[Chimera-users] Output of volume rotation angles and shifts in Chimera

Tom Goddard goddard at cgl.ucsf.edu
Tue Nov 13 11:30:43 PST 2007

Hi Duncan,

  Chimera uses a 3 by 3 rotation matrix and a shift vector to describe 
the position of the models.  You can use the matrixget Chimera command 
to output those matrices for each model to a file.

  There isn't currently a command to show rotation angle / axis / shift 
although the Fit Map in Map tool (Tools / Volume Data / Fit Map in Map) 
reports this information in the Reply Log.  If you are not using that 
fitting optimization code you could call its Python routine to print the 
rotation angle / axis / shift information using the attached Python 
script.  The attached script assumes there are only two models currently 
open in Chimera.  I tested it with Chimera version 1.2468.


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