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forecast_postdet.sh
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forecast_postdet.sh
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#! /usr/bin/env bash
#####
## This script defines functions for data I/O and namelist.
## different applications could share the same function
## or have their own.
##
## This is a child script of modular
## forecast script. This script is function definition.
## need to call these functions in the parent script
## for execution.
#####
FV3_postdet(){
echo "SUB ${FUNCNAME[0]}: Entering for RUN = ${RUN}"
echo "warm_start = ${warm_start}"
echo "RERUN = ${RERUN}"
#-------------------------------------------------------
if [[ "${warm_start}" = ".true." ]] || [[ "${RERUN}" = "YES" ]]; then
#-------------------------------------------------------
#.............................
if [[ ${RERUN} = "NO" ]]; then
#.............................
# Link all restart files from previous cycle
for file in "${COM_ATMOS_RESTART_PREV}/${sPDY}.${scyc}0000."*.nc; do
file2=$(echo $(basename "${file}"))
file2=$(echo "${file2}" | cut -d. -f3-) # remove the date from file
fsuf=$(echo "${file2}" | cut -d. -f1)
${NLN} "${file}" "${DATA}/INPUT/${file2}"
done
# Replace sfc_data with sfcanl_data restart files from current cycle (if found)
if [[ "${MODE}" = "cycled" ]] && [[ "${CCPP_SUITE}" = "FV3_GFS_v16" ]]; then # TODO: remove if statement when global_cycle can handle NOAHMP
for file in "${COM_ATMOS_RESTART}/${sPDY}.${scyc}0000."*.nc; do
file2=$(basename "${file}")
file2=$(echo "${file2}" | cut -d. -f3-) # remove the date from file
fsufanl=$(echo "${file2}" | cut -d. -f1)
file2=$(echo "${file2}" | sed -e "s/sfcanl_data/sfc_data/g")
rm -f "${DATA}/INPUT/${file2}"
${NLN} "${file}" "${DATA}/INPUT/${file2}"
done
fi
# Need a coupler.res when doing IAU # FIXME: This is needed for warm_start, regardless of IAU.
if [[ ${DOIAU} = "YES" ]]; then
rm -f "${DATA}/INPUT/coupler.res"
cat >> "${DATA}/INPUT/coupler.res" << EOF
3 (Calendar: no_calendar=0, thirty_day_months=1, julian=2, gregorian=3, noleap=4)
${gPDY:0:4} ${gPDY:4:2} ${gPDY:6:2} ${gcyc} 0 0 Model start time: year, month, day, hour, minute, second
${sPDY:0:4} ${sPDY:4:2} ${sPDY:6:2} ${scyc} 0 0 Current model time: year, month, day, hour, minute, second
EOF
fi
# Link increments
if [[ ${DOIAU} = "YES" ]]; then
for i in $(echo "${IAUFHRS}" | sed "s/,/ /g" | rev); do
incfhr=$(printf %03i "${i}")
if [[ ${incfhr} = "006" ]]; then
increment_file="${COM_ATMOS_ANALYSIS}/${RUN}.t${cyc}z.${PREFIX_ATMINC}atminc.nc"
else
increment_file="${COM_ATMOS_ANALYSIS}/${RUN}.t${cyc}z.${PREFIX_ATMINC}atmi${incfhr}.nc"
fi
if [[ ! -f ${increment_file} ]]; then
echo "ERROR: DOIAU = ${DOIAU}, but missing increment file for fhr ${incfhr} at ${increment_file}"
echo "Abort!"
exit 1
fi
${NLN} "${increment_file}" "${DATA}/INPUT/fv_increment${i}.nc"
IAU_INC_FILES="'fv_increment${i}.nc',${IAU_INC_FILES:-}"
done
read_increment=".false."
res_latlon_dynamics=""
else
increment_file="${COM_ATMOS_ANALYSIS}/${RUN}.t${cyc}z.${PREFIX_ATMINC}atminc.nc"
if [[ -f ${increment_file} ]]; then
${NLN} "${increment_file}" "${DATA}/INPUT/fv3_increment.nc"
read_increment=".true."
res_latlon_dynamics="fv3_increment.nc"
fi
fi
#.............................
else ##RERUN
export warm_start=".true."
PDYT="${CDATE_RST:0:8}"
cyct="${CDATE_RST:8:2}"
for file in "${COM_ATMOS_RESTART}/${PDYT}.${cyct}0000."*; do
file2=$(basename "${file}")
file2=$(echo "${file2}" | cut -d. -f3-)
${NLN} "${file}" "${DATA}/INPUT/${file2}"
done
local hour_rst
hour_rst=$(nhour "${CDATE_RST}" "${current_cycle}")
# shellcheck disable=SC2034
IAU_FHROT=$((IAU_OFFSET+hour_rst))
if [[ ${DOIAU} = "YES" ]]; then
IAUFHRS=-1
# Ignore "not used" warning
# shellcheck disable=SC2034
IAU_DELTHRS=0
IAU_INC_FILES="''"
fi
fi
#.............................
else ## cold start
for file in "${COM_ATMOS_INPUT}/"*.nc; do
file2=$(basename "${file}")
fsuf="${file2:0:3}"
if [[ "${fsuf}" = "gfs" ]] || [[ "${fsuf}" = "sfc" ]]; then
${NLN} "${file}" "${DATA}/INPUT/${file2}"
fi
done
fi
nfiles=$(ls -1 "${DATA}/INPUT/"* | wc -l)
if [[ ${nfiles} -le 0 ]]; then
echo SUB "${FUNCNAME[0]}": Initial conditions must exist in "${DATA}/INPUT", ABORT!
