OJ, I think Photoshop (or Gimp?) is probably the tool for this -- PyMOL's ray_trace_mode cannot distinguish between the underlying representations, but you could probably accomplish this through recoloring select portion of a single rendering or through composition of multiple renderings.
Cheers, Warren -----Original Message----- From: pymol-users-boun...@lists.sourceforge.net [mailto:pymol-users-boun...@lists.sourceforge.net] On Behalf Of O. J. Ganesh Sent: Monday, August 18, 2008 6:36 AM To: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] PyMOL-users Digest, Vol 27, Issue 3 Hey again everyone, I've working with a model in pymol which needs to end up as a greyscale image (for a journal). The model is fairly complicated, and contains several molecules - some represented as spheres, some as sticks, etc. I was working with: set ray_trace_mode, 2; To produce a black and white image after raytracing. I realize that this option is supposed to produce a black outline only... Now I'd like all the parts of the image that are in stick representation to be outlined in gray (40% black), with the rest being black outline and white. Is there a nice way to get the 'set ray_trace_mode, 2' effect with all stick representations being gray outline? Thanks.
