ensemble_script_clm5

#!/bin/bash

# Clone latest development branch from CTSM repository
#git clone --origin escomp https://github.com/ESCOMP/ctsm.git ctsm_ParamEns
#cd ctsm_ParamEns
#git checkout -b ctsm_ParamEns master
#./manage_externals/checkout_externals

export USER="kdagon"

#export CODENAME="clm5.0"
export CODENAME="ctsm_ParamEns"
#export NAME="hydro_ensemble_LHC"
export NAME="hydro_ensemble_LHC_v2"

# Set number of sample cases
niter=100
#niter=1
echo "number of samples = "$niter

# Run LHC_write to generate parameter value array
# only needs to be run once for the ensemble
# needs to be run before LHC_read_nl.py
# command line arg provides number of samples/simulations
# Source python env only for python command, then exit
# otherwise it messes up the case configuration in some unknown way
# causing qsub submit errors
#source /glade/work/$USER/ncar_pylib_clone/bin/activate
#pylib # alias doesn't work in bash script
source /glade/work/kdagon/ncar_pylib_clone_20190118/bin/activate
python LHC_write.py $niter
# leave python env
deactivate

cd /glade/work/$USER/$CODENAME
pwd

cd cime/scripts
pwd

## Create experiment directory: uncomment this first time only
#mkdir $NAME
##

cd $NAME
pwd

## Base build: uncomment this first time only
# leave python env for base build
#deactivate
#rm -rf codebase_$NAME
#rm -rf /glade/scratch/$USER/codebase_$NAME
#../create_newcase --run-unsupported --compset I2000Clm50Sp  --res f45_f45 --case codebase_$NAME --project P08010000

#cd codebase_$NAME 
#pwd
#./case.setup
#qcmd -- ./case.build

#cd ..
# back to python
#source /glade/work/$USER/ncar_pylib_clone/bin/activate
##

## Control run: uncomment this for a simulation with default values
# also serves as an equilibrium test
#export EXPTNAME=${NAME}_0

#remove existing output
#rm -rf /glade/scratch/$USER/$EXPTNAME
#rm -rf /glade/scratch/$USER/archive/$EXPTNAME

#remove existing working directories                                                                                                                  
#rm -rf $EXPTNAME

#../create_newcase --run-unsupported --compset I2000Clm50Sp --res f45_f45 --case $EXPTNAME --project P08010000

#cd $EXPTNAME

#./xmlchange JOB_QUEUE=regular
#./xmlchange JOB_WALLCLOCK_TIME=4:00:00 

#./xmlchange NTASKS_CPL=-4                                                                                                                   
#./xmlchange NTASKS_OCN=-4
#./xmlchange NTASKS_WAV=-4
#./xmlchange NTASKS_GLC=-4
#./xmlchange NTASKS_ICE=-4
#./xmlchange NTASKS_ROF=-4
#./xmlchange NTASKS_LND=-4

#./xmlchange CONTINUE_RUN=FALSE
#./xmlchange RESUBMIT=0
#./xmlchange STOP_N=15
#./xmlchange STOP_OPTION=nyears

#./xmlchange BUILD_COMPLETE="TRUE"
#./xmlchange EXEROOT="/glade/scratch/$USER/codebase_$NAME/bld"

#./xmlchange DATM_CLMNCEP_YR_START=2000
#./xmlchange DATM_CLMNCEP_YR_END=2004

# modify wallclock, project, queue as necessary
# to change mail options; this works with Cheyenne only:
#./xmlchange --file env_batch.xml --subgroup case.run --id BATCH_COMMAND_FLAGS --val '-m abe -l walltime=6:00:00 -A P08010000 -q regular'

