VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Mar 05 2003 - 09:57:56 CST

Hi Patrick,

On Wed, Mar 05, 2003 at 01:22:43PM +0100, Patrick Ladam wrote:
>
> Hi all,
>
> I want to solvate a DNA molecule, so I am trying to run the hands-on
> scripts with gramicidin to rehearse a little bit. In this demo, I am
> stuck at the point where I issue the 'topology' command: vmd simply
> crashes away. I tried different .inp files, same result. Even
> if I simply type 'topology' with no file argument at all, vmd crashes
> immediatly.

This sounds like a problem with your rebuilt psfgen plugin.
Are you able to run any of the standard psfgen commands or do they
all crash the program? If they all crash, then your compile of psfgen
has problems of some kind. What version of Tcl did you link your
psfgen plugin against?

  John Stone
  vmd_at_ks.uiuc.edu

> Has anybody experienced this?
> I have to say that I recently recompiled the libpsfgen.so library
> that did not work on my platform. It loads OK at startup and when I type
> 'package require psfgen' the console answers 1.3.1 (psfgen version) so I
> assume this is correct.
> My understanding is that the 'topology' command uses libpsfgen.so, am I
> right here?
>
> Bye all
>
> --
> -----------------------------------------------------------------
> | Patrick LADAM | |
> | Laboratoire CSSB | THE BIG BANG THEORY: |
> | UFR SMBH | |
> | 74 rue Marcel Cachin | In the begining there was |
> | 93017 Bobigny CEDEX | nothing at all. |
> | e-mail: | |
> | ladam_at_smbh.smbh.univ-paris13.fr | Then, it exploded... |
> | Tel: 01 48 38 77 26 / 76 85 | |
> | Fax: 01 48 38 77 77 | |
> ----------------------------------------------------------------- 

-- 
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