Add @deprecated annotations to legacy APIs #1018
                
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Summary
This PR adds
@deprecatedJSDoc annotations to legacy APIs to guide developers toward the recommended alternatives.Changes
Server APIs
Serverclass: Deprecated in favor ofMcpServerfor the high-level API (advanced users can still useServerwhen needed)McpServer.tool(): Deprecated in favor ofregisterTool()McpServer.resource(): Deprecated in favor ofregisterResource()McpServer.prompt(): Deprecated in favor ofregisterPrompt()Transport APIs
SSEServerTransport: Deprecated in favor ofStreamableHTTPServerTransportSSEClientTransport: Deprecated in favor ofStreamableHTTPClientTransportImpact
These annotations will appear in IDEs and TypeScript tooling, providing clear guidance to developers about which APIs to use going forward.