chore: update protobuf linking strategy for Windows

- Adjusted CMake files to conditionally link protobuf using /WHOLEARCHIVE on Windows to include internal symbols while avoiding LNK1241 errors.
- Updated linking logic for `yaze`, `yaze_editor`, `yaze_emu`, `z3ed`, and test suites to ensure compatibility across platforms.

Benefits:
- Improves build stability and compatibility for Windows users by ensuring proper symbol inclusion without resource duplication issues.

.gitignore

@@ -14,7 +14,6 @@ compile_commands.json
 CPackConfig.cmake
 CPackSourceConfig.cmake
 CTestTestfile.cmake
-Testing/
 
 # Build artifacts
 *.o
@@ -92,4 +91,5 @@ recent_files.txt
 .vs/*
 .gitignore
 .genkit
-.claude
+.claude
+scripts/__pycache__/

src/app/app.cmake

@@ -127,9 +127,10 @@ if(YAZE_WITH_GRPC)
     grpc++
     grpc++_reflection
   )
-  if(YAZE_PROTOBUF_TARGETS)
+  # NOTE: Do NOT link protobuf at library level on Windows - causes LNK1241
+  # Executables will link it with /WHOLEARCHIVE to include internal symbols
+  if(NOT WIN32 AND YAZE_PROTOBUF_TARGETS)
     target_link_libraries(yaze_app_core_lib PUBLIC ${YAZE_PROTOBUF_TARGETS})
-    # NOTE: Removed /WHOLEARCHIVE for protobuf - causes duplicate version.res in dependency chain
   endif()
   
   message(STATUS "  - gRPC ROM service + canvas automation enabled")
@@ -202,13 +203,14 @@ target_link_libraries(yaze PRIVATE
   absl::flags_parse
 )
 if(YAZE_WITH_GRPC AND YAZE_PROTOBUF_TARGETS)
-  target_link_libraries(yaze PRIVATE ${YAZE_PROTOBUF_TARGETS})
-  # Apply /WHOLEARCHIVE only at executable level to avoid duplicate version.res
-  # This ensures protobuf internal symbols are included while preventing resource duplication
+  # On Windows: Use /WHOLEARCHIVE instead of normal linking to include internal symbols
+  # On Unix: Use normal linking (symbols resolve correctly without whole-archive)
   if(MSVC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
     foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
       target_link_options(yaze PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
     endforeach()
+  else()
+    target_link_libraries(yaze PRIVATE ${YAZE_PROTOBUF_TARGETS})
   endif()
 endif()
 

src/app/editor/editor_library.cmake

@@ -167,9 +167,10 @@ if(YAZE_WITH_GRPC)
     grpc++
     grpc++_reflection
   )
-  if(YAZE_PROTOBUF_TARGETS)
+  # NOTE: Do NOT link protobuf at library level on Windows - causes LNK1241
+  # Executables will link it with /WHOLEARCHIVE to include internal symbols
+  if(NOT WIN32 AND YAZE_PROTOBUF_TARGETS)
     target_link_libraries(yaze_editor PRIVATE ${YAZE_PROTOBUF_TARGETS})
-    # NOTE: Removed /WHOLEARCHIVE for protobuf - causes duplicate version.res in dependency chain
   endif()
 endif()
 

src/app/editor/overworld/overworld_editor.cc

@@ -154,9 +154,7 @@ void OverworldEditor::Initialize() {
   entity_renderer_ = std::make_unique<OverworldEntityRenderer>(
       &overworld_, &ow_map_canvas_, &sprite_previews_);
 
-  // Setup Canvas Automation API callbacks (Phase 4)
   SetupCanvasAutomation();
-
 }
 
 absl::Status OverworldEditor::Load() {

src/app/emu/emu.cmake

@@ -34,11 +34,13 @@ if(YAZE_BUILD_EMU AND NOT YAZE_MINIMAL_BUILD)
     message(WARNING "yaze_emu needs yaze_test_support but TARGET not found")
   endif()
 
-  # Apply /WHOLEARCHIVE for protobuf at executable level (Windows)
+  # Windows: Link protobuf with /WHOLEARCHIVE (not via libraries to avoid LNK1241)
   if(WIN32 AND MSVC AND YAZE_WITH_GRPC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
     foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
       target_link_options(yaze_emu PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
     endforeach()
+  elseif(YAZE_WITH_GRPC AND YAZE_PROTOBUF_TARGETS)
+    target_link_libraries(yaze_emu PRIVATE ${YAZE_PROTOBUF_TARGETS})
   endif()
 
   # Test engine is always available when tests are built
@@ -61,11 +63,13 @@ if(YAZE_BUILD_EMU AND NOT YAZE_MINIMAL_BUILD)
     absl::str_format
   )
   
