VMD-L Mailing List

From: Wim R. Cardoen (wcardoen_at_gmail.com)
Date: Tue Jan 24 2012 - 11:26:23 CST

Hello John,

That's correct.

Thanks,

Wim

On Mon, Jan 23, 2012 at 3:35 PM, John Stone <johns_at_ks.uiuc.edu> wrote:

>
> Hi,
> Just to verify, you get no errors when you start VMD with no other
> flags, right?
>
> Cheers,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Mon, Jan 23, 2012 at 02:36:19PM -0700, Wim R. Cardoen wrote:
> > Hello,
> >
> > I compiled vmd version 1.9 from source (advised by Dr. Stone when
> heavy
> > python use is prevalent)
> > The configure options were:
> > LINUXAMD64 FLTK TK NETCDF TCL PYTHON PTHREADS NUMPY
> >
> > However, when I invoke the python script trial.py in vmd:
> > 'vmd -dispdev text -python -e trial.py'
> > of which the first lines are:
> >
> >
> -----------------------------------------------------------------------------------
> > import sys
> > import optparse
> > from atomsel import *
> > from atomsel import AtomSel
> > from Molecule import Molecule
> > from VMD import evaltcl
> >
> --------------------------------------------------------------------------------
> >
> > I immediately get the following error:
> >
> --------------------------------------------------------------------------------
> > vmd -dispdev text -python -e trial.py
> > Info) VMD for LINUXAMD64, version 1.9 (January 23, 2012)
> > Info) http://www.ks.uiuc.edu/Research/vmd/
> > Info) Email questions and bug reports to vmd_at_ks.uiuc.edu
> > Info) Please include this reference in published work using VMD:
> > Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
> > Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
> > Info) -------------------------------------------------------------
> > Info) Multithreading available, 8 CPUs detected.
> > Info) Free system memory: 11100MB (92%)
> > Info) Starting Python...
> > Info) Text interpreter now Python
> > Traceback (most recent call last):
> > File "VMD", line 7, in <module>
> > ImportError: cannot import name AtomSel
> >
> ----------------------------------------------------------------------------------
> >
> > The python script AtomSel.py is present in the lib/vmd/scripts/python
> > subdirectory of vmd.
> >
> > Any suggestions?
> >
> > Thanks,
> >
> > Wim
>
> --
> NIH Resource for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> http://www.ks.uiuc.edu/Research/vmd/ Fax: 217-244-6078
>