Re: [modeller_usage] import errors

["Mauricio Carrillo Tripp" <>]

Thanks for your help. Actually that's another question I had you just answered!. I have removed all env variables.
I'm getting a new error now though, and to me it looks like I have an incomplete installation of python2.3,
but I could be wrong...

#!/bin/bash -v

 export -p LD_LIBRARY_PATH=
 export -p PATH=${PATH}:/usr/people/trippm/bin/modeller9v5/bin
## limit  stacksize unlimited

echo "Running model-fast.py"
Running model-fast.py
modpy.sh python model-fast.py > model-fast.log

echo "Running model-parallel.py"
Running model-parallel.py
modpy.sh python model-parallel.py > model-parallel.log
Traceback (most recent call last):
  File "model-parallel.py", line 4, in ?
    from modeller.parallel import *
  File "/usr/people/trippm/bin/modeller9v5/modlib/modeller/parallel/__init__.py", line 1, in ?
    from job import job
  File "/usr/people/trippm/bin/modeller9v5/modlib/modeller/parallel/job.py", line 1, in ?
    import socket, random, os, select
  File "/usr/lib64/python2.3/random.py", line 42, in ?
    from math import log as _log, exp as _exp, pi as _pi, e as _e
ImportError: /usr/lib64/python2.3/lib-dynload/math.so: undefined symbol: PyFPE_jbuf

On Fri, Dec 5, 2008 at 12:56 PM, Modeller Caretaker <">> wrote:

Mauricio Carrillo Tripp wrote:
> You where right, I unset the LD_LIBRARY_PATH variable and the error went
> away.
> libsvml.so is indeed in the same location as libmodeller.so.4
> However, it took me back to the initial problem:
>
>  export -p LD_LIBRARY_PATH=
>  export -p PYTHONHOME=/usr/lib64/python2.3/
>  export MODINSTALL9v5=/****/modeller9v5
>  export EXECUTABLE_TYPE9v5=x86_64-intel8
>  export -p LIBS_LIB9v5=${MODINSTALL9v5}/modlib/libs.lib
>  export KEY_MODELLER9v5=****
>  export -p PATH=${PATH}:${MODINSTALL9v5}/bin
> ## limit  stacksize unlimited

This problem is most likely caused by your setting PYTHONHOME. You don't
 actually need to set *any* of the environment variables you have above
(except PATH, I guess, unless you want to put in the full path to
modpy.sh) - clear them all and the problem should go away.

BTW, there is also no need to set any of these variables to run the
mod9v5 script - it sets them itself anyway. Maybe you are reading a very
old version of the Modeller documentation? We certainly don't recommend
setting any environment variables these days.

       Ben Webb, Modeller Caretaker
--
">             http://www.salilab.org/modeller/
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage

-- 
         0     |  Mauricio Carrillo Tripp, PhD
      /         |     Department of Molecular Biology, TPC6
  0            |     The Scripps Research Institute
      \         |     10550 North Torrey Pines Road
         0     |     La Jolla, California 92037
      /         |     ">
  0            |  http://www.scripps.edu/~trippm

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