HDF5 library and header mismatch error
Question: I am using Anaconda on Ubuntu x64. When I run a simple python program, I get
this error message and a [python] kernel dump. I have seen other questions
with similar problems, but all the answers I see don't resolve my issue. I
have tried removing and reinstalling h5py with both `pip` and `conda`, but I
get the same error:

    
    
    idf@DellInsp:~/Documents/Projects/python3$ python3 testtables.py 
    

With this code inside testtables.py

    
    
    import tables
    tables.test()
    
    
    -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
    PyTables version:    3.2.2
    HDF5 version:        1.8.11
    NumPy version:       1.10.1
    Numexpr version:     2.4.4 (not using Intel's VML/MKL)
    Zlib version:        1.2.8 (in Python interpreter)
    Blosc version:       1.4.4 (2015-05-05)
    Blosc compressors:   blosclz (1.0.2.1), lz4 (1.2.0), lz4hc (1.2.0), snappy (1.1.1), zlib (1.2.8)
    Cython version:      0.23.4
    Python version:      3.5.0 |Anaconda 2.4.0 (64-bit)| (default, Oct 19 2015, 21:57:25) 
    [GCC 4.4.7 20120313 (Red Hat 4.4.7-1)]
    Platform:            Linux-3.19.0-39-lowlatency-x86_64-with-debian-jessie-sid
    Byte-ordering:       little
    Detected cores:      4
    Default encoding:    utf-8
    Default FS encoding: utf-8
    Default locale:      (en_US, UTF-8)
    -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
    Performing only a light (yet comprehensive) subset of the test suite.
    If you want a more complete test, try passing the --heavy flag to this script
    (or set the 'heavy' parameter in case you are using tables.test() call).
    The whole suite will take more than 4 hours to complete on a relatively
    modern CPU and around 512 MB of main memory.
    -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
    /home/idf/anaconda3/lib/python3.5/site-packages/tables/filters.py:292: FiltersWarning: compression library ``bzip2`` is not available; using ``zlib`` instead
      % (complib, default_complib), FiltersWarning)
    /home/idf/anaconda3/lib/python3.5/site-packages/tables/filters.py:292: FiltersWarning: compression library ``lzo`` is not available; using ``zlib`` instead
      % (complib, default_complib), FiltersWarning)
    /home/idf/anaconda3/lib/python3.5/site-packages/tables/atom.py:570: DeprecationWarning: inspect.getargspec() is deprecated, use inspect.signature() instead
      for arg in inspect.getargspec(self.__init__)[0]
    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 but
    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 environment
    variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.
    Setting it to 2 or higher will suppress the warning messages totally.
    Headers are 1.8.11, library is 1.8.15
            SUMMARY OF THE HDF5 CONFIGURATION
            =================================
    
    General Information:
    -------------------
               HDF5 Version: 1.8.15-patch1
              Configured on: Wed Oct 14 16:46:37 CDT 2015
              Configured by: ilan@centos5x64.corp.continuum.io
             Configure mode: production
                Host system: x86_64-unknown-linux-gnu
              Uname information: Linux centos5x64.corp.continuum.io 2.6.18-400.1.1.el5 #1 SMP Thu Dec 18 00:59:53 EST 2014 x86_64 x86_64 x86_64 GNU/Linux
                   Byte sex: little-endian
                  Libraries: shared
             Installation point: /home/ilan/minonda/envs/_build
    
    Compiling Options:
    ------------------
                   Compilation Mode: production
                         C Compiler: /usr/bin/gcc ( gcc (GCC) 4.1.2 20080704 )
                             CFLAGS: 
                          H5_CFLAGS: -std=c99 -pedantic -Wall -Wextra -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -Wno-long-long -Wfloat-equal -Wmissing-format-attribute -Wmissing-noreturn -Wpacked -Wdisabled-optimization -Wformat=2 -Wunreachable-code -Wendif-labels -Wdeclaration-after-statement -Wold-style-definition -Winvalid-pch -Wvariadic-macros -Wnonnull -Winit-self -Wmissing-include-dirs -Wswitch-default -Wswitch-enum -Wunused-macros -Wunsafe-loop-optimizations -Wc++-compat -Wvolatile-register-var -O3 -fomit-frame-pointer -finline-functions
                          AM_CFLAGS: 
                           CPPFLAGS: 
                        H5_CPPFLAGS: -D_DEFAULT_SOURCE -D_BSD_SOURCE -D_GNU_SOURCE -D_POSIX_C_SOURCE=200112L   -DNDEBUG -UH5_DEBUG_API
                        AM_CPPFLAGS: -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE 
                   Shared C Library: yes
                   Static C Library: no
      Statically Linked Executables: no
                            LDFLAGS: 
                         H5_LDFLAGS: 
                         AM_LDFLAGS: 
            Extra libraries: -lrt -lz -ldl -lm 
                   Archiver: ar
                 Ranlib: ranlib
              Debugged Packages: 
                API Tracing: no
    
    Languages:
    ----------
                            Fortran: no
    
                                C++: yes
                       C++ Compiler: /usr/bin/g++ ( g++ (GCC) 4.1.2 20080704 )
                          C++ Flags: 
                       H5 C++ Flags:  
                       AM C++ Flags: 
                 Shared C++ Library: yes
                 Static C++ Library: no
    
    Features:
    ---------
                      Parallel HDF5: no
                 High Level library: yes
                       Threadsafety: no
                Default API Mapping: v18
     With Deprecated Public Symbols: yes
             I/O filters (external): deflate(zlib)
                                MPE: no
                         Direct VFD: no
                            dmalloc: no
    Clear file buffers before write: yes
               Using memory checker: no
             Function Stack Tracing: no
          Strict File Format Checks: no
       Optimization Instrumentation: no
    Bye...
    Aborted (core dumped)
    idf@DellInsp:~/Documents/Projects/python3$ 
    


Answer: I removed then installed version the latest version of Anaconda. This resolved
this issues.

