VMD-L Mailing List

From: Josh Ward (wardjm_at_purdue.edu)
Date: Tue Mar 02 2004 - 14:30:51 CST

I have been running vmd-1.8.2 on Linux. We recently upgraded the OS
from Red Hat 9.0 to Fedora Core. I recently began having strange color
displays on the Fedora box. Upon opening the VMD and axis are in
grayscale. When I load a molecule, using the default name color scheme,
the molecules are colored fairly randomly. Sometimes all atoms are the
same color, sometimes two colors show up, the colors change as several
representations are combined, ... just for a few examples. Loading the
same executable on the Red Hat box leads to normal operation. Running
vmd from a remote host also gives me normal operation even when using
the bad fedora box.

Console output from bad Fedora Box

Info) vmd for LINUX, version 1.8 (December 9, 2002)
Info) VMD WWW Page: http://www.ks.uiuc.edu/Research/vmd/
Info) Please email all comments and bug reports to vmd_at_ks.uiuc.edu
Info) The authors request that any published work which utilizes
Info) VMD please include the following reference:
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, 4 CPUs detected.
Info) OpenGL renderer: Mesa DRI R200 20020827 AGP 1x x86/MMX/SSE TCL
Info) Features: STENCIL RN MTX
Info) Textures: 2-D (2048x2048), 3-D (128x128x1), Multitexture (2)
r200_makeX86Normal3fv/197 CVAL 0 OFFSET 14 VAL 401bedc0
r200_makeX86Normal3fv/198 CVAL 4 OFFSET 20 VAL 401bedc4
r200_makeX86Normal3fv/199 CVAL 8 OFFSET 25 VAL 401bedc8
r200_makeX86Normal3fv done
vmd >

And from the normal Red Hat 9.0 box

Info) vmd for LINUX, version 1.8 (December 9, 2002)
Info) VMD WWW Page: http://www.ks.uiuc.edu/Research/vmd/
Info) Please email all comments and bug reports to vmd_at_ks.uiuc.edu
Info) The authors request that any published work which utilizes
Info) VMD please include the following reference:
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, 4 CPUs detected.
Info) OpenGL renderer: Wildcat II 5110/AGP/SSE2
Info) Features: STENCIL STEREO RN
Info) Textures: 2-D (2048x2048), 3-D (256x256x256)
vmd >

Everyone here is completely stumped. If you can give us a starting
point to begin making adjustments it will be greatly appreciated.

Thanks,

Josh Ward
Purdue university