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[netCDF #RSG-712199]: Problems linking to NetCDF f90 interface

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  • Subject: [netCDF #RSG-712199]: Problems linking to NetCDF f90 interface
  • Date: Tue, 07 Aug 2012 13:05:32 -0600
Craig,

> I wasn't able to solve my Intel compiler linking problems on this cluster, so 
> I switched to the PGI compilers and made it work:
> 
> module add pgi
> module add mpich2/pgi
> module add netcdf-4.1.1/pgi
> setenv LD_LIBRARY_PATH /share/apps/hdf5/1.8.6/pgi/lib:${LD_LIBRARY_PATH}
> setenv FC pgf90
> pgf90 `nc-config --fflags` pres_temp_4D_wr.f90 -o wr.exe `nc-config --flibs`
> wr.exe
> ncdump -v pres -f fortran pres_temp_4D.nc
> 
> data:
> 
> pres =
> 900,   // pres(1,1,1,1)
> 901,   // pres(2,1,1,1)
> 902,   // pres(3,1,1,1)
> 903,   // pres(4,1,1,1)
> . . .
> 1053,   // pres(10,6,2,3)
> 1054,   // pres(11,6,2,3)
> 1055;  // pres(12,6,2,3)
> }
> 
> Not the greatest solution, but at least I can build and run NetCDF apps now .

I'm glad you found a solution.  We don't have a cluster with ifort on which
to test, so I'm still not sure what the problem was with linking the Fortran
and C libraries to an application.

