This sounds like an Eclipse configuration issue and while you might find someone here who has run Eclipse cross compiling to gcc-arm, it is likely that you'll find far more familiar with setting up Eclipse for cross compiling in an Eclipse or gcc forum. Or better yet a MySQL forum. A first step might be to verify your Eclipse configuration can compile MySQL to your Ubuntu x86 platform( ie no cross compiling ). That will also give experience with the Eclipse build and make system and give you a working configuration to compare your cross compiling build environment against.
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