[MITgcm-support] mnc package was enabled but tests failed to compile NetCDF

[Ben Ward]

Hello,
I am trying to setup MITgcm to run on a Mac Pro, 12 core (2 x 3.06 GHz 6-Core Intel Xeon) running Lion (OS X 10.7.4), but I cannot get genmake to see the netcdf package

I have installed gcc and gfortran from http://hpc.sourceforge.net/
hdf5 and netcdf-fortran have been installed with macports
MITgcm was checked out this morning with the darwin and quota packages. The testreport for quota comes back good.

I ran " ../../tools/genmake2 -mods=../code_limit ", and it selected the darwin_amd64_gfortran optfile, but spat out this error message:

*********************************************************************
WARNING: the "mnc" package was enabled but tests failed to compile
  NetCDF applications.  Please check that:

  1) NetCDF is correctly installed for this compiler and
  2) the LIBS variable (within the "optfile") specifies the correct
       NetCDF library to link against.

  Due to this failure, the "mnc" package is now DISABLED.
*********************************************************************

(The full output is pasted at the end of the email.)

I think this is related to the need to set the NETCDF_ROOT in the optfile. I think this is /opt/local, so I adjusted the optfile as follows

if [ "x$NETCDF_ROOT" != x ] ; then
    INCLUDEDIR="${NETCDF_ROOT}/opt/local/include"
    INCLUDES="-I${NETCDF_ROOT}/opt/local/include"
    LIBDIR="${NETCDF_ROOT}/opt/local/lib"
    LIBS="-L${NETCDF_ROOT}/opt/local/lib -lnetcdf -lcurl"
fi

this made no difference.

Any suggestions please.

thank you,

Ben





grieg:build ward$ ../../tools/genmake2 -mods=../code_limit

GENMAKE :

A program for GENerating MAKEfiles for the MITgcm project.
   For a quick list of options, use "genmake2 -h"
or for more detail see the Developer's HOWTO manual at:
   http://mitgcm.org/public/docs.html

===  Processing options files and arguments  ===
  getting local config information:  none found
Warning: ROOTDIR was not specified ; try using a local copy of MITgcm found at "../.."
  getting OPTFILE information:
Warning: no OPTFILE specified so we'll look for possible settings

===  Searching for possible settings for OPTFILE  ===
  The platform appears to be:  darwin_amd64
  The possible FORTRAN compilers found in your path are:  gfortran
  Setting OPTFILE to: ../../tools/build_options/darwin_amd64_gfortran
    using OPTFILE="../../tools/build_options/darwin_amd64_gfortran"
  getting AD_OPTFILE information:
    using AD_OPTFILE="../../tools/adjoint_options/adjoint_default"

===  Checking system libraries  ===
  Do we have the system() command using gfortran...  yes
  Do we have the fdate() command using gfortran...  yes
  Do we have the etime() command using gfortran...  no
  Can we call simple C routines (here, "cloc()") using gfortran...  yes
  Can we unlimit the stack size using gfortran...  yes
  Can we register a signal handler using gfortran...  no
  Can we use stat() through C calls...  yes
  Can we create NetCDF-enabled binaries...  no

===  Setting defaults  ===
  Adding MODS directories: ../code_limit 
  Making source files in eesupp from templates
  Making source files in pkg/exch2 from templates
  Making source files in pkg/regrid from templates

===  Determining package settings  ===
  getting package dependency info from  ../../pkg/pkg_depend
  getting package groups info from      ../../pkg/pkg_groups
  checking list of packages to compile:
    using PKG_LIST="../code_limit/packages.conf"
    before group expansion packages are: ptracers gchem darwin quota generic_advdiff mdsio sbo timeave rw monitor mnc kpp
    after group expansion packages are:  ptracers gchem darwin quota generic_advdiff mdsio sbo timeave rw monitor mnc kpp
  applying DISABLE settings
  applying ENABLE settings
    packages are:  darwin gchem generic_advdiff kpp mdsio mnc monitor ptracers quota rw sbo timeave
*********************************************************************
WARNING: the "mnc" package was enabled but tests failed to compile
  NetCDF applications.  Please check that:

  1) NetCDF is correctly installed for this compiler and
  2) the LIBS variable (within the "optfile") specifies the correct
       NetCDF library to link against.

  Due to this failure, the "mnc" package is now DISABLED.
*********************************************************************
  applying package dependency rules
    packages are: darwin gchem generic_advdiff kpp mdsio  monitor ptracers quota rw sbo timeave
  Adding STANDARDDIRS='eesupp model'
  Searching for *OPTIONS.h files in order to warn about the presence
    of "#define "-type statements that are no longer allowed:
    found CPP_OPTIONS="../code_limit/CPP_OPTIONS.h"
    found CPP_EEOPTIONS="../../eesupp/inc/CPP_EEOPTIONS.h"
  Creating the list of files for the adjoint compiler.

===  Creating the Makefile  ===
  setting INCLUDES
  Determining the list of source and include files
  Writing makefile: Makefile
  Add the source list for AD code generation
  Making list of "exceptions" that need ".p" files
  Making list of NOOPTFILES
  Add rules for links
  Adding makedepend marker

===  Done  ===
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