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Here is code to add to configure.in to do what you want. It preserves CFLAGS and uses that var to hold the sse enable flags. You can subset this under the exisiting AC_ARG for sse or just make it do it all the time. If you notice the i?86, that means any x86 platform target will have it enabled. You can change that i686, but keep in mind that some distros compile/target for i386 on the glibc