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run.ogcm.std
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#!/bin/csh
#BSUB -W 8:00
#BSUB -q gmao_hi
#BSUB -n 24
#BSUB -o std.out%J
#BSUB -e std.err%J
#BSUB -J ogcm_std
#BSUB -P g0609
#######################################################################
# Batch Parameters for Altix
#######################################################################
#PBS -l walltime=12:00:00
#PBS -l ncpus=48
#PBS -V
#PBS -N ogcm_std
##PBS -q pproc
#PBS -W group_list=g0620
#######################################################################
# System Environment Variables
#######################################################################
umask 022
limit stacksize unlimited
setenv ARCH `uname`
setenv MPI_TYPE_MAX 65536
setenv DSM_DISTRIBUTE
setenv MPI_DSM_VERBOSE
setenv MPI_DSM_DISTRIBUTE
setenv MPI_USE_XPMEM
setenv MPI_BUFFER_MAX 2000
setenv MPI_MSGS_MAX 1048576
if( $ARCH == 'OSF1' ) then
# setenv BASEDIR /share/ESMA/baselibs/v1_8r1p
setenv BASEDIR /unsipp/trayanov/baselibs/v2_2rp2
setenv LD_LIBRARY_PATH ${LD_LIBRARY_PATH}:${BASEDIR}/${ARCH}/lib
setenv RUN_CMD "prun -n"
# setenv RUN_CMD "totalview prun -a -n"
setenv BCSDIR /share/ltakacs/geos5/bcs
endif
if( $ARCH == 'IRIX64' ) then
setenv BASEDIR /share/ESMA/baselibs/v1_8r1p
setenv LD_LIBRARY64_PATH ${LD_LIBRARY64_PATH}:${BASEDIR/${ARCH}/lib
setenv AGCM_N_THREADS_PER_PROCESS 1
setenv RUN_CMD "mpirun -np"
setenv BCSDIR /share/ltakacs/geos5/bcs
endif
if ($ARCH == 'Linux' ) then
setenv RUN_CMD "mpirun -np"
# setenv RUN_CMD "totalview mpirun -a -np"
setenv BCSDIR /u/ltakacs/geos5/bcs
endif
#######################################################################
# Set Experiment Directories
#######################################################################
setenv APPLDIR /nobackup/yuri/mom/GEOSGCM/Linux/bin
setenv EXPID test
setenv MASTOR /nobackup/yuri/mom
setenv EXPDIR $MASTOR/$EXPID
setenv WRKDIR $EXPDIR/wrkdir
setenv GRIDDIR /nobackup/yuri/mom/orig_files/Forcings
#setenv SST_DIR /atmos/pegion/sst/ESMF/single_variable
rm $HOME/mom/$EXPID/ogcm_std.*
if (! -e $EXPDIR/history ) mkdir $EXPDIR/history
if (! -e $EXPDIR/listings ) mkdir $EXPDIR/listings
if (! -e $EXPDIR/restarts ) mkdir $EXPDIR/restarts
if (! -e $WRKDIR ) mkdir -p $WRKDIR
cd $WRKDIR
/bin/rm -Rf *
#######################################################################
# Set Model Run Parameters
#######################################################################
set NX = 12
set NY = 4
set IM = 360
set JM = 180
set LM = 72
set DATELINE = DE
set OCEAN_IM = 360
set OCEAN_JM = 200
set OCEAN_LM = 50
set DT = 3600
set BEG_DATE = '19500101 000000'
set END_DATE = '20050302 210000'
set JOB_SGMT = '00000100 000000'
set EXPDSC = "OGCM_GEOS5_MIT"
set ANALYSIS = 0
#######################################################################
# Create CAP Resource File
#######################################################################
set FILE = CAP.rc
/bin/rm $FILE
cat << _EOF_ > $FILE
NX: $NX
NY: $NY
IM: $IM
JM: $JM
LM: $LM
APP_IM: $IM
APP_JM: $JM
APP_LM: $LM
OCEAN_IM: $OCEAN_IM
OCEAN_JM: $OCEAN_JM
OCEAN_LM: $OCEAN_LM
CAP_GC1_config_file: GCM.rc
CAP_GC2_config_file: HISTORY.rc
BEG_DATE: $BEG_DATE
