Thanks Jeff,
I don't get it. I'm consistently getting 40 seconds on Safari (6.0.2) Mac
10.7.5.
I wonder if I have a file corrupted in cache. Wait...
I have a little portable Mac Air. It's about 15 seconds at ISU and 3 seconds
for CheMagic.
Another thing is that the original page load is REALL
Bob,
I rebooted my Mac and Fired up my Windows computer. Using my authentic 1998
Cast Holiday Celebration Mickey Mouse watch:
2-butanol second mep load
MAC Safari Chrome FF
ISU
40 seconds
2-butanol second mep load
Windows FF
ISU
15 seconds
2-butanol second mep load
MAC Safari Chrome FF - 3 sec
I didn't time it, but both sites similar for me and around 10 seconds. Latest
Mountain Lion and Safari 6.0.2.
***
Jeff Hansen
Department of Chemistry and Biochemistry
DePauw University
602 S. College Ave.
Greencastle, IN 46135
jhan...@depauw.edu
Bob,
Maybe it's the fact that I'm on a Mac. For 2-butanol, I get ~30 seconds (~3 on
the chemagic server with 13.1.11) on Safari. If I go to Firefox, I think its
slightly faster, but I'm not sure. I get a stalled script warning. Mac issue?
If there are other Mac users, would you try:
http://che
I'm getting 10 seconds to mep with no cached files; 5 seconds on the second
page load. Probably aren't going to get better than that. (Firefox) about
20 seconds in Opera, about 15 seconds in Chime. Page is not working in MSIE
due to some sort of problem with the canvas.
On Tue, Jan 15, 2013 at 6:
It is odd that they would remove that. I wonder why?
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Bob,
The ISU server is still really slow, including the original page load. I
thought that was simply cache, so I didn't mention it before. Now I see that
page load is very slow also even after the first load put's files in cache:
http://chemistry.illinoisstate.edu/osrothen/modelkit/
Otis
--
On Tue, Jan 15, 2013 at 6:24 PM, Eric Martz wrote:
>
> Any suggestions?
>
>
Now that you have Jmol.js working, go straight to JmolJSO, (with files at
http://chemapps.stolaf.edu/jmol/jsmol.zip). Then you can experiment with
both Jmol/Java and JSmol. You will then be able to use all the aspects of
j
one thing is that I left a debugging line in that. Might be that.
On Tue, Jan 15, 2013 at 6:02 PM, Robert Hanson wrote:
> I made one significant change last night, making all numbers in Jmol
> doubles instead of floats. Can you test this on the same server with
> http://chemapps.stolaf.edu/jmol
I'd appreciate advice on how to make Jmol float right (align at the
right side of the browser window) in Internet Explorer 9 (IE9). This
would be very helpful in FirstGlance in Jmol.
The public/released version of FirstGlance does not work in current
IE9/Java, but it works in an early version o
I made one significant change last night, making all numbers in Jmol
doubles instead of floats. Can you test this on the same server with
http://chemapps.stolaf.edu/jmol/jsmol.zip?
On Tue, Jan 15, 2013 at 3:26 PM, Otis Rothenberger wrote:
> Bob,
>
> I'm noticing a power of 10 time difference in
On Tue, Jan 15, 2013 at 2:25 PM, Kevin Theisen wrote:
> Bob,
>
> To answer your questions:
>
> This is really an argument of semantics, with the ChemDoodle Web
> Components, we would do something like the following.
>
> var selected = myCanvas.select(10, 20);
> myCanvas.center(selected);
> myCanv
Hi
So this is a question of file format.
PDB file format specification has not any hint of columns 72-75 or the segID
field, either in the current Version 3.3: July, 2011 / Nov. 21, 2012
http://www.wwpdb.org/documentation/format33/sect9.html#ATOM
or in the oldest referenced in wwPDB, Version 2.
Dear Angel:
Thanks for all your help.
If one does a search on "pdb format segid" there will be hundreds of
hits. Here is one:
http://bmerc-www.bu.edu/needle-doc/latest/atom-format.html
Admittedly, it is older but does mention a field for* segid*.
The most current pdb format description does n
Bob,
I'm noticing a power of 10 time difference in JSmol displaying MEP surfaces on
two different servers. The ISU server has the most recent version of JSmol -
13.1.12_dev. The chemagic sever has an older version - 13.1.11_dev.
http://chemagic.com/modelkit/
http://chemistry.illinoisstate.edu/
Bob,
To answer your questions:
This is really an argument of semantics, with the ChemDoodle Web Components, we
would do something like the following.
var selected = myCanvas.select(10, 20);
myCanvas.center(selected);
myCanvas.repaint();
Instead of using Jmol script and the Jmol compiler, it wo
Hello again
I suspect this is an issue of different terminology, but the functionality you
ask for is likely there.
Some pointers:
http://chemapps.stolaf.edu/jmol/docs/#atomexpressionsfunctions
see WITHIN SEQUENCE
e.g.
select within("PGATG",*) //would select all atoms in that peptide sequence
use \n to indicate a new line.
On Tue, Jan 15, 2013 at 11:49 AM, Pascal Auffinger <
p.auffin...@ibmc-cnrs.unistra.fr> wrote:
> Hi,
>
> Is it possible to display a text in the prompt box in two lines instead of
> a single long line.
>
> Best,
>
> Pascal
>
>
> -
> Pascal Auffinger
> IBMC/CNRS
Hi,
Is it possible to display a text in the prompt box in two lines instead of a
single long line.
Best,
Pascal
-
Pascal Auffinger
IBMC/CNRS
15 rue René Descartes
67084 Strasbourg Cedex
p.auffin...@ibmc-cnrs.unistra.fr
-
--
Hello, Angelo! Angel here ;-)
I don't know what 'segid' or 'segment proa' mean, but...
in Jmol you can select by residue number
e.g.
select 14-19
select 14,16,18,45
or by sequence
(check the scripting doc)
Maybe that helps you out.
> As I said earlier, I am a Jmol user, and I am no
Hello:
I am an avid user of Jmol. It is now installed at NERSC (www.nersc.gov) by
my request so that I could track simulations in real time. My students use
it all the time.
My question is probably based on my missing something fundamental about the
Jmol software strategy, but I would like to p
Thanks for this.
I believe the Opera problem is fixed. At least, Opera 12.2 is reading
http://chemapps.stolaf.edu/jmol/jsmol/jsmol.htm just fine for me on Windows.
For performance, maybe Eric can set us up some benchmark pages. Performance
will vary by canvas size, and it is important to indicate
Dear Eric, glad to hear from you
> In Windows 7, I find huge speed differences between browsers for
> JSmol. Sorry if this has already been reported.
I am also seeing this, although I haven't done a systematic analysis.
I understand all comes down to the Javascript engine or
implementation of
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