VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Jun 07 2006 - 11:02:06 CDT

Hi,
  Based on the output you got from GDB and the VMD startup messages, I'm
guessing that this is a problem with your graphics driver, since it is
dying early in the startup phase. Can you email me the "where" output
in GDB as mentioned in the release notes? That will tell me exactly
where VMD was when the problem occurs. I think there's a 99% chance it's
being caused by the driver for your ATI Mobility T2 graphics chipset,
but getting the "where" output will be helpful in being sure. Is this
the ATI fglrx driver, or are you running one of the free drivers?

  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Jun 07, 2006 at 11:27:51AM -0400, Yuan Zhang wrote:
> Hi,
>
> I am trying to install VMD on my Linux box. I have problem opening a
> graphic interface. I followed the instruction on
> http://www.ks.uiuc.edu/Research/vmd/current/linuxrelnotes.html and here
> is the output from the debugger:
>
> -----------
> [yzhang_at_localhost ~]$ local/biosoftw/bin/vmd -debug
> ***
> *** Running VMD in debugger, type 'run' at debugger prompt
> ***
> GNU gdb Red Hat Linux (6.1post-1.20040607.43rh)
> Copyright 2004 Free Software Foundation, Inc.
> GDB is free software, covered by the GNU General Public License, and you
> are
> welcome to change it and/or distribute copies of it under certain
> conditions.
> Type "show copying" to see the conditions.
> There is absolutely no warranty for GDB. Type "show warranty" for
> details.
> This GDB was configured as "i386-redhat-linux-gnu"...(no debugging
> symbols found)...Using host libthread_db library
> "/lib/tls/libthread_db.so.1".
>
> (gdb) run
> Starting program: /home/yzhang/local/biosoftw/lib/vmd/vmd_LINUX
> [Thread debugging using libthread_db enabled]
> [New Thread 2770624 (LWP 4771)]
> Info) VMD for LINUX, version 1.8.4 (April 17, 2006)
> 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, 1 CPU detected.
> Info) OpenGL renderer: MOBILITY FIREGL T2 Pentium 4 (SSE2) (FireGL)
> (GNU_ICD)
> Info) Features: STENCIL RN MDE CVA MTX PP PS GLSL(OVF)
>
> Program received signal SIGSEGV, Segmentation fault.
> [Switching to Thread 2770624 (LWP 4771)]
> 0x012525fe in s6644 () from /usr/X11R6/lib/modules/dri//fglrx_dri.so
> (gdb) q
> The program is running. Exit anyway? (y or n) y
> ----------------
>
>
> Can anyone tell me how do I proceed?
>
> Thanks!
> Yuan 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
  WWW: http://www.ks.uiuc.edu/~johns/      Fax: 217-244-6078