After some time of googling I found a very similar problem with AVX. It's
discussed here:

http://software.intel.com/en-us/forums/topic/280592

and the problem is probably in mixing SSE and AVX instructions. According
to Intel, there should be a VZEROALL or a VZEROUPPER instruction between
every SSE <-> AVX transition. For more information look here:

http://software.intel.com/en-us/articles/intel-software-development-emulator/#TRANSITION

or here (page 103):

http://www.agner.org/optimize/microarchitecture.pdf

I don't expect Libav mixes AVX and SSE but since I link it from java, there
is a chance java uses SSEs. So is it possible to surround Libav AVX code by
the VZEROALL or the VZEROUPPER instruction?
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