[chimera-dev] Getting distance values from runCommand

[Alex Voronov]

Hi Tom,

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?

Thanks!

Alex


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.
>
>         Tom
>
>
>
> 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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