VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Sun Sep 21 2008 - 02:36:43 CDT

Hi,
  What video driver version are you using? This behavior is unusual,
but I doubt that reinstalling VMD itself will change anything. Most likely
this is still a video driver issue of some sort.

  John Stone
  vmd_at_ks.uiuc.edu

On Sun, Sep 21, 2008 at 09:44:50AM +0530, shiladitya_at_jncasr.ac.in wrote:
> Hi Axel and others,
>
> first we used the env VMDSIMPLEGRAPHICS=1 vmd to launch vmd . it could
> load a mollecule(small xyz file) . but then the machine got hung.
>
> then we installed the latest nvidea graphics driver from their site. now
> we can load a molecule with or without env VMDSIMPLEGRAPHICS=1 option.
>
> but , only that, then the machine becomes slow and finally got hung. top
> shows that vmd_linux uses 99.9 % of cpu.
>
> we also ran with -debug (env VMDSIMPLEGRAPHICS=1 vmd -debug) option. however
> gdb does not show any error message.
>
>
> if i want to reinstall vmd, how to uninstall vmd?
> we are using linux opengl version (vmd-1.8.6.bin.LINUX.opengl.tar.gz)
> is it correct version for intel xeon processor based 64 bit machine?
>
>
> regards,
> shiladitya sengupta
> TSU
> JNCASR
>
>
>
> > On Fri, 19 Sep 2008, shiladitya_at_jncasr.ac.in wrote:
> >
> > SS> Hello friends,
> > SS>
> > SS> we recently installed vmd 1.8.6 in a workstation.
> > SS>
> > SS> typing vmd on the terminal , successfully launches the vmd windows. SS>
> > SS> but then the machine gets hung up. neither mouse nor keyboard works
> .
> > the
> > SS> only way to get back to normal condition seems to reboot.
> >
> > that sounds a lot like a buggy or misconfigured graphics driver.
> >
> > please see the linux release notes on the VMD homepage for a list of
> known problems and workarounds. for starters, i would suggest to try
> launching VMD with: env VMDSIMPLEGRAPHICS=1 vmd
> > that will turn off most of the advanced features in the OpenGL support.
> >
> > SS> i tried to ssh login from a remote machine and killed the process
> vmd.
> > SS> even after the process got killed , the vmd windows remain (hung up
> state)
> > SS>
> > SS> it is a 64 bit machine.
> > SS> the os is redhat enterprise linux (2.6.9-22.ELsmp).
> >
> > also please make sure that you have the latest updates for your
> > OS and the graphics driver. sometime, updates of the OS overwrite parts
> of the graphics driver and a re-install of the driver is
> > required.
> >
> > cheers,
> > axel.
> >
> > SS>
> > SS> the following is the startup message in the vmd-console :
> > SS>
> > SS> Info) Please include this reference in published work using VMD: SS>
> Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual SS>
> Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
> Info)
> > SS> ------------------------------------------------------------- Info)
> SS> Multithreading available, 8 CPUs detected.
> > SS> Info) Free system memory: 7750MB (97%)
> > SS> Info) OpenGL renderer: Quadro FX 1700/PCI/SSE2
> > SS> Info) Features: STENCIL MSAA(4) MDE CVA MTX NPOT PP PS GLSL(OVF)
> Info)
> > SS> Full GLSL rendering mode is available.
> > SS> Info) Textures: 2-D (8192x8192), 3-D (2048x2048x2048),
> Multitexture
> > (4)
> > SS> vmd >
> > SS>
> > SS>
> > SS> please help.
> > SS>
> > SS> regards,
> > SS>
> > SS> shiladitya sengupta
> > SS> TSU
> > SS> JNCASR
> > SS>
> > SS>
> > SS>
> > SS>
> > SS>
> >
> > --
> > =======================================================================
> Axel Kohlmeyer akohlmey_at_cmm.chem.upenn.edu http://www.cmm.upenn.edu
> > Center for Molecular Modeling -- University of Pennsylvania
> > Department of Chemistry, 231 S.34th Street, Philadelphia, PA 19104-6323
> tel: 1-215-898-1582, fax: 1-215-573-6233, office-tel: 1-215-898-5425
> =======================================================================
> If you make something idiot-proof, the universe creates a better idiot.
> >
>
> 

-- 
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