On 10/15/2015 06:33 PM, Angel Herráez wrote: >> Isn't this initial/default script applied only after the applet is >> loaded? > > Yes, I think you're right. So you are worried about the time it takes for the > model to load. > Yes. > >> If the number of atoms exceeds this value the default rendering is >> changed to "spacefill 0; wireframe 1;". >> But I would either need the opposite or even better a completely >> disabled default rendering. > > By "deactivate" or "disabled", what do you mean? No rendering at all? > I would not expect "wireframe 1" to be very time consuming, compared to the > actual reading and processing of all atom information during model load. > Defining secondary structure and so setting cartoons is, that's the reason for > the smallMoleculeMaxAtoms threshold. > > And what would "the opposite" be? Sorry I'm not getting the specifics you are > aiming at. The "opposite" would be "no bonds, only spacefill". But actually this might still be time consuming if I would rather need. > > Is it proteins you are working with? Have you investigated about suppressing > secondary structure calculation maybe? That could take a time. > On the one hand there are very large biological units like that of '1m4x' with about 16.8 million atoms. Loading and rendering takes about 12 minutes in Java on my computer and about 30 GB of memory.
On the other hand there are pseudoatoms which might have a much larger number and much longer bonds than real atoms and which might also have a much larger or smaller radius. I couldn't really separate loading performance from rendering performance. But what I observe is that rendering takes much longer if bonds and atoms are rendered compared to rendering only atoms. Regards, Rolf -- Rolf Huehne Postdoc Leibniz Institute on Aging - Fritz Lipmann Institute (FLI) Beutenbergstrasse 11 07745 Jena, Germany Phone: +49 3641 65 6205 Fax: +49 3641 65 6210 E-Mail: rhue...@leibniz-fli.de Website: http://www.leibniz-fli.de Scientific Director: Prof. Dr. K. Lenhard Rudolph Head of Administration: Dr. Daniele Barthel Chairman of Board of Trustees: Burkhard Zinner VAT No: DE 153 925 464 Register of Associations: No. 230296, Amtsgericht Jena Tax Number: 162/141/08228 ------------------------------------------------------------------------------ _______________________________________________ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
