Error Building CESM: Cannot Find -lnetcdf

[AshaJain]

Hello, I am porting CESM2.2 onto a CentOS 7 Linux machine. I have been playing around with the config_compilers.xml settings, but I am not able to resolve the following issue when building cesm from ./case.build.

ld: cannot find -lnetcdf
ld: cannot find -lmkl_cdft_core
ld: cannot find -lmkl_scalapack_lp64
ld: cannot find -lmkl_blacs_intelmpi_lp64

I have confirmed that netcdf, lapack and blas are installed. I've attached my config_compilers.xml and Macros.make. Any help to understand and solve this problem is greatly appreciated!

 

[jedwards]

You failed to mention the name of your machine and I don't see any listed in config_compilers.xml
mkl is provided with the intel compiler and if properly configured on your system should be found without any settings in cesm.

 

[AshaJain]

Hello, the machine name is viking-sky. Are you suggesting that there is no need to specify the mkl path in the machine specific compiler settings?

 

[jedwards]

config_compilers.xml expects to have environment variable NETCDF defined - is it? mkl should be in the intel
compiler distribution, you can look for it there and add that path to config_compilers.xml as well. If you don't have mkl
you should remove the mkl flags from SLIBS in the compiler definition. If you do have it you should use mkl instead of blas and lapack.

 

[AshaJain]

I believe I do have mkl. I tried adding the path to the SLIBS flag for viking-sky:

-L/cluster/apps/intel/2017.2.174/compilers_and_libraries_2017.2.174/linux/mkl/lib/intel64 -lmkl_rt

I also tried -mkl flag. Both of these attempts resulted in:
ld: cannot find -lmkl_cdft_core
ld: cannot find -lmkl_scalapack_lp64
ld: cannot find -lmkl_blacs_intelmpi_lp64