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Wang Zong'an
Wang Zong'an

Reputation: 1682

Library not loaded: /usr/local/lib/libhdf5.9.dylib

After "brew upgrade", I found I cannot use Pytables on my Mac. 

import tables as tb 
---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
<ipython-input-29-57032f570037> in <module>()
----> 1 import tables as tb

/usr/local/lib/python2.7/site-packages/tables/__init__.py in <module>()
 80 
 81 # Necessary imports to get versions stored on the cython extension
 ---> 82 from tables.utilsextension import (
 83     get_pytables_version, get_hdf5_version, blosc_compressor_list,
 84     blosc_compcode_to_compname_ as blosc_compcode_to_compname,

 ImportError: dlopen(/usr/local/lib/python2.7/site-packages/tables/utilsextension.so, 2): Library not loaded: /usr/local/lib/libhdf5.9.dylib
 Referenced from: /usr/local/lib/python2.7/site-packages/tables/utilsextension.so
 Reason: image not found

I found that instead of having libhdf5.9.dylib in the directory, I have libhdf5.10.dylib now.

I can uninstall and install hdf5 without a problem and I also tried to reinstall tables.

I'm not sure how to solve this problem.

Upvotes: 3

Views: 3316

Answers (2)

Tim Smith
Tim Smith

Reputation: 6349

You need to reinstall tables. If you are using a recent version of pip, you also need to make sure you don't use a cached version of pytables that was built against the old libhdf. You can do this with pip install -U --force-reinstall --no-binary tables tables.

Upvotes: 6

Wang Zong&#39;an
Wang Zong&#39;an

Reputation: 1682

Problem solved by installing the developing version from GitHub: 

pip install git+https://github.com/PyTables/PyTables.git@develop#egg=tables

Upvotes: 0

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