so where is this message appearing?
-
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No -- not when it is run in the script box. That is all I see, but I see it for each link.PhilOn Aug 18, 2006, at 9:22 PM, Bob Hanson wrote:Philip Bays wrote: I get it when I use any one of them, pasted into the script window.java.net.MalformedURLException: no protocol: Phil, is there anything AF
Philip Bays wrote:
> I get it when I use any one of them, pasted into the script window.
>
> java.net.MalformedURLException: no protocol:
>
Phil, is there anything AFTER that -- like a location? more lines? more
detail?
> Phil
>
> On Aug 18, 2006, at 7:47 PM, Bob Hanson wrote:
>
>> OK, we're clo
Frieda, what sort of surfaces are you particularly interested in displaying?
Bob
Frieda Reichsman wrote:
> Hi All,
>
> I am interested in fast rendering of surfaces for large molecules. It
> seems that Bob Hanson has invented a file format for this purpose,
> called JVXL. I have seem Angel Her
I get it when I use any one of them, pasted into the script window. java.net.MalformedURLException: no protocol: PhilOn Aug 18, 2006, at 7:47 PM, Bob Hanson wrote:OK, we're closing in.1: Do you get this when you usejs:document.getElementById("jmolAppletX").getAppletInfo()or only when you usejs:docu
Believe it or not, we are almost there. This is very good news.
Frieda Reichsman wrote:
>
>> ---
>> Test 4: How can we address the applet?
>> ---
>>
>> js:document.jmolAppletX
>>
>>> js:document.getElementById("jmolAp
David Leader wrote:
>An interesting difference between FF and Safari in this regard. If
>you choose "View Source" on FF you get the source, on Safari you get
>blank. Likewise if you try to save the page on Safari it says it
>can't. How are you generating the pop-ups, Bob?
>
>
Surely this is t
OK, we're closing in.
1: Do you get this when you use
js:document.getElementById("jmolAppletX").getAppletInfo()
or only when you use
js:document.getElementById("jmolAppletX").script("background red")
or only when you use
js:document.getElementById("jmolAppletX").script("load caffeine.xyz")
b
Bob:This is the message I get in the _javascript_ console when I use the links on the popup.PhilError - java.net.MalformedURLException: no protocol: http://www.stolaf.edu/academics/chemapps/jmol/docs/popupscript.jsOn Aug 18, 2006, at 2:04 AM, Bob Hanson wrote:Frieda, or anyone else with this Mac pr
Cube files are produced by Gaussian. You can also use Spartan files http://www.stolaf.edu/academics/chemapps/jmol/docs/examples-11/isosurface.htmTo create a JVXL file, load a cube/smol etc. file, set Java Console Log level: to 5 and display the surface you require. Look in Console log for the outpu
Frieda,
I realize that this all has been a moving target, and there is no clear
statement yet of the preferred way to get a JVXL description.
Solvent surfaces
load 1crn.pdb
isosurface solvent # for example -- takes some time
show isosurface
The isosurface file is written out.
Hi Frieda,
While Bob is crossing the ocean: As I understood it, JVXL files can be
generated from any surface displayed by Jmol.
The JVXL lines are written to the Java console (if your browser has
one..Mine at home hasn't, so I can't test what I'm writing here).
The source of the surface coul
An interesting difference between FF and Safari in this regard. If
you choose "View Source" on FF you get the source, on Safari you get
blank. Likewise if you try to save the page on Safari it says it
can't. How are you generating the pop-ups, Bob?
Oh, and Opera refuses to show the source eithe
I did the same tests as Frieda did on Safari with the same results,
but also on FireFox. For interest I'm giving the FF replies as well
>
> > ---
>> Test 2: Does my test work at all?
>> ---
>>
> > js: 1+2
>I do ge
Hi All,I am interested in fast rendering of surfaces for large molecules. It seems that Bob Hanson has invented a file format for this purpose, called JVXL. I have seem Angel Herraez's and Bob's test pages for surfaces, but I am still puzzled as to how to get started in doing this.To create a JVXL
On Aug 17, 2006, at 10:54 AM, Jane Orbuch wrote:HI,I am a high school science teacher, who has used chime in past with her students for molecular modeling. I am moving from OS9 on Macs to OSX and need a substitute for chime and was hoping Jmol would work, but I can't seem to install it? I dow
On Aug 18, 2006, at 2:04 AM, Bob Hanson wrote:Frieda, or anyone else with this Mac problem:If you are willing, we can test this on your machine. I've added a little feature to that page that lets us test your browser.1) go to http://www.stolaf.edu/academics/chemapps/jmol/docs2) pop up the "atom exp
Bob:I cannot get that page to load at all. My brief observations yesterday using Safari, Firefox, and Shiira were that the blue links on the docs page worked, but the green ones did not. That is, the structure would load but the buttons/links associated with adding surfaces, etc. did not. I di
Jane Orbuch wrote:
>HI,
>
>I am a high school science teacher, who has used chime in past with
>her students for molecular modeling. I am moving from OS9 on Macs to
>OSX and need a substitute for chime and was hoping Jmol would work,
>but I can't seem to install it? I downloaded the softwa
Bob,
I'm testing the jmol-11.0 beta version,
and am again having problems with viewer.scriptWait().
(It hangs my app).
I don't think that the new scriptQueue functions, as descibed in your
docs,
allow the behaviour I want.
I need to call viewer.scriptWait("load molecule.xyz") in my java code,
the
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