END_DATE: $END_DATE
JOB_SGMT: $JOB_SGMT
RUN_DT: $DT
DATELINE: $DATELINE
_EOF_
#######################################################################
# Create History List for Output
#######################################################################
set FILE = HISTORY.rc
/bin/rm $FILE
cat << _EOF_ > $FILE
EXPID: $EXPID
EXPDSC: OGCM_GEOS5_MIT
list(1)%filename: 'geosgcm_ocean',
list(1)%frequency: 1200000,
list(1)%duration: 0,
list(1)%fields: 'TS' , 'MOM',
'US' , 'MOM',
'VS' , 'MOM',
'SS' , 'MOM',
'DH' , 'MOM',
'T' , 'MOM',
'S' , 'MOM',
'U' , 'MOM',
'V' , 'MOM',
'RHO' , 'MOM',
::
list(2)%filename: 'geosgcm_guest',
list(2)%frequency: 1200000,
list(2)%duration: 0,
list(2)%fields: 'US' , 'OCEAN',
'VS' , 'OCEAN',
'TS' , 'OCEAN',
'SS' , 'OCEAN',
'QFLUX' , 'OCEAN',
'HFLUX' , 'OCEAN',
'SFLUX' , 'OCEAN',
'TAUX' , 'OCEAN',
'TAUY' , 'OCEAN',
'HW0' , 'OCEAN',
'TW0' , 'OCEAN',
'SW0' , 'OCEAN',
'HW1' , 'OCEAN',
'TW1' , 'OCEAN',
'SW1' , 'OCEAN',
'SWHEAT', 'OCEAN',
::
_EOF_
# T S H U V B Ue Ve TW1 Taux Tauy Eta MixedLayerDepth BuoyancyFlux U3
# W_z PENDEPTH PENRAD TURB - latest list
#######################################################################
# Create GCM Resource File
#######################################################################
set FILE = GCM.rc
/bin/rm $FILE
cat << _EOF_ > $FILE
IM: $IM
JM: $JM
LM: $LM
NX: $NX
NY: $NY
APP_IM: $IM
APP_JM: $JM
APP_LM: $LM
OCEAN_IM: $OCEAN_IM
OCEAN_JM: $OCEAN_JM
OCEAN_LM: $OCEAN_LM
DATELINE: $DATELINE
# specific ATM gridname
GRIDNAME: PE${IM}x${JM}-${DATELINE}
RUN_DT: $DT
# ICE sst + fractions
DATA_SIT_FILE: sstsi.data
DATA_FRT_FILE: fraci.data
# dataatm files (atm resolution)
SOLAR_FILE: GFDL_NSWRF_mon_clim.ieee
TAUX_FILE: GFDL_TAUX_mon_clim.ieee
TAUY_FILE: GFDL_TAUY_mon_clim.ieee
PME_FILE: GFDL_PME_mon_clim.ieee
Q_FILE: GFDL_QNET_mon_clim.ieee
SSS_FILE: LEV_SSS_clim_GEOSfmt.ieee
SST_FILE: dataoceanfile_reynolds_v2_sst_clim.${IM}x${JM}
# section for Orad (ocean resolution)
KPAR_FILE: SEAWIFS_KPAR_mon_clim.ieee
SST_RELAXTIME: 1
SSS_RELAXTIME: 1
#SST_RELAXTIME: 432000
#SSS_RELAXTIME: 432000
TILING_FILE: tile.data
DATAATM_IMPORT_RESTART_FILE: dataatm_import_restart
DATAATM_IMPORT_RESTART_TYPE: binary
DATAATM_IMPORT_CHECKPOINT_FILE: dataatm_import_checkpoint
DATAATM_IMPORT_CHECKPOINT_TYPE: binary
DATAATM_INTERNAL_RESTART_FILE: dataatm_internal_restart
DATAATM_INTERNAL_RESTART_TYPE: binary
DATAATM_INTERNAL_CHECKPOINT_FILE: dataatm_internal_checkpoint
DATAATM_INTERNAL_CHECKPOINT_TYPE: binary
ORAD_IMPORT_RESTART_FILE: orad_import_restart
ORAD_IMPORT_RESTART_TYPE: binary
ORAD_IMPORT_CHECKPOINT_FILE: orad_import_checkpoint
ORAD_IMPORT_CHECKPOINT_TYPE: binary
# section for MOM4
MOM_DT: 1200
MOM_SKINH: 5
ML_PENDEPTH: 15.0
_EOF_
########################################################################
## Link Boundary Datasets
########################################################################
#seaice SST+FRAC
#/bin/ln -s ${SST_DIR}/${OCEAN_IM}x${OCEAN_JM}/dataoceanfile_reynolds_v2_weekly_sstsi.${OCEAN_IM}x${OCEAN_JM} sstsi.data
#/bin/ln -s ${SST_DIR}/${OCEAN_IM}x${OCEAN_JM}/dataoceanfile_reynolds_v2_weekly_fraci.${OCEAN_IM}x${OCEAN_JM} fraci.data
#SST for dataatm
/bin/ln -s $GRIDDIR/dataoceanfile_reynolds_v2_sst_clim.${IM}x${JM} .
