Re: [PyMOL] PyMOL-users Digest, Vol 27, Issue 3
I agree with Warren. Basically, you could use desaturate or convert to grayscale options of GIMP or photoshop, but there are ways to achieve much nicer results. See the following for ideas: http://www.gimp.org/tutorials/Color2BW/ - Show quoted text - On Tue, Aug 19, 2008 at 6:19 AM, DeLano Scientific del...@delsci.info wrote: 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. - This SF.Net email is sponsored by the Moblin Your Move Developer's challenge Build the coolest Linux based applications with Moblin SDK win great prizes Grand prize is a trip for two to an Open Source event anywhere in the world http://moblin-contest.org/redirect.php?banner_id=100url=/ ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
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. winmail.dat
Re: [PyMOL] PyMOL-users Digest, Vol 27, Issue 3
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.
