Many thanks for all of your guidance Bob -- I've taken your advice about
switching over to Jmol.js and jmolApplet() / jmolScript() ... as you say, I
expect it will save me even more trouble in the future! I've only been
working at this for ~ a week, so I've got a great deal of learning to do
(and making mistakes is a very good way of doing that....)
Cheers,
Tom
On Wed, Mar 26, 2008 at 4:25 PM, Bob Hanson <[EMAIL PROTECTED]> wrote:
> Thomas Stout wrote:
>
> >
> > Ah ha! -- Lots of good information and suggestions there - thank you
> > very much!
> > One of those was exactly the problem: it turns out that naming the
> > script "load.script" OR load_script was problematic. Renaming to
> > either "load_script.txt" or "foo" works as expected! As you suggest,
> > I suspect there is some confusion arising from naming the file so
> > similarly to an actual jmol command. Somehow it seemed to be parsing
> > through that file looking for coordinate files to "load" and that's
> > all it did....but it didn't throw an error about all the extraneous
> stuff!
> >
> > BTW, I've not been enclosing script names in quotes because it breaks
> > my HTML (at least on Linux/Firefox). The HTML command looks like:
> > <a href="javascript:document.jmol.script('script foo;');">Load
> > script</a><br>
> >
> Sure, that makes sense. There's a reason we suggest using quotation
> marks, although I'm surprised load_script did not work. Actually -- it
> did -- the debug report you sent in the last email did show that the
> load_script file was being read. Only "load.script" (without the
> quotation marks) would cause the problem.
>
> In any case, that's a classic problem. You can't escape quotes using \"
> in an HTML tag, and here you would need three sets, because you have to
> have them for the Jmol command, the JavaScript command, and the HTML tag.
>
> Two comments:
>
> javascript:document.jmol.script('....')
>
> is very odd. I think it indicates you are not using Jmol.js. If that's
> the case, I recommend you read up on why we recommend use of Jmol.js.
> Mostly it makes life easy and provides automatic cross-browser support.
> My guess is that with some browsers, for instance, "document.jmol" does
> not work. So to save yourself more grief, use
>
> <script type="text/javascript" src="Jmol.js"></script>
>
> and then just create the applet using
>
> jmolApplet(....)
>
> and script it using
>
> jmolScript(....)
>
> This doesn't relate to the quotation marks problem, but it does point
> you in the right direction for success, I think.
>
> Second:
>
> If changing the filename works, fine, but in general I recommend using
> Jmol.js and
>
> jmolLink(...)
>
> if you want to add an HTML link. That command creates the link but
> doesn't have the quotation issue, because it stores the command in an
> array and then calls a function that accesses that value and calls
> jmolScript() with it. It also adds some nice CSS around the link so you
> can control mouse-based movement around the link.
>
> Good luck!
>
> Bob
>
>
> --
> Robert M. Hanson
> Professor of Chemistry
> St. Olaf College
> Northfield, MN
> http://www.stolaf.edu/people/hansonr
>
>
> If nature does not answer first what we want,
> it is better to take what answer we get.
>
> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
>
>
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