exit 1
fi
# If doing IAU, change forecast hours
if [[ "${DOIAU}" = "YES" ]]; then
FHMAX=$((FHMAX+6))
if [[ ${FHMAX_HF} -gt 0 ]]; then
FHMAX_HF=$((FHMAX_HF+6))
fi
fi
#--------------------------------------------------------------------------
# Grid and orography data
FIXsfc=${FIXsfc:-"${FIXorog}/${CASE}/sfc"}
if [[ ${cplflx} = ".false." ]] ; then
${NLN} "${FIXorog}/${CASE}/${CASE}_mosaic.nc" "${DATA}/INPUT/grid_spec.nc"
else
${NLN} "${FIXorog}/${CASE}/${CASE}_mosaic.nc" "${DATA}/INPUT/${CASE}_mosaic.nc"
fi
for n in $(seq 1 "${ntiles}"); do
${NLN} "${FIXorog}/${CASE}/${CASE}.mx${OCNRES}_oro_data.tile${n}.nc" "${DATA}/INPUT/oro_data.tile${n}.nc"
${NLN} "${FIXorog}/${CASE}/${CASE}_grid.tile${n}.nc" "${DATA}/INPUT/${CASE}_grid.tile${n}.nc"
done
_suite_file="${HOMEgfs}/sorc/ufs_model.fd/FV3/ccpp/suites/suite_${CCPP_SUITE}.xml"
if [[ ! -f ${_suite_file} ]]; then
echo "FATAL: CCPP Suite file ${_suite_file} does not exist!"
exit 2
fi
# Scan suite file to determine whether it uses Noah-MP
if [[ $(grep noahmpdrv "${_suite_file}" | wc -l ) -gt 0 ]]; then
lsm="2"
lheatstrg=".false."
landice=".false."
iopt_dveg=${iopt_dveg:-"4"}
iopt_crs=${iopt_crs:-"2"}
iopt_btr=${iopt_btr:-"1"}
iopt_run=${iopt_run:-"1"}
iopt_sfc=${iopt_sfc:-"1"}
iopt_frz=${iopt_frz:-"1"}
iopt_inf=${iopt_inf:-"1"}
iopt_rad=${iopt_rad:-"3"}
iopt_alb=${iopt_alb:-"1"}
iopt_snf=${iopt_snf:-"4"}
iopt_tbot=${iopt_tbot:-"2"}
iopt_stc=${iopt_stc:-"3"}
IALB=${IALB:-2}
IEMS=${IEMS:-2}
else
lsm="1"
lheatstrg=".true."
landice=".true."
iopt_dveg=${iopt_dveg:-"1"}
iopt_crs=${iopt_crs:-"1"}
iopt_btr=${iopt_btr:-"1"}
iopt_run=${iopt_run:-"1"}
iopt_sfc=${iopt_sfc:-"1"}
iopt_frz=${iopt_frz:-"1"}
iopt_inf=${iopt_inf:-"1"}
iopt_rad=${iopt_rad:-"1"}
iopt_alb=${iopt_alb:-"2"}
iopt_snf=${iopt_snf:-"4"}
iopt_tbot=${iopt_tbot:-"2"}
iopt_stc=${iopt_stc:-"1"}
IALB=${IALB:-1}
IEMS=${IEMS:-1}
fi
# NoahMP table
local noahmptablefile="${HOMEgfs}/parm/ufs/noahmptable.tbl"
if [[ ! -f ${noahmptablefile} ]]; then
echo "FATAL ERROR: missing noahmp table file ${noahmptablefile}"
exit 1
else
${NLN} "${noahmptablefile}" "${DATA}/noahmptable.tbl"
fi
# Files for GWD
${NLN} "${FIXugwd}/ugwp_limb_tau.nc" "${DATA}/ugwp_limb_tau.nc"
for n in $(seq 1 "${ntiles}"); do
${NLN} "${FIXugwd}/${CASE}/${CASE}_oro_data_ls.tile${n}.nc" "${DATA}/INPUT/oro_data_ls.tile${n}.nc"
${NLN} "${FIXugwd}/${CASE}/${CASE}_oro_data_ss.tile${n}.nc" "${DATA}/INPUT/oro_data_ss.tile${n}.nc"
done
# GFS standard input data
ISOL=${ISOL:-2}
IAER=${IAER:-1011}
ICO2=${ICO2:-2}
if [[ ${new_o3forc:-YES} = YES ]]; then
O3FORC=ozprdlos_2015_new_sbuvO3_tclm15_nuchem.f77
else
O3FORC=global_o3prdlos.f77
fi
H2OFORC=${H2OFORC:-"global_h2o_pltc.f77"}
####
# Copy CCN_ACTIVATE.BIN for Thompson microphysics
# Thompson microphysics used when CCPP_SUITE set to FV3_GSD_v0 or FV3_GSD_noah
# imp_physics should be 8:
####
if [[ ${imp_physics} -eq 8 ]]; then
${NLN} "${FIXam}/CCN_ACTIVATE.BIN" "${DATA}/CCN_ACTIVATE.BIN"
${NLN} "${FIXam}/freezeH2O.dat" "${DATA}/freezeH2O.dat"
${NLN} "${FIXam}/qr_acr_qgV2.dat" "${DATA}/qr_acr_qgV2.dat"
${NLN} "${FIXam}/qr_acr_qsV2.dat" "${DATA}/qr_acr_qsV2.dat"
fi
${NLN} "${FIXam}/${O3FORC}" "${DATA}/global_o3prdlos.f77"
${NLN} "${FIXam}/${H2OFORC}" "${DATA}/global_h2oprdlos.f77"
${NLN} "${FIXam}/global_solarconstant_noaa_an.txt" "${DATA}/solarconstant_noaa_an.txt"
${NLN} "${FIXam}/global_sfc_emissivity_idx.txt" "${DATA}/sfc_emissivity_idx.txt"
## merra2 aerosol climo
if [[ ${IAER} -eq "1011" ]]; then
for month in $(seq 1 12); do
MM=$(printf %02d "${month}")
${NLN} "${FIXaer}/merra2.aerclim.2003-2014.m${MM}.nc" "aeroclim.m${MM}.nc"
done
