Thanks, Bob! I was going to have to write some interesting user documentation
to explain this feature. This particular thing is fairly easy to do with the
user interface for my app.
--Chuck
----- Original Message -----
From: Robert Hanson
To: jmol-users@lists.sourceforge.net
Sent: Wednesday, February 24, 2010 9:53 PM
Subject: Re: [Jmol-users] 11.9.25 secondary structures bug
Fixed for Jmol 11.8.19 and Jmol 11.9.31. Files for 11.9 will be uploaded soon
to http://chemapps.stolaf.edu/jmol/docs/examples-11/Jmol-11.zip; release of
11.8.19 will be later this week.
Bob
On Wed, Feb 24, 2010 at 3:33 PM, Robert Hanson <hans...@stolaf.edu> wrote:
Hmm, yeah, that's a bug... The cheese-puff effect is because you have
defined the size of the cartoon in the range after the specified residues, and
Jmol has removed the helix description for those residues. Basically, if
10-20 are helixes
and you display cartoons and then redefine a subset of the structure with
select *;cartoons on
structure helix {12-13}
then 10-11 are one helix, 12-13 are another helix, and 14-20 are no longer
any structure.
What you are saying is that 14-20 should still be helix. I agree.
The reason it works with ribbon is because with ribbon all the structures
are the same size. With cartoons you have smaller non-helix, non-strand
sections.
I'll look into that.
--
Robert M. Hanson
Professor of Chemistry
St. Olaf College
1520 St. Olaf Ave.
Northfield, MN 55057
http://www.stolaf.edu/people/hansonr
phone: 507-786-3107
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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