[chimera-dev] python equivalent for Axis

[Dr. Jean-Didier Maréchal]

Dear all,

Sorry to bother you again with a similar kind of question, but I'd like my
script to stock in an array the three resulting vectors of the new
implemented calculation of the axes for a given set of selected atoms. The
truth is that I find the right python call for the axis function. I imported
StructMeasure and tried different ways around but I can't find my way
through. I don't know if I don't give the wrong arguments or have the wrong
syntaxes.

Thanks a lot for any help,

JD


-----Mensaje original-----
De: chimera-dev-bounces at cgl.ucsf.edu
[mailto:chimera-dev-bounces at cgl.ucsf.edu] En nombre de
chimera-dev-request at cgl.ucsf.edu
Enviado el: jueves, 06 de noviembre de 2008 21:00
Para: chimera-dev at cgl.ucsf.edu
Asunto: Chimera-dev Digest, Vol 58, Issue 2

Send Chimera-dev mailing list submissions to
	chimera-dev at cgl.ucsf.edu

To subscribe or unsubscribe via the World Wide Web, visit
	http://www.cgl.ucsf.edu/mailman/listinfo/chimera-dev
or, via email, send a message with subject or body 'help' to
	chimera-dev-request at cgl.ucsf.edu

You can reach the person managing the list at
	chimera-dev-owner at cgl.ucsf.edu

When replying, please edit your Subject line so it is more specific
than "Re: Contents of Chimera-dev digest..."


Today's Topics:

   1. atom spec. in BNF (David A. C. Beck)
   2. Re: atom spec. in BNF (Eric Pettersen)


----------------------------------------------------------------------

Message: 1
Date: Wed, 5 Nov 2008 14:03:02 -0800 (PST)
From: "David A. C. Beck" <dacb at u.washington.edu>
Subject: [chimera-dev] atom spec. in BNF
To: chimera-dev at cgl.ucsf.edu
Message-ID:
	<Pine.LNX.4.64.0811051401230.9881 at homer23.u.washington.edu>
Content-Type: TEXT/PLAIN; charset=US-ASCII; format=flowed

Does anyone have BNF notation for the atom specification 'language' used 
by Chimera?  Thanks,
  - David

--
David A. C. Beck, Ph.D.
dacb at u.washington.edu
Valerie Daggett Laboratory
University of Washington, Seattle


------------------------------

Message: 2
Date: Wed, 5 Nov 2008 14:26:16 -0800
From: Eric Pettersen <pett at cgl.ucsf.edu>
Subject: Re: [chimera-dev] atom spec. in BNF
To: "David A. C. Beck" <dacb at u.washington.edu>
Cc: chimera-dev at cgl.ucsf.edu
Message-ID: <88F81EBE-CCD4-495F-9316-FEA5D095965D at cgl.ucsf.edu>
Content-Type: text/plain; charset="us-ascii"

On Nov 5, 2008, at 2:03 PM, David A. C. Beck wrote:

> Does anyone have BNF notation for the atom specification 'language'  
> used
> by Chimera?

I don't think so.  What's the use case here?  If you're in the context  
of Chimera, you should be able to use Chimera's own atom-spec parsing  
facilities, e.g. chimera.specifier.evalSpec().  Outside of Chimera,  
I'm aware of a pretty extensive but not totally complete parser in  
perl:  Chemistry::MidasPattern - Select atoms in macromolecules -  
search.cpan.org

--Eric

                         Eric Pettersen
                         UCSF Computer Graphics Lab
                         http://www.cgl.ucsf.edu

-------------- next part --------------
An HTML attachment was scrubbed...
URL:
http://www.cgl.ucsf.edu/pipermail/chimera-dev/attachments/20081105/4e237100/
attachment-0001.html 

------------------------------

_______________________________________________
Chimera-dev mailing list
Chimera-dev at cgl.ucsf.edu
http://www.cgl.ucsf.edu/mailman/listinfo/chimera-dev


End of Chimera-dev Digest, Vol 58, Issue 2
******************************************