[PyMOL] removing loops

Dear All, I'm sure this is a really stupid question, but can you turn off the loops in a "cartoon auto" representation, to leave (visually) disconnected helices and strands? I've tried "set cartoon_loop_radius, 0" which kind-of works but leaves unfortunate ghosting artefacts in the image. Any he

Re: [PyMOL] removing loops

You could just specify a selection of residues for which you want to display the cartoon if that's not too much trouble. e.g. 'show cartoon, i. 1:20' displays the cartoon for residues 1-20 I hope that's what you meant. Uwe Neil Ranson wrote: Dear All, I’m sure this is a really stupid quest

RE: [PyMOL] removing loops

hide cartoon, not ss H+S -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point Blvd., Suite 213 . South San Francisco, CA 94080 USA . Biz:(650)-872-0942 Tech:(650)-872-0834 . Fax:(650)-872-0273 Cell:(650)-346-1154 .

[PyMOL] Linux FC3 upgrade causing pymol core dump

Hi everyone, Just wanted to send in a description of the following situation: I was using pymol 0.98 precompiled on FC3 today and did an automatic update during the day (therefore, sorry but I don't know which packages where upgraded :-( Afterwards, pymol would start up, but core dump immediate

[PyMOL] Raytracing "lies" in v0.98

Hi all, I have a session that I am completely unable to render. If I just issue a "ray" command, the view window shows a progress bar and the command window eventually reports that raytracing has finished normally, but the view window isn't updated with the raytraced image. If I try to png the

RE: [PyMOL] Raytracing "lies" in v0.98

Jacob, Thanks for the sending me the session file -- this is a common problem that results having the movie "play" button active when trying to ray trace. Hit the stop button or type "mstop" before raytracing and then your image will render fine. Perhaps we should probably have the ray comma

[PyMOL] Linux FC3 upgrade causing pymol core dump

gerwald jogl writes: > Hi everyone, > > Just wanted to send in a description of the following situation: > I was using pymol 0.98 precompiled on FC3 today and did an automatic > update during the day (therefore, sorry but I don't know which packages > where upgraded :-( You can get a list

[PyMOL] coloring bonds

Hi, In general, coloring of a molecule is mapped onto the atoms. For example carbon = green, hydrogen = gray. The bond between the carbon and the hydrogen would then be two-tone; half of the bond nearest the carbon would be green, the other half of the bond nearest the hydrogen would be