Ooops. Fixed for Jmol 12.1.24 and Jmol 12.0.23. Uploading now
On Sat, Nov 20, 2010 at 11:24 AM, Michael Evans wrote:
> Hey all—I would be interested in the "write state" function working with
> combinations of PDB structures and inline models (built by importing from
> JME or via model kit m
Hey all—I would be interested in the "write state" function working with
combinations of PDB structures and inline models (built by importing from
JME or via model kit mode), for docking purposes. Given the recent work
that's been done on "dragminimize" and "dragminimizemolecule," it seems like
a n
> Angel, in Wordpress i can use just jmolapplet.jar and i receive
no
> error of reader missing.
Of course. That is the "monolithic" applet that contains all
components. The standard procedure (e.g. when you use Jmol.js and
jmolInitialize() with no special parameters) calls jmolApplet0.jar
w
Angel, in Wordpress i can use just jmolapplet.jar and i receive no
error of reader missing.
Pino
> Wonderful, Pino! Bravissimo!
>
> I'm glad that you could make it work. Congratulations.
>
> It will be appreciated by other users if you write the details
> relevant to how to configure WordPress f
> Hi, i forgot to tell that i had to use the tag to insert
> Jmol. WIth the Javascript code it doesn't work, giving always the error
> JmolAplet.class not found. Maybe it cannot find Jmol.js?
Usually, when Jmol.js is not found the error is "jmolInitialize() is not
defined"
The potential pro
Wonderful, Pino! Bravissimo!
I'm glad that you could make it work. Congratulations.
It will be appreciated by other users if you write the details
relevant to how to configure WordPress for JmolApplet (and maybe JME
applet) in the wiki,
http://wiki.jmol.org/index.php/Jmol_in_Wikis_and_Blogs
Hi, i forgot to tell that i had to use the tag to insert
Jmol. WIth the Javascript code it doesn't work, giving always the error
JmolAplet.class not found. Maybe it cannot find Jmol.js?
Pino
--
Beautiful is writing sa
Hi Angel, i put all the files in the directory so now it is working.
Next move it is to implement it in wordpress. Thanks
Pino
> On 12 Oct 2010 at 22:21, Mio_libero wrote:
>
>>Yes true. This error i found after fixing the path. is it as if it can
>> read the molfile?
> I would say that it is
On 12 Oct 2010 at 22:21, Mio_libero wrote:
> Yes true. This error i found after fixing the path. is it as if it can
> read the molfile?
I would say that it is not finding some of the needed jmolApplet0*.jar files
Make sure you have all files from the Jmol zip distribution present in the
folde
Yes true. This error i found after fixing the path. is it as if it can
read the molfile?
Pino
> You need to have all the jmolApplet0*.jar files available for the page.
>
> The error I'm getting in your page is not what you mention, but this:
>File reader was not found:Mol
> which suggests th
You need to have all the jmolApplet0*.jar files available for the page.
The error I'm getting in your page is not what you mention, but this:
File reader was not found:Mol
which suggests that some of the applet files are not available
Also, the Jmol applet popup menu is not opening.
Hello Pino
On 12 Oct 2010 at 20:15, Mio_libero wrote:
> When i try to transfer the structure to Jmol, nothing happens and
> firefox gives me an error
>
> Errore: jmolLoadInlineScript is not defined
> What has gone wrong?
That sounds like you don't have Jmol.js accesible. Check your files and p
Angel, I downloaded your page "testingJME" on my website
http://singa.altervista.org/chimica/JME.htm
When i try to transfer the structure to Jmol, nothing happens and
firefox gives me an error
Errore: jmolLoadInlineScript is not defined
File sorgente: http://singa.altervista.org/chimica/JME.ht
Oh, sure --- the old Java string problem, this time with JME.
make that:
( "" + document.getElementById(jme1).jmeFile()).split("|");
with parens around the converted string
On Thu, Sep 16, 2010 at 9:28 PM, Otis Rothenberger wrote:
> Bob,
>
> > what's doing the split? Your JavaScript?
>
> I sh
Bob,
> what's doing the split? Your JavaScript?
I should have given you the JavaScript that set up that Jmol Script:
mods = document.getElementById(jme1).jmeFile().split("|");
var modA = mods[0]; var modB = mods[1];
jmolScript("mod1 = '" + modA + "';mod2 = '" + modB
On Thu, Sep 16, 2010 at 3:38 PM, Otis Rothenberger wrote:
> Bob,
>
> I'm having a Safari problem with a two model load from JME to Jmol. I
> think it's actually a JavaScript problem with the split function, and
> I'm pretty sure I can clear it up. In tracking this down, however, I
> noticed somet
Bob,
I'm having a Safari problem with a two model load from JME to Jmol. I
think it's actually a JavaScript problem with the split function, and
I'm pretty sure I can clear it up. In tracking this down, however, I
noticed something that I want to understand. Here's the Console History:
mod1
...just like they were JME files...
On Tue, Jun 29, 2010 at 5:50 PM, Robert Hanson wrote:
> Yes, and Jmol will read those mol files and convert them to 3D just like
> theyif you use
>
> load "xxx.mol" filter "2D"
>
> (although in the latest prerelease version of Jmol there could be a bug
> ther
Yes, and Jmol will read those mol files and convert them to 3D just like
theyif you use
load "xxx.mol" filter "2D"
(although in the latest prerelease version of Jmol there could be a bug
there. )
Bob
On Sun, Jun 27, 2010 at 9:03 AM, Otis Rothenberger wrote:
> Bob,
>
> This is a point of inform
> When the JME editor creates a molfile with JME.molFile(), it saves the
> same stereo information contained in the SMILES and the proprietary JME
> file. Where the JME file uses -1(up) and -2(down), the JME created
> molfile puts a 1(up) and 6(down, go figure) in the connection table's
> first
Bob,
This is a point of information that you may already know. I just
discovered it, so I'll point it out just in case it's new information to
you or other JME users.
When the JME editor creates a molfile with JME.molFile(), it saves the
same stereo information contained in the SMILES and the
Bob,
I like the no jitter approach, and I also enabled it on the model
editor. I had tried to do this on an earlier version on Jmol, and I
could not get it to work. The docs for 12.0 made it clear how to do this.
Sorry about that. The 3D to 2D thing was an attempt at humor. For our
model kit
Otis -- by the way, I made the minimization "silent" automatically, so you
won't see the jittering in the latest version of Jmol. Are you able to go 3D
to 2D? I'm not finding that
I suggest a title="..." attribute in those MM Load and MO Load options. I
have no idea what MM and MO refer to, bu
Ok, with a little help from Peter Ertl, I think I understand the JME's 4
stereo bond rotation. Maybe this was all resolved on the group exchange
previously, but I missed it if it was published.
The four stereo bond rotation will only work if it is relevant to two
attached chiral carbon atoms. F
Hi
I barely know anything about PHP, but on the javascript business I
would say that you must pass to jmolLoadInline the data, not the
PARAM tag
i.e., instead of
var mol =\';';
?>
I would say
var mol =
(I'm not sure about the quotes, but I hope you get my point)
The other point is that
> and
On Dec 19, 2006, at 8:02 PM, H. Paul Benton wrote:
>
> Something is a bit strange, I think the variable isn't getting
> set up
hi Paul,
it is tough to know without seeing more info. there could be many
reasons why the applet won't load. do you have a url that you can
post? or can you
Tim,
Something is a bit strange, I think the variable isn't getting set
up because I took out the
bit so it was:
| Structure: |
|