Hi Richard,
* Richard Gillilan r...@cornell.edu [2007-02-19 10:22] wrote:
I'm probably making a simpler mistake here, or perhaps there is
something wrong with my installation or paths.
I'm trying to load and display the simple cgo example in the manual.
I created a file named arrows containing this definition:
from pymol.cgo import *# get constants
from pymol import cmd
obj = [
BEGIN, LINES,
COLOR, 1.0, 1.0, 1.0,
VERTEX, 0.0, 0.0, 0.0,
VERTEX, 1.0, 0.0, 0.0,
VERTEX, 0.0, 0.0, 0.0,
VERTEX, 0.0, 2.0, 0.0,
VERTEX, 0.0, 0.0, 0.0,
VERTEX, 00, 0.0, 3.0,
END
]
From the Pymol prompt I then attempt to load it:
PyMOL cmd.load_cgo(obj,'/Volumes/transport/AFABP_structs/Linoleic4/
rf10_TLS/arrows');
I get the following error:
Traceback (most recent call last):
File /Users/delwarl/MacPyMOL060228/build/Deployment/MacPyMOL.app/
pymol/modules/pymol/parser.py, line 370, in parse
File string, line 1, in ?
NameError: name 'obj' is not defined
Anyone recognize what I am doing wrong here?
The cmd.load_cgo command wants the object and object name as parameters,
so you want to put the load_cgo command within your file and use the run
command to load it (it is a python file):
# - arrows.py ---
from pymol.cgo import *# get constants
from pymol import cmd
obj = [
BEGIN, LINES,
COLOR, 1.0, 1.0, 1.0,
VERTEX, 0.0, 0.0, 0.0,
VERTEX, 1.0, 0.0, 0.0,
VERTEX, 0.0, 0.0, 0.0,
VERTEX, 0.0, 2.0, 0.0,
VERTEX, 0.0, 0.0, 0.0,
VERTEX, 00, 0.0, 3.0,
END
]
cmd.load_cgo(obj,'arrows')
Load it into PyMOL with:
PyMOL run arrows.py
Cheers,
Rob
--
Robert L. Campbell, Ph.D.
Senior Research Associate/Adjunct Assistant Professor
Botterell Hall Rm 644
Department of Biochemistry, Queen's University,
Kingston, ON K7L 3N6 Canada
Tel: 613-533-6821Fax: 613-533-2497
robert.campb...@queensu.ca http://adelie.biochem.queensu.ca/~rlc