# case.setup (creates user_nl_* files)
#./case.setup

# submit case
#./case.submit
##

# Create array of parameter names
# [In the future, could try and read these in from a text file]
# [or specify as python args; these names are also specified in LHC_write.py]
#declare -a param=("medlynslope" "dleaf" "kmax" "fff" "dint" "baseflow_scalar")
# count number of params
#np=${#param[@]}

i=1
while [ $i -le $niter ]
do

echo "Starting case "$i" of "$niter

export EXPTNAME=${NAME}_$i
#export EXPTNAME=${NAME}_${i}_hybrid
echo $EXPTNAME

# Remove existing output
rm -rf /glade/scratch/$USER/$EXPTNAME
rm -rf /glade/scratch/$USER/archive/$EXPTNAME

# Remove existing working directories
rm -rf $EXPTNAME

# Project TSS Account
#../create_newcase --run-unsupported --compset I2000Clm50Sp --res f45_f45 --case $EXPTNAME --project P08010000
# Project ASP Account
../create_newcase --run-unsupported --compset I2000Clm50Sp --res f45_f45 --case $EXPTNAME --project P54048000

cd $EXPTNAME

./xmlchange JOB_QUEUE=regular
./xmlchange JOB_WALLCLOCK_TIME=3:00:00

./xmlchange NTASKS_CPL=-4
./xmlchange NTASKS_OCN=-4
./xmlchange NTASKS_WAV=-4
./xmlchange NTASKS_GLC=-4
./xmlchange NTASKS_ICE=-4
./xmlchange NTASKS_ROF=-4
./xmlchange NTASKS_LND=-4

./xmlchange CONTINUE_RUN=FALSE
./xmlchange RESUBMIT=0
./xmlchange STOP_N=20
./xmlchange STOP_OPTION=nyears

./xmlchange BUILD_COMPLETE="TRUE"
#./xmlchange EXEROOT="/glade/scratch/$USER/codebase_$NAME/bld"
./xmlchange EXEROOT="/glade/scratch/$USER/codebase_hydro_ensemble_LHC/bld"

./xmlchange DATM_CLMNCEP_YR_START=2000
./xmlchange DATM_CLMNCEP_YR_END=2004

# hybrid-specific settings
#./xmlchange RUN_TYPE=hybrid
#./xmlchange RUN_REFCASE=${NAME}_0
#./xmlchange RUN_REFDATE=0016-01-01
#./xmlchange RUN_STARTDATE=0016-01-01

# Modify wallclock, project, queue as necessary
# To change mail options; this works with Cheyenne only:
#./xmlchange --file env_batch.xml --subgroup case.run --id BATCH_COMMAND_FLAGS --val '-m abe -l walltime=4:00:00 -A P08010000 -q regular'

# Setup case (creates user_nl_* files)
./case.setup

# Prestage restart/initial data for hybrid start
#cp /glade/scratch/$USER/${NAME}_0/run/rpointer* /glade/scratch/$USER/$EXPTNAME/run
#cp /glade/scratch/$USER/${NAME}_0/run/*0016-01-01* /glade/scratch/$USER/$EXPTNAME/run

# Add output history fields if desired, e.g.:
#echo "hist_fincl1='GPP'" >> user_nl_clm

# Generate param files for PFT-dependent params
# Set params file
# Assumes this folder has already been created?
pftfile="/glade/u/home/$USER/pft_files/$NAME/${EXPTNAME}.nc"
# Remove existing file, if applicable
rm -f $pftfile
# Copy default 
cp /glade/p/cesmdata/cseg/inputdata/lnd/clm2/paramdata/clm5_params.c171117.nc $pftfile

# Make changes to netcdf file through python script
#source /glade/work/$USER/ncar_pylib_clone/bin/activate
#pylib
source /glade/work/kdagon/ncar_pylib_clone_20190118/bin/activate
python /glade/u/home/$USER/CLM5hydro_LHC/LHC_read_pft.py $(( i - 1 )) $pftfile
deactivate

# Set params file in namelist
uclm="paramfile='$pftfile'"               
echo  $uclm >> user_nl_clm

# If not PFT-dependent, edit the namelist appropriately
# Call LHC_read_nl.py to write out nl parameter values
# For each case (i), write out all nl params at once
#source /glade/work/$USER/ncar_pylib_clone/bin/activate
#pylib
source /glade/work/kdagon/ncar_pylib_clone_20190118/bin/activate
python /glade/u/home/$USER/CLM5hydro_LHC/LHC_read_nl.py $(( i - 1 )) >> user_nl_clm
deactivate

./case.submit

cd ../

(( i++ ))

done