[Chimera-users] Copying volume settings to a second data set

Thomas Goddard goddard at cgl.ucsf.edu
Fri Feb 2 11:05:31 PST 2007

Hi Jeff,

  There is no capability to copy settings (thresholds, colors, 
brightness, display style, rendering options) that are specific to each 
volume data set to another data set.  That would be useful and I'll add 
it to the feature request list.

  Here are some hacks to achieve this.  I don't think they are worth the 
trouble to use but you can decide.  If you save a Chimera session with a 
volume having settings you want to reuse you can edit the session file 
changing the line:

       'path': 'F:\\cygwin\\home\\Tom\\work\\volume\\emd\\emd_1282.map',


       'path': 'F:\\cygwin\\home\\Tom\\work\\volume\\emd\\XXX.map',

Then when you reopen that session Chimera will say it cannot find the 
map file and ask you to select a new map file with a file open dialog.  
You can choose some other map.  The settings from the original map will 
then be applied to this newly opened map.  Another hack is to use the 
Volume Series tool available on the experimental features web page:


You can open your maps that you want to use the same settings for as a 
"volume series".  That tool copies settings when you use it to flip 
between volume in a series.  It can even adjust thresholds so they have 
the same rank position on the histogram (e.g. greater than 94% of voxel 


Jeff wrote:
> thanks Tom,
> is there a way to save the thresholds (and color settings) in the 
> volume viewer, so that when I close a map and reopen a 
> similar/filtered one, I don't have to re-do all the settings 
> (brightness and transparency too, for instance)
> i realize the histrogram changes for each map, but even if it saved 
> how many control points (and their colors) were there, that would 
> work. is there a 'save volume viewer state' button? I could not find one.
> -Jeff

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