A problem with making MCIP

MCIP
1

When I use intel compiler to compile MCIP, I get the following error, I have looked up a lot of information and I can’t determine whether it is a problem with my netcdf or ioapi, please help me, how can I solve it. Here is my error message and my makefile
MAKEFILE
#…Intel Fortran
FC = ifort
NETCDF = /public/home/ecichm/liuc/tools/netcdf4.5
IOAPI_ROOT = /public/source/ioapi-3.2
###FFLAGS = -g -O0 -check all -C -traceback -FR -I$(NETCDF)/include \

-I$(IOAPI_ROOT)/Linux2_x86_64ifort

FFLAGS = -FR -O3 -traceback -I$(NETCDF)/include -I$(IOAPI_ROOT)/Linux2_x86_64ifort
LIBS = -L$(IOAPI_ROOT)/Linux2_x86_64ifort -lioapi
-L$(NETCDF)/lib -lnetcdff -lnetcdf

DEFS =

ERROR:
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_fetchurl_file': d4http.c:(.text+0x73): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x91): undefined reference to curl_easy_setopt' d4http.c:(.text+0xaa): undefined reference to curl_easy_setopt’
d4http.c:(.text+0xc4): undefined reference to curl_easy_setopt' d4http.c:(.text+0xdf): undefined reference to curl_easy_perform’
d4http.c:(.text+0x10a): undefined reference to curl_easy_getinfo' d4http.c:(.text+0x117): undefined reference to curl_easy_strerror’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_fetchurl': d4http.c:(.text+0x186): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x1a4): undefined reference to curl_easy_setopt' d4http.c:(.text+0x1c4): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x1d8): undefined reference to curl_easy_setopt' d4http.c:(.text+0x1ea): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x1fa): undefined reference to curl_easy_perform' d4http.c:(.text+0x221): undefined reference to curl_easy_getinfo’
d4http.c:(.text+0x245): undefined reference to curl_easy_getinfo' d4http.c:(.text+0x255): undefined reference to curl_easy_strerror’
d4http.c:(.text+0x2cc): undefined reference to curl_easy_strerror' d4http.c:(.text+0x2ef): undefined reference to curl_easy_strerror’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_curlopen': d4http.c:(.text+0x3fe): undefined reference to curl_easy_init’
d4http.c:(.text+0x41e): undefined reference to curl_easy_setopt' d4http.c:(.text+0x433): undefined reference to curl_easy_strerror’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_curlclose': d4http.c:(.text+0x4d6): undefined reference to curl_easy_cleanup’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_fetchlastmodified': d4http.c:(.text+0x4f5): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x513): undefined reference to curl_easy_setopt' d4http.c:(.text+0x527): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x53b): undefined reference to curl_easy_setopt' d4http.c:(.text+0x54f): undefined reference to curl_easy_setopt’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o):d4http.c:(.text+0x563): more undefined references to curl_easy_setopt' follow /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_fetchlastmodified’:
d4http.c:(.text+0x57f): undefined reference to curl_easy_perform' d4http.c:(.text+0x59c): undefined reference to curl_easy_getinfo’
d4http.c:(.text+0x5a9): undefined reference to curl_easy_strerror' /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_ping’:
d4http.c:(.text+0x5f6): undefined reference to curl_easy_init' d4http.c:(.text+0x616): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x623): undefined reference to curl_easy_strerror' d4http.c:(.text+0x6a5): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x6c3): undefined reference to curl_easy_setopt' d4http.c:(.text+0x6e1): undefined reference to curl_easy_setopt’
d4http.c:(.text+0x6ff): undefined reference to curl_easy_setopt' d4http.c:(.text+0x725): undefined reference to curl_easy_setopt’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o):d4http.c:(.text+0x743): more undefined references to curl_easy_setopt' follow /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4http.o): In function NCD4_ping’:
d4http.c:(.text+0x795): undefined reference to curl_easy_perform' d4http.c:(.text+0x7bc): undefined reference to curl_easy_getinfo’
d4http.c:(.text+0x7d1): undefined reference to curl_easy_strerror' d4http.c:(.text+0x843): undefined reference to curl_easy_getinfo’
d4http.c:(.text+0x86f): undefined reference to curl_easy_cleanup' d4http.c:(.text+0x88f): undefined reference to curl_easy_strerror’
d4http.c:(.text+0x8be): undefined reference to curl_easy_strerror' d4http.c:(.text+0x8e1): undefined reference to curl_easy_strerror’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libnetcdf4_la-nc4attr.o): In function NC4_rename_att': nc4attr.c:(.text+0x98c): undefined reference to H5Adelete’
nc4attr.c:(.text+0xa4d): undefined reference to H5Adelete' /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libnetcdf4_la-nc4attr.o): In function NC4_del_att’:
nc4attr.c:(.text+0xc57): undefined reference to H5Adelete' /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4curlfunctions.o): In function NCD4_set_flags_perlink’:
d4curlfunctions.c:(.text+0x237): undefined reference to curl_easy_setopt' /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4curlfunctions.o): In function set_curlflag’:
d4curlfunctions.c:(.text+0x2e8): undefined reference to curl_easy_setopt' d4curlfunctions.c:(.text+0x30b): undefined reference to curl_easy_setopt’
d4curlfunctions.c:(.text+0x33d): undefined reference to curl_easy_setopt' d4curlfunctions.c:(.text+0x37b): undefined reference to curl_easy_setopt’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4curlfunctions.o):d4curlfunctions.c:(.text+0x3c9): more undefined references to curl_easy_setopt' follow /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4curlfunctions.o): In function NCD4_curl_protocols’:
d4curlfunctions.c:(.text+0x86a): undefined reference to curl_version_info' /public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdf.a(libdap4_la-d4curlfunctions.o): In function NCD4_reportcurlerror’:
d4curlfunctions.c:(.text+0x8ea): undefined reference to curl_easy_strerror' make[1]: *** [mcip.exe] Error 1 make[1]: Leaving directory /public/home/ecichm/liuc/tools/CMAQ-5.3/PREP/mcip/src’
make: *** [all] Error 2

