Error importing H5PY "undefined symbol: H5FD_mpio_init"

Question

I've installed H5PY, but when trying to import the h5py module, I get this error:

>>> import h5py
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/matteo/Downloads/h5py-2.4.0/build/lib.linux-x86_64-2.7/h5py/__init__.py", line 16, in <module>
    from h5py import h5a, h5d, h5ds, h5f, h5fd, h5g, h5r, h5s, h5t, h5p, h5z
  File "build/bdist.linux-x86_64/egg/h5py/h5f.py", line 7, in <module>
  File "build/bdist.linux-x86_64/egg/h5py/h5f.py", line 6, in __bootstrap__
  File "h5py/h5f.pyx", line 26, in init h5py.h5f (/home/matteo/Downloads/h5py-2.4.0/h5py/h5f.c:5160)
  File "build/bdist.linux-x86_64/egg/h5py/h5fd.py", line 7, in <module>
  File "build/bdist.linux-x86_64/egg/h5py/h5fd.py", line 6, in __bootstrap__
ImportError: /home/matteo/.python-eggs/h5py-2.4.0-py2.7-linux-x86_64.egg-tmp/h5py/h5fd.so: undefined symbol: H5FD_mpio_init

Then, if I try again to import h5py, I get a different error

>>> import h5py
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/home/matteo/Downloads/h5py-2.4.0/build/lib.linux-x86_64-2.7/h5py/__init__.py", line 10, in <module>
from h5py import _errors
ImportError: cannot import name _errors

I am in a different directory than the installation directory. Can you help me?

How did you build them (h5py and HDF5)? As it looks like h5py was built for parallel (MPI IO), while HDF5 wasn't. Or it could be the other way around. — Timothy Brown, Apr 04 '15 at 14:54

Error importing H5PY "undefined symbol: H5FD_mpio_init"

0 Answers0