[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]

[netCDF #MLF-697840]: Parallel NetCDF 4.1.3 compile error finding HDFflush

Hi John,

We recommend this way to build with parallel I/O support:


This works for netCDF version 4.3.0, but I don't know for sure
whether it works for the older 4.1.3 release.  Is there some reason
you have to use version 4.1.3?  I notice you're building a separate 
netCDF-Fortran library anyway, which is what you would do if you
first build and install netCDF-C library version 4.3.0, then build
and install netCDF-Fortran version 4.2 according to these instructions:


paying attention to the parallel I/O instructions in step 4, under the 
"Using Static Libraries" section, if that's what you want to install.


> Full Name: John Eylander
> Email Address: address@hidden
> Organization: Army Cold Regions Research & Eng. Lab
> Package Version: 4.1.3
> Operating System: RHEL 6.2 64-bit OS
> Hardware: 64-Bit
> Description of problem: I'm having extreme troubles compiling NetCDF 4.1.3 
> (with parallel I/O support enabled).  I have HDF5 1.8.6 installed and 
> successfully compiled and installed.  I have searched all the google sources 
> I know to try to find the right flag or option to turn off/on with no luck.  
> Here is my NetCDF compile script:
> HDF_DIR=/u/home/eylandej/hdf5
> export CC=/site/intel/impi/
> export F77=/site/intel/impi/
> export CXX=/site/intel/impi/
> export FC=/site/intel/impi/
> export LD_LIBRARY_PATH=/u/home/eylandej/hdf5-1.8.6/lib:$LD_LIBRARY_PATH
> export FCFLAGS="-I/u/home/eylandej/hdf5/include 
> -I/u/home/eylandej/zlib-1.2.7/include -I/u/home/eylandej/szip-2.1/include 
> -m64"
> export CPPFLAGS="-I/u/home/eylandej/hdf5/include 
> -I/u/home/eylandej/zlib-1.2.7/include -I/u/home/eylandej/szip-2.1/include 
> -DpgiFortran"
> export FFLAGS="-I/u/home/eylandej/hdf5/include 
> -I/u/home/eylandej/zlib-1.2.7/include -I/u/home/eylandej/szip-2.1/include 
> -m64"
> export LDFLAGS="-L${HDF_DIR}/lib -L/u/home/eylandej/zlib-1.2.7/lib 
> -L/u/home/eylandej/szip-2.1/lib"
> LIBS="-ldl -lz -lm -lhdf5 -lhdf5_hl -lhdf5_fortran -lhdf5hl_fortran"
> ./configure --prefix=/u/home/eylandej/netcdf-4.1.3 
> --with-zlib=/u/home/eylandej/zlib-1.2.7 --with-szip=/u/home/eylandej/szip-2.1 
> \
> --enable-netcdf-4 --enable-pnetcdf4 --disable-dap --disable-shared 
> --enable-static \
> --enable-separate-fortran  --enable-f90 --with-udunits --with-libcf 
> --enable-large-file-tests --enable-parallel-tests
> This is the error I get during the "configure" stage of compiling NetCDF:
> checking for ptrdiff_t... yes
> checking for uchar... no
> checking for longlong... no
> checking whether char is unsigned... no
> checking whether byte ordering is bigendian... no
> checking size of short... 2
> checking size of int... 4
> checking size of long... 8
> checking size of float... 4
> checking size of double... 8
> checking size of off_t... 8
> checking size of size_t... 8
> checking for library containing deflate... none required
> checking for floor in -lm... yes
> checking for library containing H5Fflush... no
> configure: error: Can't find or link to the hdf5 library. Use 
> --disable-netcdf-4, or see config.log for errors.
> + exit
> I need to compile NetCDF 4 with parallel I/O support for WRF version 3.4.1. 
> Any ideas on what I have done wrong with my flags/options?  I've been 
> struggling with this for a couple of weeks...  Thanks in adance!
Russ Rew                                         UCAR Unidata Program
address@hidden                      http://www.unidata.ucar.edu

Ticket Details
Ticket ID: MLF-697840
Department: Support netCDF
Priority: Normal
Status: Closed

NOTE: All email exchanges with Unidata User Support are recorded in the Unidata inquiry tracking system and then made publicly available through the web. If you do not want to have your interactions made available in this way, you must let us know in each email you send to us.