Bob,
I put 13.3.9_2013.11.06 on:
http://chemistry.illinoisstate.edu/osrothen/JSmolVMK.htm
To reiterate, if you get it loaded by using the Safari Error Console trick,
then the following problem can be observed:
You can see one of the problems, again on Mavericks Safari. Click the Edit
button and do an H click replacement with C. It replaces the H with C, then
freezes. It's choking on a message call back that does some housekeeping:
if ((z.indexOf("assign atom") > -1 || z.indexOf("assign connect") > -1 ||
z.indexOf("assign bond") > -1) && menuNum == 6) {
if (aIN < 50) { Jmol.script(jmolApplet0, 'minimize
steps 2;'); }
Jmol.script(jmolApplet0, 'select *; wireframe 0.15;
spacefill 23%; boundbox {*};centerat boundbox; {*}.partialcharge=0.0; color
label pink;label ""; select formalCharge <> 0;label %C;');
}
While the variables may be obscure, I'm basically checking number of atoms and
doing a really crude minimize if this number is less than 50. This is followed
by some display housekeeping.
On clicking the edit button, the Jmol console reports:
bondPicking = false
atomPicking = false
modelkitMode = false
Click an atom to convert it to C, or click-drag|away from an atom to add a new
atom.
bondPicking = false
atomPicking = true
Now that I have the consoles open (Jmol and Safari per Phils note), it works
properly. Jmol console reporting:
Initial MMFF E = 49.879 kJ criterion = 0.004187 max steps = 2
MMFF Step 2 E = 10.372609 dE = -0.820101
18 atoms selected
0 atoms selected
Otis
--
Otis Rothenberger
o...@chemagic.com
http://chemagic.com
On Nov 6, 2013, at 11:14 AM, Robert Hanson <hans...@stolaf.edu> wrote:
> Just for reference, I would like comments specifically based on
>
> http://chemapps.stolaf.edu/jmol/zip/jmol-13.3.9_2013.11.06.zip
>
> Anything older than that will just confuse the issue. Obviously something
> broke....
>
> Bob
>
>
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