Hi Serena Rhie,
Il giorno 20/ago/2012, alle ore 08:40, PyTables Org pytab...@googlemail.com
ha scritto:
Forwarding bounced message.
~Josh
From: Arang Rhie arr...@gmail.com
Date: August 20, 2012 3:59:06 AM GMT+01:00
To: pytables-users@lists.sourceforge.net
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.
this is very strange. Can you please check it again and, in case, file a new
issue on [1]
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.
If you maintained the layout of the official tar ball then probably you should
set LD_LIBRARY_PATH to point to /usr/local/hdf5-shared/lib (please note the
ending /lib).
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?
No, it should be OK.
If the /usr/local/lib/liblzo2.so actually exists the setup script should not
complain about a missing runtime.
Can you please check and let us know.
[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
best regards
[1] https://github.com/PyTables/PyTables/issues
--
Antonio Valentino
--
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