# Instructions for setting up 28-level CS510 integrations with sea-ice
# (example below is for cube81 216-cpu configuration on Columbia).

# get code from anonymous CVS server
 cd /nobackup2a/menemenl/cs510/cs510_28lev
 cvs co MITgcm_contrib/high_res_cube/cs510_28lev
 cvs co MITgcm_code

# build and compile code
# example below is for a 216-cpu configuration on Columbia




# Get confiuration and forcing files.
# Example below is for cube81 forcing on
# columbia:/nobackup2a/menemenl
 cd /nobackup2a/menemenl
 mkdir cube81
 cd cube81
 ln -sf ../run_template .
 ln -sf ../cube78_forcing .
 ln -sf ../ncep_rgau/ .

# 510*510*6*50, 450-cpu cube sphere on altix with ifort
cd MITgcm
mkdir build run
cd build
\rm *
\cp ../../MITgcm_contrib/high_res_cube/code-mods/* .
\cp ../../MITgcm_contrib/high_res_cube/code-mods/s1350t_34x34/* .
\mv SIZE.h_450 SIZE.h 
../tools/genmake2 -of linux_ia64_ifort+mpi_altix_nas
make depend
make -j
cd ../run
\rm *
\cp ../../MITgcm_contrib/high_res_cube/input/* .
ln -sf ../../run_template/* .
\rm pickup* *192_94* *.m D*1 E* G*all.bin L* W*10.bin h*[6-7] PHC*
\mv data.exf_hr data.exf
\mv data_hr data
ln -sf ../../run_template/pickup.0000000216.cube78 pickup.0000000216
ln -sf ../../run_template/pickup_seaice.0000000216.cube78 pickup_seaice.0000000216
ln -sf ../../run_template/pickup.0000000216.meta.cube78 pickup.0000000216.meta
ln -sf ../../run_template/pickup_seaice.0000000216.meta.cube78 pickup_seaice.0000000216.meta
\cp ../build/mitgcmuv .
\mv job_altix cube81
qsub cube81

# generating initial pickup files for cube78
data
# run for 4 days from time step 216 with 2-min time step
 endtime=345600.,
 deltaT=120.,
 pChkptFreq=345600.,
 monitorFreq=1.,

cd ../../run_template
mv pickup.0000000216.cube78 pickup.0000000216.cube78_raw
mv pickup_seaice.0000000216.cube78 pickup_seaice.0000000216.cube78_raw
cd ../cube78/MITgcm/run
\mv pickup.0000002880.data ../../run_template/pickup.0000000216.cube78
\mv pickup_seaice.0000002880.data ../../run_template/pickup_seaice.0000000216.cube78
\mv pickup.0000002880.meta ../../run_template/pickup.0000000216.meta.cube78
\mv pickup_seaice.0000002880.meta ../../run_template/pickup_seaice.0000000216.meta.cube78
\rm *.meta *.data STD* cube78.o*
\cp ../../MITgcm_contrib/high_res_cube/input/data_hr data
ln -sf ../../run_template/pickup.0000000216.cube78 pickup.0000000216
ln -sf ../../run_template/pickup_seaice.0000000216.cube78 pickup_seaice.0000000216
ln -sf ../../run_template/pickup.0000000216.meta.cube78 pickup.0000000216.meta
ln -sf ../../run_template/pickup_seaice.0000000216.meta.cube78 pickup_seaice.0000000216.meta
qsub cube78