refactor(app): reorganize application structure and update includes

- Moved core components such as `Controller` and `Window` from `src/app/core/` to `src/app/` and `src/app/platform/`, respectively, to improve modularity and clarity.
- Updated include paths across the codebase to reflect the new locations of these components.
- Introduced a new foundational core library in `src/core/` for project management and ROM patching logic, enhancing the separation of concerns.
- Adjusted CMake configurations to ensure proper compilation of the new core library and updated dependencies in various modules.

Benefits:
- Streamlines the application structure, making it easier to navigate and maintain.
- Enhances code organization by clearly delineating core functionalities from application-specific logic.
- Improves overall architecture by promoting a clearer separation of concerns between different components.

src/cli/agent.cmake

@@ -90,7 +90,7 @@ set(_yaze_agent_link_targets
   yaze_util
   yaze_gfx
   yaze_gui
-  yaze_core_lib
+  yaze_app_core_lib
   yaze_zelda3
   yaze_emulator
   ${ABSL_TARGETS}