VMD-L Mailing List

From: Praedor Atrebates (praedor_at_yahoo.com)
Date: Fri Sep 23 2005 - 15:03:03 CDT

On Friday 23 September 2005 14:36, John Stone wrote:
> Hi,
> Your output doesn't include the 'where' command, I need that in
> order to determine what happened. Also, if you're getting those
> Tcl warnings at startup, you must not have sourced the VMD startup
> script correctly according to the sequence of commands I gave you
> previously, can you try this again?
[...]

Corrected the tcl problem and re-ran:

gdb output:

Info) VMD for LINUX, version 1.8.3 (February 15, 2005)
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 RADEON 9000 DDR Generic
Info) Features: STENCIL RN MDE CVA MTX PP
Info) GLSL rendering mode is NOT available.
Info) Textures: 2-D (2048x2048), 3-D (512x512x512), Multitexture (6)
vmd > Info) Using plugin pdb for structure
file /home/praedor/Documents/structu
res/TFA-1-dnakmodel.pdb
Info) Using plugin pdb for coordinates from
file /home/praedor/Documents/struct
ures/TFA-1-dnakmodel.pdb
Info) Determining bond structure from distance search ...
Info) Analyzing structure ...
Info) Atoms: 1526
Info) Residues: 194
Info) Waters: 0
Warning) Unusual bond between residues 144 and 145
Warning) Unusual bond between residues 145 and 146
Info) Segments: 1
Info) Fragments: 1 Protein: 4 Nucleic: 0
Info) Finished with coordinate
file /home/praedor/Documents/structures/TFA-1-dn
akmodel.pdb.

Program received signal SIGSEGV, Segmentation fault.
[Switching to Thread -1214478048 (LWP 23715)]
0xb74e8133 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
(gdb) where
#0 0xb74e8133 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#1 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#2 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#3 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#4 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#5 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#6 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#7 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#8 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#9 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#10 0xb74e7999 in __glim_R200TCLDrawArrays ()
   from /usr/X11R6/lib/modules/dri//fglrx_dri.so
#11 0xb74e7999 in __glim_R200TCLDrawArrays ()

praedor 

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