Re: [PyMOL] Is it possible to pass command line arguments to a .pml file?

On Wednesday 26 June 2013 08:52:39 Jordan Willis wrote:
> I'm looking to pass a .pml file, do some stuff, and then save it as a
> session. Pymol -c My.pml looks like a good option.  I'm trying to write
> hundreds of sessions each with different arguments. I was wondering if its
> possible to pass command line arguments that can then be seen by the python
> interpreter inside a .pml
>
> While I'm at it, is it easy to pass objects, i.e. variable names, between
> the python enviroment and the pml enviroment inside a .pml script? Is
> cmd.extend the best option? Is there a way to go backwards (from the .pml
> to the python interpreter)?

This .pml sequence works for me:

stored.a = 5
python
import sys
print sys.argv
print stored.a
stored.a = 10
python end
print stored.a

Cheers,

-- 
Lieven Buts, Postdoctoral Fellow
Structural Biology Brussels, Vrije Universiteit Brussel
Department of Structural Biology, VIB