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Revision as of 07:02, 3 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...

Monitor file continuously

This script can be used to continuously check the modification timestamp on a file (any format, although this example assumes it's a PDB file), and re-loads it whenever the timestamp changes. As written it is intended to be started from the command line, but this is not a requirement.

The Code

<source lang="python"> from pymol import cmd import threading import time import os import sys

class pymol_file_monitor (object) : 

 def __init__ (self,
     file_name, 
     time_wait=1) : # time in seconds between mtime check
   self.file_name = file_name
   self.time_wait = time_wait
   self.watch = True # this can be toggled elsewhere to stop updating
   self.mtime = 0
   t = threading.Thread(target=self.check_file)
   t.setDaemon(1)
   t.start()
   print "Watching file %s" % file_name

 def check_file (self) :
   while (self.watch) :
     if (os.path.exists(self.file_name)) :
       print "checking..."
       mtime = os.path.getmtime(self.file_name)
       if (mtime > self.mtime) :
         self.mtime = mtime
       ..→
A Random PyMOL-generated Cover. See Covers.


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