2

Hi @liuchang!

This appears to be an error with your netCDF library. There were some errors with netCDF and the curl functions in earlier versions of netCDF. The excerpt from your Makefile shows that you are using netCDF 4.5. Please install a newer version of netCDF. Then you will need to also rebuild I/O API with the newer netCDF. Then change your Makefile to point to the newer version of netCDF and the updated build of I/O API with that code.

Hope this helps!
–Tanya

3

You could try to add -lcurl after -lnetcdf, but you also may need to add the path to the curl library using -L{CURL}/lib -lcurl, where CURL is the path to the curl library.

5

Thank you for your reply. However, I tried to modify it as you suggested, and the following problem appeared after adding the paths to curl and hdf5, do you have a good solution?
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_put_var1_int64_': /public/source/netcdf-fortran-4.4.4/fortran/nf_nc4.f90:2082: multiple definition of nf_put_var1_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x71360): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_put_vara_int64_': nf_nc4.f90:(.text+0x95df): multiple definition of nf_put_vara_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x713a0): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_put_vars_int64_': nf_nc4.f90:(.text+0x9ef7): multiple definition of nf_put_vars_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x713e0): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_put_varm_int64_': nf_nc4.f90:(.text+0xac46): multiple definition of nf_put_varm_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x71420): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_put_var_int64_': nf_nc4.f90:(.text+0xbde7): multiple definition of nf_put_var_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x71320): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_get_var1_int64_': nf_nc4.f90:(.text+0xbe3c): multiple definition of nf_get_var1_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x71380): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_get_vara_int64_': nf_nc4.f90:(.text+0xc325): multiple definition of nf_get_vara_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x713c0): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_get_vars_int64_': nf_nc4.f90:(.text+0xcc3d): multiple definition of nf_get_vars_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x71400): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_get_varm_int64_': nf_nc4.f90:(.text+0xd98c): multiple definition of nf_get_varm_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x71440): first defined here
/public/source/ioapi-3.2/Linux2_x86_64ifort/libnetcdff.a(nf_nc4.o): In function nf_get_var_int64_': nf_nc4.f90:(.text+0xeb2d): multiple definition of nf_get_var_int64_’
/public/source/ioapi-3.2/Linux2_x86_64ifort/libioapi.a(modncfio.o):modncfio.F90:(.text+0x71340): first defined here
ld: /public/home/ecichm/liuc/tools/curl/lib/libcurl.so: undefined reference to symbol ‘inflate’
/usr/lib64/libz.so.1: error adding symbols: DSO missing from command line
make[1]: *** [mcip.exe] Error 1
make[1]: Leaving directory `/public/home/ecichm/liuc/tools/CMAQ-5.3/PREP/mcip/src’
make: *** [all] Error 2

6

@liuchang –

If you rebuild netCDF with a new option, then you also need to rebuild I/O API afterward with that new netCDF library. It is not clear from your reply if you have already done that.

–Tanya

7

Add -qopenmp to the LIBS. Like the following:

LIBS = -L$(IOAPI_ROOT)/Linux2_x86_64ifort -lioapi
-L$(NETCDF)/lib -lnetcdff -lnetcdf -qopenmp

8

Thanks for the suggestion, I have successfully solved it after recompiling netcdf as well as ioapi and adding -qopenmp to the makefile!