--Russ

> On Aug 6, 2012, at 5:14 PM, Unidata netCDF Support wrote:
> 
> > Hi Craig,
> >
> >> I just built and installed version 4.4-beta1 of the Fortran 90 interface 
> >> for NetCDF on multiple systems.
> >>
> >> My builds pass all built-in NetCDF tests on all 3 systems (make check | & 
> >> tee check.log).
> >>
> >> An example program (pres_temp_4D_wr.f90) provided by NCAR (attached) 
> >> builds and runs fine on both my Mac laptop (OS X 10.7) and the SDSC Gordon 
> >> linux cluster.
> >>
> >> However, the build fails on our local university linux cluster with errors 
> >> like the following:
> >>
> >> ifort ${FFLAGS} -I${NETCDF}/include -L${NETCDF}/lib -lnetcdf -lnetcdff 
> >> pres_temp_4D_wr.f90 -o wr.exe
> >
> > I think you need to have -lnetcdf *after* -lnetcdff, because the Fortran 
> > library calls
> > functions in the C library.
> >
> > --Russ
> >
> >> /tmp/ifortgqaUzq.o: In function `pres_temp_4d_wr_IP_writenetcdf_':
> >> pres_temp_4D_wr.f90:(.text+0x1292): undefined reference to 
> >> `netcdf_mp_nf90_create_'
> >> pres_temp_4D_wr.f90:(.text+0x131a): undefined reference to 
> >> `netcdf_mp_nf90_def_dim_'
> >> pres_temp_4D_wr.f90:(.text+0x1352): undefined reference to 
> >> `netcdf_mp_nf90_def_dim_'
> >> pres_temp_4D_wr.f90:(.text+0x1387): undefined reference to 
> >> `netcdf_mp_nf90_def_dim_'
> >> pres_temp_4D_wr.f90:(.text+0x13bc): undefined reference to 
> >> `netcdf_mp_nf90_def_dim_'
> >> pres_temp_4D_wr.f90:(.text+0x13f5): undefined reference to 
> >> `netcdf_mp_nf90_def_dim_'
> >> pres_temp_4D_wr.f90:(.text+0x151d): undefined reference to 
> >> `netcdf_mp_nf90_def_var_onedim_'
> >> pres_temp_4D_wr.f90:(.text+0x155d): undefined reference to 
> >> `netcdf_mp_nf90_def_var_onedim_'
> >> pres_temp_4D_wr.f90:(.text+0x1655): undefined reference to 
> >> `netcdf_mp_nf90_def_var_manydims_'
> >> pres_temp_4D_wr.f90:(.text+0x16d1): undefined reference to 
> >> `netcdf_mp_nf90_def_var_manydims_'
> >> pres_temp_4D_wr.f90:(.text+0x174d): undefined reference to 
> >> `netcdf_mp_nf90_def_var_manydims_'
> >> pres_temp_4D_wr.f90:(.text+0x178c): undefined reference to 
> >> `netcdf_mp_nf90_put_att_text_'
> >> pres_temp_4D_wr.f90:(.text+0x17cb): undefined reference to 
> >> `netcdf_mp_nf90_put_att_text_'
> >> pres_temp_4D_wr.f90:(.text+0x180a): undefined reference to 
> >> `netcdf_mp_nf90_put_att_text_'
> >> pres_temp_4D_wr.f90:(.text+0x1849): undefined reference to 
> >> `netcdf_mp_nf90_put_att_text_'
> >> pres_temp_4D_wr.f90:(.text+0x1888): undefined reference to 
> >> `netcdf_mp_nf90_put_att_text_'
> >> pres_temp_4D_wr.f90:(.text+0x18fe): undefined reference to 
> >> `netcdf_mp_nf90_enddef_'
> >> pres_temp_4D_wr.f90:(.text+0x198a): undefined reference to 
> >> `netcdf_mp_nf90_put_var_1d_fourbytereal_'
> >> pres_temp_4D_wr.f90:(.text+0x19cb): undefined reference to 
> >> `netcdf_mp_nf90_put_var_1d_fourbytereal_'
> >> pres_temp_4D_wr.f90:(.text+0x1cb3): undefined reference to 
> >> `netcdf_mp_nf90_put_var_text_'
> >> pres_temp_4D_wr.f90:(.text+0x1e02): undefined reference to 
> >> `netcdf_mp_nf90_put_var_3d_fourbytereal_'
> >> pres_temp_4D_wr.f90:(.text+0x1f47): undefined reference to 
> >> `netcdf_mp_nf90_put_var_3d_fourbytereal_'
> >> pres_temp_4D_wr.f90:(.text+0x2011): undefined reference to 
> >> `netcdf_mp_nf90_close_'
> >> pres_temp_4D_wr.f90:(.text+0x217c): undefined reference to 
> >> `netcdf_mp_nf90_strerror_'
> >> pres_temp_4D_wr.f90:(.text+0x2290): undefined reference to 
> >> `netcdf_mp_nf90_strerror_'
> >> pres_temp_4D_wr.f90:(.text+0x23a4): undefined reference to 
> >> `netcdf_mp_nf90_strerror_'
> >> pres_temp_4D_wr.f90:(.text+0x24b8): undefined reference to 
> >> `netcdf_mp_nf90_strerror_'
> >> pres_temp_4D_wr.f90:(.text+0x25cc): undefined reference to 
> >> `netcdf_mp_nf90_strerror_'
> >> /tmp/ifortgqaUzq.o:pres_temp_4D_wr.f90:(.text+0x26e0): more undefined 
> >> references to `netcdf_mp_nf90_strerror_' follow
> >>
> >> The objects seem to be in the appropriate NetCDF library:
> >>
> >> nm -A -g $NETCDF/lib/libnetcdff.a | grep netcdf_mp_nf90_create_
> >> /nethome/cmattock/usr/local/netcdf4/lib/libnetcdff.a:netcdf.o:00000000000002c0
> >>  T netcdf_mp_nf90_create_
> >> /nethome/cmattock/usr/local/netcdf4/lib/libnetcdff.a:netcdf.o:00000000000000a0
> >>  T netcdf_mp_nf90_create_mp_
> >>
> >> nm -A -g $NETCDF/lib/libnetcdff.a | grep netcdf_mp_nf90_def_dim_
> >> /nethome/cmattock/usr/local/netcdf4/lib/libnetcdff.a:netcdf.o:0000000000000340
> >>  T netcdf_mp_nf90_def_dim_
> >>
> >> etc.
> >>
> >> I can compile the program:
> >> ifort -c ${FFLAGS} -I${NETCDF}/include pres_temp_4D_wr.f90
> >>
> >> ls -l
> >> -rw-r--r-- 1 cmattock soden 15886 Aug  3 14:02 pres_temp_4D_wr.f90
> >> -rw-r--r-- 1 cmattock soden 38992 Aug  3 17:49 pres_temp_4D_wr.o
> >>
> >> but I can't seem to link the object to the Fortran libraries.
> >>
> >> What am I doing wrong? Any hints or suggestions?
> >>
> >> Thank you!
> >> Craig
> >>
> >> ---------------------------------------------------
> >> Dr. Craig A. Mattocks
> >> Atmospheric Research Scientist
> >> Meteorology and Physical Oceanography, MSC 339
> >> Rosenstiel School of Marine and Atmospheric Science
> >> University of Miami
> >> 4600 Rickenbacker Causeway
> >> Miami, FL 33149-1301
> >> phone: (305) 421-4287
> >> e-mail: address@hidden
> >> address@hidden
> >> http://www.rsmas.miami.edu/about-rsmas/
> >> ---------------------------------------------------
> >>
> >>
> >
> > Russ Rew                                         UCAR Unidata Program
> > address@hidden                      http://www.unidata.ucar.edu
> >
> >
> >
> > Ticket Details
> > ===================
> > Ticket ID: RSG-712199
> > Department: Support netCDF
> > Priority: Normal
> > Status: Closed
> >
> 
> 

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



Ticket Details
===================
Ticket ID: RSG-712199
Department: Support netCDF
Priority: Normal
Status: Closed