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[netCDF #BKL-976066]: NETCDF

> Hi,
> 
> Martin Schmidt
> Institute for Baltic Sea Research
> 
> address@hidden
> 
> netcdf 4.1.2
> 
> I am trying to build netcdf 4.1.2 at SLES10.
> 
> Compiling zlib 1.2.5 and hdf5 works without any problems.
> 
> configure for netcdf4 is called as follows
> export CC=icc
> export FC=ifort
> export CXX=icpc
> export CFLAGS="-O3 -fPIC
> -Wl,-rpath,/sw/dataformats/netcdf/4.1.2-intel/lib
> -Wl,-rpath,/sw/intel/Compiler/11.1/073/lib/intel64"
> export FCFLAGS="-O3 -fPIC
> -Wl,-rpath,/sw/dataformats/netcdf/4.1.2-intel/lib
> -Wl,-rpath,/sw/intel/Compiler/11.1/073/lib/intel64"
> export FFLAGS="-O3 -fPIC
> -Wl,-rpath,/sw/dataformats/netcdf/4.1.2-intel/lib
> -Wl,-rpath,/sw/intel/Compiler/11.1/073/lib/intel64"
> export F90FLAGS="-O3 -fPIC
> -Wl,-rpath,/sw/dataformats/netcdf/4.1.2-intel/lib
> -Wl,-rpath,/sw/intel/Compiler/11.1/073/lib/intel64"
> export LDFLAGS="-fPIC -L/sw/dataformats/netcdf/4.1.2-intel/lib"
> ./configure --with-zlib=/sw/dataformats/zlib/1.2.5
> --with-szlib=/sw/dataformats/szip/2.1
> --with-hdf5=/sw/dataformats/hdf5/intel-11/1.8.6
> --enable-large-file-tests --enable-shared --enable-docs-install
> --prefix=/sw/dataformats/netcdf/4.1.2-intel
> 
> make works and checks are without failure. However, the wrong version of
> the zlib is linked to nccopy and ncdump.
> readelf reveals
> 0x0000000000000001 (NEEDED)             Shared library: [libz.so]
> 
> No path. This is the version installed in the system.
> 
> Looking into the Makefile one sees the correct path to the libz, but at
> other places libz is linked again, now with the wrong path
> to /usr/lib64.
> 
> In the installation instruction of hdf5, zlib 1.2.5 is required explicitly.
> 
> I did not edit the Makefiles by hand. Is there another way to fix this?
> 
> Greetings,
> Martin Schmidt
> 
> 

Howdy Martin,

The problem is that your linker is finding the older version of libz instead of 
the 1.2.5 version you have installed. The correct way to proceed (and the whole 
point of shared libraries) would be to update the older version of libz in 
/usr/lib64 directory.

If this is not possible (perhaps because you are not system administrator) then 
try setting environment variable LD_LIBRARY_PATH to the directory that holds 
the shared libraries (like zlib version 1.2.5) that you want to use in 
preference to the ones in /usr/lib64.

For more tips on shared libraries, see our FAQ:
http://www.unidata.ucar.edu/software/netcdf/docs/faq.html#Shared%20Libraries

Thanks,

Ed

Ticket Details
===================
Ticket ID: BKL-976066
Department: Support netCDF
Priority: Normal
Status: Closed