Glad to hear that. I think it's a problem of not having the up-to-date
files. If it is working at my site it's because I have the latest fixes
there. So consider extracting the relevant .js files from
http://chemapps.stolaf.edu/jmol/Jmol-13.zip
I just realized that I had not been updating some of the JmolJSO JavaScript
library files correctly there. So that might be part of it. But they are
there now.
Bob
On Sun, Oct 7, 2012 at 3:29 PM, eric henon <eric.he...@univ-reims.fr> wrote:
> Hi Bob,
>
> It's very strange because :
>
> 1) Actually, that works (no "lag" problem any more) using your link to
> the modified jBox.html/Signed
>
> 2) One of the difference was that you use "JmolAppletSigned.jar in place
> of "true" in jmolInitialize method.
> But that is not the reason why it works now (I tested sucessfully your
> code with either true or molAppletSigned.jar)
>
> The other difference was that I put the tweak (buffering the jMolScript
> instructions)
> in the first tag : <script src=./Jmol.js" type=...> rather than putting it
> in another <script> tag.
> But the jMolScript buffering was working nevertheless.
>
> 3) Moreover, curiously, using your link works now fine with my "Lion
> Safari web Browser".
>
> Let me recall to you that I posted a mail some days ago about this
> problem, i.e.
> I got the following message "You do not have Java applets enabled in your
> web Browser..."
> when loading this jmol application within my Safari on my Lion i mac
> (there is no problem using the Safari on a Snow Leopard Mac os system ...).
>
> Thus, at present time, using
>
> a) "FireFox/Lion Mac os" on my own (local) Jmol application/Signed works
> fine (no lag, no problem of "enabling java")
> b) "Safari /Lion Mac os" on my own (local) Jmol application/Signed does
> not work : "You do not have Java applets enabled in your web Browser..."
> c) "Safari /Lion Mac os" on your (http) Jmol application/Signed does work
> ! no problem of "You do not have Java applets enabled in your web
> Browser..."
>
> Thanks Bob, for your help on the "lag" problem.
> If you have any idea concerning the other problem, thanks in advance.
>
> Have a nice evening.
> Eric
>
>
>
>
>
> Le 7 oct. 2012 à 19:38, Robert Hanson a écrit :
>
> Are you seeing the same problem at
> http://chemapps.stolaf.edu/jmol/docs/examples-12/test/jBox.html ?
>
> (enter
>
> =1crn
>
> in the input box, for instance)
>
>
> That's working fine for me.
>
> Bob
>
>
> On Sun, Oct 7, 2012 at 6:56 AM, eric henon <eric.he...@univ-reims.fr>wrote:
>
>> Robert,
>>
>> many thanks for your answer.
>> It is a very nice "tweak" to buffer jMolScript instructions like that.
>> I did it.
>>
>> Unfortunately, the "lag" problem remains when using jmolInitialize(".",
>> true); (signed Applet mode)
>> whatever using the Safari or FireFox web browser.
>>
>> Did you observe the same problem ?
>>
>> Thanks again.
>> Eric
>>
>>
>> Le 6 oct. 2012 à 22:12, Robert Hanson a écrit :
>>
>> Eric, there are a number of problems with that page. I don't know about
>> the signed/unsigned business, but first let's get this part fixed:
>>
>> // calculate the three dimensions of the box
>> jmolScript("Vx = (V1.x - V5.x)");
>> jmolScript("Vy = (V1.y - V5.y)");
>> jmolScript("Vz = (V1.z - V5.z)");
>> jmolScript("a = sqrt(Vx*Vx + Vy*Vy + Vz*Vz)");
>>
>> jmolScript("Vx = (V1.x - V3.x)");
>> jmolScript("Vy = (V1.y - V3.y)");
>> jmolScript("Vz = (V1.z - V3.z)");
>> jmolScript("b = sqrt(Vx*Vx + Vy*Vy + Vz*Vz)");
>>
>> jmolScript("Vx = (V1.x - V2.x)");
>> jmolScript("Vy = (V1.y - V2.y)");
>> jmolScript("Vz = (V1.z - V2.z)");
>> jmolScript("c = sqrt(Vx*Vx + Vy*Vy + Vz*Vz)");
>>
>>
>> // calculate the box volume
>> jmolScript("volume = a * b * c ");
>> vol=jmolEvaluate("volume%1");
>> aa =jmolEvaluate("a%1");
>> bb =jmolEvaluate("b%1");
>> cc =jmolEvaluate("c%1");
>>
>>
>> This will not work properly and is very inefficient. First, get all those
>> script calls into one string:
>>
>> "Vx = (V1.x - V5.x);Vy = (V1.y - V5.y);Vz = (V1.z - V5.z);a = sqrt(Vx*Vx
>> + Vy*Vy + Vz*Vz);Vx = (V1.x - V3.x)..."
>>
>> With that in mind, you should probably just use:
>>
>> "V1.distance(V5)"
>>
>> But the more important thing is that jmolScript is asynchronous, and
>> jmolEvaluate is not. Really what you want is this:
>>
>> a = jmolEvaluate(V1.distance(V5))
>> b = jmolEvaluate(V1.distance(V3))
>> c = jmolEvaluate(V1.distance(V2))
>> vol = a * b * c
>>
>> you can do the rounding in JavaScript.
