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

[Karl Oberholser]

Eran,
At this point in time 'this surface' is the only one; it is the first one,
other than the opening scene, of the second applet.  Before you doing
anything at your end, I need to change the setting for lighting the surface
as part of the command.  As often happens when using the jvxl file to render
the surface the settings for the lighting of the surface are not the default
settings.  I will let you know when I get that done.  Our spring semester
started today, and I am not sure when I will have time to get that done.
 
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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