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[netCDF #HHK-313132]: hdf5-1.8.X problem before netcdf-4.1.X

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  • Subject: [netCDF #HHK-313132]: hdf5-1.8.X problem before netcdf-4.1.X
  • Date: Fri, 17 Feb 2012 06:11:17 -0700
Hi Matthias,

> I would like to compile netcdf4.1.X with an intel compiler.
> Hence, I installed /opt/intel-12.1.2/composer_xe_2011_sp1.8.273 for C,
> C++ and Fortran libraries.
> 
> Also, I reinstalled zlib and szip with this intel compiler.
> I used the same flags as in the following post
> (https://www.unidata.ucar.edu/mailing_lists/archives/netcdfgroup/2011/msg00422.html):
> 
> export F77=ifort
> export FC=ifort
> export FCFLAGS='-O3 -ip'
> export FFLAGS='-O3 -ip'
> export CC=icc
> export CFLAGS='-O3 -ip'
> export CXX=icpc
> export CXXFLAGS='-O3 -ip'
> 
> Now, in configure hdf5-1.8.7 as follows:
> ./configure --with-zlib=/usr/local/zlib-1.2.6_intel_12.1.2
> --with-szlib=/usr/local/szip-2.1_intel_12.1.2
> --prefix=/usr/local/hdf5-1.8.7_intel_12.1.2 --enable-fortran --enable-cxx
> 
> that works fine.
> With "make", all goes well.
> 
> But when doing "sudo make install" I get the following error:
> test -z "/usr/local/hdf5-1.8.7_intel_12.1.2/bin" || /bin/mkdir -p
> "/usr/local/hdf5-1.8.7_intel_12.1.2/bin"
> /usr/bin/install -c h5c++ '/usr/local/hdf5-1.8.7_intel_12.1.2/bin'
> test -z "/usr/local/hdf5-1.8.7_intel_12.1.2/lib" || /bin/mkdir -p
> "/usr/local/hdf5-1.8.7_intel_12.1.2/lib"
> /bin/bash ../../libtool   --mode=install /usr/bin/install -c
> libhdf5_cpp.la '/usr/local/hdf5-1.8.7_intel_12.1.2/lib'
> libtool: install: warning: relinking `libhdf5_cpp.la'
> libtool: install: (cd /media/dataspace/Downloads/hdf5-1.8.7/c++/src;
> /bin/bash /media/dataspace/Downloads/hdf5-1.8.7/libtool  --silent --tag
> CXX --mode=relink icpc -O3 -ip -version-info 7:1:0
> -L/usr/local/zlib-1.2.6_intel_12.1.2/lib
> -L/usr/local/szip-2.1_intel_12.1.2/lib -o libhdf5_cpp.la -rpath
> /usr/local/hdf5-1.8.7_intel_12.1.2/lib H5Exception.lo H5IdComponent.lo
> H5Library.lo H5Attribute.lo H5Object.lo H5PropList.lo H5FaccProp.lo
> H5FcreatProp.lo H5DcreatProp.lo H5DxferProp.lo H5DataType.lo
> H5DataSpace.lo H5AbstractDs.lo H5AtomType.lo H5PredType.lo H5EnumType.lo
> H5IntType.lo H5FloatType.lo H5StrType.lo H5ArrayType.lo H5VarLenType.lo
> H5CompType.lo H5DataSet.lo H5CommonFG.lo H5Group.lo H5File.lo
> ../../src/libhdf5.la -lsz -lz -lm )
> /media/dataspace/Downloads/hdf5-1.8.7/libtool: line 8964: icpc: command
> not found
> libtool: install: error: relink `libhdf5_cpp.la' with the above command
> before installing it
> 
> So it seems I have a problem with icpc??
> 
> I also tried hdf5-1.8.8, but that gave me the same error.
> 
> I was wondering whether you have any idea what is wrong?
> Please find in attach the summary of the hdf5 config.

I'm guessing you need to source the file iccvars.sh from the Intel compiler 
installation, but
this is an HDF5 question, so you might get better answers asking address@hidden
or see:

  http://www.hdfgroup.org/services/support.html

Incidentally, for netCDF, you don't need to compile the HDF5 Fortran or C++ 
APIs, netCDF-4
only uses the HDF5 C library.

--Russ


Russ Rew                                         UCAR Unidata Program
address@hidden                      http://www.unidata.ucar.edu



Ticket Details
===================
Ticket ID: HHK-313132
Department: Support netCDF
Priority: High
Status: Closed