${NLN} "${FIXlut}/optics_BC.v1_3.dat" "${DATA}/optics_BC.dat"
${NLN} "${FIXlut}/optics_OC.v1_3.dat" "${DATA}/optics_OC.dat"
${NLN} "${FIXlut}/optics_DU.v15_3.dat" "${DATA}/optics_DU.dat"
${NLN} "${FIXlut}/optics_SS.v3_3.dat" "${DATA}/optics_SS.dat"
${NLN} "${FIXlut}/optics_SU.v1_3.dat" "${DATA}/optics_SU.dat"
fi
${NLN} "${FIXam}/global_co2historicaldata_glob.txt" "${DATA}/co2historicaldata_glob.txt"
${NLN} "${FIXam}/co2monthlycyc.txt" "${DATA}/co2monthlycyc.txt"
if [[ ${ICO2} -gt 0 ]]; then
for file in $(ls "${FIXam}/fix_co2_proj/global_co2historicaldata"*) ; do
${NLN} "${file}" "${DATA}/$(basename "${file//global_}")"
done
fi
${NLN} "${FIXam}/global_climaeropac_global.txt" "${DATA}/aerosol.dat"
if [[ ${IAER} -gt 0 ]] ; then
for file in $(ls "${FIXam}/global_volcanic_aerosols"*) ; do
${NLN} "${file}" "${DATA}/$(basename "${file//global_}")"
done
fi
# inline post fix files
if [[ ${WRITE_DOPOST} = ".true." ]]; then
${NLN} "${PARM_POST}/post_tag_gfs${LEVS}" "${DATA}/itag"
${NLN} "${FLTFILEGFS:-${PARM_POST}/postxconfig-NT-GFS-TWO.txt}" "${DATA}/postxconfig-NT.txt"
${NLN} "${FLTFILEGFSF00:-${PARM_POST}/postxconfig-NT-GFS-F00-TWO.txt}" "${DATA}/postxconfig-NT_FH00.txt"
${NLN} "${POSTGRB2TBL:-${PARM_POST}/params_grib2_tbl_new}" "${DATA}/params_grib2_tbl_new"
fi
#------------------------------------------------------------------
# changeable parameters
# dycore definitions
res="${CASE:1}"
resp=$((res+1))
npx=${resp}
npy=${resp}
npz=$((LEVS-1))
io_layout="1,1"
#ncols=$(( (${npx}-1)*(${npy}-1)*3/2 ))
# spectral truncation and regular grid resolution based on FV3 resolution
JCAP_CASE=$((2*res-2))
LONB_CASE=$((4*res))
LATB_CASE=$((2*res))
JCAP=${JCAP:-${JCAP_CASE}}
LONB=${LONB:-${LONB_CASE}}
LATB=${LATB:-${LATB_CASE}}
LONB_IMO=${LONB_IMO:-${LONB_CASE}}
LATB_JMO=${LATB_JMO:-${LATB_CASE}}
# Fix files
FNGLAC=${FNGLAC:-"${FIXam}/global_glacier.2x2.grb"}
FNMXIC=${FNMXIC:-"${FIXam}/global_maxice.2x2.grb"}
FNTSFC=${FNTSFC:-"${FIXam}/RTGSST.1982.2012.monthly.clim.grb"}
FNSNOC=${FNSNOC:-"${FIXam}/global_snoclim.1.875.grb"}
FNZORC=${FNZORC:-"igbp"}
FNAISC=${FNAISC:-"${FIXam}/IMS-NIC.blended.ice.monthly.clim.grb"}
FNALBC2=${FNALBC2:-"${FIXsfc}/${CASE}.mx${OCNRES}.facsf.tileX.nc"}
FNTG3C=${FNTG3C:-"${FIXsfc}/${CASE}.mx${OCNRES}.substrate_temperature.tileX.nc"}
FNVEGC=${FNVEGC:-"${FIXsfc}/${CASE}.mx${OCNRES}.vegetation_greenness.tileX.nc"}
FNMSKH=${FNMSKH:-"${FIXam}/global_slmask.t1534.3072.1536.grb"}
FNVMNC=${FNVMNC:-"${FIXsfc}/${CASE}.mx${OCNRES}.vegetation_greenness.tileX.nc"}
FNVMXC=${FNVMXC:-"${FIXsfc}/${CASE}.mx${OCNRES}.vegetation_greenness.tileX.nc"}
FNSLPC=${FNSLPC:-"${FIXsfc}/${CASE}.mx${OCNRES}.slope_type.tileX.nc"}
FNALBC=${FNALBC:-"${FIXsfc}/${CASE}.mx${OCNRES}.snowfree_albedo.tileX.nc"}
FNVETC=${FNVETC:-"${FIXsfc}/${CASE}.mx${OCNRES}.vegetation_type.tileX.nc"}
FNSOTC=${FNSOTC:-"${FIXsfc}/${CASE}.mx${OCNRES}.soil_type.tileX.nc"}
FNSOCC=${FNSOCC:-"${FIXsfc}/${CASE}.mx${OCNRES}.soil_color.tileX.nc"}
FNABSC=${FNABSC:-"${FIXsfc}/${CASE}.mx${OCNRES}.maximum_snow_albedo.tileX.nc"}
FNSMCC=${FNSMCC:-"${FIXam}/global_soilmgldas.statsgo.t${JCAP}.${LONB}.${LATB}.grb"}
# If the appropriate resolution fix file is not present, use the highest resolution available (T1534)
[[ ! -f ${FNSMCC} ]] && FNSMCC="${FIXam}/global_soilmgldas.statsgo.t1534.3072.1536.grb"
# NSST Options
# nstf_name contains the NSST related parameters
# nstf_name(1) : NST_MODEL (NSST Model) : 0 = OFF, 1 = ON but uncoupled, 2 = ON and coupled
# nstf_name(2) : NST_SPINUP : 0 = OFF, 1 = ON,
# nstf_name(3) : NST_RESV (Reserved, NSST Analysis) : 0 = OFF, 1 = ON
# nstf_name(4) : ZSEA1 (in mm) : 0
# nstf_name(5) : ZSEA2 (in mm) : 0
# nst_anl : .true. or .false., NSST analysis over lake
NST_MODEL=${NST_MODEL:-0}