-  # Apply /WHOLEARCHIVE for protobuf at executable level (Windows)
+  # Windows: Link protobuf with /WHOLEARCHIVE (not via libraries to avoid LNK1241)
   if(WIN32 AND MSVC AND YAZE_WITH_GRPC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
     foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
       target_link_options(yaze_emu_test PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
     endforeach()
+  elseif(YAZE_WITH_GRPC AND YAZE_PROTOBUF_TARGETS)
+    target_link_libraries(yaze_emu_test PRIVATE ${YAZE_PROTOBUF_TARGETS})
   endif()
   
   message(STATUS "✓ yaze_emu_test: Headless emulator test harness configured")

src/app/net/net_library.cmake

@@ -84,9 +84,10 @@ if(YAZE_WITH_GRPC)
     grpc++
     grpc++_reflection
   )
-  if(YAZE_PROTOBUF_TARGETS)
+  # NOTE: Do NOT link protobuf at library level on Windows - causes LNK1241
+  # Executables will link it with /WHOLEARCHIVE to include internal symbols
+  if(NOT WIN32 AND YAZE_PROTOBUF_TARGETS)
     target_link_libraries(yaze_net PUBLIC ${YAZE_PROTOBUF_TARGETS})
-    # NOTE: Removed /WHOLEARCHIVE for protobuf - causes duplicate version.res in dependency chain
   endif()
   
   message(STATUS "  - gRPC ROM service enabled")

src/cli/agent.cmake

@@ -161,9 +161,10 @@ if(YAZE_WITH_GRPC)
     grpc++
     grpc++_reflection
   )
-  if(YAZE_PROTOBUF_TARGETS)
+  # NOTE: Do NOT link protobuf at library level on Windows - causes LNK1241
+  # Executables will link it with /WHOLEARCHIVE to include internal symbols
+  if(NOT WIN32 AND YAZE_PROTOBUF_TARGETS)
     target_link_libraries(yaze_agent PUBLIC ${YAZE_PROTOBUF_TARGETS})
-    # NOTE: Removed /WHOLEARCHIVE for protobuf - causes duplicate version.res in dependency chain
   endif()
   
   # Note: YAZE_WITH_GRPC is defined globally via add_compile_definitions in root CMakeLists.txt

src/cli/z3ed.cmake

@@ -41,13 +41,14 @@ if(YAZE_WITH_GRPC)
   message(STATUS "Adding gRPC support to z3ed CLI")
   target_link_libraries(z3ed PRIVATE grpc++ grpc++_reflection)
   if(YAZE_PROTOBUF_TARGETS)
-    target_link_libraries(z3ed PRIVATE ${YAZE_PROTOBUF_TARGETS})
-    # Apply /WHOLEARCHIVE only at executable level to avoid duplicate version.res
-    # This ensures protobuf internal symbols are included while preventing resource duplication
+    # On Windows: Use /WHOLEARCHIVE instead of normal linking to include internal symbols
+    # On Unix: Use normal linking (symbols resolve correctly without whole-archive)
     if(MSVC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
       foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
         target_link_options(z3ed PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
       endforeach()
+    else()
+      target_link_libraries(z3ed PRIVATE ${YAZE_PROTOBUF_TARGETS})
     endif()
   endif()
 endif()

test/CMakeLists.txt

@@ -43,16 +43,17 @@ if(YAZE_BUILD_TESTS)
         YAZE_GUI_TEST_TARGET=1)  # Mark this as a GUI test target
     endif()
 
+    # Link protobuf with /WHOLEARCHIVE on Windows (instead of via libraries)
+    if(WIN32 AND MSVC AND YAZE_WITH_GRPC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
+      foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
+        target_link_options(${suite_name} PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
+      endforeach()
+    endif()
+
     if(WIN32)
       message(STATUS "Configuring Windows stack size for ${suite_name} to 16MB")
       if(MSVC)
         target_link_options(${suite_name} PRIVATE /STACK:16777216)
-        # Apply /WHOLEARCHIVE only at executable level to prevent duplicate version.res
-        if(YAZE_WITH_GRPC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
-          foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
-            target_link_options(${suite_name} PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
-          endforeach()
-        endif()
       else()
         target_link_options(${suite_name} PRIVATE -Wl,--stack,16777216)
       endif()

tools/test_helpers/CMakeLists.txt

@@ -47,15 +47,18 @@ set(HELPER_TOOLS
 )
 
 foreach(TOOL ${HELPER_TOOLS})
+  # Windows: Link protobuf with /WHOLEARCHIVE (not via yaze_core to avoid LNK1241)
+  if(WIN32 AND MSVC AND YAZE_WITH_GRPC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
+    foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
+      target_link_options(${TOOL} PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
+    endforeach()
+  elseif(YAZE_WITH_GRPC AND YAZE_PROTOBUF_TARGETS)
+    target_link_libraries(${TOOL} PRIVATE ${YAZE_PROTOBUF_TARGETS})
+  endif()
+  
   if(WIN32)
     if(MSVC)
       target_link_options(${TOOL} PRIVATE /STACK:16777216)
-      # Apply /WHOLEARCHIVE for protobuf at executable level
-      if(YAZE_WITH_GRPC AND YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
-        foreach(_yaze_proto_target IN LISTS YAZE_PROTOBUF_WHOLEARCHIVE_TARGETS)
-          target_link_options(${TOOL} PRIVATE /WHOLEARCHIVE:$<TARGET_FILE:${_yaze_proto_target}>)
-        endforeach()
-      endif()
     elseif(MINGW OR CMAKE_CXX_COMPILER_ID STREQUAL "GNU")
       target_link_options(${TOOL} PRIVATE -Wl,--stack,16777216)
     else()