Re: [PyMOL] Access API without the GUI

[Douglas H. <Dou...@ed...>]

Thanks everyone, that works a treat.

Quoting Matthew Baumgartner <mp...@pi...> on Tue, 11 Nov 2014  
15:10:38 -0500:

> Hi Doug,
> Check out these pages on integrating PyMOL into a python script.  
> Essentially you will write a python script that imports pymol. From  
> there you can do things like load objects, align them, or anything  
> else.
>
> http://www.pymolwiki.org/index.php/Python_Integration
> http://www.pymolwiki.org/index.php/Launching_From_a_Script
>
> The key part is that you pass the parameters '-qc' to pymol. 'q' is  
> for quiet, to supress some of Pymol's output, and 'c' is for command  
> line versions, i.e. don't launch the GUI.
>
> ####
> import __main__
> __main__.pymol_argv = [ 'pymol', '-*qc*' ]
>
> # Importing the PyMOL module will create the window.
> import pymol
>
> # Call the function below before using any PyMOL modules.
> pymol.finish_launching()
>
> from pymol import cmd
>
> #now your commands
> cmd.fetch('1YCR')
>
> #########
>
>
> You may also want to check out these pages on scripting:
>
> http://www.pymolwiki.org/index.php/Simple_Scripting
> http://www.pymolwiki.org/index.php/Advanced_Scripting
>
>
> On 11/11/2014 02:56 PM, Douglas Houston wrote:
>> Hi all,
>>
>> Does anyone know if there's a way of accessing Pymol's API without the
>> GUI? There are some useful functions in there and my loops would
>> iterate a lot faster if the GUI didn't fire up every time.
>>
>> cheers,
>> Doug
>> _____________________________________________________
>> Dr. Douglas R. Houston
>> Lecturer
>> Institute of Structural and Molecular Biology
>> Room 3.23, Michael Swann Building
>> King's Buildings
>> University of Edinburgh
>> Edinburgh, EH9 3JR, UK
>> Tel. 0131 650 7358
>> http://tinyurl.com/douglasrhouston
>>
>
>




_____________________________________________________
Dr. Douglas R. Houston
Lecturer
Institute of Structural and Molecular Biology
Room 3.23, Michael Swann Building
King's Buildings
University of Edinburgh
Edinburgh, EH9 3JR, UK
Tel. 0131 650 7358
http://tinyurl.com/douglasrhouston

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