Hi Jaime
'set rocketBarrels' is working OK for me in 11.8.23, 11.8.24, 12.0.RC11 and
12.0.RC15
In general, is there an option to remove arrow heads?
(beta sheets, ...)
I don't think so. But I see no reason to be able to remove arrowheads
from alpha rockets and not from beta rockets.
According to Angel Herráez angel.herr...@uah.es:
'set rocketBarrels' is working OK for me in 11.8.23, 11.8.24, 12.0.RC11
and 12.0.RC15
Thanks a lot. Will try again.
Jaim
--
Dr Jaime Prilusky | jaime.prilu...@weizmann.ac.il
Head Bioinformatics|
My son is doing a report on 2-propenyl sulfenic acid for his high
school chemistry class.
He would like to incorporate Jmol into his presentation ... and I
think that is a good idea :)
Q: Where can I get a file for 2-propenyl sulfenic acid?
Thanks!
Miguel
Hi Miguel!
You can draw it and have Jmol optimize 3D
Or draw it elsewhere and optimize 3D (I use ChemSketch) then save and open in
Jmol
--
___
Jmol-users mailing list
Coolest method:
1. find the SMILES string for 2-propenyl sulfenic acid
2. get the latest Jmol 12.0.RC
3. open the script console
4. type
load $C=CCSO
5. watch the 3D structure appear in Jmol
Kudos to Bob!
--
Hello,
you could also try to search it on the net, maybe in this site
http://cdb.ics.uci.edu/cgibin/ChemicalSearchWeb.psp
regards
-Ursprüngliche Nachricht-
Von: Miguel Howard [mailto:mig...@jmol.org]
Gesendet: Montag, 31. Mai 2010 18:16
An: jmol-users@lists.sourceforge.net
Betreff:
Hello Miguel,
I have Bob's IU server page discovery hooked to an unsigned applet via
our server at chemagic. The following link should take you directly to
the model your son needs:
http://chemagic.com/web_molecules/script_page_large.aspx?smiles=C=CCSO
Otis
On 5/31/2010 2:01 PM, Angel
Bob, the SMILES support is really *fantastic*!
In the conversion from SMILES - 3D ...
Q: ... are the atom locations more-or-less correct for a low-energy
configuration?
Q: ... are the bond angles more-or-less correct?
Miguel
I'm happy to remove arrow heads from the boxes with
set rocketbarrels true
Is it a common view to have no arrow heads at all? What does Pymol do?
Bob
On Mon, May 31, 2010 at 10:38 AM, jaime.prilu...@weizmann.ac.il wrote:
According to Angel Herráez angel.herr...@uah.es:
'set
Would it be reasonable to have a setting set defaults Pymol that matches
settings in Pymol\? For example, perhaps something that would make the
cartoons come up virtually identically to the way they appear in Pymol, and
have antialiasDisplay on?
Bob
--
Robert M. Hanson
Professor of Chemistry
Otis, I had to load that page twice to have it work. Don't know why...
Bob
On Mon, May 31, 2010 at 1:09 PM, Otis Rothenberger osrot...@chemagic.comwrote:
Hello Miguel,
I have Bob's IU server page discovery hooked to an unsigned applet via
our server at chemagic. The following link should
Bob,
Right now I pass it from a server variable to a hidden field on the page
load. This is followed by an onLoad call to a TimeOut() load into Jmol.
I suspect that timing is the issue. I have to find a better way to do
it. AJAX per your subsequent email may be the answer. If I understand
Bob,
Do you have any idea why this is returning propane and not 1-butyne?
http://cheminfo.informatics.indiana.edu/rest/thread/d3.py/SMILES/CCC#C
Otis
On 5/31/2010 6:37 PM, Robert Hanson wrote:
You could get it into a JavaScript variable using AJAX and then do
anything you want with it.
Bob,
OK, I got it:
1. The url has to be encoded.
2. Which I tried before I wrote using ASP.NET UrlEncode
3) Hand entry of CCC%23C below works.
4) ASP.NET must be choking on # with Server.UrlEncode()
Otis
On 5/31/2010 9:14 PM, Otis Rothenberger wrote:
Bob,
Do you have any idea why this is
According to Robert Hanson hans...@stolaf.edu:
I'm happy to remove arrow heads from the boxes with
set rocketbarrels true
It seems that this only works on alpha helices, no effect on beta sheets.
Jaim
--
Dr Jaime Prilusky | jaime.prilu...@weizmann.ac.il
Head
Hi,
Two water related questions:
Is there an option for drawing water as crosses instead of spheres?
Is there an option to 'set autobond OFF' only for water?
Thanks,
Jaim
--
Dr Jaime Prilusky | jaime.prilu...@weizmann.ac.il
Head Bioinformatics|
RD
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