[Chimera-users] Fade in/out a surface for movie making

Thomas Goddard goddard at cgl.ucsf.edu
Thu Jun 18 11:28:08 PDT 2009

Hi Richard,

   Just yesterday I made the surftransparency command take an optional 
"frames" argument so you can fade in or out a surface over a specified 
number of frames.  This may be of use to you.  Before we would sometimes 
use twenty surftransp commands in a row in a script to gradually change 
the transparency.  Now a command like

	surft 100 #2 50

will fade out surface model #2 to full (100%) transparency over 50 
frames.  To use that you'll need to get a Chimera 1.4 daily build.


Good luck with movie making.  We're trying to make this easier in 
Chimera but have a long ways to go.


Tom Goddard wrote:
> Hi Richard,
>   There is no command equivalent of the multiscale dialog, and other 
> other Chimera commands don't know anything about the multiscale surfaces 
> (none can even change the color or transparency as far as I know).
>   Maybe the way to go is to not use multiscale, and instead make a PDB 
> file with all the molecule copies (can use multiscale to do that) then 
> use the "molmap" command to create surfaces for the desired chains, and 
> the "volume" command to change colors, and other commands to show/hide 
> ribbons and surfaces as needed.  This approach should work for a 
> tetramer, but if you have a virus with 60-fold icosahedral it will be 
> unwieldy because every chain will need separate molmap commands to 
> create the surfaces.
>     http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/molmap.html
>     http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/volume.html
>   If that isn't practical it is possible to use Python code to do the 
> things the Multiscale dialog does.
>     Tom
> -------- Original Message --------
> Subject: [Chimera-users] controling multiscale models from command script
> From: Marhoefer, R (Richard)
> To: chimera-users at cgl.ucsf.edu
> Date: 6/15/09 8:40 AM
>> Dear Chimera Users,
>> for the production of a movie file I like to control some attributes of a multiscale model e.g. the style and the surface transparency through a Chimera command file. Unfortunately I couldn't find many commands allowing to do so in the documentation. How could that be done?
>> Kind regards,
>> Richard
>> Dr. Richard Marhoefer
>> Senior Scientist BioChemInformatics
>> Intervet Innovation GmbH
>> Zur Propstei
>> 55270 Schwabenheim, Germany
>> E-Mail:   	richard.marhoefer at sp.intervet.com
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