On Thu, Jun 20, 2013 at 10:59 AM, Frieda Reichsman <[email protected]>wrote:
> Thanks for bringing this up, Bob. I'm actually very eager to switch to
> JSmol, but I felt I didn't have time to figure out how to use JSmol for my
> latest figure, which involves 5 applets and uses the sync command. I just
> wasn't 100% sure that everything I needed would be supported, and also I
> didn't want to mess with my template page for figures. Also, in general, I
> was not sure whether JSmol would spin large proteins smoothly.
>
>
Well, if you want it to be Java, you just say so, and it will be just like
you are using now. The point is that IF you wanted to use HTML5, then you
would just change one flag from use:"Java" to use:"HTML5" and you are there.
> However I just went to your test page to check it out and it seems like
> the rotation on 1hbo (hemoglobin) is pretty good.
>
> BTW, the mep isosurface command on that page locks up the page and Firefox
> gave me the following error message:
>
> A script on this page may be busy, or it may have stopped responding. You
> can stop the script now, or you can continue to see if the script will
> complete.
> Script: http://chemapps.stolaf.edu/jmol/jsmol/j2s/core/core.z.js:650
>
>
> can happen, particularly with slower iPads. I highly recommend JVXL for
delivering surfaces instead of calculating the surface on the fly --
particularly MOLECULAR surfaces.
> I have another figure coming up, possibly with multiple applets. I'll give
> JSmol a try.
>
I would certainly love it if you tried. I can help privately if necessary.
>
> Any links to pages with tips about how to switch over would be very
> appreciated.
>
Mostly it's just using and Info {} array instead of all the separate setup
commands and parameters, then using Jmol.xxxx(jmolApplet0,...) instead of
jmolXxxx(.....,"0")
> Thanks again for your amazing work, Bob.
>
>
>
> On Jun 20, 2013, at 11:32 AM, Robert Hanson wrote:
>
> I have uploaded a new http://chemapps.stolaf.edu/jmol/jsmol.zip
>
> Frieda, I was thinking. You said, "I'm not using JavaScript." And that is
> fine, but the real reason to use JSmol is not necessarily because you want
> an iPad-viewable model. The reason is that we have stopped developing with
> Jmol.js, and the JSmol "JavaScript Object" option is much better, even for
> Java, just in terms of how it fits into web pages and how you put together
> applets on the page. Not that you can't keep using Jmol.js....
>
> Bob
>
>
>
>
> On Thu, Jun 20, 2013 at 10:28 AM, Frieda Reichsman <[email protected]>wrote:
>
>> Thanks Angel, I had cleared browser cache and updated Java as well as
>> restarting my machine. I had no idea that the Java cache was resistant to
>> all of that... in fact, clearing the Java cache and browser cache again
>> were necessary, and finally I can see my page in action. Whew!
>>
>>
>> On Jun 20, 2013, at 11:14 AM, Angel Herráez wrote:
>>
>> > Dear Frieda
>> >
>> > My first guess is that your browser's JVM is caching the old applet.
>> > Try cleaning the Java cache.
>> >
>> > I just accessed your page
>> > http://moleculesinmotion.com/BJ-2013-0316/figure4.htm
>> > and the popup says 13.1.16_a and the interface is in Spanish (as it
>> > should for me)
>> >
>> > WinXP, Firefox 21.0
>> > Oracle Java 1.7.0_21
>> >
>> >
>> >
>> >
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>
>
>
> --
> Robert M. Hanson
> Larson-Anderson 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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--
Robert M. Hanson
Larson-Anderson 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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