[Proteopedia] Surface computation &rendering (changed fromScript compiler error)

[Eran Hodis]

Hi Karl,

Ok, fixed the script. Try the green link.

Eran

On Feb 2, 2009, at 10:28 PM, Karl Oberholser wrote:

> Eran,
> The command that gives the desired effect for 'this surface' link is
> 'isosurface surface_cn "../images/b/ba/1kyo_cn.jvxl" backlit'.  The  
> position
> of the structure needs to be the same.
>
> Karl
>
>
>
>>>> Eran Hodis <eran.hodis at weizmann.ac.il> 2/2/2009 10:40 AM >>>
> Karl,
>
> Which green scene link(s) do you want to have recall this jvxl file?
>
> Eran
>
> -----Original Message-----
>> From Karl Oberholser <oberhols at messiah.edu>
> Sent Mon 2/2/2009 5:15 PM
> To Forum for the Proteopedia User Community
> <proteopedialist-for-users at bioinformatics.org>
> Subject Re: [Proteopedia] Surface computation & rendering
> (changedfromScript compiler error)
>
> I have been able to render a surface using a jvxl file.  The Jmol  
> command
> that I used was isosurface surface_cn "../images/b/ba/1kyo_cn.jvxl  
> ".  The
> file url is relative to the url of the page.  When I sent the command
> through the Jmol console, the surface appeared in one or two  
> seconds.  But
> through the green link the rendering take five minutes or more, but  
> then
> ever since last Friday it has been taking all the green links to  
> respond.
>
> Karl
>
>
>>>> Eran Hodis <eran.hodis at weizmann.ac.il> 1/30/2009 3:04 PM >>>
> Karl,
>
> Changed it so that jvxl is now a permitted file upload type.  Give  
> it a
> try.
>
> What Angel said is exactly what we've wanted to do for a while now.   
> We
> know that Proteopedia is not handling surface creation and display
> optimally, both with the  menu offered for creation and manipulation  
> of
> the
> surface in the Scene Authoring Tools, as well as with the fact that  
> the
> surfaces must be recalculated each time rather than having them  
> saved on
> the
> server for quick loading. Now seems like a good time to address the  
> these
> issues on Proteopedia.
>
> Eran
>
> -----Original Message-----
>> From Karl Oberholser <oberhols at messiah.edu>
> Sent Fri 1/30/2009 9:23 PM
> To Forum for the Proteopedia User Community
> <proteopedialist-for-users at bioinformatics.org>
> Subject Re: [Proteopedia] Script compiler error
>
> Eran and Jaim,
> If jvxl could be made to be an acceptable file type for uploading, I  
> think
> that I will be able to display a surface in PP by drawing it using a  
> jvxl
> data file, and thereby avoid the long computation time.  At least I  
> would
> like to try doing it.
>
> Karl
>
>>>> "Angel Herraez" <angel.herraez at uah.es> 1/30/2009 10:05 AM >>>
> I've managed to reach the source of the script files saved for
> scenes. Those contain the isosurface command, as expected.
> So the solution would be to implement in the SAT a way to substitute
> the isosurface generation code for an isosurface loading code, plus
> to save the isosurface to a file on the server.
> Not trivial at all!
>
>
>
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Eran Hodis
eran.hodis at weizmann.ac.il