[Chimera-users] Selection Mode via command line?

Elaine Meng meng at cgl.ucsf.edu
Fri Oct 31 12:42:55 PDT 2014


Hi Korbin,
Actually there isn’t a way to change the mode with a command.  Generally you can still select what you want without changing the mode, because in command-line atomspecs, “&” (ampersand) is for intersection and “|” (vertical bar) is for union.  I can see that it might be less convenient if you have lots of sets of atoms to combine, however.  Example:

select ligand | :25-28

… would select both ligand and residues 25-28.  Often in commands you don’t bother going through selection because you can specify the target atoms directly, for example:

color red,a  ligand | :25-28

<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/frameatom_spec.html>
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/atom_spec.html#combinations>

I don’t know if this would help, but you can show an icon for easy mode-switching using menu: Select… Selection Mode… Show mode icon.  This icon appears next to the lightning-bolt icon for Rapid Access, and it both shows which mode you are in and allows toggling amongst the modes.

Best,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Oct 31, 2014, at 11:56 AM, Korbin West <khwest16 at wabash.edu> wrote:

> Hi,
> I was wondering if there was a way to switch selection modes via the command line. I've been looking through the select command page on the user guide and can't figure a way to change the mode this way. Can anyone give me a tip?
> Thanks so much,
> Korbin West
> 
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