Re: [PyMOL] what is wrong on my using centroid.py

Hi Smith, There was an error in script, incidentally, I introduce the error, but now is fixed. Please download again the centroid.py script. Cheers, Osvaldo. On Fri, Nov 20, 2015 at 3:00 AM, Smith Liu wrote: > Dear All, > > When I run the centroid.py, I have the following error message: > "Nam

[PyMOL] what is wrong on my using centroid.py

Dear All, When I run the centroid.py, I have the following error message: "NameError: global name 'move' is not defined". My centroid.py script downloaded (have I misdone or miseddited something?) is as following. Will you please tell me how to solve the error message issue? Smith --- Se

[PyMOL] default fetch format

Hello: I noticed that if we run command: fetch 2ac1 to get PDB into pymol in Version 1.8.0, it downloaded .cif file by default. I am just wondering is it possible to change the default format as .pdb file? thanks a lot Albert -

Re: [PyMOL] Pymol 1.8.0.0 requires ZLIB 1.2.3.5?

Hi Roger, Please run ./setup.sh which will activate a more recent libz library which is bundled with the build. Please also see the INSTALL.txt for similar troubleshooting solutions. Cheers, Thomas On 19 Nov 2015, at 11:01, Roger Rowlett wrote: > Pymol 1.8.0.0 (64 bit linux) is throwing an

[PyMOL] Pymol 1.8.0.0 requires ZLIB 1.2.3.5?

Pymol 1.8.0.0 (64 bit linux) is throwing an error about a ZLIB requirement (v 1.2.3.5). The latest Ubuntu 12.04 LTS version through apt-get is 1.2.3.4. Is there supposed to be a local version of zlib.1.so in the pymol install package? ___ Roger S. Rowlett Gor

[PyMOL] Pymol for inorganic chemists - dealing with bonds

Dear Pymol users, As an inorganic chemist, to represent metallic centers and ligands in a comprehensive way is very important. I've tried to select my metallic centers and the atoms bonded directly to them, change this selection to ball and stick and keep all the rest as wireframe. Some bonds chang

Re: [PyMOL] problem of pymol 1.8

Hi Albert, It seems that you have a lot of plugins installed, you likely don't need them or maybe don't even know that they are installed. Please open the Plugin Manager from the "Plugin" menu and uncheck "Load on startup" for all plugins that you don't need or don't know what they do. Cheers,

Re: [PyMOL] on using pymol scripts

Dear Smith, right click on https://github.com/Pymol-Scripts/Pymol-script-repo/blob/master/centroid.py, select Save Link As. This is a good skill to have because it allows you to download all sorts of things from the internet. You can use Google Chrome, Mozilla Firefox and Microsoft Edge for that

Re: [PyMOL] Help for saving movie in png

Hi Pranab, Am 13.11.2015 um 17:00 schrieb Pranab Jyoti Bhuyan: > Can you please tell me how to save a movie as a series of *.png files > from terminal in linux? This can be done with the mpng command. See http://pymolwiki.org/index.php/Mpng Cheers, Christian ---

[PyMOL] on using pymol scripts

Dear All, If I want to use a pymol script, for example the script on centroid, will you please tell me how to download the corresponding script from the pymol website? Smith-- __