Actually update the CMake and Makefile builds correctly, and update the
code that includes Intrinsics.gen directly.

This never showed up in my testing because the old Intrinsics.gen was
still kicking around in the make build system and was correct there. =[
Thankfully, some of the bots to clean rebuilds and that caught this.

git-svn-id: https://llvm.org/svn/llvm-project/llvm/trunk@171373 91177308-0d34-0410-b5e6-96231b3b80d8