Dear pymol users
I have been trying to build imidazol ring to one incomplete His of my pdb
file by using builder in pymol. After finishing this ring I saved and
opened once again by pymol. I have seen some thing like mess formation with
in the residues. I request you to tell me what could be the r
Thanks Matt, that is indeed the problem:
Python 2.5.1 (r251:54863, Sep 21 2007, 11:20:07)
[GCC 3.2.3 20030502 (Red Hat Linux 3.2.3-56)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import openbabel
Traceback (most recent call last):
File "", line 1, in
I
Hi Doug -
You can launch PyMOL with the -c flag for command line only (no GUI). See
http://www.pymolwiki.org/index.php/Command_Line_Options for more details.
Cheers,
Jared
--
Jared Sampson
Xiangpeng Kong Lab
NYU Langone Medical Center
http://kong.med.nyu.edu/
On Nov 11, 2014, at 2:56 PM,
Hi,
Can you check to see if the python bindings are compiled openbabel?
On the bash command line, run the command 'python' to get an interactive
shell and then run 'import openbabel'.
Matt
On 11/12/2014 07:14 AM, Douglas Houston wrote:
> Hi all,
>
> I installed Optimize.py, now when I start Pym
Hi all,
I installed Optimize.py, now when I start Pymol I see:
"Optimize plug-in needs openbabel to be installed in your system,
please follow the instructions at
http://openbabel.org/wiki/Get_Open_Babel";
If I try to use any optimize commands I get:
"PyMOL>minimize all, nsteps 2
Traceback (m
Thanks everyone, that works a treat.
Quoting Matthew Baumgartner 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 objec
