Yes, there are improper internal VDW surfaces being displayed. Hmm...
The short-term solution is to use "SET 1" in that isosurface command:
isosurface solvent set 1
but it's definitely a bug. I will look into it. I can find
Thanks. Checking in my archives, the problem was there in 11.1 at least
(back when I got started in Jmol.) This certainly will be a challenge. Why
do I feel like I've fixed this before?
Bob
On Tue, Jul 17, 2012 at 7:30 AM, Alexander Rose <alexander.r...@weirdbyte.de
> wrote:
> link to pngj https://www.dropbox.com/s/rcwwtns8rypi7qg/1crn.png
>
> ----- Ursprüngliche Mail -----
> > Von: "Alexander Rose" <alexander.r...@weirdbyte.de>
> > An: jmol-users@lists.sourceforge.net
> > Gesendet: Dienstag, 17. Juli 2012 13:36:26
> > Betreff: artifacts inside protein surfaces
> > Hi,
> >
> > I think that was once solved but now there are artifacts inside
> > protein surfaces. See attached pngj, created on
> > http://chemapps.stolaf.edu/jmol/docs/examples-12/simple.htm - Version
> > 12.3.32_dev, I've seen it also in 12.3.33.
> >
> >
> > Best Alex
>
>
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--
Robert M. Hanson
Larson-Anderson Professor of Chemistry
Chair, Chemistry Department
St. Olaf College
Northfield, MN
http://www.stolaf.edu/people/hansonr
If nature does not answer first what we want,
it is better to take what answer we get.
-- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
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