<!-- Provide a brief summary of your changes -->
## Motivation and Context
<!-- Why is this change needed? What problem does it solve? -->
## How Has This Been Tested?
<!-- Have you tested this in a real application? Which scenarios were
tested? -->
## Breaking Changes
<!-- Will users need to update their code or configurations? -->
## Types of changes
<!-- What types of changes does your code introduce? Put an `x` in all
the boxes that apply: -->
- [ ] 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
<!-- Go over all the following points, and put an `x` in all the boxes
that apply. -->
- [ ] I have read the [MCP
Documentation](https://modelcontextprotocol.io)
- [ ] 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
## Additional context
<!-- Add any other context, implementation notes, or design decisions
-->
* Modularize SDK: migrated client and server implementations to separate modules. Removed old configuration files and reorganized the source code structure
* add support native targets and update js/wasm configurations
* Refactor sample projects: add samples as composite builds, replace hardcoded dependencies with version catalog, remove obsolete gradle wrapper files
* Update .gitignore: exclude SWE agent directories (.claude/ and .junie/)
* Refine CodeQL workflow: update Kotlin build steps to target individual modules separately instead of building all at once
