CODEWITHSUNDEEP
hdf5pytables
LookIntoEast
LookIntoEast

Reputation: 8798

Unsupported HDF5 version

Trying to install Pytables, and I've installed almost all dependencies: However, when I'm trying to install pytables:

* Found numpy 1.7.0b1 package installed.
* Found numexpr 2.0.1 package installed.
* Found Cython 0.16 package installed.
* Found HDF5 headers at ``/home/xug/pytables/hdf5/include``, library at ``/home/xug/pytables/hdf5/lib``.
.. ERROR:: Unsupported HDF5 version!

What does "unsupported HDF5 version" mean?

Upvotes: 3

Views: 624

Answers (1)

KT.
KT.

Reputation: 11430

Although the author of the question has answered it in the comment, I think it is appropriate to have the (perhaps a bit more verbose) answer here too.

As mentioned, the problem is caused by a wrong (or lacking) systemwide version of HDF5 libraries. In my case, I solved it by compiling a newer version and installing it locally:

$ wget http://www.hdfgroup.org/ftp/HDF5/current/src/hdf5-1.8.11.tar.bz2
$ tar xjvf hdf5-1.8.11.tar.bz2
$ cd hdf5-1.8.11
$ configure --prefix=~/localroot
$ make -j 8
$ make install

It is then necessary to specify the path to this local installation before compiling package:

$ export HDF5_DIR=~/localroot
$ pip install tables

Finally, ~/localroot/lib must be in LD_LIBRARY_PATH for PyTables to work, so I added the line

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:~/localroot/lib

to ~/.bashrc

Upvotes: 2

Related Questions