Re: [PyMOL] Selection markers not shown

2017-07-04 Thread András Ferenc WACHA
Dear PyMOL Users, I have solved the problem by setting use_shaders to False. The problem is probably caused by the incomplete/outdated OpenGL implementation of the graphics driver/device. Best regards, Andras Wacha On 07/03/2017 11:08 AM, András Ferenc WACHA wrote: > Dear PyMOL Users, >

[PyMOL] Selection markers not shown

2017-07-03 Thread András Ferenc WACHA
CPU cores. Enabled multithreaded rendering. Please let me know if you need more information to answer this problem. Thank you in advance. Andras Wacha -- András Ferenc Wacha, PhD research fellow, CREDO instrument responsible Biological Nanochemistry Research Group Institute of Materials

[PyMOL] Number of bonds separating two atoms

2017-06-19 Thread András Ferenc WACHA
Dear PyMOL Users, I am looking for a command which can determine the separation of two atoms in terms of chemical bonds. I would like to use it in a script to assign atom types for peptide molecules. Does any of you have an idea for that? Thanks in advance, Andras Wacha -- András Ferenc Wacha

[PyMOL] Plugin for beta- (and alpha-) peptide building

2021-02-03 Thread András Ferenc WACHA
therein. I hope this may help some of you. Best regards, Andras Wacha -- András Ferenc Wacha, PhD research fellow, CREDO instrument responsible Biological Nanochemistry Research Group (310) Institute of Materials and Environmental Chemistry Research Centre for Natural Sciences (RCNS) Magyar

Re: [PyMOL] Running PyMOL on a headless machine

2021-03-24 Thread András Ferenc WACHA
AM, András Ferenc WACHA wrote: Dear fellow PyMOL users, I'm trying to run open source PyMOL v2.4.0 on a Linux computer with no X11 available (as part of a script on a HPC cluster). I noticed that plug-ins are not loaded automatically, therefore I force the required plug-in (pmlbeta) to l

[PyMOL] Running PyMOL on a headless machine

2021-03-24 Thread András Ferenc WACHA
.extend()). Is this possible? Or do I do something wrong (e.g. the forced loading of the plug-in)? Kind regards, Andras Wacha -- András Ferenc Wacha, PhD research fellow, CREDO instrument responsible Biological Nanochemistry Research Group (310) Institute of Materials and Environmental Chemistry Resea