It seems the difference I was looking for was pymol something.pml -- arg1 arg2 arg3
I was missing the -- Thanks Jordan On Jun 26, 2013, at 4:21 AM, lievb...@vub.ac.be wrote: > 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 > > > ------------------------------------------------------------------------------ > This SF.net email is sponsored by Windows: > > Build for Windows Store. > > http://p.sf.net/sfu/windows-dev2dev > _______________________________________________ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net ------------------------------------------------------------------------------ This SF.net email is sponsored by Windows: Build for Windows Store. http://p.sf.net/sfu/windows-dev2dev _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
