[PyMOL] running pymol in command mode

2003-02-05 Thread Matt Franklin
Hi all - I'm trying to use pymol to render a large number of complex images in order to make a molecular movie. This already takes a long time (1-2 minutes per frame) on my Octane due to the large molecular surfaces I'm drawing, but I'm now going to need to raise the surface quality, increas

Re: [PyMOL] hbond from rTools 0.5.2.menu on Linux does not work

2003-02-05 Thread D. Joe Anderson
On Wed, Jan 29, 2003 at 01:22:52PM +0100, Marc Saric wrote: > Hi all, > > I recently installed the very nice new rTools 0.5.2 with the latest > release of Pymol (0.8.6) on a PC running SuSE-Linux 8.1. > > After setup of all external programs I tried to run HBExplore, but got > an error from the

Re: [PyMOL] secondary structure colouring

2003-02-05 Thread Daniel John Rigden
Dear Laurence This is actaully in the FAQ http://pymol.sourceforge.net/faq.html#SECCOLOR Daniel +-+ | Dr Daniel John Rigden | | CENARGEN/EMBRAPA | e-mail: d

[PyMOL] secondary structure colouring

2003-02-05 Thread Laurence Pearl
Can anyone help me with the selection commands in PyMOL to select (and subsequently colour) residues by their secondary structure ? Many Thanks, Laurence -- --- Laurence H. Pearl Section of Structural Biology, Institut

Re: [PyMOL] nice povray settings?

2003-02-05 Thread Robert Campbell
Scott, * Scott Classen [2003-02-04 20:08] wrote: > I was wondering if anybody has some scene settings for povray that > produce nice depth-cued images. In particular I am making figures with > a white background and I would like to try povray instead of the built > in raytracer of PyMol

Re: [PyMOL] slimming down ray-traced loops

2003-02-05 Thread Daniel John Rigden
Thanks Robert, works a treat. I though I'd tried all the obvious looking parameters but that one slipped through. Cheers Dan +-+ | Dr Daniel John Rigden | | CENARGEN/EMBRAP

Re: [PyMOL] slimming down ray-traced loops

2003-02-05 Thread Robert Campbell
Hi, * Daniel John Rigden [2003-02-05 09:23] wrote: > I'm trying to make a figure of a superposition of various loops, each with > a different colour. I need a slim trace of the loops so that each may be > seen clearly. > > In normal view I can control the loop width using either > cartoon_loop_

[PyMOL] slimming down ray-traced loops

2003-02-05 Thread Daniel John Rigden
Hi everyone I'm trying to make a figure of a superposition of various loops, each with a different colour. I need a slim trace of the loops so that each may be seen clearly. In normal view I can control the loop width using either cartoon_loop_radius or ribbon_width, depending on whether I displ