[PyMOL] movie and fog

2005-07-29 Thread Alexandra Deaconescu
Dear all: I would like to make a simple movie of a structure ( a full rotation about the y axis) with a very strong fog effect. I have tried playing with depth_cue, ray_trace_fog settings as shown below but I do not get as strong a fog effect as I would like. Adjusting the clip planes w

[PyMOL] tube thickness

2005-07-14 Thread Alexandra Deaconescu
Dear all, Is there a way to adjust the cartoon tube thickness in Pymol? I have tried using cartoon_tube_radius but it does not seem to work. I am using MacPymol version 0.95. Thank you very much in advance, Alexandra

[PyMOL] movie question

2005-02-23 Thread Alexandra Deaconescu
Hello: I am trying to generate a movie ( a 360 degree rotation around the y axis) using the mset and mdo commands. I can play the animation alright in Pymol, but when I am trying to save it as either a Quicktime file or a series of pngs (that I would like to create an animation of in ImageRead

[PyMOL] customizing secondary structure assignments

2005-01-24 Thread Alexandra Deaconescu
Hello All, Is there a way to have the automatic secondary structure assignments output in the Pymol log-file explicitly (eg HELIX from resi 1-100, LOOP from 101-110 etc) much like MOLAUTO is able to do? I realize that secondary structure assignment in Pymol is not always correct, but I would