Re: [PyMOL] python/pymol malfunction on new Ubuntu installation

[Daniel R. <dr...@li...>]

Michael

Like I said, the problem is not pymol-specific; no modules can be found
even when explicitly pointing PYTHONHOME to them.

Pymol0.99 off the website works fine since it comes packaged with its
own python modules.  The one I'd like to get to work is a 1.0rc2
obtained from synaptic.  It locates itself in /usr/bin/pymol and looks
like this

#!/bin/sh
# debian wrapper script for pymol

export PYMOL_DATA=/usr/share/pymol
export PYMOL_PATH=/var/lib/python-support/python2.5/pymol/
export CHEMPY_DATA=/usr/share/chempy

python2.5 ${PYMOL_PATH}/__init__.py $*


Thanks for your help

Daniel


On Tue, 2008-07-22 at 16:54 +0200, Michael Banck wrote:
> On Tue, Jul 22, 2008 at 03:38:53PM +0100, Daniel Rigden wrote:
> > First let me confess that my problem does not just involved pymol.
> > However, it is hampering my use of pymol amongst other things and there
> > must be many python experts who read this list.
> > 
> > My problem, on a completely fresh Ubuntu 8.04 install, is that python
> > can find modules when asked to import them.  So
> 
> Are you saying python cannot find any modules?  In that case, the
> problem does not sound pymol specific at all.
>  
> > export PYMOL_PATH=/var/lib/python-support/python2.5/pymol/
> > export PYTHONHOME=/usr/lib/python2.5
> > python2.5 ${PYMOL_PATH}/__init__.py
> > 
> > gives me
> > 
> > 'import site' failed; use -v for traceback
> > Traceback (most recent call last):
> >   File "/var/lib/python-support/python2.5/pymol//__init__.py", line 109,
> > in <module>
> >     import threading 
> > ImportError: No module named threading
> 
> Are you running the Ubuntu pymol package, or a self-compiled one?  If
> the former, does simply running "pymol" work or not?
> 
> 
> Michael
-- 
Dr Daniel John Rigden                     Tel:(+44) 151 795 4467
School of Biological Sciences             FAX:(+44) 151 795 4406
Room 101, Biosciences Building
University of Liverpool
Crown St.,
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