>I'm having all kinds of problems installing PyTables, and I'm really not at
all sure where the problem lies. Anyone care to give me a hand?
My system configuration:
Mac OS 10.6.4
Intel Core 2 Duo (64-bit)
Python 2.7 (binaries from python.org)
Numpy 1.5.0b1 (binaries from scipy.org)
I've installed Numexpr (1.4, via easy_install), bzip2 (1.0.5, built from
source), SZIP (2.1, built from source), LZO (2.03, built from source), zlib
(1.2.5, built from source), all without apparent problems. The stuff I built
from source passed everything in make check/test.
I tried installing the HDF5 1.8.5 binaries available on the website as well
as building it from source. Then I've tried installing PyTables, both via
easy_install and manually. This yields no errors, but there's a scary
warning about not finding the HDF5 runtime):
me$ tables-2.2 pash$ sudo python setup.py build_ext --inplace
* Found numpy 1.5.0b1 package installed.
* Found numexpr 1.4 package installed.
* Found HDF5 headers at ``/usr/local/include``, library at
``/usr/local/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``.
* Skipping detection of LZO 1 since LZO 2 has already been found.
* Found bzip2 headers at ``/usr/include``, library at ``/usr/lib``.
* Found pthreads headers at ``/usr/include``, library at ``/usr/lib``.
running build_ext
cythoning tables/linkExtension.pyx to tables/linkExtension.c
building 'tables.linkExtension' extension
There's more output that indicates a bunch of architectural warnings, but no
errors. That looks OK to me because the errors are all for ppc and i386
architectures, and I should need the x86_64 stuff. Then if I run Python and
try to import tables, I get this error:
>> import tables
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "tables/__init__.py", line 63, in <module>
from tables.utilsExtension import getPyTablesVersion, getHDF5Version
ImportError: dlopen(tables/utilsExtension.so, 2): Symbol not found:
_SZ_BufftoBuffCompress
Referenced from: /usr/local/src/tables-2.2/tables/utilsExtension.so
Expected in: flat namespace
in /usr/local/src/tables-2.2/tables/utilsExtension.so
I've ended up with the same error through every permutation of the
installation process that I've tried. Does anyone know anything about
_SZ_BufftoBuffCompress? Very little shows up on Google, and nothing on this
mailing list. I assume from the name that it is a SZIP thing, so I tried
reinstalling that several times, building HDF5 with and without the SZIP
flag, etc., all to no avail.
Can anyone point me in the right direction?
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