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Welcome to the PyMOL Wiki!
The community-run support site for the PyMOL molecular viewer.
To request a new account, email SBGrid at: accounts (@) sbgrid dot org
Quick Links
Tutorials Table of Contents Commands
Script Library Plugins FAQ
Gallery | Covers PyMOL Cheat Sheet (PDF) Getting Help
News & Updates
Official Release PyMOL v2.4 has been released on May 20, 2020.
Python 3 New Python 3 compatibility guide for scripts and plugins
Official Release PyMOL v2.3 has been released on February 11, 2019.
POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
New Plugin PICv is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
Selection keywords New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll!
Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL
New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
Older News See Older News.
Did you know...

Run

run executes an external Python script in a local name space, the global namespace, or in its own namespace (as a module).

USAGE

run python-script [, (local | global | module | main | private ) ]

PYMOL API

Not directly available. Instead, use :

cmd.do("run ...").

NOTES

The default mode for run is global.

Due to an idiosyncrasy in Pickle, you can not pickle objects directly created at the main level in a script run as "module", (because the pickled object becomes dependent on that module). Workaround: delegate construction to an imported module.

A Random PyMOL-generated Cover. See Covers.