Date: Sat, 31 Aug 2013 13:04:41 -0400 From: "John W. O'Brien" <john@saltant.com> To: wen@freebsd.org, sunpoet@freebsd.org Cc: freebsd-python@FreeBSD.org Subject: devel/py-tables dumps core after science/hdf5-18 upgrade to 1.8.10 (r325778) Message-ID: <52222229.6070303@saltant.com>
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Hello wen@, sunpoet@, and python@,
I just wanted to call your attention to this because it might warrant a
mention in UPDATING, though the hdf5 error message is helpfully verbose.
Rebuilding devel/py-tables after the upgrade fixes this. Other ports
that depend upon science/hdf5-18 are likely affected too.
% pkg_info -xI tables hdf
hdf5-1.8.10 Hierarchical Data Format library (from NCSA)
py27-tables-3.0.0 Hierarchical database for Python
% python -c 'import tables; print(tables.get_hdf5_version())'
1.8.9
% nosetests tables.tests.test_basics
Warning! ***HDF5 library version mismatched error***
The HDF5 header files used to compile this application do not match
the version used by the HDF5 library to which this application is linked.=
Data corruption or segmentation faults may occur if the application
continues.
This can happen when an application was compiled by one version of HDF5 b=
ut
linked with a different version of static or shared HDF5 library.
You should recompile the application or check your shared library related=
settings such as 'LD_LIBRARY_PATH'.
You can, at your own risk, disable this warning by setting the environmen=
t
variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.
Setting it to 2 or higher will suppress the warning messages totally.
Headers are 1.8.9, library is 1.8.10
SUMMARY OF THE HDF5 CONFIGURATION
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D
General Information:
-------------------
HDF5 Version: 1.8.10-patch1
[...]
Bye...
Abort (core dumped)
%
Thank you,
John
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