Based on your kernel version (3.11.3), you're really "bleeding edge"... I think the version of ubuntu that incorporates that kernel, 13.10, has only been available for a few days and is still called "beta".
I'm not pointing fingers; just noting a possible issue. I couldn't say if the root cause is the OS or Genefer. I will say that I'm running that very same version of GeneferCUDA on both ubuntu 12.10 and 13.04 (two different boxes) with no problems. Do you have an older version of the OS to run on? Assuming "no", is anyone else running (or failing!) with the 3.11 kernel?