[PyMOL] matplotlib bundled with PyMOL-v1.7.4.4 is unfunctional

2015-05-18 Thread Zhang, Chengxin
Matplotlib bundled with EduPyMOL-v1.7.4.4 is unfunctional under Linux. Under Ubuntu 14.04 (trusty) amd64, launch EduPyMOL-v1.7.4.4-Linux-x86_64, and type the following commands in the Command Input Area: PyMOLfrom matplotlib import pylab PyMOLpylab.plot([1,2],[3,4]) PyMOLpylab.show() The plot

Re: [PyMOL] sticks do not connect to the backbone

2015-05-18 Thread Folmer Fredslund
Hi Yeping, You can also try set cartoon_side_chain_helper, on http://www.pymolwiki.org/index.php/Cartoon_side_chain_helper Regards, Folmer 2015-05-18 10:23 GMT+02:00 sunyeping sunyep...@aliyun.com: Dear all, I find that when I show the protein as cartoon representation in pymol, and

Re: [PyMOL] sticks do not connect to the backbone

2015-05-18 Thread Tsjerk Wassenaar
Hi Yeping Sun, Try: set cartoon_flat_sheets, 0 set cartoon_smooth_loops, 0 Cheers, Tsjerk On Mon, May 18, 2015 at 10:23 AM, sunyeping sunyep...@aliyun.com wrote: Dear all, I find that when I show the protein as cartoon representation in pymol, and select some residues to show as

[PyMOL] incomplete IDTF export

2015-05-18 Thread Norwid Behrnd
Hello, this is my first post on this mail list, as I just get acquainted with the capabilities of open source pymol (version 1.6.x as mentioned in the splash screen, installed directly from the repositories of Linux Xubuntu 14.04 LTS, yet synaptic package manager states version

[PyMOL] sticks do not connect to the backbone

2015-05-18 Thread sunyeping
Dear all, I find that when I show the protein as cartoon representation in pymol, and select some residues to show as sticks, then the sticks do not connect to the backbone shown by the cartoon but looks as floating over the backbone. How to make the sticks connect to the backbone? With many