Cannot compile OpenCV 2.4.9 + CUDA 6 with clang on Mac OSX 10.9, SSE2 errors (Bug #3831)

I am trying to compile OpenCV 2.4.9 and CUDA 6 with clang 5.1 on Mac OSX 10.9 64-bit, but I keep getting the following error:

/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/5.1/include/emmintrin.h(1225): error: identifier "__builtin_ia32_movnti64" is undefined

I've tracked the issue down to the files opencv2/core/internal.hpp and opencv2/core/types_c.h where SSE support is checked. I looked at the emmintrin.h file as well, and apparently __builtin_ia32_movnti64 is defined on 64-bit platforms (__x86_64__). I tried adding the -msse2 option to my CMakeLists.txt clang++ compiler flags, but without any luck. I managed to make it work by undefining __SSE2__ before it was used in opencv2/core/internal.hpp and opencv2/core/types_c.h, but that's a temporary hack at best. Just to be sure, I ran file libopencv_* on a couple of the OpenCV libraries (installed using Homebrew) to ensure they were compiled as 64-bit shared libraries. I can also resolve the issue by not adding STL headers in my Utils.cu file.

Additionally, and if relevant, I was previously getting tons of "identifier undefined" errors such as _Atomic, __c11_atomic_fetch_add and boost type_traits (see the attached file), but was able to resolve them by patching the opencv2/core/operations.hpp according to this resolved issue (cvdef.h is not found on my system).

Is this an issue related to OpenCV? I cannot really tell, but after some extensive internet research and searching this issue page, I concluded this issue did not exist, or at least nobody has posted a solution. I included my CMakeLists.txt as well.