VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Jun 07 2006 - 14:42:43 CDT

Lothar,
  I think that you're probably experiencing difficulty with the
'psfgen' plugin which has historically been troubled on IRIX.
In order to test my theory, do this:
  package require psfgen
  resetpsf

If that causes the coredump, then psfgen is the culprit, and you'll
likely have to do the structure building on a different (non-IRIX) machine.

  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Jun 07, 2006 at 03:26:28PM -0400, lothar esser wrote:
>
> Hi,
>
> I just installed vmd 1.8.4 (n32 version) on a SGI Octane running IRIX
> 6.5.28f and intended to generate a membrane with the membrane plugin.
> >package require membrane
> 1.0
> >membrane -l POPE -x 30 -y 30
> (some messages I cannot read before:)
> coredump.
> I get a 157663232 byte core file.
>
> My current limits are:
>
> cputime unlimited
> filesize unlimited
> datasize 2097152 kbytes
> stacksize 524288 kbytes
> coredumpsize unlimited
> memoryuse 2066000 kbytes
> vmemoryuse 2097152 kbytes
> descriptors 200
> threads 1024
>
> So I was wondering if perhaps the stack is too small (500MB) ?
>
> Any advice ?
>
> Lothar 

-- 
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