Hi,
I'm having some trouble accessing a function defined at top level with
alter_state in a python script launching pymol. Maybe I shouldn't be
wanting to do this, but what I'm trying, and failing to do is
exemplified by this script:
###
#!/usr/bin/env python
import pymol
if __name__ == "__main__":
pymol.finish_launching()
def identity(x,y,z):
print "YEAH!"
return x,y,z
# Fix:
# setattr(pymol,"identity",identity)
pymol.editor.build_peptide("GGGGG")
pymol.cmd.alter_state(1,"all","(x,y,z)=identity(x,y,z)")
###
The problem is that the function 'identity' (which may be given a more
sensical form by actually doing something with the coordinates), is
sought in the pymol namespace. I can't really figure out where I
should be looking to directly call the function. Of course, I can
register the function in the pymol module (uncomment the setattr
line), but I don't think it's proper meddling with established modules
like that. Does anyone know a better/cleaner solution?
In addition, does anyone know how to suppress the GUI stuff when
launching pymol like this?
Groetjes,
Tsjerk
--
Tsjerk A. Wassenaar, Ph.D.
post-doctoral researcher
Molecular Dynamics Group
* Groningen Institute for Biomolecular Research and Biotechnology
* Zernike Institute for Advanced Materials
University of Groningen
The Netherlands
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