VMD-L Mailing List

From: Chris Broomell (ccbroomell_at_gmail.com)
Date: Tue May 19 2020 - 16:39:41 CDT

John,

I'd be interested in your input on optimizing display parameters (as you
suggested in the message to Dallas). I've had similar memory issues using
surface representations for whole virus structures. Is there a display
parameter (particularly for the surface rep) that I might adjust?

Thanks!
Chris

On Tue, May 19, 2020 at 5:01 PM 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/
>
>