Bob,
Thanks for the clarification.
But, for Jmol features to work on the client machine, it must have Java
installed. Am I right? Jmol2.js does not completely do away with Java.
But, JSmol is a completely stand-alone application, albeit with less
functionality.
How does Jmol2.js improve JSmol? Please explain.
Amjad
On Tue, Sep 24, 2013 at 12:11 PM, Grossman, Robert B <
[email protected]> wrote:
> Amjad,
>
> I have switched from Jmol Java applet to JSmol. It was very easy.
>
> (1) After downloading JSmol into a folder called jsmol, I put a symlink
> to it in a folder in my application, called /nosession.
>
> (2) I changed every instance of
> <script src="/nosession/jsmol/Jmol.js" type="text/javascript"></script>
>
> in my application to
>
> <script src="/nosession/jsmol/JSmol.min.js"
> type="text/javascript"></script>
> <script src="/nosession/jsmol/Jmol2.js"
> type="text/javascript"></script>
>
> The order of these two resources was important.
>
> (3) In Jmol2.js, I changed
>
> Jmol.Info = {
>
> jarPath: "java",
> jarFile: "",
> j2sPath: "j2s",
>
> to
>
> Jmol.Info = {
>
> jarPath: "/nosession/jsmol/java",
> jarFile: "",
> j2sPath: "/nosession/jsmol/j2s",
>
> That's all it took. The only problem I encountered was that one of the
> Jmol methods I was using, jmolLoadInline(), we not yet implemented in
> Jmol2.js. Bob Hanson kindly provided me with a fresh version of Jmol2.js
> that had the method.
>
> -- Bob G.
>
> From: Amjad Farooq <[email protected]>
> Reply-To: <[email protected]>
> Date: Tue, 24 Sep 2013 10:26:34 -0400
> To: <[email protected]>
> Subject: Re: [Jmol-users] difficulties encountered in switching to JSmol
> -- part deux
>
> Hi Robert,
>
> I am utterly confused now. What is this Jmol2.js? Are you saying that
> using this file one can run Jmol on the client machine even if it does not
> have a Java installed? In other words, Jmol2.js runs Java from the server
> side? Is that correct?
>
> Can someone please elaborate on this point. I recently switched to JSmol
> simply because many of my collaborators complained about my Jmol interface
> not running on their machines due to Java issues. Now, if Jmol2.js can
> eliminate the need for client to have a fully functional Java, then why do
> I need to to switch to JSmol?
>
> I am lost on this.
>
> Amjad
>
> *AMJAD FAROOQ PhD DIC | Associate Professor
> Dept of Biochemistry & Molecular Biology | Miller School of Medicine |
> University of Miami | Miami | FL 33136
> Located @ Gautier Building #217 | Mail @ 1011 NW 15th Street #217, Miami ,
> FL 33136
> [email protected] | off 305-243-2429 | lab 305-243-9799 | fax
> 305-243-3955 | www.farooqlab.net*
>
>
>
>
>
> On Tue, Sep 24, 2013 at 9:49 AM, Grossman, Robert B <
> [email protected]> wrote:
>
>> I downloaded the new Jmol2.js file you gave me, and it works great!
>> Thanks.
>>
>> So with this new JSmol, all the Java is now running server-side, is
>> that correct? I no longer have to worry about whether the user's Java is
>> enabled?
>>
>> From: Robert Hanson <[email protected]>
>> Reply-To: <[email protected]>
>> Date: Mon, 23 Sep 2013 22:18:28 -0500
>> To: "[email protected]" <[email protected]>
>> Subject: Re: [Jmol-users] difficulties encountered in switching to JSmol
>> -- part deux
>>
>> There may be a few differences like that. For now, just use
>>
>> Jmol.script(yourAppid, 'load DATA "mydata"\n' + yourInlineData + '\nEND
>> "mydata" ')
>>
>> or give this one a try:
>>
>> http://chemapps.stolaf.edu/jmol/jsmol/js/Jmol2.js
>>
>>
>>
>>
>> On Mon, Sep 23, 2013 at 3:15 PM, Grossman, Robert B <
>> [email protected]> wrote:
>>
>>> OK, I read a little further down in the Wiki and saw that I could
>>> accomplish the switch another way: leave the calls to jmolApplet(), etc.
>>> alone and instead use both JSmol.min.js and Jmol2.js as resources. So I
>>> did so, and I also added a symlink to the jsmol/j2s folder in the same
>>> folder as the page that calls the "applet". So now JSmol loads, but I get
>>> this alert:
>>>
>>> jmolLoadInline not implemented
>>>
>>> So, any chance of this method being implemented in the near future?
>>> Or maybe it has already been implemented in a more recent version? I'm
>>> using jsmol-13.3.4. (BTW, I tried to download JSmol 13.3.5 from
>>> SourceForge, but decompression failed. Instead I downloaded one of the
>>> 13.3.4 versions.)
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> October Webinars: Code for Performance
>>> Free Intel webinars can help you accelerate application performance.
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>>> _______________________________________________
>>> Jmol-users mailing list
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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
>>
>>
>> ------------------------------------------------------------------------------
>> October Webinars: Code for Performance Free Intel webinars can help you
>> accelerate application performance. Explore tips for MPI, OpenMP, advanced
>> profiling, and more. Get the most from the latest Intel processors and
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>> mailing list
>> [email protected]
>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>
>>
>> ------------------------------------------------------------------------------
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>> Free Intel webinars can help you accelerate application performance.
>> Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most
>> from
>> the latest Intel processors and coprocessors. See abstracts and register >
>>
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>> _______________________________________________
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>>
>>
>
> ------------------------------------------------------------------------------
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> accelerate application performance. Explore tips for MPI, OpenMP, advanced
> profiling, and more. Get the most from the latest Intel processors and
> coprocessors. See abstracts and register >
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> mailing list
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>
>
> ------------------------------------------------------------------------------
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> Free Intel webinars can help you accelerate application performance.
> Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most
> from
> the latest Intel processors and coprocessors. See abstracts and register >
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> _______________________________________________
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>
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Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from
the latest Intel processors and coprocessors. See abstracts and register >
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