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[reland][libc][cmake] Tidy compiler includes (llvm#66783)
We want to activate `llvm-header-guard` (llvm#66477) but the current CMake configuration includes paths that should be `isystem`. This PR restricts the number of `-I` passed to the clang command line and correctly marks the llvm libc include path as `isystem`. This is a reland of llvm#66783 a35a3b7 fixing the benchmark breakage.
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