>>
>>
>> But.... on the other hand, it will work fine with just this little tweak:
>>
>> At the top of your script tag, add this to buffer the script into Jmol:
>>
>> jmolScript0 = jmolScript;
>>
>> script = ""
>> jmolScript = function(a) {
>> // buffer these into jmol -- jmolScript() by itself clears the buffer
>> if (a) {
>> script += ";" + a;
>> } else {
>> jmolScript0(script);
>> script = "";
>> }
>> }
>>
>> then add
>>
>> jmolScript()
>>
>> just before
>>
>> vol=jmolEvaluate("volume%1");
>>
>> and just at the end of the drawBox() function.
>>
>> You should be all set.
>>
>> Really a very cool page!
>>
>> Bob
>>
>>
>>
>>
>>
>> On Fri, Oct 5, 2012 at 11:20 PM, eric henon <eric.he...@univ-reims.fr>wrote:
>>
>>> Dear all,
>>>
>>> once more I meet one
>>> problem using my jMol code (attached).
>>>
>>> When using the signed applet,
>>> the applet becomes very very slow.
>>>
>>> For example,
>>> rotating my box into the jMol windows
>>> (I built a box that I can translate, rotate, scale)
>>> takes about 3-4s for each rotation, while
>>> it is quasi-instantaneous using the unsigned applet.
>>>
>>> Thus, only adding the true parameter in the jmolInitialize
>>> method substantially influences the performance
>>> of the applet.
>>>
>>> Is it a "standard" behavior ?
>>>
>>> Thanks in advance.
>>> Best regards.
>>> Eric Henon
>>>
>>>
>>>
>>>
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> Don't let slow site performance ruin your business. Deploy New Relic APM
>>> Deploy New Relic app performance management and know exactly
>>> what is happening inside your Ruby, Python, PHP, Java, and .NET app
>>> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
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>>> _______________________________________________
>>> Jmol-developers mailing list
>>> Jmol-developers@lists.sourceforge.net
>>> https://lists.sourceforge.net/lists/listinfo/jmol-developers
>>>
>>>
>>
>>
>> --
>> Robert M. Hanson
>> Larson-Anderson Professor of Chemistry
>> Chair, Chemistry Department
>> 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
>>
>>
>>
>> ------------------------------------------------------------------------------
>> Don't let slow site performance ruin your business. Deploy New Relic APM
>> Deploy New Relic app performance management and know exactly
>> what is happening inside your Ruby, Python, PHP, Java, and .NET app
>> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
>>
>> http://p.sf.net/sfu/newrelic-dev2dev_______________________________________________
>> Jmol-developers mailing list
>> Jmol-developers@lists.sourceforge.net
>> https://lists.sourceforge.net/lists/listinfo/jmol-developers
>>
>>
>> Eric Henon
>> Professeur
>> Universite de Reims Champagne-Ardenne
>> Institut de Chimie Moleculaire de Reims
>> http://www.univ-reims.fr/ICMR
>> CNRS UMR 6229
>> UFR des Sciences Exactes et Naturelles
>> BP 1039
>> 51687 Reims Cedex 2 (France)
>> Tél./Fax : + 33 (0) 3 26 91 84 97
>> eric.he...@univ-reims.fr
>>
>>
>>
>> ------------------------------------------------------------------------------
>> Don't let slow site performance ruin your business. Deploy New Relic APM
>> Deploy New Relic app performance management and know exactly
>> what is happening inside your Ruby, Python, PHP, Java, and .NET app
>> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
>> http://p.sf.net/sfu/newrelic-dev2dev
>> _______________________________________________
>> Jmol-developers mailing list
>> Jmol-developers@lists.sourceforge.net
>> https://lists.sourceforge.net/lists/listinfo/jmol-developers
>>
>>
>
>
> --
> Robert M. Hanson
> Larson-Anderson Professor of Chemistry
> Chair, Chemistry Department
> 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
>
>
>
> ------------------------------------------------------------------------------
> Don't let slow site performance ruin your business. Deploy New Relic APM
> Deploy New Relic app performance management and know exactly
> what is happening inside your Ruby, Python, PHP, Java, and .NET app
> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
>
> http://p.sf.net/sfu/newrelic-dev2dev_______________________________________________
> Jmol-developers mailing list
> Jmol-developers@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/jmol-developers
>
>
> Eric Henon
> Professeur
> Universite de Reims Champagne-Ardenne
> Institut de Chimie Moleculaire de Reims
> http://www.univ-reims.fr/ICMR
> CNRS UMR 6229
> UFR des Sciences Exactes et Naturelles
> BP 1039
> 51687 Reims Cedex 2 (France)
> Tél./Fax : + 33 (0) 3 26 91 84 97
> eric.he...@univ-reims.fr
>
>
>
> ------------------------------------------------------------------------------
> Don't let slow site performance ruin your business. Deploy New Relic APM
> Deploy New Relic app performance management and know exactly
> what is happening inside your Ruby, Python, PHP, Java, and .NET app
> Try New Relic at no cost today and get our sweet Data Nerd shirt too!
> http://p.sf.net/sfu/newrelic-dev2dev
> _______________________________________________
> Jmol-developers mailing list
> Jmol-developers@lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/jmol-developers
>
>
--
Robert M. Hanson
Larson-Anderson Professor of Chemistry
Chair, Chemistry Department
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
------------------------------------------------------------------------------
Don't let slow site performance ruin your business. Deploy New Relic APM
Deploy New Relic app performance management and know exactly
what is happening inside your Ruby, Python, PHP, Java, and .NET app
Try New Relic at no cost today and get our sweet Data Nerd shirt too!
http://p.sf.net/sfu/newrelic-dev2dev
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