On 11/27/2012 11:21 PM, Robert Hanson wrote:
Not seeing that
$ for(var i IN {selected}) {print i.label()}
H #1
H #2
H #3
H #4
C #5
C #6
C #7
C #8
S #9
$ for(var i IN {selected}) {show i}
i = ({0})
i = ({1})
i = ({2})
i = ({3})
i = ({4})
i = ({5})
i = ({6})
i = ({7})
i =
Bob:
In the test2 example, I still am getting an error when trying to load the mo
files. All that is shown is the file neame.
On Nov 27, 2012, at 9:40 PM, Robert Hanson hans...@stolaf.edu wrote:
http://chemapps.stolaf.edu/jmol/jsmol.zip
http://chemapps.stolaf.edu/jmol/jsmol/test2.htm
Dear all,
I'd like to ask you for help with my problem.I use jmol for viewing of my
results, but now I need extend my solution.
In my code I use command jmolButton:
jmolButton(model NEXT,Next)
I need call some php function and together use model NEXT, when I push the
jmolButton.
Can you
I have just started working with JSO, but I can tell you at least that you
can replace the jmol script (model NEXT) with a Javascript function. You
only have to pass an array [function_name, argument_1, argument_2...]
to the jmolButton function. If your function does simple operations which
can be
Looks great, Bob.
One of the issues until now was the JSmol applet taking its time to execute a
command which effectively froze the page on a iPad until the command was
completed.
This may make that less of a problem. I'll test later. And No, I can't guess
how it was done.
Being patient is not
Hello Smith
I have little experience with php, but I will tell you what you can
do with Javascript and hopefully you can adapt it:
jmolButton(model NEXT,Next)
I need call some php function and together use model NEXT, when I
push the jmolButton.
Can you write me some
Do you think it's your browser?
On Wed, Nov 28, 2012 at 6:26 AM, Philip Bays pb...@saintmarys.edu wrote:
Bob:
In the test2 example, I still am getting an error when trying to load the
mo files. All that is shown is the file neame.
On Nov 27, 2012, at 9:40 PM, Robert Hanson
Ah, by the way, I notice now that I have multithreading working, we are
back to needing an operating script queue. Scripts are not being queued
properly if they have any sort of move, moveTo, delay, or (animated) rotate
command in them right now.
On Wed, Nov 28, 2012 at 7:44 AM, Greeves, Nick
Phil,
On Safari 6.0.2, I load the MO files. Are you using Safari?
Otis
--
Otis Rothenberger
o...@chemagic.com
http://chemagic.com
On Nov 28, 2012, at 12:46 PM, Robert Hanson wrote:
Do you think it's your browser?
On Wed, Nov 28, 2012 at 6:26 AM, Philip Bays pb...@saintmarys.edu
Pino,
I suggest to first be sure that you clear your browser cache -- js
files remain there and you might be seeing the effect of a mixture of
old and new files
--
Keep yourself connected to Go Parallel:
INSIGHTS
Otis:
I am using Safari, Firefox, and Camino (with which I have never used for JSmol
until just now). I am getting an unrecognized file type error in all of
them. I have not cleared the Safari cache because I do not see how to do it.
It used to be in the Safari drop down menu. I do not
Angel, i cleared the cache. Now the applet seems to load but when i load a
molecule i receive format non recognized error. No javascript error in console
(firefox or google chrome). Could be a problem of Jquery libraries that are
different? a conflict?
Pino
Messaggio originale
Da:
No idea
But my server was giving me trouble serving some pdb and mol files. Maybe
it's related. I could fix that by renaming to .pdb.txt or .mol.txt (this was
with a
former version of JSmol, I have not checked lately)
The error was in the form of garbage characters in red font inside the
the file that would be causing that error is
http://chemapps.stolaf.edu/jmol/jsmol/JSmolCore.js
or it's a problem with how JSmolCore determines whether your system can
read binary files directly.
Look in that file for
// JSmolCore.js -- Jmol core capability 11/28/2012 1:56:34 PM
at the top
Phil,
In the Preferences/Advanced menu, check Show develop menu in menu bar. There
is an Empty Caches and a Disable Caches selection in the resulting Develop menu
item. In the Safari menu selection there is also a Reset Safari... selection.
They keep changing stuff like this to irritate us!
I just checked some more. Now when I load using the HTML5 option in the first
column then try to thread test, I get the non-recognized format error. The mo
homo SQUARED and mo DENSITY also give the non-recognized format error. If I
click on the WebGL load link the thread test does not give
I'm seeing the same thing. I just did a system update to 10.7.5 then updated
Safari to 6.0.2. I emptied the cache (Developer menu - turn on in Advanced tab
of Preferences). I can load the caffeine molecule using HTML5. When I try to
do the MO examples in the middle of the middle column I
Phil,
My bad. I missed the MO HOMO SQUARED and MO DENSITY links. They are not loading
with Jmol or HTML5.
Otis
--
Otis Rothenberger
o...@chemagic.com
http://chemagic.com
On Nov 28, 2012, at 3:01 PM, Otis Rothenberger wrote:
Phil,
In the Preferences/Advanced menu, check Show develop
Bob and Phil,
I think the relevant smol file is missing from this directory:
http://chemapps.stolaf.edu/jmol/jsmol/
Otis
--
Otis Rothenberger
o...@chemagic.com
http://chemagic.com
On Nov 28, 2012, at 3:30 PM, Otis Rothenberger wrote:
Phil,
My bad. I missed the MO HOMO SQUARED and MO
Last Saturday we were in the midst of looking at the Firefox error message
showing up in both Firefox Safari. At that time I also mentioned this issue.
In the next iteration of Bob's uploads, the Firefox error was corrected and
the MO's loaded. Bob: whatever you did then needs to be done
yes, of course! Try now. Note that the density one is not the sort of
thing to have on a web site -- this has to calculate the orbitals for ALL
occupied orbitals. You would really do this off line, create the JVXL file,
and then call that up if it were on line.
Bob
On Wed, Nov 28, 2012 at 2:30
Working for me now although the behavior is still different for HTML5 vs.
WebGL. The thread test for WebGL doesn't work right for me in Safari and the
mo links give meshes that I can't see through in WebGL while with HTML5 I can
see through them.
Bob,
OK, now it works, but there's another problem on the page. I believe the script
on the MO DENSITY link might be wrong. While it loads in HTML5 mode, it does
not display the MO in JAVA mode unless I enter:
mo homo DENSITY
The link script that loads the model does not id an MO.
If I'm
-- Forwarded message --
From: Robert Hanson hans...@stolaf.edu
Date: Wed, Nov 28, 2012 at 6:02 PM
Subject: Re: [Jmol-users] R: Re: R: Re: R: JSmol -- Are we done?
To: jmol-users@lists.sourceforge.net jmol-users@lists.sourceforge.net
It's a problem with Safari not being able to
got it. -- required modifications to JSmoljQuery.js and JSmolCore.js
Safari should be reading binary files properly now.
http://chemapps.stolaf.edu/jmol/jsmol/test2.htm?USE=HTML5 -- water.xyz.gz
or mo homo SQUARED links in HTML5
--
Robert M. Hanson
Larson-Anderson Professor of Chemistry
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