VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Sep 21 2006 - 05:41:32 CDT

Seth,
  Yes, that is correct, so long as your interpreter is built using the
same architecture flags as VMD was. Alternatively, you can compile VMD
from source, and link it against your favorite Python version. Let us know
if you need more help with this.
 
  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Sep 20, 2006 at 04:44:24PM +1000, Dr. Seth Olsen wrote:
> 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
> >
>
>
>
> --
> 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