[yt-users] Import error: undefined PyUnicodeUCS2_FromUnicode

Agarwal, Shankar sagarwal at ku.edu
Fri Jan 28 07:41:07 PST 2011


Hi,

I am having a strange problem on Ember. When I try to run my python scripts interactively, they run fine. But when I submit them to a queue, I get the following error:

set_SCR: using existing PBS job directory /scratch/batch/25508
set_SCR: using existing PBS job directory /scratch/batch/25508
yt.lagos   WARNING    2011-01-28 09:18:12,423 No h5py. Data serialization disabled.
Traceback (most recent call last):
  File "hop_yt.py", line 7, in <module>
    from yt.mods import *
  File "/gpfs1/u/ac/sagarwal/software/enzo/src/yt/yt/mods.py", line 32, in <module>
    import yt.lagos as lagos
  File "/gpfs1/u/ac/sagarwal/software/enzo/src/yt/yt/lagos/__init__.py", line 47, in <module>
    from yt.arraytypes import *
  File "/gpfs1/u/ac/sagarwal/software/enzo/src/yt/yt/arraytypes.py", line 30, in <module>
    import numpy as na
  File "/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib/python2.6/site-packages/numpy/__init__.py", line 130, in <module>
    import add_newdocs
  File "/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib/python2.6/site-packages/numpy/add_newdocs.py", line 9, in <module>
    from lib import add_newdoc
  File "/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib/python2.6/site-packages/numpy/lib/__init__.py", line 4, in <module>
    from type_check import *
  File "/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib/python2.6/site-packages/numpy/lib/type_check.py", line 8, in <module>
    import numpy.core.numeric as _nx
  File "/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib/python2.6/site-packages/numpy/core/__init__.py", line 5, in <module>
    import multiarray
ImportError: /u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib/python2.6/site-packages/numpy/core/multiarray.so: undefined symbol: PyUnicodeUCS2_FromUnicode



My PATH is :
/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/bin:/usr/apps/math/gsl/intel/1.14/bin:/blahblah.....

PYTHONPATH :
/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib/python2.6/site-packages

LD_LIBRARY_PATH :
/u/ac/sagarwal/software/enzo/src/yt/doc/yt-x86_64/lib:/usr/apps/math/gsl/intel/1.14/lib:/usr/local/lib64:/lib:/lib64:/usr/lib64:/usr/lib:/usr/X11R6/lib64:/blahblah...



My script :

from yt.mods import *
import yt.extensions.HaloProfiler as HP
from yt.extensions.HaloMassFcn import *

fn = "RedshiftOutput0001"
pf = load(fn)
halos = HaloFinder(pf,160,padding=0.02)
halos.write_out("HopAnalysis.out")

pc = PlotCollection(pf,center=[0.5,0.5,0.5])
for ax in range(3):
 p = pc.add_slice("Density", ax)
pc.save()


Any suggestions.
Shankar


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