[Chimera-users] How to "Align" two atoms

[Thomas Goddard]

Hi Matt,

   Many Chimera commands are defined in

     chimera/share/Midas/__init__.py

They are sometimes a pain to call from Python.  Here is some code for 
the align command.

     Tom

from chimera import openModels, selection
m = openModels.list()[0]
sel = selection.ItemizedSelection()
sel.add(m.atoms[0:2])
from Midas import align
align(sel)



Matthew Baker wrote:
> I'm writing a module.  I've created a model and added it to the open 
> models.  How can I reproduce the command-line function
> 
>     align #1:1 #1:2
> 
> The variable names for my two atoms are newModel.atoms[0] and 
> newModel.atoms[1].
> 
> Thanks,
> Matt
>