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[netCDF #DNR-108136]: Having problems when building NetCDF-Fortran with static libraries



Hello,

Try modifying your configure command as follows:

    ./configure --prefix=/home/oriol/wrf-compiled/opt/netcdf-4.7.3/lib 
--disable-shared $(nc-config --libs --static) $(nc-config --cflags)

This assumes that `nc-config` is on your path; if it is not, use the absolute 
path to nc-config.  Give this a try and let me know if it resolves the issue, 
thanks!

-Ward


> Hello,
> 
> I'm having problems when building NetCDF-Fortran 4.5.2 with static libraries. 
> Required libraries (ZLIB, SZIP, HDF5, PNETCDF and NETCDF-C) are compiled 
> statically without any problem. But for NetCDF-Fortran I'm getting this 
> errors:
> 
> ./configure --prefix=/home/oriol/wrf-compiled/opt/netcdf-4.7.3/lib 
> --disable-shared
> 
> [...]
> checking for MPI_File_open... yes
> checking netcdf.h usability... yes
> checking netcdf.h presence... yes
> checking for netcdf.h... yes
> checking for library containing nc_open... no
> configure: error: Could not link to netcdf C library. Please set LDFLAGS.
> 
> The output of the config.log file is (find the full config.log file attached 
> to this mail):
> 
> [...]
> configure:22752: checking netcdf.h usability
> configure:22752: mpiicc -c -m64 -O3 -xHost -ip -no-prec-div -static-intel 
> -fPIC  -I/home/oriol/wrf-compiled/opt/zlib-1.2.11/include 
> -I/home/oriol/wrf-compiled/opt/libpng-1.6.37/include 
> -I/home/oriol/wrf-compiled/opt/szip-2.1.1/include 
> -I/home/oriol/wrf-compiled/opt/hdf5-1.10.6/include 
> -I/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/include 
> -I/home/oriol/wrf-compiled/opt/netcdf-4.7.3/include conftest.c >&5
> configure:22752: $? = 0
> configure:22752: result: yes
> configure:22752: checking netcdf.h presence
> configure:22752: mpiicc -E  
> -I/home/oriol/wrf-compiled/opt/zlib-1.2.11/include 
> -I/home/oriol/wrf-compiled/opt/libpng-1.6.37/include 
> -I/home/oriol/wrf-compiled/opt/szip-2.1.1/include 
> -I/home/oriol/wrf-compiled/opt/hdf5-1.10.6/include 
> -I/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/include 
> -I/home/oriol/wrf-compiled/opt/netcdf-4.7.3/include conftest.c
> configure:22752: $? = 0
> configure:22752: result: yes
> configure:22752: checking for netcdf.h
> configure:22752: result: yes
> configure:22764: checking for library containing nc_open
> configure:22795: mpiicc -o conftest -m64 -O3 -xHost -ip -no-prec-div 
> -static-intel -fPIC  -I/home/oriol/wrf-compiled/opt/zlib-1.2.11/include 
> -I/home/oriol/wrf-compiled/opt/libpng-1.6.37/include 
> -I/home/oriol/wrf-compiled/opt/szip-2.1.1/include 
> -I/home/oriol/wrf-compiled/opt/hdf5-1.10.6/include 
> -I/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/include 
> -I/home/oriol/wrf-compiled/opt/netcdf-4.7.3/include  
> -L/home/oriol/wrf-compiled/opt/zlib-1.2.11/lib 
> -L/home/oriol/wrf-compiled/opt/libpng-1.6.37/lib 
> -L/home/oriol/wrf-compiled/opt/libpng-1.6.37/lib 
> -L/home/oriol/wrf-compiled/opt/szip-2.1.1/lib 
> -L/home/oriol/wrf-compiled/opt/hdf5-1.10.6/lib 
> -L/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/lib 
> -L/home/oriol/wrf-compiled/opt/netcdf-4.7.3/lib conftest.c -lm  -lz -lpng 
> -lsz -lhdf5_hl -lhdf5 -lpnetcdf -lnetcdf >&5
> icc: warning #10237: -lcilkrts linked in dynamically, static library not 
> available
> /home/oriol/wrf-compiled/opt/netcdf-4.7.3/lib/libnetcdf.a(libnetcdfp_la-ncpdispatch.o):
>  In function `NCP_create':
> ncpdispatch.c:(.text+0x5b): undefined reference to `ncmpi_create'
> [...]
> 
> The environment variables are (set by: export ENV_VAR="value"):
> 
> LD_LIBRARY_PATH = 
> /opt/intel/compilers_and_libraries_2019.5.281/linux/compiler/lib/intel64_lin:/opt/intel/compilers_and_libraries_2019.5.281/linux/mpi/intel64/libfabric/lib:/opt/intel/compilers_and_libraries_2019.5.281/linux/mpi/intel64/lib/release:/opt/intel/compilers_and_libraries_2019.5.281/linux/mpi/intel64/lib:/opt/intel/compilers_and_libraries_2019.5.281/linux/tbb/lib/intel64/gcc4.7:/opt/intel/compilers_and_libraries_2019.5.281/linux/tbb/lib/intel64/gcc4.7:/home/oriol/wrf-compiled/opt/zlib-1.2.11/lib:/home/oriol/wrf-compiled/opt/szip-2.1.1/lib:/home/oriol/wrf-compiled/opt/hdf5-1.10.6/lib:/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/lib:/home/oriol/wrf-compiled/opt/netcdf-4.7.3/lib