NST_SPINUP=${NST_SPINUP:-0}
NST_RESV=${NST_RESV-0}
ZSEA1=${ZSEA1:-0}
ZSEA2=${ZSEA2:-0}
nstf_name=${nstf_name:-"${NST_MODEL},${NST_SPINUP},${NST_RESV},${ZSEA1},${ZSEA2}"}
nst_anl=${nst_anl:-".false."}
# blocking factor used for threading and general physics performance
#nyblocks=$(expr \( $npy - 1 \) \/ $layout_y )
#nxblocks=$(expr \( $npx - 1 \) \/ $layout_x \/ 32)
#if [ $nxblocks -le 0 ]; then nxblocks=1 ; fi
blocksize=${blocksize:-32}
# the pre-conditioning of the solution
# =0 implies no pre-conditioning
# >0 means new adiabatic pre-conditioning
# <0 means older adiabatic pre-conditioning
na_init=${na_init:-1}
[[ ${warm_start} = ".true." ]] && na_init=0
# variables for controlling initialization of NCEP/NGGPS ICs
filtered_terrain=${filtered_terrain:-".true."}
gfs_dwinds=${gfs_dwinds:-".true."}
# various debug options
no_dycore=${no_dycore:-".false."}
dycore_only=${adiabatic:-".false."}
chksum_debug=${chksum_debug:-".false."}
print_freq=${print_freq:-6}
if [[ ${TYPE} = "nh" ]]; then # non-hydrostatic options
hydrostatic=".false."
phys_hydrostatic=".false." # enable heating in hydrostatic balance in non-hydrostatic simulation
use_hydro_pressure=".false." # use hydrostatic pressure for physics
if [[ ${warm_start} = ".true." ]]; then
make_nh=".false." # restarts contain non-hydrostatic state
else
make_nh=".true." # re-initialize non-hydrostatic state
fi
else # hydrostatic options
hydrostatic=".true."
phys_hydrostatic=".false." # ignored when hydrostatic = T
use_hydro_pressure=".false." # ignored when hydrostatic = T
make_nh=".false." # running in hydrostatic mode
fi
# Conserve total energy as heat globally
consv_te=${consv_te:-1.} # range 0.-1., 1. will restore energy to orig. val. before physics
# time step parameters in FV3
k_split=${k_split:-2}
n_split=${n_split:-5}
if [[ "${MONO:0:4}" = "mono" ]]; then # monotonic options
d_con=${d_con_mono:-"0."}
do_vort_damp=".false."
if [[ ${TYPE} = "nh" ]]; then # non-hydrostatic
hord_mt=${hord_mt_nh_mono:-"10"}
hord_xx=${hord_xx_nh_mono:-"10"}
else # hydrostatic
hord_mt=${hord_mt_hydro_mono:-"10"}
hord_xx=${hord_xx_hydro_mono:-"10"}
fi
else # non-monotonic options
d_con=${d_con_nonmono:-"1."}
do_vort_damp=".true."
if [[ ${TYPE} = "nh" ]]; then # non-hydrostatic
hord_mt=${hord_mt_nh_nonmono:-"5"}
hord_xx=${hord_xx_nh_nonmono:-"5"}
else # hydrostatic
hord_mt=${hord_mt_hydro_nonmono:-"10"}
hord_xx=${hord_xx_hydro_nonmono:-"10"}
fi
fi
if [[ "${MONO:0:4}" != "mono" ]] && [[ "${TYPE}" = "nh" ]]; then
vtdm4=${vtdm4_nh_nonmono:-"0.06"}
else
vtdm4=${vtdm4:-"0.05"}
fi
if [[ ${warm_start} = ".true." ]]; then # warm start from restart file
nggps_ic=".false."
ncep_ic=".false."
external_ic=".false."
mountain=".true."
if [[ ${read_increment} = ".true." ]]; then # add increment on the fly to the restarts
res_latlon_dynamics="fv3_increment.nc"
else
res_latlon_dynamics='""'
fi
else # CHGRES'd GFS analyses
nggps_ic=${nggps_ic:-".true."}
ncep_ic=${ncep_ic:-".false."}
external_ic=".true."
mountain=".false."
read_increment=".false."
res_latlon_dynamics='""'
fi
# Stochastic Physics Options
if [[ ${SET_STP_SEED:-"YES"} = "YES" ]]; then
ISEED_SKEB=$((current_cycle*1000 + MEMBER*10 + 1))
ISEED_SHUM=$((current_cycle*1000 + MEMBER*10 + 2))
ISEED_SPPT=$((current_cycle*1000 + MEMBER*10 + 3))
ISEED_CA=$(( (current_cycle*1000 + MEMBER*10 + 4) % 2147483647 ))
ISEED_LNDP=$(( (current_cycle*1000 + MEMBER*10 + 5) % 2147483647 ))
else
ISEED=${ISEED:-0}
fi
if [[ ${DO_SKEB} = "YES" ]]; then
do_skeb=".true."
