PyMOLWiki:Community Portal

2007-09-05T12:28:10Z

Guaka:

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

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

Now with line numbers (or not)!

<npython>
# axes.py
from pymol.cgo import *
from pymol import cmd
from pymol.vfont import plain

# create the axes object, draw axes with cylinders coloured red, green,
#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,
]

# add labels to axes object (requires pymol version 0.8 or greater, I
# 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]])

# then we load it into PyMOL
cmd.load_cgo(obj,'axes')
</npython>

See [http://qbnz.com/highlighter/index.php The Geshi Home Page]

==Paid documentation?==
I might be interested in using PyMOL, but I don't like the fact that I have to pay for documentation. I don't even know what I'm missing out on, and I don't know if it's worth trying out PyMOL, or becoming actively involved in its development (or simply the creation of content on this wiki). [[User:Guaka|Guaka]] 07:28, 5 September 2007 (CDT)

User:Guaka

2007-09-05T12:25:25Z

Guaka: [http://guaka.org guaka] is Kasper Souren, involved in [http://trustlet.org TrustLet], a transparent, cooperative environment for the scientific research of trust metrics on social networks.

[http://guaka.org guaka] is Kasper Souren, involved in [http://trustlet.org TrustLet], a transparent, cooperative environment for the scientific research of trust metrics on social networks.

PyMOL Wiki - User contributions [en]

PyMOLWiki:Community Portal

User:Guaka