PyMOLWiki:Community Portal

How to Get Involved

• First, go sign up, if you don't already have an account. New accounts can be created from any page; see the upper right hand side of any given page.

What to Do

• If you have a powerful little script you wrote and enjoy using, upload it and let the world know about it.
• Each of the commands, needs many many nice examples of usage. Feel free to expound (and comment on) the commands.
• More internal linking (from page to page) is needed.
• We also need a way to make things easier to find on the wiki.

Features

New! GeShi: Syntax Highlighting for Python & More

Use Geshi for syntax highlighting your Python code! Update: I have added the option for numbered syntax highlighting and non-numbered.

<source lang="python">Non line-numbered code here</source>

<npython>line-numbered code here</npython>

Now with line numbers (or not)!

<npython>

1. axes.py

from pymol.cgo import * from pymol import cmd from pymol.vfont import plain

1. create the axes object, draw axes with cylinders coloured red, green,
2. blue for X, Y and Z

obj = [

  CYLINDER, 0., 0., 0., 50., 0., 0., 0.2, 1.0, 1.0, 1.0, 1.0, 0.0, 0.,
  CYLINDER, 0., 0., 0., 0., 50., 0., 0.2, 1.0, 1.0, 1.0, 0., 1.0, 0.,
  CYLINDER, 0., 0., 0., 0., 0., 50., 0.2, 1.0, 1.0, 1.0, 0., 0.0, 1.0,
  ]

1. add labels to axes object (requires pymol version 0.8 or greater, I
2. believe

cyl_text(obj,plain,[-5.,-5.,-1],'Origin',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[50.,0.,0.],'X',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,50.,0.],'Y',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]]) cyl_text(obj,plain,[0.,0.,50.],'Z',0.20,axes=[[3,0,0],[0,3,0],[0,0,3]])

1. then we load it into PyMOL

cmd.load_cgo(obj,'axes') </npython>

See The Geshi Home Page