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[H5part] Re: the latest version H5Hut ?

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  • From: Xiaohu Guo <xiaohu.guo AT>
  • To: "Gsell Achim (PSI)" <achim.gsell AT>
  • Cc: h5part <h5part AT>
  • Subject: [H5part] Re: the latest version H5Hut ?
  • Date: Thu, 2 Jul 2015 23:13:29 +0100
  • List-archive: <>
  • List-id: H5Part development and discussion <>

Dear Achim,
Please neglect my attached config.log. I have reinstalled the
autoconf automake and libtool. And after I have done autreconf, it now
seems pass configure successfully and start building now. But now I get
this error messages during make.

libtool: link: /usr/local/bin/mpicc -g -O2 -o h5u_test h5u_test.o
h5u_write.o h5u_read.o testframe.o -L/usr/local/Cellar/hdf5/1.8.14/lib
-L/Users/xguo/tools/H5hut-1.99.13/src/lib -lH5hut -lhdf5 -lz -lm
Undefined symbols for architecture x86_64:
"_H5Pset_fapl_mpiposix", referenced from:
_h5_open_file in libH5hut.a(h5_openclose.o)
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see
make[2]: *** [h5u_test] Error 1
make[1]: *** [all-recursive] Error 1
make: *** [all] Error 2

Is this because of using version hdf5-1.8.14 ? Thanks !

Best Regards

On 02/07/2015 23:00, "Xiaohu Guo" <xiaohu.guo AT> wrote:

>Dear Achim
> Sorry to take a so long to reply, I have retried this and I put the
>config.log and make error in the attachment. Many thanks for your help !
> BTW, I am using homebrew.
>Best Regards
>On 01/07/2015 16:09, "Gsell Achim (PSI)" <achim.gsell AT> wrote:
>>Hi Xiaohu
>>On 01 Jul 2015, at 11:02, xiaohu.guo AT wrote:
>>> I am trying to recompile the H5hut-1.99.13 on my mac (yosimite).
>>>the configure stage is fine, but when I type make, it seems go into
>>>indefinitely loop of doing the configure. I wonder if you could offer
>>>the latest version that I can use ? the version that you have provided
>>>me is 1.99.13. Many thanks for you help !
>>Can you please send me the output of 'configure' and 'make'? Which
>>compiler and MPI implementation are you using? What is the hdf5 version?
>The mpi version is homebrew openmpi-1.8.4
>hdf5 is 1.8.14
>Gcc is 5.1.0
>>H5hut 1.99.13 should compile without problems on Linux and Mac OS X
>>(including Yosemite). We compile H5hut 1.99.13 with GCC 4.7.4, 4.8.3,
>>4.8.3, 4.9.2, Intel C 15.0.3, OpenMPI 1.6.5, 1.8.2, 1.8.4 and hdf5
>>1.8.12. You cannot use hdf5 1.8.14 with H5hut 1.99.13. Bit this will be
>>fixed soon.
>>Paul Scherrer Institut
>>Achim Gsell
>>CH-5032 Villigen PSI
>>+41 56 310 47 33

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