VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Thu Nov 08 2012 - 00:15:21 CST

the glxinfo output indicates that you are running VMD on a remote machine
and thus use OpenGL over X (GLX). that is a very tricky configuration on
linux. you probably need to update the nvidia drivers on the remote machine.

also you should very carefully check whether the driver update has worked
properly. it looks as if there are some library inconsistencies where part
of
what you use are the default (mesa based) opengl libraries and some other
part are the libraries shipped by nvidia. this is also *very* problematic.

this is near impossible to debug and fix from remote.

axel.

On Thu, Nov 8, 2012 at 6:03 AM, Kasra Fattah <kasra.fattah_at_gmail.com> wrote:

> Here is more information about the system I'm running VMD on, just in case:
>
> Linux 3.2.0-32-generic #51-Ubuntu SMP Wed Sep 26 21:33:09 UTC 2012 x86_64
> x86_64 x86_64 GNU/Linux
>
> ---------------------------------------------------------------------------------------------------------------------------------------------------------------
> Distributor ID: Ubuntu
> Description: Ubuntu 12.04.1 LTS
> Release: 12.04
> Codename: precise
>
> ---------------------------------------------------------------------------------------------------------------------------------------------------------------
> nvidia driver version 304.43
>
> ---------------------------------------------------------------------------------------------------------------------------------------------------------------
> Package: xserver-xorg-core
> Version: 2:1.11.4-0ubuntu10.6
>
> ---------------------------------------------------------------------------------------------------------------------------------------------------------------
>
> I have also attached the output of glxinfo.
>
> Best,
> Kasra.
>
>
> On Wed, Nov 7, 2012 at 7:18 PM, Kasra Fattah <kasra.fattah_at_gmail.com>wrote:
>
>> Hi everybody,
>>
>> After a recent update of my workstation Ubuntu 12.04, VMD causes the
>> system to freeze. After rebooting the system I can run VMD with no problem
>> but if I close it and reopen it several times (like 2 or 3 times) then
>> it'll lockup with following output of vmd
>> ~$ vmd
>> rlwrap: Command not found.
>> Info) VMD for LINUXAMD64, version 1.9.1 (February 1, 2012)
>> Info) http://www.ks.uiuc.edu/Research/vmd/
>> Info) Email questions and bug reports to vmd_at_ks.uiuc.edu
>> Info) Please include this reference in published work using VMD:
>> Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
>> Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
>> Info) -------------------------------------------------------------
>> Info) Multithreading available, 8 CPUs detected.
>> Info) Free system memory: 29004MB (96%)
>> Info) Creating CUDA device pool and initializing hardware...
>>
>> This can happen even after first try to run VMD if it's I try to run it
>> after a while of start up of the system. However, I still can ssh to the
>> system! My video card is a nvidia GTX 460 card and I updated the drivers of
>> the video card when I saw this behaviour but it didn't solve the problem, I
>> also tried to downgrade the xserver-xorg-core to see if it's causing the
>> problem but that even didn't solve it. Would you please help how I can
>> solve this issue.
>>
>> Thank you,
>> Kasra.
>>
>
> 

-- 
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
International Centre for Theoretical Physics, Trieste. Italy.