Update kotlin, ktor, dokka

[devcrocod]

kotlin: 2.2.10 -> 2.2.21
ktor: 3.3.0 -> 3.3.1
dokka: 2.0.0 -> 2.1.0

Types of changes

• Bug fix (non-breaking change which fixes an issue)
• New feature (non-breaking change which adds functionality)
• Breaking change (fix or feature that would cause existing functionality to change)
• Documentation update

Checklist

• I have read the MCP Documentation
• My code follows the repository's style guidelines
• New and existing tests pass locally
• I have added appropriate error handling
• I have added or updated documentation as needed

[Copilot]

Pull Request Overview

This PR updates several core Kotlin dependencies to their latest versions: Kotlin 2.2.10 → 2.2.21, Ktor 3.3.0 → 3.3.1, and Dokka 2.0.0 → 2.1.0. Additionally, unused sample-related dependencies and plugin declarations have been removed from the version catalog.

Key changes:

• Updated three main dependency versions (Kotlin, Ktor, Dokka)
• Removed unused sample dependencies (mcp-kotlin, anthropic, shadow)
• Cleaned up unused Ktor client and server library declarations

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