Stephen,
You're looking for the PyMOL API function "extend":
from pymol import cmd
cmd.extend("ramp_colors",ramp_chain.ramp_colors)
Would then permit the following:
ramp_colors chain A
See "help extend" for more info...
Cheers,
Warren
--
mailto:war...@sunesis.com
Warren L. DeLano, Ph.D.
Informatics Manager
Sunesis Pharmaceuticals, Inc.
341 Oyster Point Blvd.
S. San Francisco, CA 94080
(650)-266-3606 FAX:(650)-266-3501
> -----Original Message-----
> From: Stephen Graham [mailto:steph...@usyd.edu.au]
> Sent: Tuesday, January 07, 2003 4:14 PM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] "Rolling your own" functions in PyMol
>
>
> Hi All,
>
> I am a recent subscriber to the list, so apologies if this
> question has
> been answered before. I am interested in finding out how you can add
> your own functions to PyMol such that they may be
> "transparently" called
> from inside PyMol's shell. The the basic question is "How do
> I register
> PyMol names for home-grown functions so that they can be used like the
> functions in the util module". A more detailed example of what I am
> after is below. Also, are there any warehouses or collections of
> home-grown functions to which I could submit functions I
> write and from
> which I could gain examples from other users?
>
> Cheers
>
> Stephen
>
> == More detailed description of my problem ==
>
> I have written a function to ramp coloring of a backbone
> between two or
> more arbitrary colors (it is really a generalization of the code in
> util.rainbow). I have imported the code using the general
> Python import
> command:
> import ramp_chain
> Now, let's say that I have a selection object defined as:
> select A,(chain A)
> Were I using the rainbow command I would be able to issue the command:
> util.rainbow A
> Which follows the general rules of command line parsing.
> Unfortunately,
> in my case issuing the command:
> ramp_chain.ramp_colors A
> gives the error:
> Syntax error: unexpected EOF (and there is an arrow under the letter
> A).
> I *can* call the command using the syntax:
> ramp_chain.ramp_colors( "chain A" )
> but this syntax is not optimal - I would like to be able to use my
> already defined selections.
>
> --
> Stephen Graham
> PhD candidate and nasty sysadmin
> Crystallography Group
> School of Molecular and Microbial Biosciences
> Building G08
> University of Sydney
> New South Wales, 2006
> Australia
> Ph: +61 2 9351 8197
> Fax: +61 2 9351 4726
>
>
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