[Chimera-users] [BUG report] in list atoms sel command

Elaine Meng meng at cgl.ucsf.edu
Thu Mar 10 15:42:10 PST 2016


Hi Michał,
It sounds like you want the “writesel” command instead.  For example, the following would write a list of the selected atoms to the Reply Log.

writesel  -  itemType atom

Details:
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/writesel.html>

The command “list atoms” is to report the attribute values of atoms, for example the bfactors of the selected atoms with command:

list atoms spec sel attribute bfactor

That also puts the information in the Reply Log.
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/listen.html#listatoms>

I should probably add a crossreference from the “list” manpage to the “writesel” manpage.
I hope this helps,
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 Mar 10, 2016, at 6:28 AM, Michał Kadlof <m.kadlof at cent.uw.edu.pl> wrote:
> 
> 
> Hello,
> 
> I noticed this behaviour:
> 1. Selecting some atoms with mouse
> 2. Command:
> 
> list atoms sel
> 
> It gives me output: No value provided for keyword 'sel'
> 
> Is it how it is supposed to work? How can I get list of manually selected atoms?
> 
> --
> Michał




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