Thanks everyone, that works a treat. Quoting Matthew Baumgartner <mp...@pitt.edu> 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 -- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. ------------------------------------------------------------------------------ Comprehensive Server Monitoring with Site24x7. Monitor 10 servers for $9/Month. Get alerted through email, SMS, voice calls or mobile push notifications. Take corrective actions from your mobile device. http://pubads.g.doubleclick.net/gampad/clk?id=154624111&iu=/4140/ostg.clktrk _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
