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Revision as of 23:16, 2 January 2016

Welcome to the PyMOL Wiki!
The community-run support site for the PyMOL molecular viewer.
New accounts: email jason (dot) vertrees (@) gmail dot com
Quick Links
Tutorials Table of Contents Commands
Script Library Plugins FAQ
Gallery | Covers PyMOL Cheat Sheet (PDF) Getting Help
News & Updates
New Plugin LiSiCA is a new plugin for 2D and 3D ligand based virtual screening using a fast maximum clique algorithm.
Official Release PyMOL v1.8.0 has been released on Nov 18, 2015.
PyMOL Open-Source Fellowship Schrödinger is now accepting applications for the PyMOL Open-Source Fellowship program! Details on http://pymol.org/fellowship
Official Release PyMOL, AxPyMOL, and JyMOL v1.7.6 have all been released on May 4, 2015.
New Plugin PyANM is a new plugin for easier Anisotropic Network Model (ANM) building and visualising in PyMOL.
New Plugin Bondpack is a collection of PyMOL plugins for easy visualization of atomic bonds.
New Plugin MOLE 2.0 is a new plugin for rapid analysis of biomacromolecular channels in PyMOL.
3D using Geforce PyMOL can now be visualized in 3D using Nvidia GeForce video cards (series 400+) with 120Hz monitors and Nvidia 3D Vision, this was previously only possible with Quadro video cards.
Older News See Older News.
Did you know...

Get names of type

get_names_of_type returns a list of object and/or selection names.

PYMOL API

cmd.get_names_of_type(string type)

NOTES

The object types are strings such as

  • object:molecule
  • object:map
  • object:mesh
  • object:slice
  • object:surface
  • object:measurement
  • object:cgo
  • object:group
  • object:volume

EXAMPLES

Truncate names of all molecules

# Get names for all molecules.
for x in cmd.get_names_of_type("object:molecule"): cmd.set_name(x,x[:5])

SEE ALSO

get_names, get_type, count_atoms, count_states

A Random PyMOL-generated Cover. See Covers.