Registers all MCP resources with the server.
Currently registers 3 resources:
nexus://models - AI model capabilities matrixnexus://research/papers - Research paper registrynexus://experts - Available expert agent rolesMCP server instance
Optionallogger: ILoggerOptional logger (creates default if not provided)
MCP exports - MCP server implementation Split from index.ts for file size compliance (Issue #285) Updated Issue #538: Added missing tool registration exports