Max log map decoder troubleshooting

I am using a beaglebone white and the logibone to implement a max-log-map decoder. I have developed the bit file, I call it using a C program, and after some loops (i encode frames using c, write them to the fpga and read the decoded frames) everything crashes. The terminal freezes and the beaglebone's 2nd and 4th led stay on. I use 2014-8-13 pre-configured ubuntu image from valentfx's user manual. Any suggestions on the problem or debugging advices? 
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