Re: Warning! ***HDF5 library version mismatched error***

Hi,

We just released Version 6.1, which you may want to consider downloading.

Meanwhile, if I remember correctly, I think you have an NCL that might have been compiled incorrectly. Can you tell me which NCL 6.0 binary you downloaded, and I'll see if we have another one that might fix the problem?

--Mary

On Oct 30, 2012, at 11:52 AM, Alexander Semenov wrote:

> Hi
>
> I have a question. I'm running an ncl script on some high resolution data and it crashes with following error message. I looked it up on the internet. I found I should download some software, but it's only available for NCL/6.1.0.b. I'm running NCL/6.0.0. Could you help me with that please?
>
> Thank you
>
> 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 downlod
> 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 1.8.6
> SUMMARY OF THE HDF5 CONFIGURATION
> =================================
>
> General Information:
> -------------------
> HDF5 Version: 1.8.6
> Configured on: Mon May 23 09:21:22 MDT 2011
> Configured by: haley@mirage1
> Configure mode: production
> Host system: x86_64-unknown-linux-gnu
> Uname information: Linux mirage1 2.6.18-194.17.4.el5 #1 SMP Wed Oct 20 13:03:08 EDT 2010 x86_64 x86_64 x86_64 GNU/Linux
> Byte sex: little-endian
> Libraries:
> Installation point: /fs/blizzard/contrib/ncl-6.0.0/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_SOURCE -DNDEBUG -UH5_DEBUG_API
> AM_CPPFLAGS: -I/fs/blizzard/contrib/ncl-6.0.0/external/include -I/fs/blizzard/contrib/ncl-6.0.0/external/include -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_BSD_SOURCE
> Shared Libraries: no
> Static Libraries: yes
> Statically Linked Executables: no
> LDFLAGS:
> AM_LDFLAGS: -L/fs/blizzard/contrib/ncl-6.0.0/external/lib -L/fs/blizzard/contrib/ncl-6.0.0/external/lib
> Extra libraries: -lsz -lz -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
> GPFS: no
> Strict File Format Checks: no
> Optimization Instrumentation: no
> Large File Support (LFS): yes
> H5dump Packed Bits: yes
> Bye...
> Abort
>
> --
> regards
>
> *******************************************************
> Alex Semenov
>
> PhD Student - Research Assistant
> International Arctic Research Center
> Department of atmospheric sciences
> University of Alaska Fairbanks
>
> 930 Koyukuk dr, 408c3
> Fairbanks, AK, USA, 99775
> work phone +19074742672
>
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Received on Tue Oct 30 13:33:23 2012