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jmol Applet failure in any distro.

asked 2013-01-25 23:51:47 -0500

anonymous user


I'm trying to run any animation example in the help/tutorial of SAGE and no matter if I run it in VirtualBox or in my Fedora, I get the same error: jmoal Applet #0 is having trouble loading. Will retry once. (and fail again).

I have updated in linux for Java 7 64bits and in Winblows too, the Java runs without problems but I still got the same error.

I have noticed a similar question here and in other forums and no one was able to run jmol (no matter if the Java 7 update x in 32/64 bits).

I really need the animation feature working. I hope someone here have figured out how to SOLVE the problem. I'm trying it hard for days and if I find the solution I'll make it public here.

Thank you for your time.

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Don't recall any examples in the tutorial about animations using jmol. Any links to where the code is? Are you using the notebook interface or the terminal?

fidbc gravatar imagefidbc ( 2013-01-26 00:51:34 -0500 )edit

I'm using the first example of the Sage tutorial on Plotting 3D functions. It renders any plot but when you click 'animate' it starts to load jmol and it says the above message error. I'm sure that it is a problem/bug because I've downloaded the ISO image and the .ova image (for virtualbox) , so, it's not a problem in my Windows or Linux system. It started from the version 5.5. Please, try to animate any 3D plot in the version 5.5 and above, including live cd, virtual image, anything. Thank you.

Luiz Roberto Meier gravatar imageLuiz Roberto Meier ( 2013-01-26 16:05:10 -0500 )edit

So, this is the example I tried: sage: x, y = var('x,y') sage: plot3d(x^2 + y^2, (x,-2,2), (y,-2,2)) I don't get any error messages, not even when enabling or disabling spinning (I guess this is what you mean by 'animate'?). I tried this on v5.5 and 5.6. Perhaps some more details would help debug the issue?

fidbc gravatar imagefidbc ( 2013-01-26 16:52:22 -0500 )edit

Well. I figured out WHEN it fails (and yes, I'm talking about spinning or 'make interative') as 'animate'. The problem I found is that when I click inside the help (tutorial) to evaluate, I can see a static plot. When I click to spinning it I got the failure message. No matter the hardware, distro, version of it (5.5 and above). So, I created a simple notebook with the above example and it worked fine. Maybe there is some initilization command in the help files that don't works anymore? In short: inside the help/tutor the above plot don't spin/animate while inside some notebook it works fine. Any idea? Thank you.

Luiz Roberto Meier gravatar imageLuiz Roberto Meier ( 2013-01-30 01:52:29 -0500 )edit

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answered 2013-11-09 13:31:07 -0500

Luiz Roberto Meier gravatar image

Using SAGE 5.12 , jmol applet will runs only in the same window where the notebook was opened. When the pop-up for the help/tutorials is used jmol applet fails to load.

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Asked: 2013-01-25 23:51:47 -0500

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Last updated: Nov 09 '13