[PyMOL] Install pymol as module in python in linux

2017-07-25 Thread Vivien Schoonenberg
Hi all, I have been trying for a while, but cannot seem to figure out how to install pymol on my unix server so that I can run pymol from within a python script. (So that I can use it with the command ' import pymol'. I did manage to do this on my windows with a wheel, but don't know how to sol

Re: [PyMOL] (no subject)

2017-04-04 Thread Vivien Schoonenberg
This worked! Thank you Leandro and Jed! From: jedg...@gmail.com [mailto:jedg...@gmail.com] On Behalf Of Jed Goldstone Sent: Tuesday, April 4, 2017 11:35 To: Vivien Schoonenberg Cc: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] (no subject) Try using remove not alt +A to remove

[PyMOL] (no subject)

2017-04-03 Thread Vivien Schoonenberg
Hi there, I'm saving the sequences from each chain of the PDB via pymol with >>save something.fasta, chain A This is the same sequence that is shown in pymol and seems to correspond to the structure I am looking at. However, when I loaded new B-factors in my structure, I noticed somethin

Re: [PyMOL] Getting rid of shadows

2017-02-23 Thread Vivien Schoonenberg
: Re: [PyMOL] Getting rid of shadows Hi Vivian, I'm not sure if I fully understand your question, but if you want to have a picture without shadows, by using "set light_count, 0" (https://pymolwiki.org/index.php/Light_count) you should be able to achieve this. Rui Le 22/02/201

[PyMOL] Getting rid of shadows

2017-02-23 Thread Vivien Schoonenberg
Hi, I'm recoloring my protein in different shades of similar colors, but to truly see the difference between them, I want to create a view in pyMOL without any shadows. For this purpose, I want to make a half sphere behind the camera with lights, which all emit the same amount of light. I have