[chimera-dev] Getting distance values from runCommand
alexey.voronov at gmail.com
Sat Nov 15 04:17:49 PST 2014
Thanks a lot for your reply!
I actually need to use both... I use 'distance' to measure the distance
between two points representing centers of mass. And I use 'measure
distance' to measure the distance between an atom and a molecule. (I also
use 'measure center ... mark true' to get the points of centers of mass,
but I do not necessarily need the result in Python).
Thanks for the Python command for 'distance'! Could you also point me to
the command for 'measure distance'? Is there a way to find Python
alternatives for an arbitrary Chimera commands?
On 14 November 2014 02:40, Tom Goddard <goddard at sonic.net> wrote:
> Sure here is the distance between two atoms.
> import Midas
> d = Midas.distance('#1:395.A at CA #0:29.F at CA’)
> I don’t know what you are doing since “distance #1 #2” won’t work unless
> each of those models is only one atom. And of course “measure distance” is
> a different command and has a different Python call to access it. Please
> be specific about what you need. I don’t want to guess all the different
> possibilities of what you are trying to measure the distance between.
> On Nov 12, 2014, at 12:41 PM, Alex Voronov wrote:
> > Hi,
> > I'm measuring distance between two points. The measurement goes well and
> I get a correct value in the viewport. I would like to get the same value
> into a Python variable. Is it possible?
> > I'm thinking about a code like this:
> > d = chimera.runCommand('distance #1 #2')
> > However, it seems to be impossible to get any value from runCommand, I
> always get None...
> > Even parsing the log that appears in IDLE from commands 'distance #1 #2'
> or 'measure distance #1 #2' would sort-of work, but I don't know how to
> capture the log either...
> > Is there a way to get values into variables from 'measure distance'?
> > Thank you!
> > Alex
> > _______________________________________________
> > Chimera-dev mailing list
> > Chimera-dev at cgl.ucsf.edu
> > http://www.rbvi.ucsf.edu/mailman/listinfo/chimera-dev
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