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.

test/e2e/canvas_selection_test.cc

@@ -1,12 +1,12 @@
 #define IMGUI_DEFINE_MATH_OPERATORS
 #include "e2e/canvas_selection_test.h"
-#include "app/core/controller.h"
+#include "app/controller.h"
 #include "test_utils.h"
 
 void E2ETest_CanvasSelectionTest(ImGuiTestContext* ctx)
 {
     yaze::test::gui::LoadRomInTest(ctx, "zelda3.sfc");
-    yaze::core::Controller* controller = (yaze::core::Controller*)ctx->Test->UserData;
+    yaze::Controller* controller = (yaze::Controller*)ctx->Test->UserData;
     yaze::zelda3::Overworld* overworld = controller->overworld();
 
     // 1. Open the Overworld Editor

test/e2e/dungeon_editor_smoke_test.cc

@@ -1,6 +1,6 @@
 #include "e2e/dungeon_editor_smoke_test.h"
 #include "test_utils.h"
-#include "app/core/controller.h"
+#include "app/controller.h"
 #include "imgui_test_engine/imgui_te_context.h"
 
 /**

test/e2e/dungeon_object_rendering_e2e_tests.cc

@@ -56,8 +56,8 @@
 #include "imgui_test_engine/imgui_te_engine.h"
 #include "imgui_test_engine/imgui_te_ui.h"
 
-#include "app/core/controller.h"
-#include "app/core/window.h"
+#include "app/controller.h"
+#include "app/platform/window.h"
 #include "app/editor/dungeon/dungeon_editor_v2.h"
 #include "app/rom.h"
 #include "zelda3/dungeon/room.h"