[PyMOL] ray_trace_mode 1

Hi all, I would like to use ray_trace_mode 1 to render some structures. However, I am also using isomeshes within the same picture and do not want them to have a black outline. Is there any way to have the black outline only for specified objects or to make them transparent in isomeshes? Ch

Re: [PyMOL] Clashes cut off

Hi Thomas, is this a general purpose script or does it only work for proteins/amino acids? Cheers, Arne - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Dr. Arne Dieckmann Houk Research Lab | University of California, Los Angeles On May 20

[PyMOL] superimposed spheres

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Arne Dieckmann Houk Research Lab | University of California, Los Angeles -- Ridiculously easy VDI. With Citrix VDI-in-a-Box, you don't need a complex infrastructure or

[PyMOL] Molecular Orbitals

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Arne Dieckmann Houk Research Lab | University of California, Los Angeles -- Learn Windows Azure Live! Tuesday, Dec 13, 2011 Microsoft is holding a special Learn Windows Azure

[PyMOL] raytrace_mode

Dear all, I would like to modify the width of the lines drawn with raytrace_mode 1. How would I do that? Cheers, Arne - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Dr. Arne Dieckmann Houk Research Lab University of California, Los Angeles email: adiec

[PyMOL] electrostatic potentials

the electrostatic potential using the ramp_new command, it is always displayed with a single color. What would be the proper way to visualize ESPs calculated with Gaussian in Pymol? Cheers, Arne - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Dr. Arne Dieckmann Houk

[PyMOL] electrostatic potential

the electrostatic potential using the ramp_new command, it is always displayed with a single color. What would be the proper way to visualize ESPs calculated with Gaussian in Pymol? Cheers, Arne - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Dr. Arne Dieckmann Houk

Re: [PyMOL] how to organize those .py

That is a hot tip. However, can I also specify some path that would tell pymol the location of my scripts? I have a number of scripts that I need to call while already in Pymol and I do not want to type in the complete path every time. Also, copying these scripts to the current working directory

Re: [PyMOL] Select single bond

marine. If you're showing sticks, > use stick_color instead of line_color. > > Cheers, > > -- Jason > > On Fri, Sep 9, 2011 at 5:44 PM, Arne Dieckmann > wrote: >> Hi all, >> >> I am looking for a command to select and color a single bon

[PyMOL] Select single bond

Hi all, I am looking for a command to select and color a single bond in my structure without coloring the corresponding atoms. Any ideas? Cheers, Arne -- Why Cloud-Based Security and Archiving Make Sense Osterman R

Re: [PyMOL] custom textures

> Best, > Shiven > > > On Aug 30, 2011, at 5:37 PM, Arne Dieckmann wrote: > >> Hi all, >> >> I would be interested in creating custom textures for spheres in pymol. More >> explicitely, I would like to draw two curved lines onto every sph

[PyMOL] custom textures

Hi all, I would be interested in creating custom textures for spheres in pymol. More explicitely, I would like to draw two curved lines onto every sphere. Is there any way I can that except placing CGO-objects on every atom? Thanks a lot, Arne -