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[netCDF #EDP-282307]: installation of netcdf4 not working?

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  • Subject: [netCDF #EDP-282307]: installation of netcdf4 not working?
  • Date: Mon, 23 Feb 2009 11:08:10 -0700
> That's great - thanks Ed.
> Netcdf appears to be functioning correctly now.
>
> I know this is not strictly a netcdf question but....
>
> I'm still having problems compiling WRF, and I'm sure its to do with
> linking the hdf5 and netcdf4 libraries, with errors:
>
> L/home/rich/WRF/WRFV3/external/io_grib1 -lio_grib1
> -L/home/rich/WRF/WRFV3/external/io_grib_share -lio_grib_share
> -L/home/rich/WRF/WRFV3/external/io_int -lwrfio_int
> /home/rich/WRF/WRFV3/external/esmf_time_f90/libesmf_time.a
> /home/rich/WRF/WRFV3/external/esmf_time_f90/libesmf_time.a
> /home/rich/WRF/WRFV3/external/RSL_LITE/librsl_lite.a
> /home/rich/WRF/WRFV3/frame/module_internal_header_util.o
> /home/rich/WRF/WRFV3/frame/pack_utils.o
> /home/rich/WRF/WRFV3/external/io_netcdf/libwrfio_nf.a
> -L/usr/local/test/lib -lnetcdf -lnetcdff
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5Tget_member_type'
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5P_CLS_FILE_CREATE_g'
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5T_NATIVE_SHORT_g'
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5Pcreate'
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5Tcopy'
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5Pget_filter2'
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5Aget_space'
> /usr/local/test/lib/libnetcdf.so: undefined reference to
> `H5Sget_simple_extent_dims'
> /usr/local/test/lib/libnetcdf.so: undefined reference to `H5Topen2'
>
> .... and so on...
>
> The LD_LIBRARY_PATH variable is set to /usr/local/test/lib, where zlib,
> hdf5, netcdf4 are all installed.
>
> All help greatly appreciated!
> Rich

Howdy Rich!

Looks to me like you are not linking to the HDF5 libraries. You must change
your build like to something like this:

     cc -o myprogram myprogram.o -L/usr/local/netcdf/lib -L/usr/local/hdf5/lib
     -lnetcdf -lhdf5_hl -lhdf5 -lz

That is, where you currently have "-lnetcdf", you need "-lnetcdf -lhdf5_hl
-lhdf5 -lz"

Please let me know if this doesn't work for you. I would also be very
interested to hear about your netCDF-4 experiences with WRF.

Thanks,

Ed


Ticket Details
===================
Ticket ID: EDP-282307
Department: Support netCDF
Priority: Normal
Status: Closed