Run arctic40km adjoint
######################

Current setup is 1-year 1979, on 15 procs
-----------------------------------------
o cost terms are 
  * theta/salt climatology (incl. annual cycle)
  * SST, SSS
  * daily seaice concentration
  (see code_ad/ECCO_CPPOPTIONS.h, 
  input_ad/data.ecco, input_ad/data.seaice)
o forward part has all kpp, gmredi, seaice,
  adjoint part has SEAICEuseDYNAMICS=.FALSE., see
  code_ad/autodiff_inadmode_set_ad.F
  code_ad/autodiff_inadmode_unset_ad.F

To build code (on columbia):
---------------------------
cd build/
../../../tools/genmake2 -of ../../../tools/build_options/linux_ia64_ifort+mpi_altix_nas -mods ../code_ad
make depend
make adtaf
make -j adall

To run the code:
---------------
Currently:
Need input parameter files from input_ad/
Need input fields from /nobackup2a/heimbach/ecco/arctic40km/data/input/

Optimization/linesearch:
-----------------------
T.B.D.

####################################################################

Instructions for 10-year 1979-1988 arctic40km adjoint, on 15 procs
last modified by D. Menemenlis (menemenlis@jpl.nasa.gov) on 07/03/06
--------------------------------------------------------------------
o cost terms are 
  * theta/salt climatology (incl. annual cycle)
  * SST, SSS
  * daily seaice concentration
  (see code_ad/ECCO_CPPOPTIONS.h, 
  input_ad/data.ecco, input_ad/data.seaice)
o forward part has all kpp, gmredi, seaice,
  adjoint part has SEAICEuseDYNAMICS=.FALSE., see
  code_ad/autodiff_inadmode_set_ad.F
  code_ad/autodiff_inadmode_unset_ad.F

To get code:
------------
cvs co MITgcm_code
cd MITgcm
cvs co -d arctic40km MITgcm_contrib/arctic40km
cd arctic40km/input_ad
wget -nd -r -A"ICECONC*" http://mit.ecco-group.org/datasets/MITgcm_input_files/MITgcm_contrib/arctic40km/input
wget -nd -r -A"*.bin" http://mit.ecco-group.org/datasets/MITgcm_input_files/MITgcm_contrib/arctic40km/input
wget -nd -r -A"topog.bin_130_102" http://mit.ecco-group.org/datasets/MITgcm_input_files/MITgcm_contrib/arctic40km/input
wget -nd -r -A"*.phc_130_102_25_12" http://mit.ecco-group.org/datasets/MITgcm_input_files/MITgcm_contrib/arctic40km/input
cd ../..

Also need to have "ncep_rgau" directory available at same level as MITgcm
ncep_rgau files are available at http://ecco2.org/products/model_setups/ncep_rgau
-------------------------------------------------------------------------

To build code (on columbia):
---------------------------
mkdir bin
cd bin
\rm *
../tools/genmake2 -of ../tools/build_options/linux_ia64_ifort+mpi_altix_nas -mods ../arctic40km/code_ad
make depend
make adtaf
make -j adall

To run the code:
---------------
cd ..
\cp arctic40km/input_ad/runarctic.csh .
qsub runarctic.csh