fi
if [[ ${DO_SPPT} = "YES" ]]; then
do_sppt=".true."
fi
if [[ ${DO_SHUM} = "YES" ]]; then
do_shum=".true."
fi
if [[ ${DO_LAND_PERT} = "YES" ]]; then
lndp_type=${lndp_type:-2}
LNDP_TAU=${LNDP_TAU:-21600}
LNDP_SCALE=${LNDP_SCALE:-500000}
ISEED_LNDP=${ISEED_LNDP:-${ISEED}}
lndp_var_list=${lndp_var_list:-"'smc', 'vgf',"}
lndp_prt_list=${lndp_prt_list:-"0.2,0.1"}
n_var_lndp=$(echo "${lndp_var_list}" | wc -w)
fi
JCAP_STP=${JCAP_STP:-${JCAP_CASE}}
LONB_STP=${LONB_STP:-${LONB_CASE}}
LATB_STP=${LATB_STP:-${LATB_CASE}}
cd "${DATA}" || exit 1
if [[ ! -d ${COM_ATMOS_HISTORY} ]]; then mkdir -p "${COM_ATMOS_HISTORY}"; fi
if [[ ! -d ${COM_ATMOS_MASTER} ]]; then mkdir -p "${COM_ATMOS_MASTER}"; fi
if [[ "${QUILTING}" = ".true." ]] && [[ "${OUTPUT_GRID}" = "gaussian_grid" ]]; then
for fhr in ${FV3_OUTPUT_FH}; do
local FH3=$(printf %03i "${fhr}")
local FH2=$(printf %02i "${fhr}")
${NLN} "${COM_ATMOS_HISTORY}/${RUN}.t${cyc}z.atmf${FH3}.nc" "atmf${FH3}.nc"
${NLN} "${COM_ATMOS_HISTORY}/${RUN}.t${cyc}z.sfcf${FH3}.nc" "sfcf${FH3}.nc"
${NLN} "${COM_ATMOS_HISTORY}/${RUN}.t${cyc}z.atm.logf${FH3}.txt" "log.atm.f${FH3}"
if [[ ${WRITE_DOPOST} = ".true." ]]; then
${NLN} "${COM_ATMOS_MASTER}/${RUN}.t${cyc}z.master.grb2f${FH3}" "GFSPRS.GrbF${FH2}"
${NLN} "${COM_ATMOS_MASTER}/${RUN}.t${cyc}z.sfluxgrbf${FH3}.grib2" "GFSFLX.GrbF${FH2}"
fi
done
else # TODO: Is this even valid anymore?
for n in $(seq 1 "${ntiles}"); do
${NLN} "nggps2d.tile${n}.nc" "${COM_ATMOS_HISTORY}/nggps2d.tile${n}.nc"
${NLN} "nggps3d.tile${n}.nc" "${COM_ATMOS_HISTORY}/nggps3d.tile${n}.nc"
${NLN} "grid_spec.tile${n}.nc" "${COM_ATMOS_HISTORY}/grid_spec.tile${n}.nc"
${NLN} "atmos_static.tile${n}.nc" "${COM_ATMOS_HISTORY}/atmos_static.tile${n}.nc"
${NLN} "atmos_4xdaily.tile${n}.nc" "${COM_ATMOS_HISTORY}/atmos_4xdaily.tile${n}.nc"
done
fi
}
FV3_nml(){
# namelist output for a certain component
echo "SUB ${FUNCNAME[0]}: Creating name lists and model configure file for FV3"
# Call child scripts in current script directory
source "${HOMEgfs}/ush/parsing_namelists_FV3.sh"
FV3_namelists
echo "SUB ${FUNCNAME[0]}: FV3 name lists and model configure file created"
}
FV3_out() {
echo "SUB ${FUNCNAME[0]}: copying output data for FV3"
# Copy FV3 restart files
if [[ ${RUN} =~ "gdas" ]]; then
cd "${DATA}/RESTART"
mkdir -p "${COM_ATMOS_RESTART}"
local idate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${restart_interval} hours" +%Y%m%d%H)
while [[ ${idate} -le ${forecast_end_cycle} ]]; do
for file in "${idate:0:8}.${idate:8:2}0000."*; do
${NCP} "${file}" "${COM_ATMOS_RESTART}/${file}"
done
local idate=$(date --utc -d "${idate:0:8} ${idate:8:2} + ${restart_interval} hours" +%Y%m%d%H)
done
else
# No need to copy FV3 restart files when RUN=gfs or gefs
${NCP} "${DATA}/input.nml" "${COM_CONF}/ufs.input.nml"
${NCP} "${DATA}/model_configure" "${COM_CONF}/ufs.model_configure"
${NCP} "${DATA}/ufs.configure" "${COM_CONF}/ufs.ufs.configure"
${NCP} "${DATA}/diag_table" "${COM_CONF}/ufs.diag_table"
fi
echo "SUB ${FUNCNAME[0]}: Output data for FV3 copied"
}
WW3_postdet() {
echo "SUB ${FUNCNAME[0]}: Linking input data for WW3"
COMPONENTwave=${COMPONENTwave:-${RUN}wave}
#Link mod_def files for wave grids
if [[ ${waveMULTIGRID} = ".true." ]]; then
