[Pytables-users] Fwd: Runtime warning and import error after installation

[PyTables O. <pyt...@go...>]

Forwarding bounced message.
~Josh

> From: Arang Rhie <ar...@gm...>
> Date: August 20, 2012 3:59:06 AM GMT+01:00
> To: pyt...@li...
> Subject: Runtime warning and import error after installation
> 
> Hi,
> 
> I'm new to PyTable, and now getting really frustrating with the installation process.
> 1. What is the HDF5 runtime?
>     I've installed HDF5 following the instruction given by HDF5.
>     What file is PyTable looking for? And how can I set the path to it?
>     I've installed HDF5 under /usr/local/hdf5 and set the environment variable $HDF5_DIR on /usr/local/hdf5.
>     But still setup.py is not recognizing it without the --hdf5=/usr/local/hdf5 option.
>     Moreover,  I don't understand the 'shared library' of HDF5. does that mean to install hdf5-1.8.9-linux-x86_64-shared.tar.gz from HDF5?
>     I've untar the ~shared.tar.gz under /usr/local/hdf5-shared and set the $LD_LIBRARY_PATH as /usr/local/hdf5-shared.
>    What else do I need to do in addition?
> 2. I've configured LZO with --enable-shared option, and followed the instruction (make, make check, make test, make install).
>    I've completed without any error, and the shared libraries where set under /usr/local/lib.
>    Do I need to explicitly set other variables for running setup.py?
> 
> 
> 
> [root@gmi-student tables-2.4.0]# python setup.py install --hdf5=/usr/local/hdf5
> * Found numpy 1.6.2 package installed.
> * Found numexpr 2.0.1 package installed.
> * Found Cython 0.16 package installed.
> * Found HDF5 headers at ``/usr/local/hdf5/include``, library at ``/usr/local/hdf5/lib``.
> .. WARNING:: Could not find the HDF5 runtime.
>    The HDF5 shared library was *not* found in the default library
>    paths. In case of runtime problems, please remember to install it.
> * Found LZO 2 headers at ``/usr/local/include``, library at ``/usr/local/lib``.
> .. WARNING:: Could not find the LZO 2 runtime.
>    The LZO 2 shared library was *not* found in the default library
>    paths. In case of runtime problems, please remember to install it.
> * Skipping detection of LZO 1 since LZO 2 has already been found.
> * Found bzip2 headers at ``/usr/include``, library at ``/usr/lib64``.
> running install
> running build
> running build_py
> running build_ext
> running build_scripts
> running install_lib
> running install_scripts
> changing mode of /usr/bin/ptdump to 755
> changing mode of /usr/bin/ptrepack to 755
> changing mode of /usr/bin/nctoh5 to 755
> running install_egg_info
> Removing /usr/lib64/python2.7/site-packages/tables-2.4.0-py2.7.egg-info
> Writing /usr/lib64/python2.7/site-packages/tables-2.4.0-py2.7.egg-info
> [root@gmi-student tables-2.4.0]# python
> Python 2.7 (r27:82500, Sep 16 2010, 18:02:00) 
> [GCC 4.5.1 20100907 (Red Hat 4.5.1-3)] on linux2
> Type "help", "copyright", "credits" or "license" for more information.
> >>> import tables
> Traceback (most recent call last):
>   File "<stdin>", line 1, in <module>
>   File "tables/__init__.py", line 30, in <module>
>     from tables.utilsExtension import getPyTablesVersion, getHDF5Version
> ImportError: libhdf5.so.7: cannot open shared object file: No such file or directory
> 
> Serena Rhie