = await getCachedTools({ userId: req.user.id, includeGlobal: true });
   /** @type {TEphemeralAgent | null} */
   const ephemeralAgent = req.body.ephemeralAgent;
   const mcpServers = new Set(ephemeralAgent?.mcp);