local array=(${WAVECUR_FID} ${WAVEICE_FID} ${WAVEWND_FID} ${waveuoutpGRD} ${waveGRD} ${waveesmfGRD})
echo "Wave Grids: ${WAVECUR_FID} ${WAVEICE_FID} ${WAVEWND_FID} ${waveuoutpGRD} ${waveGRD} ${waveesmfGRD}"
local grdALL=$(printf "%s\n" "${array[@]}" | sort -u | tr '\n' ' ')
for wavGRD in ${grdALL}; do
${NCP} "${COM_WAVE_PREP}/${COMPONENTwave}.mod_def.${wavGRD}" "${DATA}/mod_def.${wavGRD}"
done
else
#if shel, only 1 waveGRD which is linked to mod_def.ww3
${NCP} "${COM_WAVE_PREP}/${COMPONENTwave}.mod_def.${waveGRD}" "${DATA}/mod_def.ww3"
fi
#if wave mesh is not the same as the ocean mesh, link it in the file
if [[ "${MESH_WAV}" == "${MESH_OCN:-mesh.mx${OCNRES}.nc}" ]]; then
echo "Wave is on same mesh as ocean"
else
${NLN} "${FIXwave}/${MESH_WAV}" "${DATA}/"
fi
export wavprfx=${RUNwave}${WAV_MEMBER:-}
#Copy initial condition files:
for wavGRD in ${waveGRD} ; do
if [[ "${warm_start}" = ".true." ]] || [[ "${RERUN}" = "YES" ]]; then
if [[ ${RERUN} = "NO" ]]; then
local waverstfile="${COM_WAVE_RESTART_PREV}/${sPDY}.${scyc}0000.restart.${wavGRD}"
else
local waverstfile="${COM_WAVE_RESTART}/${PDYT}.${cyct}0000.restart.${wavGRD}"
fi
else
local waverstfile="${COM_WAVE_RESTART}/${sPDY}.${scyc}0000.restart.${wavGRD}"
fi
if [[ ! -f ${waverstfile} ]]; then
if [[ ${RERUN} = "NO" ]]; then
echo "WARNING: NON-FATAL ERROR wave IC is missing, will start from rest"
else
echo "ERROR: Wave IC is missing in RERUN, exiting."
exit 1
fi
else
if [[ ${waveMULTIGRID} = ".true." ]]; then
${NLN} "${waverstfile}" "${DATA}/restart.${wavGRD}"
else
${NLN} "${waverstfile}" "${DATA}/restart.ww3"
fi
fi
done
if [[ ${waveMULTIGRID} = ".true." ]]; then
for wavGRD in ${waveGRD} ; do
${NLN} "${COM_WAVE_HISTORY}/${wavprfx}.log.${wavGRD}.${PDY}${cyc}" "log.${wavGRD}"
done
else
${NLN} "${COM_WAVE_HISTORY}/${wavprfx}.log.${waveGRD}.${PDY}${cyc}" "log.ww3"
fi
if [[ "${WW3ICEINP}" = "YES" ]]; then
local wavicefile="${COM_WAVE_PREP}/${RUNwave}.${WAVEICE_FID}.${cycle}.ice"
if [[ ! -f ${wavicefile} ]]; then
echo "ERROR: WW3ICEINP = ${WW3ICEINP}, but missing ice file"
echo "Abort!"
exit 1
fi
${NLN} "${wavicefile}" "${DATA}/ice.${WAVEICE_FID}"
fi
if [[ "${WW3CURINP}" = "YES" ]]; then
local wavcurfile="${COM_WAVE_PREP}/${RUNwave}.${WAVECUR_FID}.${cycle}.cur"
if [[ ! -f ${wavcurfile} ]]; then
echo "ERROR: WW3CURINP = ${WW3CURINP}, but missing current file"
echo "Abort!"
exit 1
fi
${NLN} "${wavcurfile}" "${DATA}/current.${WAVECUR_FID}"
fi
if [[ ! -d ${COM_WAVE_HISTORY} ]]; then mkdir -p "${COM_WAVE_HISTORY}"; fi
# Link output files
cd "${DATA}"
if [[ ${waveMULTIGRID} = ".true." ]]; then
${NLN} "${COM_WAVE_HISTORY}/${wavprfx}.log.mww3.${PDY}${cyc}" "log.mww3"
fi
# Loop for gridded output (uses FHINC)
local fhr vdate FHINC wavGRD
fhr=${FHMIN_WAV}
while [[ ${fhr} -le ${FHMAX_WAV} ]]; do
vdate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${fhr} hours" +%Y%m%d%H)
if [[ ${waveMULTIGRID} = ".true." ]]; then
for wavGRD in ${waveGRD} ; do
${NLN} "${COM_WAVE_HISTORY}/${wavprfx}.out_grd.${wavGRD}.${vdate:0:8}.${vdate:8:2}0000" "${DATA}/${vdate:0:8}.${vdate:8:2}0000.out_grd.${wavGRD}"
done
else
${NLN} "${COM_WAVE_HISTORY}/${wavprfx}.out_grd.${waveGRD}.${vdate:0:8}.${vdate:8:2}0000" "${DATA}/${vdate:0:8}.${vdate:8:2}0000.out_grd.ww3"
fi
FHINC=${FHOUT_WAV}
if (( FHMAX_HF_WAV > 0 && FHOUT_HF_WAV > 0 && fhr < FHMAX_HF_WAV )); then
