FWIW there are non-nvcc cuda compilers that run on Windows, like clang. http://llvm.org/docs/CompileCudaWithLLVM.html
As this needs nonfree anyway, it might as well use NVRTC and compile the code at runtime, same way OpenCL does it. That's probably even easier than fiddling with integrating nvcc into the build process, and also allows for it to work on Windows with MinGW builds.
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