> 
> CPPFLAGS = -I/home/oriol/wrf-compiled/opt/zlib-1.2.11/include 
> -I/home/oriol/wrf-compiled/opt/libpng-1.6.37/include 
> -I/home/oriol/wrf-compiled/opt/szip-2.1.1/include 
> -I/home/oriol/wrf-compiled/opt/hdf5-1.10.6/include 
> -I/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/include 
> -I/home/oriol/wrf-compiled/opt/netcdf-4.7.3/include
> 
> LDFLAGS = -L/home/oriol/wrf-compiled/opt/zlib-1.2.11/lib 
> -L/home/oriol/wrf-compiled/opt/libpng-1.6.37/lib 
> -L/home/oriol/wrf-compiled/opt/libpng-1.6.37/lib 
> -L/home/oriol/wrf-compiled/opt/szip-2.1.1/lib 
> -L/home/oriol/wrf-compiled/opt/hdf5-1.10.6/lib 
> -L/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/lib 
> -L/home/oriol/wrf-compiled/opt/netcdf-4.7.3/lib
> 
> The compilers used for all the libraries are:
> 
> CC=mpiicc
> CXX=mpiicpc
> FC=mpiifort
> F77=mpiifort
> F90=mpiifort
> F9X=mpiifort
> CFLAGS='-m64 -O3 -xHost -ip -no-prec-div -static-intel -fPIC'
> CXXFLAGS='-m64 -O3 -xHost -ip -no-prec-div -static-intel -fPIC'
> FFLAGS='-m64 -O3 -xHost -ip -no-prec-div -static-intel -fPIC'
> 
> It seems that NetCDF-Fortran cannot find the NetCDF-C static library, but the 
> static library is still there:
> 
> ls -l /home/oriol/wrf-compiled/opt/netcdf-4.7.3/lib
> total 1836
> -rw-r--r--. 1 root root 1868740 Feb 19 13:59 libnetcdf.a
> -rwxr-xr-x. 1 root root    1441 Feb 19 13:59 libnetcdf.la
> -rw-r--r--. 1 root root    1581 Feb 19 13:59 libnetcdf.settings
> drwxr-xr-x. 2 root root      23 Feb 19 13:59 pkgconfig
> 
> The content of libnetcdf.settings is:
> 
> # NetCDF C Configuration Summary
> ==============================
> 
> # General
> -------
> NetCDF Version:         4.7.3
> Dispatch Version:       1
> Configured On:          Wed Feb 19 13:58:56 UTC 2020
> Host System:            x86_64-pc-linux-gnu
> Build Directory:        /tmp/netcdf-c-4.7.3
> Install Prefix:         /home/oriol/wrf-compiled/opt/netcdf-4.7.3
> 
> # Compiling Options
> -----------------
> C Compiler:             
> /opt/intel/compilers_and_libraries_2019.5.281/linux/mpi/intel64/bin/mpiicc
> CFLAGS:                 -m64 -O3 -xHost -ip -no-prec-div -static-intel -fPIC
> CPPFLAGS:                -I/home/oriol/wrf-compiled/opt/zlib-1.2.11/include 
> -I/home/oriol/wrf-compiled/opt/libpng-1.6.37/include 
> -I/home/oriol/wrf-compiled/opt/szip-2.1.1/include 
> -I/home/oriol/wrf-compiled/opt/hdf5-1.10.6/include 
> -I/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/include
> LDFLAGS:                 -L/home/oriol/wrf-compiled/opt/zlib-1.2.11/lib 
> -L/home/oriol/wrf-compiled/opt/libpng-1.6.37/lib 
> -L/home/oriol/wrf-compiled/opt/libpng-1.6.37/lib 
> -L/home/oriol/wrf-compiled/opt/szip-2.1.1/lib 
> -L/home/oriol/wrf-compiled/opt/hdf5-1.10.6/lib 
> -L/home/oriol/wrf-compiled/opt/pnetcdf-1.12.1/lib
> AM_CFLAGS:
> AM_CPPFLAGS:
> AM_LDFLAGS:
> Shared Library:         no
> Static Library:         yes
> Extra libraries:        -lpnetcdf -lhdf5_hl -lhdf5 -lm  -lz -lpng -lsz 
> -lhdf5_hl -lhdf5 -lpnetcdf
> 
> # Features
> --------
> NetCDF-2 API:           yes
> HDF4 Support:           no
> HDF5 Support:           yes
> NetCDF-4 API:           yes
> NC-4 Parallel Support:  yes
> PnetCDF Support:        yes
> DAP2 Support:           no
> DAP4 Support:           no
> Byte-Range Support:     no
> Diskless Support:       yes
> MMap Support:           no
> JNA Support:            no
> CDF5 Support:           yes
> ERANGE Fill Support:    yes
> Relaxed Boundary Check: yes
> 
> 
> Please, could you help me solving the issue?
> 
> Thanks in advance,
> 
> Oriol
> 
> 
> 


Ticket Details
===================
Ticket ID: DNR-108136
Department: Support netCDF
Priority: Normal
Status: Closed
===================
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