I solve the Problem, It seems it was something wrong on the pin asignments, I follow the recomendations in this Thread
http://www.alteraforum.com/forum/showthread.php?t=21769&highlight=no+epcs+layout+data On Quartus, after inserting the sopc component, and puting the pins on it,
the asignments were made, and what it was missing. is to Change In 'Device and pin options' the 'Dual purpose pins' from 'Input tristate' to 'Regular I/O'.
I could not find any documentation saying that this should be done, but it was working for me after recompiling with this option selected.
Thankyou!