FHINC=${FHOUT_HF_WAV}
fi
fhr=$((fhr+FHINC))
done
# Loop for point output (uses DTPNT)
fhr=${FHMIN_WAV}
while [[ ${fhr} -le ${FHMAX_WAV} ]]; do
vdate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${fhr} hours" +%Y%m%d%H)
if [[ ${waveMULTIGRID} = ".true." ]]; then
${NLN} "${COM_WAVE_HISTORY}/${wavprfx}.out_pnt.${waveuoutpGRD}.${vdate:0:8}.${vdate:8:2}0000" "${DATA}/${vdate:0:8}.${vdate:8:2}0000.out_pnt.${waveuoutpGRD}"
else
${NLN} "${COM_WAVE_HISTORY}/${wavprfx}.out_pnt.${waveuoutpGRD}.${vdate:0:8}.${vdate:8:2}0000" "${DATA}/${vdate:0:8}.${vdate:8:2}0000.out_pnt.ww3"
fi
FHINC=${FHINCP_WAV}
fhr=$((fhr+FHINC))
done
}
WW3_nml() {
echo "SUB ${FUNCNAME[0]}: Copying input files for WW3"
WAV_MOD_TAG=${RUN}wave${waveMEMB}
if [[ "${USE_WAV_RMP:-YES}" = "YES" ]]; then
if (( $( ls -1 "${FIXwave}/rmp_src_to_dst_conserv_"* 2> /dev/null | wc -l) > 0 )); then
for file in $(ls "${FIXwave}/rmp_src_to_dst_conserv_"*) ; do
${NLN} "${file}" "${DATA}/"
done
else
echo 'FATAL ERROR : No rmp precomputed nc files found for wave model'
exit 4
fi
fi
source "${HOMEgfs}/ush/parsing_namelists_WW3.sh"
WW3_namelists
}
WW3_out() {
echo "SUB ${FUNCNAME[0]}: Copying output data for WW3"
}
CPL_out() {
echo "SUB ${FUNCNAME[0]}: Copying output data for general cpl fields"
if [[ "${esmf_profile:-}" = ".true." ]]; then
${NCP} "${DATA}/ESMF_Profile.summary" "${COM_ATMOS_HISTORY}/ESMF_Profile.summary"
fi
}
MOM6_postdet() {
echo "SUB ${FUNCNAME[0]}: MOM6 after run type determination"
# Copy MOM6 ICs
${NLN} "${COM_OCEAN_RESTART_PREV}/${sPDY}.${scyc}0000.MOM.res.nc" "${DATA}/INPUT/MOM.res.nc"
case ${OCNRES} in
"025")
for nn in $(seq 1 4); do
if [[ -f "${COM_OCEAN_RESTART_PREV}/${sPDY}.${scyc}0000.MOM.res_${nn}.nc" ]]; then
${NLN} "${COM_OCEAN_RESTART_PREV}/${sPDY}.${scyc}0000.MOM.res_${nn}.nc" "${DATA}/INPUT/MOM.res_${nn}.nc"
fi
done
;;
esac
# Link increment
if [[ "${DO_JEDIOCNVAR:-NO}" = "YES" ]]; then
if [[ ! -f "${COM_OCEAN_ANALYSIS}/${RUN}.t${cyc}z.ocninc.nc" ]]; then
echo "FATAL ERROR: Ocean increment not found, ABORT!"
exit 111
fi
${NLN} "${COM_OCEAN_ANALYSIS}/${RUN}.t${cyc}z.ocninc.nc" "${DATA}/INPUT/mom6_increment.nc"
fi
# Copy MOM6 fixed files
${NCP} "${FIXmom}/${OCNRES}/"* "${DATA}/INPUT/"
# Copy coupled grid_spec
spec_file="${FIXcpl}/a${CASE}o${OCNRES}/grid_spec.nc"
if [[ -s ${spec_file} ]]; then
${NCP} "${spec_file}" "${DATA}/INPUT/"
else
echo "FATAL ERROR: grid_spec file '${spec_file}' does not exist"
exit 3
fi
# Copy mediator restart files to RUNDIR # TODO: mediator should have its own CMEPS_postdet() function
if [[ ${warm_start} = ".true." ]]; then
local mediator_file="${COM_MED_RESTART}/${PDY}.${cyc}0000.ufs.cpld.cpl.r.nc"
if [[ -f "${mediator_file}" ]]; then
${NCP} "${mediator_file}" "${DATA}/ufs.cpld.cpl.r.nc"
rm -f "${DATA}/rpointer.cpl"
touch "${DATA}/rpointer.cpl"
echo "ufs.cpld.cpl.r.nc" >> "${DATA}/rpointer.cpl"
else
# We have a choice to make here.
# Either we can FATAL ERROR out, or we can let the coupling fields initialize from zero
# cmeps_run_type is determined based on the availability of the mediator restart file
echo "WARNING: ${mediator_file} does not exist for warm_start = .true., initializing!"
#echo "FATAL ERROR: ${mediator_file} must exist for warm_start = .true. and does not, ABORT!"
