Dear Bob,
Many thanks for your reply! I will try immediately and I will let you knows s
soon as possible.
Yes, I am trying it locally, with Firefox on a CentOS Linux 6.5 driven virtual
machine, since this is the operating system that is used on my University cloud
to host small servers, so I had no choice... ;).
Before posting I made several trials and as far as I can remember I also tried
to use the whole, complete, URL address, but I will try again following your
advice. I started by inspecting the code of a page of Angel, since this seemed
performing the visualization I needed to reproduce and I found that he applied
the declaration of the Info variable in the <head> before using the getApplet
command in the body section. The problem arises in a very simple page where the
simple JSME and JSMol are introduced, just to let the user to draw a molecule
and transfer it into JSMol. To inspect the problem nature I eliminated all code
that was not directly interesting for this basic duty.
My basic idea was to insert in a mySQL DB (using MolDB5r from Prof. Harder,
Wien University, Austria) several molecules with some descriptor, like IUPAC
name to make available to my students (and external students, when properly
working and the DB will be sufficiently populated...) some kind of problems to
make their practice. I tried to use JSMol to help students in the assign
correctly the chirality and while more or less the code is just the same, apart
from JSMol part of the code, this should (and really works!) properly.
As a matter of fact, I have already found some difference when using typical
HTML code introduced in Joomla. As an example, when using a <button......> tag
you will not be able to pass any variable by POST to the same page by reloading
it... The result is that when one clicks on the button the page is immediately
reloaded without "real" interaction with the user request. By using the older
tag <input type="button" ....> things work as one would expect. By this, I
would imagine that also something in the code of the CMS could also interacting
with the user introduced code. I would also try different extension of Joomla
to work directly with code into articles. Maybe this could also be related to
those extension programming, being not able to parse correctly but I am quite
sceptic about it. The extensions, normally, work well or do not work at all.
Sorry of the long post.... When working properly I will be glad to let you and
the community informed about tips & tricks, skills and so on... ...related to
the use of JSME and JSMol in a CMS like Joomla and let available the code I
used (not so great thing, but for newbies it could help to solve problems and
to get new ideas, like your code helped me).
Many thanks again!
Best regards,
Pierluigi Quagliotto
Inviato da iPad
> Il giorno 14/mar/2014, alle ore 00:01, Robert Hanson <[email protected]> ha
> scritto:
>
> Pierluigi,
>
> Welcome!
>
> That message indicates that your installation is missing critical files.
> Perhaps they are on a different server; perhaps they were omitted. If your
> script tag, for example, reads:
>
> <script src="http://verdi.unito.it/jsmol/JSmol.min.js";></script>
>
> then you need to make sure that the Info array passed in the getApplet
> command also points that for j2s:
>
> Info = {
> ...
> j2s: "http://verdi.unito.it/jsmol/j2s";,
> ...
> }
>
> because the default location for all the system files is "./j2s" in the
> directory of your page.
>
> That's probably all you need to do.
>
> A tip: Best to test in Firefox and not MSIE or Chrome first, particularly if
> you are testing locally (which it does not sound like you are doing).
>
> Bob Hanson
>
>
>
>> On Thu, Mar 13, 2014 at 5:00 PM, <[email protected]> wrote:
>> Dear Bob and dear all,
>>
>> I am trying to set-up a server to help my students to learn organic
>> chemistry and, due to this, I tried to use a CMS (Joomla, 2.5.17
>> version, stable, for long term production). The site should be available
>> in a few days, when IT services of my University (University of Torino,
>> Italy) will finish some work about hosting it.
>>
>> I use JSME and JSMOl, at a very basic level... I am a newbie about
>> them. However, I prepared some pages starting by looking at the code of
>> some JSME/JSMOL examples and they can work fine if used as stand-alone
>> pages, i.e also by wrapping them into an "article" in Joomla. The
>> problem arises when I try to use this code into a Joomla "article".
>> Obviously I have to separate code to inject it properly into <head>
>> section and this work fine for JSME, no problem about it. On the
>> contrary, JSMOL start its set-up but it stuck leaving those messages:
>>
>>
>> mol._Canvas2D (Jmol) "myJSmol"[x]
>> loading... j2s/core/package.js
>> loading... j2s/core/package.js -- required by w3c script failed
>>
>> It seems that the program can see correctly the location of the
>> JSmol.min.js sinc eit starts to initialize itself but something went
>> wrong while loading package.js
>> Since the same code works well when used in a stand-alone php file, the
>> location of JSMol dir and subdir should be properly recognized.
>>
>> do you have any suggestion? I can post some code if requested.
>>
>> Since I have never found in the web something talking about the use of
>> JSME/JSMOL into the Joomla CMS, I would take the opportunity of the
>> Bob's request for a review into the sourceforge site to write something
>> and cite also this opportunitty to use JSMOL into the Joomla CMS
>> container, obviously when I will get it working... ;)
>>
>> Sorry to bother you,
>>
>> Best regards,
>>
>> Pierluigi Quagliotto
>>
>> ------------------------------------------------------------------------------
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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
>
> ------------------------------------------------------------------------------
> Learn Graph Databases - Download FREE O'Reilly Book
> "Graph Databases" is the definitive new guide to graph databases and their
> applications. Written by three acclaimed leaders in the field,
> this first edition is now available. Download your free book today!
> http://p.sf.net/sfu/13534_NeoTech
> _______________________________________________
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------------------------------------------------------------------------------
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"Graph Databases" is the definitive new guide to graph databases and their
applications. Written by three acclaimed leaders in the field,
this first edition is now available. Download your free book today!
http://p.sf.net/sfu/13534_NeoTech
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