VMD-L Mailing List

From: Dallas Warren (dallas.warren_at_monash.edu)
Date: Tue May 19 2020 - 18:30:17 CDT

John,

Thank you for the suggestion. I am aware of ways that can tweak
representations to alter the number of faces, resolution etc. And that
definitely works for a given system.

However, that isn't going to help us here because we are looking for a more
generalised solution. You may recall we have VMD wrapped inside other
software (in-house) and the number of particles and representation for
things displayed within the VMD window will be highly variable. This error
has been freezing the software and we're looking for a way to handle that.
First option was to see if we can resolve the issue. I take it this is a
hard ceiling on the memory usage with 32 bit Windows? If that is the case,
then we will move to the second option, which is an error capture so that
when this is thrown up it doesn't freeze things (because it constantly
outputs the error, over and over and over, rather than just a single
write). And we will couple that with optimising representations so that it
is harder to reach the limit as well.

Can you also tell us what compiler you use with the Windows versions?

Catch ya,

Dr. Dallas Warren
Drug Delivery, Disposition and Dynamics
Monash Institute of Pharmaceutical Sciences, Monash University
381 Royal Parade, Parkville VIC 3052
dallas.warren_at_monash.edu
---------------------------------
When the only tool you own is a hammer, every problem begins to resemble a
nail.

On Wed, 20 May 2020 at 06:18, John Stone <johns_at_ks.uiuc.edu> wrote:

> Dallas,
> Can you be more specific about what graphical representations
> you're using that are causing the memory exhaustion problem? There
> may be a simple adjustment to your display parameters that can
> dramatically reduce memory usage. This is particularly true for
> the surface representations, isosurface, and the various ribbon/cartoon
> representations which have either quadratic or cubic memory consumption
> vs. their respective "resolution" parameters of various kinds.
>
> If you share more about what representations and parameters you're using,
> I may be able to give you advice to overcome the issue.
>
> Going forward I'm working on a 64-bit Windows build of VMD, but
> this has been complicated by the fact that I don't have effective remote
> access to my normal Windows VMD build systems, and I'm having to setup
> a new one that I can use here at home. That would ultimately increase
> the amount of memory available to VMD, at least on modern machines
> with say 8GB or more of memory, but I've got probably a week or two
> of work to do there and I'm waiting on the next rev of the Windows
> CUDA tools to be released (a matter of days now) so that I can ensure
> compiler version compatiblity etc.
>
> Best,
> John Stone
>
> On Mon, May 18, 2020 at 05:39:32PM +1000, Dallas Warren wrote:
> > Works fine with Linux installation.
> > Works fine for Windows installation (WIN32 1.9.3 Nov 30 2016) with
> less
> > graphically intensive molecule representations.
> > Fails for Windows installation for more graphically intensive molecule
> > representations with the following error message:
> > ################
> > Failed to increase display list memory pool size, system out of memory
> > Â Â Previous pool size: 200MB
> > Â Â Requested pool size: 240MB
> > ################
> > How do I resolve this issue?
> > Start up message:
> > [1]
> https://pbs.twimg.com/media/EYSJJIbVAAEp7gz?format=png&name=900x900
> > Error message:
> > [2]
> https://pbs.twimg.com/media/EYSJK97U4AEACm5?format=png&name=900x900
> > And another question, exactly which MS compilers are being used to
> build
> > the Windows version of VMD?
> > Thank you for any assistance.
> > Catch ya,
> >
> > Dr. Dallas Warren
> > Drug Delivery, Disposition and Dynamics
> > Monash Institute of Pharmaceutical Sciences, Monash University
> > 381 Royal Parade, Parkville VIC 3052
> > [3]dallas.warren_at_monash.edu
> > ---------------------------------
> > When the only tool you own is a hammer, every problem begins to
> resemble a
> > nail.
> >
> > References
> >
> > Visible links
> > 1.
> https://pbs.twimg.com/media/EYSJJIbVAAEp7gz?format=png&name=900x900
> > 2.
> https://pbs.twimg.com/media/EYSJK97U4AEACm5?format=png&name=900x900
> > 3. mailto:dallas.warren_at_monash.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/
>