Hi Irem,
You could use
__main__.pymol_argv = ['pymol','-qc']
the "c" suppress the GUI.
Cheers,
Osvaldo.
On Sun, Mar 8, 2015 at 9:32 PM, Irem Altan <irem.al...@duke.edu> wrote:
> Hi,
>
> I have recently started to play with PyMOL and using python scripts. Is
> it possible to create a new selection without launching the GUI? I want to
> manipulate the selection and calculate the surface area, and then delete
> it. I will be doing this for a lot of proteins so I would like to be able
> to batch process with a script.
>
> The code that I currently have is as follows:
>
> import __main__
> __main__.pymol_argv = ['pymol', '-qei']
>
> import pymol
> from pymol import cmd, stored
> pymol.finish_launching()
> import sys, getopt
>
> name = sys.argv[1]
>
> cmd.fetch(name, "protein")
> cmd.create("__tmp", name)
> cmd.remove("__tmp" + " and b < " + str(2.5))
>
>
> I suspect that it is the cmd.create("__tmp", name) function that
> launches the GUI — am I correct? If so, what are my options?
>
> Thank you,
> Irem
>
>
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