ldt compile error-undefined reference to symbol 'SZ_BufftoBuffCompress

[jachungithub]

Hi,

New error messages were encountered while LDT (LISF_public_release_7.3.3) was being compiled..
FYI, the Intel Comiler version is 21.3.
Any suggestions would be really appreciated.
Thank you,

error messages

ld: /opt/kma/kma_lib/apps/hdf4/4.2.15_fort/INTEL/210/lib//libdf.a(cszip.o): undefined reference to symbol 'SZ_BufftoBuffCompress'
//opt/kma/kma_lib/apps/szip/2.1.1/lib/libsz.so.2: error adding symbols: DSO missing from command line
make: *** [LDT] Error 1

[ERR] Compile failed

configure.ldt

FC = mpiifort
FC77 = mpiifort
LD = mpiifort
CC = mpiicc
AR = ar
MOD_ESMF = /opt/kma/kma_lib/apps/esmf_mpi/710R/INTEL/210/mod/modO/Linux.intel.64.intelmpi.default
LIB_ESMF = /opt/kma/kma_lib/apps/esmf_mpi/710R/INTEL/210/lib/libO/Linux.intel.64.intelmpi.default
INC_JPEG2000 = /opt/kma/kma_lib/apps/openjpeg/2.3.1/include/
LIB_JPEG2000 = /opt/kma/kma_lib/apps/openjpeg/2.3.1/lib/
INC_ECCODES = /opt/kma/kma_lib/apps/eccodes/2.16.0/INTEL/210/include/
LIB_ECCODES = /opt/kma/kma_lib/apps/eccodes/2.16.0/INTEL/210/lib/
INC_NETCDF = /opt/kma/kma_lib/apps/netcdf/4.7.3/INTEL/210/include/
LIB_NETCDF = /opt/kma/kma_lib/apps/netcdf/4.7.3/INTEL/210/lib/
INC_HDF4 = /opt/kma/kma_lib/apps/hdf4/4.2.15_fort/INTEL/210/include/
LIB_HDF4 = /opt/kma/kma_lib/apps/hdf4/4.2.15_fort/INTEL/210/lib/
INC_HDF5 = /opt/kma/kma_lib/apps/hdf5/1.10.3/INTEL/210/include/
LIB_HDF5 = /opt/kma/kma_lib/apps/hdf5/1.10.3/INTEL/210/lib/
INC_HDFEOS = /opt/kma/kma_lib/apps/hdfeos2/2.20/INTEL/210/include/
LIB_HDFEOS = /opt/kma/kma_lib/apps/hdfeos2/2.20/INTEL/210/lib/
INC_FORTRANGIS1 =
INC_FORTRANGIS2 =
LIB_FORTRANGIS =
INC_LIBGEOTIFF =
LIB_LIBGEOTIFF =
LIB_GDAL =
CFLAGS = -c -DIFC
FFLAGS77 = -c -O2 -nomixed-str-len-arg -names lowercase -convert big_endian -assume byterecl -DSPMD -DIFC -I$(MOD_ESMF) -DUSE_INCLUDE_MPI -I$(INC_ECCODES) -I$(INC_NETCDF) -I$(INC_HDFEOS) -I$(INC_HDF4) -I$(INC_HDF5)
FFLAGS = -c -O2 -u -traceback -fpe0 -nomixed-str-len-arg -names lowercase -convert big_endian -assume byterecl -DSPMD -DIFC -I$(MOD_ESMF) -DUSE_INCLUDE_MPI -I$(INC_ECCODES) -I$(INC_NETCDF) -I$(INC_HDFEOS) -I$(INC_HDF4) -I$(INC_HDF5)
LDFLAGS = -L$(LIB_ESMF) -lesmf -lstdc++ -limf -lm -lrt -lz -lmpi -L$(LIB_ECCODES) -leccodes_f90 -leccodes -L$(LIB_JPEG2000) -lopenjp2 -L$(LIB_NETCDF) -lnetcdff -lnetcdf -L$(LIB_HDFEOS) -lhdfeos -lGctp -L$(LIB_HDF4) -lmfhdf -ldf -ljpeg -lz -L$(LIB_HDF5) -lhdf5_fortran -lhdf5_hl -lhdf5 -ldl

Thanks a lot!

[bmcandr]

Hi @jachungithub, a quick Google search suggests that your HDF4 library may have been built with SZIP support and needs to be linked when you compile LISF components.

Try editing your configure.ldt file to add -lsz after -L$(LIB_HDF4) -lmfhdf -ldf -ljpeg -lz on the last line (LDFLAGS = ...). You may also need to add the path to the SZIP installation to your LD_LIBRARY_PATH environment variable.

See these links for descriptions of this error and potential solutions:

• https://www.ncl.ucar.edu/Support/talk_archives/all/1880.html
• https://netcdfgroup.unidata.ucar.narkive.com/1oRjmi1y/missing-lm-and-lsz-library-issue#post5

[jachungithub]

Thanks a lot!
Finally, the compiling of LDT/LIS has been finished with a warning message:

ld: warning: libjpeg.so.7, needed by /opt/kma/kma_lib/apps/netcdf-fortran/4.5.2/INTEL/210/lib/libnetcdff.so, may conflict with libjpeg.so.9

However, I expect that no more issues will be coming up at LDT/LIS simulations.
In case, any suggestions will be welcome on the warning message above.

Thanks again,