Grid Rotate Makefile Errors

[Nickhalden1]

I am attempting to make the grid_rotate executable following the standard instructions in 2.1 here: http://www2.mmm.ucar.edu/projects/mpas/tutorial/UK2015/

My command to make the executable is as follows: mpif90 grid_rotate.f90 -o grid_rotate -ffree-line-length-none -I/root/mpas/libraries/include -L/root/mpas/libraries/lib -lnetcdff -lnetcdf

However when doing so I receive multiple errors, such as these:

/root/mpas/libraries/lib/libnetcdf.a(libnetcdf4_la-nc4hdf.o): In function `var_exists':
nc4hdf.c.text+0x4d12): undefined reference to `H5Lexists'

/root/mpas/libraries/lib/libnetcdf.a(libnetcdfp_la-ncpdispatch.o): In function `NCP_get_vara':
ncpdispatch.c.text+0x1363): undefined reference to `ncmpi_inq_varndims'
ncpdispatch.c.text+0x1428): undefined reference to `ncmpi_inq_vartype'

/root/mpas/libraries/lib/libnetcdf.a(libnetcdfp_la-ncpdispatch.o): In function `NCP_create':
ncpdispatch.c.text+0x12a): undefined reference to `ncmpi_create'

Note: I have compiled all required to run MPAS in /root/mpas/libraries/ - and from this configuration have ran successful simulations with quasi-uniform meshes.

I have the following configurations for NetCDF Fortran and NetCDF C.

nf-config --all
This netCDF-Fortran 4.4.3 has been built with the following features:
--cc -> gcc
--cflags -> -I/root/mpas/libraries/include -I/root/mpas/libraries/include
--fc -> mpif90
--fflags -> -I/root/mpas/libraries/include
--flibs -> -L/root/mpas/libraries/lib -lnetcdff -L/root/mpas/libraries/lib -lnetcdf -lnetcdf -lnetcdf -lhdf5_hl -lhdf5 -lz -ldl
--has-f90 -> no
--has-f03 -> yes
--has-nc2 -> no
--has-nc4 -> yes
--prefix -> /root/mpas/libraries
--includedir-> /root/mpas/libraries/include
--version -> netCDF-Fortran 4.4.3

nc-config --all
This netCDF 4.5.0 has been built with the following features:
--cc -> mpicc
--cflags -> -I/root/mpas/libraries/include -I/root/mpas/libraries/include
--libs -> -L/root/mpas/libraries/lib -L/root/mpas/libraries/lib -lnetcdf -lpnetcdf -lhdf5_hl -lhdf5 -ldl -lm -lhdf5_hl -lhdf5 -lz -ldl
--has-c++ -> no
--cxx ->
--has-c++4 -> no
--cxx4 ->
--has-fortran-> yes
--fc -> mpif90
--fflags -> -I/root/mpas/libraries/include
--flibs -> -L/root/mpas/libraries/lib -lnetcdff -L/root/mpas/libraries/lib -lnetcdf -lnetcdf -lnetcdf -lhdf5_hl -lhdf5 -lz -ldl
--has-f90 -> no
--has-f03 -> yes
--has-dap -> no
--has-dap4 -> no
--has-nc2 -> yes
--has-nc4 -> yes
--has-hdf5 -> yes
--has-hdf4 -> no
--has-logging-> no
--has-pnetcdf-> yes
--has-szlib -> no
--has-parallel -> yes
--has-cdf5 -> no
--prefix -> /root/mpas/libraries
--includedir-> /root/mpas/libraries/include
--libdir -> /root/mpas/libraries/lib
--version -> netCDF 4.5.0

Where am I making an error? Thank you very much in advance!

 

[mgduda]

Since your netCDF library was built with support for reading/writing in HDF5 format and via the pnetcdf library, I think you'll just need to add a few extra libraries in your build command. Could you try

mpif90 grid_rotate.f90 -o grid_rotate -ffree-line-length-none -I/root/mpas/libraries/include -L/root/mpas/libraries/lib -lnetcdff -lnetcdf -lpnetcdf -lhdf5_hl -lhdf5 -lz -ldl -lm

? These extra libraries can be found in the output of nc-config in the "--libs" line.

As a side note, there is an updated version of the tutorial here: http://www2.mmm.ucar.edu/projects/mpas/tutorial/Boulder2018/index.html .