VMD-L Mailing List

From: Rob (spamrefuse_at_yahoo.com)
Date: Wed Dec 09 2009 - 22:24:16 CST

John Stone wrote on Tue Dec 08 2009:
>
> Rather than guess however, you can do a couple of simple
> tests and see how far VMD got when the crash occured,
> by running it like this:
vmd -debug

$ vmd -debug
[...skip...]
(gdb) run
Starting program: /usr/local/lib/vmd/vmd_LINUXAMD64
[Thread debugging using libthread_db enabled]
Info) VMD for LINUXAMD64, version 1.8.7 (August 1, 2009)
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: 5249MB (87%)
Info) No CUDA accelerator devices available.
Warning) Detected X11 'Composite' extension: if incorrect display occurs
Warning) try disabling this optional X server feature.
Info) OpenGL renderer: Software Rasterizer
Info) Features: STENCIL MDE CVA MTX NPOT PP PS GLSL(OVF)
Info) Full GLSL rendering mode is available.
Info) Textures: 2-D (4096x4096), 3-D (256x256x256), Multitexture (8)

Program received signal SIGSEGV, Segmentation fault.
0x0000003278c528b6 in XGetICValues () from /usr/lib64/libX11.so.6
Missing separate debuginfos, use: debuginfo-install expat-2.0.1-8.fc12.x86_64 glibc-2.11-2.x86_64 libX11-1.3-1.fc12.x86_64 libXau-1.0.5-1.fc12.x86_64 libXcursor-1.1.10-1.fc12.x86_64 libXdamage-1.1.2-1.fc12.x86_64 libXext-1.1-1.fc12.x86_64 libXfixes-4.0.4-1.fc12.x86_64 libXi-1.3-1.fc12.x86_64 libXrender-0.9.5-1.fc12.x86_64 libXxf86vm-1.1.0-1.fc12.x86_64 libdrm-2.4.15-6.fc12.x86_64 libgcc-4.4.2-7.fc12.x86_64 libselinux-2.0.87-1.fc12.x86_64 libstdc++-4.4.2-7.fc12.x86_64 libxcb-1.4-2.fc12.x86_64 mesa-dri-drivers-7.6-0.13.fc12.x86_64 mesa-libGL-7.6-0.13.fc12.x86_64 mesa-libGLU-7.6-0.13.fc12.x86_64

(gdb) where
#0 0x0000003278c528b6 in XGetICValues () from /usr/lib64/libX11.so.6
#1 0x00000000007e053b in Tk_HandleEvent ()
#2 0x00000000007e0ed3 in ?? ()
#3 0x0000000000874c4a in Tcl_ServiceEvent ()
#4 0x0000000000874fc7 in Tcl_DoOneEvent ()
#5 0x00000000005ee43e in TclTextInterp::doTkUpdate() ()
#6 0x00000000005b11ec in UIText::check_event() ()
#7 0x00000000004f7428 in CommandQueue::check_events() ()
#8 0x00000000005b260c in VMDApp::VMDupdate(int) ()
#9 0x00000000005daec2 in main ()

Does this help?

Rob.