Main Page

From PyMOLWiki
Jump to navigation Jump to search
hosted by SBGridlogo2.jpg
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
New Setup PyMOL-open-source-windows-setup v3.1 has been released on January 20, 2025. More information under Windows Install.
New Plugin PySSA aims to combine PyMOL and ColabFold to enable the prediction and analysis of 3D protein structures for the scientific end-user. v1.0 has been released on July 10, 2024.
Official Release PyMOL v3.0 has been released on March 12, 2024.
New Plugin CavitOmiX calculate Catalophore™ cavities, predict protein structures with OpenFold by NVIDIA-BioNeMo, ESMFold and retrieve Alphafold models
Official Release PyMOL v2.5 has been released on May 10, 2021.
Python 3 New Python 3 compatibility guide for scripts and plugins
POSF New PyMOL fellowship announced for 2022-2023
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...

Get session

Returns a dictionary representation the currently loaded PyMOL session.The session file (.pse) is a compressed version of its output.

By using this API, user scripts can access many interesting properties which are otherwise inaccessible. Examples include Pymol2glmol and get_raw_distances scripts.

WARNING: This API is undocumented API, intended for internal use. Use it only when it is necessary.

Usage

dict cmd.get_session(names='', partial=0)

Return value

The returned dictionary has following key-value pairs. Some entries are missing if using partial=1.

  • main: An array encoding window size. For example, [640, 480]
  • color_ext:
  • settings: An array of PyMOL's global settings. They are dumped by SettingAsPyList in layer1/Setting.c. Further details will not be discussed because scripts can access these values from cmd.get API.
  • colors: If you have defined color names by Set Color, they are described here. Default color names (red, blue, ..→
A Random PyMOL-generated Cover. See Covers.