VMD-L Mailing List

From: Dr. Seth Olsen (seth.olsen_at_gmail.com)
Date: Wed Sep 20 2006 - 01:44:24 CDT

Hi John,

Thanks for the information. If I were to install a python2.2 interpreter on
my system elsewhere (I guess I've already done this by downloading the
VMD1.8.4 python library binaries), then any module that this interpreter can
use can also be imported within the VMD interpreter, correct?

Cheers,

Seth

On 9/20/06, John Stone <johns_at_ks.uiuc.edu> wrote:
>
>
> Seth,
> You won't be able to load standard VMD builds as a module into
> an arbitrary Python interpreter; rather, VMD has a built-in
> Python interpreter, in which you can run your own scripts.
>
> Justin Gullingsrud created a modified version of VMD that
> could be run as a Python module, but I don't recall how
> far he got with it. I vaguely recall that we determined that
> going further than he did in his tests would require turning
> VMD inside out, so that the scripting language was on top and
> VMD was driven by the scripting interface, which is the opposite
> of how the program works now. Currently, VMD is in control
> and it pumps events through each text of the text interpreters
> as it runs. The 'startvmd.py' script is related to that experiment.
>
> John
>
> On Wed, Sep 20, 2006 at 01:19:02PM +1000, Dr. Seth Olsen wrote:
> > HI VMDers,
> >
> > I've recently tried to import startvmd.py and VMD.py in a
> > python2.4interpreter, and I've gotten errors that I can't seem to
> > ascribe to a
> > mismatch in the python versions.
> > For example:
> > >>>import startvmd
> > Traceback (most recent call last):
> > File "<stdin>", line 1, in ?
> > File "/usr/local/lib/vmd/scripts/python/startvmd.py", line 18, in ?
> > import vmd, select, threading, sys, os
> > ImportError: No module named vmd
> >
> > I seemed to work around this by changing 'vmd' to 'VMD' in the
> > startvmd.pyfile. However, upon importing startvmd after this (or
> > importing
> > VMD.py) I got the error:
> > >>>import startvmd
> > Traceback (most recent call last):
> > File "<stdin>", line 1, in ?
> > File "/usr/local/lib/vmd/scripts/python/startvmd.py", line 18, in ?
> > import VMD, select, threading, sys, os
> > File "/usr/local/lib/vmd/scripts/python/VMD.py", line 27, in ?
> > import animate
> > ImportError: No module named animate
> >
> > Which is interesting, because the VMD documentation mentions this
> module,
> > but I can't find it anywhere in my distribution. I am running VMD1.8.5on a
> > P4 machine with FC5. VMD was installed from the precompiled binary.
> >
> > Cheers,
> >
> > Seth
> >
> >
> > --
> > ccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccms
> >
> > Dr Seth Olsen, PhD
> > Postdoctoral Fellow, Biomolecular Modeling Group
> > Centre for Computational Molecular Science
> > Australian Institute for Bioengineering and Nanotechnology (Bldg. 75)
> > The University of Queensland
> > Qld 4072, Brisbane, Australia
> >
> > tel (617) 3346 3976
> > fax (617) 33654623
> > email: s.olsen1_at_uq.edu.au
> > Web: www.ccms.uq.edu.au
> >
> > ccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccms
> > The opinions expressed here are my own and do not reflect the positions
> of
> > the University of Queensland.
>
> --
> NIH Resource for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
> WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
> 

-- 
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Dr Seth Olsen, PhD
Postdoctoral Fellow, Biomolecular Modeling Group
Centre for Computational Molecular Science
Australian Institute for Bioengineering and Nanotechnology (Bldg. 75)
The University of Queensland
Qld 4072, Brisbane, Australia
tel (617) 3346 3976
fax (617) 33654623
email: s.olsen1_at_uq.edu.au
Web: www.ccms.uq.edu.au
ccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccmsccms
The opinions expressed here are my own and do not reflect the positions of
the University of Queensland.