[ncl-talk] Interesting error

[Wei Huang]

Gerry,

This message tells you that you have a HDF5 version used/installed is
different to
what NCL used.

Usually, just set env. variable HDF5_DISABLE_VERSION_CHECK to 1,
as suggested in the error message, should solve your problem.
Or, you probably need to switch your current HDF5 off.

Regards,

Wei

================================================
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On Tue, Dec 16, 2014 at 2:40 PM, Gerry Creager - NOAA Affiliate <
gerry.creager at noaa.gov> wrote:
>
> We attempted to run the attached script against a wrfout, and see the
> following error:
>
> 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 1.8.5, library is 1.8.13
>     SUMMARY OF THE HDF5 CONFIGURATION
>     =================================
>
> General Information:
> -------------------
>    HDF5 Version: 1.8.13
>   Configured on: Sun Aug 31 08:57:09 MDT 2014
>   Configured by: haley at k5
>  Configure mode: production
>     Host system: i686-pc-linux-gnu
>       Uname information: Linux k5 2.6.18-371.9.1.el5 #1 SMP Tue May 13
> 06:54:02 EDT 2014 i686 i686 i386 GNU/Linux
>        Byte sex: little-endian
>       Libraries: static
>      Installation point: /d2/haley/external
>
> Compiling Options:
> ------------------
>                Compilation Mode: production
>                      C Compiler: /usr/bin/gcc ( gcc (GCC) 4.1.2 20080704 )
>                          CFLAGS: -fPIC
>                       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: -D_FILE_OFFSET_BITS=64
> -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE
>                     H5_CPPFLAGS: -D_POSIX_C_SOURCE=199506L   -DNDEBUG
> -UH5_DEBUG_API
>                     AM_CPPFLAGS: -I/d2/haley/external/include
> -I/d2/haley/external/include -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE
> -D_BSD_SOURCE
>                Shared C Library: no
>                Static C Library: yes
>   Statically Linked Executables: no
>                         LDFLAGS:
>                      H5_LDFLAGS:
>                      AM_LDFLAGS:  -L/d2/haley/external/lib
> -L/d2/haley/external/lib
>    Extra libraries:  -lsz -lz -lrt -ldl -lm
>         Archiver: ar
>    Ranlib: ranlib
>        Debugged Packages:
>     API Tracing: no
>
> Languages:
> ----------
>                         Fortran: no
>
>                             C++: 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),szip(encoder)
>          I/O filters (internal): shuffle,fletcher32,nbit,scaleoffset
>                             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
>        Large File Support (LFS): yes
> Bye...
> Abort (core dumped)
>
>
> I'll upload some sample wrfouts so you can see what the input files look
> like.
>
> Thanks
> Gerry
> --
> Gerry Creager
> NSSL/CIMMS
> 405.325.6371
> ++++++++++++++++++++++
> “Big whorls have little whorls,
> That feed on their velocity;
> And little whorls have lesser whorls,
> And so on to viscosity.”
> Lewis Fry Richardson (1881-1953)
>
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