Instructions for running the "beaufort" 40x40x50 configuration
face=6; ix=101:300; jx=290:449; kx=1:50;

1. Set up and log in to cvs server
  bash or sh shell: export CVSROOT=':pserver:cvsanon@mitgcm.org:/u/gcmpack'
  tcsh or csh shell: setenv CVSROOT ':pserver:cvsanon@mitgcm.org:/u/gcmpack'
  cvs login ( enter the CVS password: "cvsanon" )

2. Get code, input, and README files from CVS server
  cvs co -d beaufort MITgcm_contrib/MPMice/beaufort
  cd beaufort
  cvs co MITgcm_code

3. Obtain copies of following directories and put them in beaufort
  ftp://ecco2.jpl.nasa.gov/data1/beaufort/run_template
  ftp://ecco2.jpl.nasa.gov/data1/data/blend_forcing/cube78_forcing
   (Note the forcing files in cube78_forcing span many years.
    To save time, you only need to download the years of interest,
    *92 for example below, plus the runoff-360x180x12.bin file)

4. Get the ice code, PM2
	Obtain directories PM2/F95 and PM2/config from ...??
	call the directory containting PM2, ICE_DIR, 
	in my case ICE_DIR=/dm5/bep/sulsky/seaice on pollux
	           ICE_DIR=/workg/bep/sulsky/seacie on gemini
	           
	The PM2/config/hosts files for gemini and pollux  assume petsc is installed in
	        PETSCDIR = /dm5/bep/sulsky/Packages/petsc-2.3.3-p8  on pollux
	        PETSCDIR = /workg/bep/sulsky/Packages/petsc-2.3.3-p8 on gemini
	If petsc is installed elsewhere, then change the directory specification.
	(The configure command to build petsc on gemini or pollux is
	./config/configure.py --with-debug=1 --with-fc=/opt/intel/fc/9.1.051/bin/ifort
--with-f90=/opt/intel/fc/9.1.051/bin/ifort --with-mpi-dir=/opt/mpich/ch-p4
--with-blas-lapack-dir=/opt/intel/mkl/9.1.023/lib/64  for debuggable code and
	
	./config/configure.py --with-debug=0 --with-fc=/opt/intel/fc/9.1.051/bin/ifort
--with-f90=/opt/intel/fc/9.1.051/bin/ifort --with-mpi-dir=/opt/mpich/ch-p4
--with-blas-lapack-dir=/opt/intel/mkl/9.1.023/lib/64 for optimized code.)
	
	Input files go in MITgcm/ice (pm2input, pm2geometry) After compile step, run
	PM2-Pre once to generate pm2_grid.nc pm2_part.nc with initial geometry. 
	
=============================================
Running on a linux workstation:

5. Compile code:
 cd MITgcm
 mkdir bin exe
 cd bin
 ../tools/genmake2 -mods=../../code
 make depend
 make -j

6. Model execution:
 cd ../exe
 cp ../../run_template/* .
 cp ../../input/* .
 cp ../bin/mitgcmuv .
 ./mitgcmuv >& output.txt &

=============================================
Running on gemini.

5. Compile code:
 cd MITgcm
 mkdir bin exe
 cd bin
 \cp ../../code/* .
 \mv SIZE.h_2 SIZE.h
 ../tools/genmake2 -of ../tools/build_options/linux_ia64_ifort+mpi_altix_jpl
 make depend
 make -j
 
6. Model execution:
 cd ../exe
 cp ../../run_template/* .
 cp ../bin/mitgcmuv .
 bsub < jobfile
 bjobs

=============================================
Running MITgcm and MPMice on gemini.

5. Compile code:
 cd MITgcm
 mkdir bin
 cd bin
 \rm *
 \cp ../../code/* .
 \mv SIZE.h_2 SIZE.h
 \mv CPP_EEOPTIONS.h_CPL CPP_EEOPTIONS.h
 ../tools/genmake2 -of ../tools/build_options/linux_ia64_ifort+mpi_altix_jpl
 make depend
 make -j
 
 cd ICE_DIR
 make
 
 ONCE ONLY: (only need to redo if geometry changes)
 cd MITgcm/ice
 mpirun -np 1 ICE_DIR/PM2-Pre
 
 cd MITgcm
 
6. Model execution:
 cd ..
 \rm out err
 mkdir ocean
 cd ocean
 \rm *
 cp ../../run_template/* .
 cd ..
 cp -r ../ice .
 \cp bin/mitgcmuv .
 \cp ice/PM2 .
 bsub < ocean/jobfile2
 bjobs