/bin/ln -s $GRIDDIR/PE_${IM}x${JM}_${DATELINE}_${OCEAN_IM}x${OCEAN_JM}_TM.til tile.data
# KPAR for orad
/bin/ln -s $GRIDDIR/SEAWIFS_KPAR_mon_clim.ieee .
# MOM data sets
/bin/cp -R $GRIDDIR/INPUT .
/bin/cp $EXPDIR/input.nml .
/bin/cp $EXPDIR/*_table .
#######################################################################
# Get RESTARTS and Executable
#######################################################################
set rst_types = `cat GCM.rc |grep -v "#" | grep "RESTART_FILE" | cut -d ":" -f1 | cut -d "_" -f1-2`
set chk_types = `cat GCM.rc |grep -v "#" | grep "CHECKPOINT_FILE" | cut -d ":" -f1 | cut -d "_" -f1-2`
set rst_files = `cat GCM.rc | grep -v "#"| grep "RESTART_FILE" | cut -d ":" -f2`
set chk_files = `cat GCM.rc | grep -v "#"| grep "CHECKPOINT_FILE" | cut -d ":" -f2`
foreach rst ( $rst_files )
if( -e $EXPDIR/$rst ) /bin/cp $EXPDIR/$rst . &
end
wait
/bin/cp $EXPDIR/cap_restart .
# MOM restarts
/bin/cp $EXPDIR/RESTART/* ./INPUT/
mkdir RESTART
set epdate = e`cat cap_restart | cut -c1-8`_`cat cap_restart | cut -c10-11`z
#################################################################
##### Get forcing climatology
#################################################################
/bin/cp $GRIDDIR/*.ieee .
##################################################################
######
###### Perform multiple iterations of PRUN
######
##################################################################
@ iterations = 6
@ counter = 1
while ( $counter <= $iterations )
#######################################################################
# Run the Model
#######################################################################
@ NPES = $NX * $NY
$RUN_CMD $NPES $APPLDIR/GEOSgcm.x
set rc = $status
echo Status = $rc
# ALT: for now we do not resubmit
# exit
#######################################################################
# Rename Checkpoints => Restarts for Next Segment
#######################################################################
echo Removing old restart files from wrkdir
foreach rst ( $rst_files )
/bin/rm $rst &
end
wait
set numrst = `echo $rst_types | wc -w`
set numchk = `echo $chk_types | wc -w`
echo $numrst restart files found
echo $numchk checkpoint files found
@ n = 1
@ z = $numrst + 1
while ( $n <= $numchk )
echo looking for match to $chk_types[$n]
@ m = 1
while ( $m <= $numrst )
if( $chk_types[$n] == $rst_types[$m]) then
echo mv $chk_files[$n] $rst_files[$m]
/bin/mv $chk_files[$n] $rst_files[$m] &
@ m = $numrst + 999
else
@ m = $m + 1
endif
end
if( $m == $z ) then
echo "Warning!! Could not find CHECKPOINT/RESTART match for: " $chk_types[$n]
exit
endif
@ n = $n + 1
end
wait
echo moved checkpoint files to restart
#exit
#######################################################################
# Archive History Output and Restarts
# Note: cap_restart contains the current NYMD and NHMS
#######################################################################
set edate = e`cat cap_restart | cut -c1-8`_`cat cap_restart | cut -c10-11`z
echo $edate
# Archive RESTARTS
# ----------------
foreach rst ( $rst_files )
if( -e $rst ) then
echo cp $rst $EXPDIR/restarts/${rst}.${edate}
cp $rst $EXPDIR/restarts/${rst}.${edate}
echo cp $rst $EXPDIR/$rst
cp $rst $EXPDIR/$rst
endif
end
cp cap_restart $EXPDIR/cap_restart
cp cap_restart $EXPDIR/restarts/cap_restart.${edate}
# Archive MOM restarts
cp -R RESTART $EXPDIR/
cp -R RESTART $EXPDIR/restarts/RESTART.${edate}
# And also move from RESTART/ into INPUT/
mv RESTART/* INPUT/
# Archive HISTORY
cp geosgcm_ocean $EXPDIR/history/geosgcm_ocean.${edate}
cp $EXPID.geosgcm_ocean.ctl $EXPDIR/history/geosgcm_ocean.${edate}.ctl
cp geosgcm_guest $EXPDIR/history/geosgcm_guest.${edate}
cp $EXPID.geosgcm_guest.ctl $EXPDIR/history/geosgcm_guest.${edate}.ctl
#######################################################################
# Update Iteration Counter
#######################################################################
if ( $rc == 0 ) then
@ counter = $counter + 1
else
@ counter = $iterations + 1
endif
end
echo $epdate 'Updated '
echo $edate 'Created'
wait
# Move data to dirac
cd $HOME/mom/$EXPID
qsub run.ogcm.std_dirac
exit