[CIG-SHORT] Problem on the installation of Pylith

Mon Mar 16 17:39:53 PDT 2009

Ikuo-

If the import mpi worked, then I think the examples should run. Please try 
them again. There is a chance some environment variable changed.

If they do not work, check to see if the environment variables are any 
different in the config.log when configuring PyLith compared to the output of 
running the env command in the directory where you tried to run the example.

Brad

On Monday 16 March 2009 5:27:12 pm Ikuo Cho wrote:
> Brad,
>
> Thanks for the reply.
> I did "nemesis & import mpi" and obtained
>
> [beowulf at localhost ~]$ nemesis
> Python 2.5.2 (r252:60911, Mar 16 2009, 16:42:20)
> [GCC 4.1.2 20070925 (Red Hat 4.1.2-33)] on linux2
> Type "help", "copyright", "credits" or "license" for more information.
>
> >>> import mpi
>
> It seems that nemesis imported mpi correctly.
> I append two config files that you requested to this email, hoping that
> the problem will be solved.
>
> Ikuo Cho
>
>
> On Mon, 16 Mar 2009 08:35:34 -0700
> Brad Aagaard <baagaard at usgs.gov> wrote:
>
> BA> Ikuo-
> BA>
> BA> It looks like PyLith built okay, but there is probably something wrong
> in your BA> environment variables. "import mpi" should fail in a python
> shell, but not in BA> a python shell started via nemesis.
> BA>
> BA> What happens when you run the following?
> BA>
> BA> nemesis
> BA> import mpi
> BA>
> BA> Please send the config.log files that were created when installing
> nemesis and BA> PyLith.
> BA>
> BA> Brad
> BA>
> BA>
> BA>
> BA> On Monday 16 March 2009 4:27:26 am Ikuo Cho wrote:
> BA> > Dear pylith developers,
> BA> >
> BA> > I have installed Pylith from the source code into a Linux machine
> with BA> > specification:
> BA> >
> BA> > OS: Fedora Core 8
> BA> > CPU: Intel(R) Pentium(R) D CPU 3.00GHz
> BA> > uname -m = i686
> BA> > uname -r = 2.6.24.5-85.fc8
> BA> > uname -s = Linux
> BA> > uname -v = #1 SMP Sat Apr 19 12:39:34 EDT 2008
> BA> >
> BA> > As a note, I installed Python2.5.2 to /home/beowulf/local and export
> BA> > PYTHONPATH=/home/beowulf/local/lib/python2.5/site-packages
> BA> > although I have another python version 2.5.1 in the system directory
> BA> > /usr. I installed pylith so that it does NOT depend on MPICH but
> MPICH2. BA> >
> BA> > No noticeable warning was found in the installation process of
> Pylith, BA> > but I was not able to run it correctly. To be specific, I
> tried to run BA> > Pylith in the directory
> BA> > /home/beowulf/Shoyu_cho.1.3.1/pylith-1.3.1/examples/3d/hex8 by typing
> BA> > “ pylith dislocation.cfg”. However, I only obtained the following
> BA> > messages.
> BA> >
> BA> > [beowulf at localhost hex8]$ pylith dislocation.cfg
> BA> > Traceback (most recent call last):
> BA> >   File "/home/beowulf/local/bin/pylith", line 31, in <module>
> BA> >     from pylith.PyLithApp import PyLithApp
> BA> >   File
> BA> >
> "/home/beowulf/local/lib/python2.5/site-packages/pylith/PyLithApp.py", line
> BA> > 17, in <module> from mpi import Application
> BA> >   File
> BA> >
> "/home/beowulf/local/lib/python2.5/site-packages/pythia-0.8.1.7-py2.5.egg/m
> BA> >pi/__init__.py", line 14, in <module> from _mpi import *
> BA> > ImportError: No module named _mpi
> BA> >
> BA> > Could you tell me what happened?
> BA> > I append two make.log files to this maiil and I think that the
> following BA> > information obtained from the python shell is useful to
> make a diagnosis. BA> >
> BA> > [beowulf at localhost ~]$ python
> BA> > Python 2.5.2 (r252:60911, Mar 16 2009, 16:42:20)
> BA> > [GCC 4.1.2 20070925 (Red Hat 4.1.2-33)] on linux2
> BA> > Type "help", "copyright", "credits" or "license" for more
> information. BA> >
> BA> > >>> import sys
> BA> > >>> sys.path
> BA> >
> BA> > ['',
> '/home/beowulf/local/lib/python2.5/site-packages/merlin-1.6.egg', BA> >
> '/home/beowulf/local/lib/python2.5/site-packages/pythia-0.8.1.7-py2.5.egg',
> BA> >
> '/home/beowulf/local/lib/python2.5/site-packages/Cheetah-2.0rc8-py2.5-linux
> BA> >-i686.egg', '/home/beowulf/local/lib/python2.5/site-packages', BA> >
> '/home/beowulf/local/lib/python25.zip',
> BA> > '/home/beowulf/local/lib/python2.5',
> BA> > '/home/beowulf/local/lib/python2.5/plat-linux2',
> BA> > '/home/beowulf/local/lib/python2.5/lib-tk',
> BA> > '/home/beowulf/local/lib/python2.5/lib-dynload']
> BA> >
> BA> > >>> import mpi
> BA> >
> BA> > Traceback (most recent call last):
> BA> >   File "<stdin>", line 1, in <module>
> BA> >   File
> BA> >
> "/home/beowulf/local/lib/python2.5/site-packages/pythia-0.8.1.7-py2.5.egg/m
> BA> >pi/__init__.py", line 14, in <module> from _mpi import *
> BA> > ImportError: No module named _mpi
> BA> >
> BA> > Also,
> BA> >
> BA> > [beowulf at localhost ~]$ nemesis
> BA> > Python 2.5.2 (r252:60911, Mar 16 2009, 16:42:20)
> BA> > [GCC 4.1.2 20070925 (Red Hat 4.1.2-33)] on linux2
> BA> > Type "help", "copyright", "credits" or "license" for more
> information. BA> >
> BA> > >>> import _mpi
> BA> >
> BA> > After all, the nemesis  seems to have been installed correctly and I
> BA> > have a single MPI installation on this machine (I installed MPI for
> BA> > Pylith). Also, I made sure the correct 'mpiexec' and 'python' in my
> path BA> > when installing nemesis.
> BA> >
> BA> > Ikuo Cho
> BA> > ----------------------------------------------------------
> BA> > Geological Survey of Japan,
> BA> > National Institute of Advanced Industrial Science and Technology
> BA> > Tsukuba Central 7, Tsukuba 305-8567 Japan
> BA> > Tel +81-29-861-3891, Fax +81-29-861-3682
> BA> > ----------------------------------------------------------
> BA>
> BA>
> BA> _______________________________________________
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>
>
> 長　郁夫 (Ikuo Cho)
> ----------------------------------------------------------
> 独立行政法人　産業技術総合研究所
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