Re: [PyMOL] script error? SyntaxError: invalid syntax

Hi Petro, run expects a python script (.py), whereas you're trying to run a pymol script (.pml). For that you nead '@': @c:\pict.pml Cheers, Tsjerk On 7/6/06, Piter_ x.pi...@gmail.com wrote: Hi all I have some errors if I run script: PyMOLrun c:\pict.pml Traceback (most recent call last):

Re: [PyMOL] How do you show the coordinates of an atom?

On Thu, Jul 06, 2006 at 10:14:33AM -0500, Scott P Brown wrote: That's not a very helpful response, as it may not be clear how one maps an atom selection in Pymol to the corresponding line in a PDB file. Helfpulness is in the eye of the beholder. I certainly intended, and still expect, that

Re: [PyMOL] Movie to Powerpoint

In my experience, animated gifs run beautifully in web browsers on all platforms and in openoffice under linux. They are usually awful in powerpoint on any platform. (And to be honest I don't really notice the lack of color depth.) Alternatively, MPEGs tend to run well in powerpoint, but are

Re: [PyMOL] hydrogen bonds

On Fri, 2006-07-07 at 11:22 -0400, Nalam, Madhavi wrote: Hello, How do I draw a hydrogen bond between two atoms in PyMol? Please see: http://www.rubor.de/bioinf/tips_modeling.html http://www.rubor.de/bioinf/pml/hbond1.pml http://www.rubor.de/bioinf/pml/hbond2.pml

[PyMOL] (no subject)

Hello all, I am a new PyMOL user trying to prepare figures for publication. I'm confused about the difference between the isomesh level of the 'mesh' in PyMOL and the contour level of the electron density map that I read in from CCP4. For example, for one of my figures I created a 3sigma