VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Sun Sep 03 2017 - 20:52:44 CDT

Hi,
  Try setting this environment variable before you try running VMD
and let me know if it cures your problem or not:
/bin/bash:
  export VMDNOOPTIX=1
/bin/csh:
  setenv VMDNOOPTIX 1

Best regards,
  John Stone
  vmd_at_ks.uiuc.edu

On Sun, Sep 03, 2017 at 06:19:26PM -0400, sooraj achar wrote:
> Hi, I recently installed VMD on my linux partition but am unable to get it
> to start up in either the gui or text (with -dispdev text) modes, as they
> both return segmentation faults before loading the program. I've also
> attempted to run VMD through the debug mode: I've copied the output below.
> My laptop's graphics are handled by a Kaby Lake integrated graphics card
> so I don't think I have CUDA drivers installed, but that shouldn't make a
> difference. Let me know if you need more information from me. Thanks.
> ***
> *** Running VMD in debugger, type 'run' at debugger prompt
> ***
> GNU gdb (GDB) Fedora 8.0-13.fc26
> Copyright (C) 2017 Free Software Foundation, Inc.
> License GPLv3+: GNU GPL version 3 or later
> <[1]http://gnu.org/licenses/gpl.html>
> This is free software: you are free to change and redistribute it.
> There is NO WARRANTY, to the extent permitted by law. Type "show
> copying"
> and "show warranty" for details.
> This GDB was configured as "x86_64-redhat-linux-gnu".
> Type "show configuration" for configuration details.
> For bug reporting instructions, please see:
> <[2]http://www.gnu.org/software/gdb/bugs/>.
> Find the GDB manual and other documentation resources online at:
> <[3]http://www.gnu.org/software/gdb/documentation/>.
> For help, type "help".
> Type "apropos word" to search for commands related to "word"...
> Reading symbols from /usr/local/lib/vmd/vmd_LINUXAMD64...(no debugging
> symbols found)...done.
> (gdb) run
> Starting program: /usr/local/lib/vmd/vmd_LINUXAMD64Â
> /usr/local/lib/vmd/vmd_LINUXAMD64: /lib64/libGL.so.1: no version
> information available (required by /usr/local/lib/vmd/vmd_LINUXAMD64)
> [Thread debugging using libthread_db enabled]
> Using host libthread_db library "/lib64/libthread_db.so.1".
> Info) VMD for LINUXAMD64, version 1.9.4a8 (August 30, 2017)
> Info) [4]http://www.ks.uiuc.edu/Research/vmd/ Â Â Â Â Â Â Â Â Â
> Â Â Â Â
> Info) Email questions and bug reports to [5]vmd_at_ks.uiuc.edu    Â
> Â Â
> Info) Please include this reference in published work using VMD: Â Â
> Info)   Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual  Â
> Info) Â Â Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
> Info) -------------------------------------------------------------
> Info) Multithreading available, 4 CPUs detected.
> Info) Â CPU features: SSE2 AVX AVX2 FMAÂ
> Info) Free system memory: 5826MB (74%)
> [New Thread 0x7fffe96a5700 (LWP 3635)]
> [New Thread 0x7fffe8ea4700 (LWP 3636)]
> [New Thread 0x7fffe86a3700 (LWP 3637)]
> [New Thread 0x7fffe7ea2700 (LWP 3638)]
> Info) No CUDA accelerator devices available.
> Warning) Detected X11 'Composite' extension: if incorrect display occurs
> Warning) try disabling this X server option. Most OpenGL drivers
> Warning) disable stereoscopic display when 'Composite' is enabled.
> Info) OpenGL renderer: Mesa DRI Intel(R) HD Graphics 620 (Kaby Lake GT2)Â
> Info) Â Features: STENCIL MDE CVA MTX NPOT PP PS GLSL(OVFS)Â
> Info) Â Full GLSL rendering mode is available.
> Info) Â Textures: 2-D (16384x16384), 3-D (512x512x512), Multitexture (8)
> Thread 1 "vmd_LINUXAMD64" received signal SIGSEGV, Segmentation fault.
> 0x00007ffff527ad20 in ?? () from /usr/local/lib/vmd/liboptix.so.1
>
> References
>
> Visible links
> 1. http://gnu.org/licenses/gpl.html
> 2. http://www.gnu.org/software/gdb/bugs/
> 3. http://www.gnu.org/software/gdb/documentation/
> 4. http://www.ks.uiuc.edu/Research/vmd/
> 5. mailto:vmd_at_ks.uiuc.edu 

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