Re: [PyMOL] sculpt settings

[Martin Hediger]

I describe this in a blog post. Maybe it helps you.

http://qmviews.blogspot.ch/2012/01/pymol-005-optimizing-only-part-of.html






On 24.04.13 19:21, Osvaldo Martin wrote:
Where I can find documentation about the exact meaning of all the 
settings related to the sculpt function? In particular what the 
"sculpt_field_mask" setting does?


I am trying to sculpt the sidechaiin of a particular residue while 
protecting the rest of the structure. Which are the bet parameters to 
try to move the sidechain while avoiding clashes/bumps?


Thanks.


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Re: [PyMOL] Pymol error

[Thomas Holder]

Hi Rhitankar,

looks like you installed the python3 version of Pmw which is not
compatible with python 2.7.

Cheers,
  Thomas

Rhitankar Pal wrote, On 05/03/13 21:16:
> Dear Pymol developers,
> 
> I have recently installed pymol 1.6.x in MAC OS X 10.8.2 and have the
> following error while opening the GUI
> 
> Traceback (most recent call last):
>   File "/Library/Python/2.7/site-packages/pmg_tk/__init__.py", line 35,
> in run
> PMGApp(pymol_instance,skin).run(poll)
>   File "/Library/Python/2.7/site-packages/pmg_tk/PMGApp.py", line 325,
> in __init__
> self.runSkin()
>   File "/Library/Python/2.7/site-packages/pmg_tk/PMGApp.py", line 251,
> in runSkin
> self.skin.setup()
>   File
> "/Library/Python/2.7/site-packages/pmg_tk/skins/normal/__init__.py",
> line 3661, in setup
> self.createInterface()
>   File
> "/Library/Python/2.7/site-packages/pmg_tk/skins/normal/__init__.py",
> line 3634, in createInterface
> self.balloon = Pmw.Balloon(self.root)
>   File
> "/Library/Python/2.7/site-packages/Pmw/Pmw_2_0_0/lib/PmwBalloon.py",
> line 28, in __init__
> Pmw.MegaToplevel.__init__(self, parent)
>   File "/Library/Python/2.7/site-packages/Pmw/Pmw_2_0_0/lib/PmwBase.py",
> line 982, in __init__
> super().__init__(parent, tkinter.Toplevel)
> TypeError: super() takes at least 1 argument (0 given)
> 
> As a result it never opens the "The Pymol Molecular Graphics System"
> window. Can anyone help to find out what might be wrong. 
> 
> Thanks
> Rhitankar
> 
> -- 
> Rhitankar Pal
> Postdoctoral Researcher,
> Dept of Chemistry, Yale University
> New Haven, CT 06511

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PyMOL Developer
Schrödinger Contractor

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