#exit 4
fi
else
# This is a cold start, so initialize the coupling fields from zero
export cmeps_run_type="startup"
fi
# If using stochatic parameterizations, create a seed that does not exceed the
# largest signed integer
if [[ "${DO_OCN_SPPT}" = "YES" ]] || [[ "${DO_OCN_PERT_EPBL}" = "YES" ]]; then
if [[ ${SET_STP_SEED:-"YES"} = "YES" ]]; then
ISEED_OCNSPPT=$(( (current_cycle*1000 + MEMBER*10 + 6) % 2147483647 ))
ISEED_EPBL=$(( (current_cycle*1000 + MEMBER*10 + 7) % 2147483647 ))
else
ISEED=${ISEED:-0}
fi
fi
# Create COMOUTocean
[[ ! -d ${COM_OCEAN_HISTORY} ]] && mkdir -p "${COM_OCEAN_HISTORY}"
# Link output files
if [[ "${RUN}" =~ "gfs" || "${RUN}" =~ "gefs" ]]; then
# Link output files for RUN = gfs
# TODO: get requirements on what files need to be written out and what these dates here are and what they mean
if [[ ! -d ${COM_OCEAN_HISTORY} ]]; then mkdir -p "${COM_OCEAN_HISTORY}"; fi
# Looping over FV3 output hours
# TODO: Need to define MOM6_OUTPUT_FH and control at some point for issue #1629
for fhr in ${FV3_OUTPUT_FH}; do
if [[ -z ${last_fhr:-} ]]; then
local last_fhr=${fhr}
continue
fi
(( interval = fhr - last_fhr ))
(( midpoint = last_fhr + interval/2 ))
local vdate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${fhr} hours" +%Y%m%d%H)
local vdate_mid=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${midpoint} hours" +%Y%m%d%H)
# Native model output uses window midpoint in the filename, but we are mapping that to the end of the period for COM
local source_file="ocn_${vdate_mid:0:4}_${vdate_mid:4:2}_${vdate_mid:6:2}_${vdate_mid:8:2}.nc"
local dest_file="ocn${vdate}.${ENSMEM}.${current_cycle}.nc"
${NLN} "${COM_OCEAN_HISTORY}/${dest_file}" "${DATA}/${source_file}"
local source_file="ocn_daily_${vdate:0:4}_${vdate:4:2}_${vdate:6:2}.nc"
local dest_file=${source_file}
if [[ ! -a "${DATA}/${source_file}" ]]; then
${NLN} "${COM_OCEAN_HISTORY}/${dest_file}" "${DATA}/${source_file}"
fi
local last_fhr=${fhr}
done
elif [[ "${RUN}" =~ "gdas" ]]; then
# Link output files for RUN = gdas
# Save MOM6 backgrounds
for fhr in ${FV3_OUTPUT_FH}; do
local idatestr=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${fhr} hours" +%Y_%m_%d_%H)
local fhr3=$(printf %03i "${fhr}")
${NLN} "${COM_OCEAN_HISTORY}/${RUN}.t${cyc}z.ocnf${fhr3}.nc" "${DATA}/ocn_da_${idatestr}.nc"
done
fi
mkdir -p "${COM_OCEAN_RESTART}"
# Link ocean restarts from DATA to COM
# Coarser than 1/2 degree has a single MOM restart
${NLN} "${COM_OCEAN_RESTART}/${forecast_end_cycle:0:8}.${forecast_end_cycle:8:2}0000.MOM.res.nc" "${DATA}/MOM6_RESTART/"
# 1/4 degree resolution has 4 additional restarts
case ${OCNRES} in
"025")
for nn in $(seq 1 4); do
${NLN} "${COM_OCEAN_RESTART}/${forecast_end_cycle:0:8}.${forecast_end_cycle:8:2}0000.MOM.res_${nn}.nc" "${DATA}/MOM6_RESTART/"
done
;;
*)
;;
esac
# Loop over restart_interval frequency and link restarts from DATA to COM
local idate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${restart_interval} hours" +%Y%m%d%H)
while [[ ${idate} -lt ${forecast_end_cycle} ]]; do
local idatestr=$(date +%Y-%m-%d-%H -d "${idate:0:8} ${idate:8:2}")
${NLN} "${COM_OCEAN_RESTART}/${idate:0:8}.${idate:8:2}0000.MOM.res.nc" "${DATA}/MOM6_RESTART/"
case ${OCNRES} in
"025")
for nn in $(seq 1 4); do
${NLN} "${COM_OCEAN_RESTART}/${idate:0:8}.${idate:8:2}0000.MOM.res_${nn}.nc" "${DATA}/MOM6_RESTART/"
done
;;
esac
local idate=$(date --utc -d "${idate:0:8} ${idate:8:2} + ${restart_interval} hours" +%Y%m%d%H)
done
# TODO: mediator should have its own CMEPS_postdet() function
# Link mediator restarts from DATA to COM
# DANGER DANGER DANGER - Linking mediator restarts to COM causes the model to fail with a message like this below:
# Abort with message NetCDF: File exists && NC_NOCLOBBER in file pio-2.5.7/src/clib/pioc_support.c at line 2173
# Instead of linking, copy the mediator files after the model finishes
#local COMOUTmed="${ROTDIR}/${RUN}.${PDY}/${cyc}/med"
#mkdir -p "${COMOUTmed}/RESTART"
#local idate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${restart_interval} hours" +%Y%m%d%H)
#while [[ ${idate} -le ${forecast_end_cycle} ]]; do
# local seconds=$(to_seconds ${idate:8:2}0000) # use function to_seconds from forecast_predet.sh to convert HHMMSS to seconds
# local idatestr="${idate:0:4}-${idate:4:2}-${idate:6:2}-${seconds}"
# ${NLN} "${COMOUTmed}/RESTART/${idate:0:8}.${idate:8:2}0000.ufs.cpld.cpl.r.nc" "${DATA}/RESTART/ufs.cpld.cpl.r.${idatestr}.nc"
# local idate=$(date --utc -d "${idate:0:8} ${idate:8:2} + ${restart_interval} hours" +%Y%m%d%H)
#done
echo "SUB ${FUNCNAME[0]}: MOM6 input data linked/copied"
}
MOM6_nml() {
echo "SUB ${FUNCNAME[0]}: Creating name list for MOM6"
source "${HOMEgfs}/ush/parsing_namelists_MOM6.sh"
MOM6_namelists
}
MOM6_out() {
echo "SUB ${FUNCNAME[0]}: Copying output data for MOM6"
# Copy MOM_input from DATA to COM_OCEAN_INPUT after the forecast is run (and successfull)
if [[ ! -d ${COM_OCEAN_INPUT} ]]; then mkdir -p "${COM_OCEAN_INPUT}"; fi
${NCP} "${DATA}/INPUT/MOM_input" "${COM_CONF}/ufs.MOM_input"
# TODO: mediator should have its own CMEPS_out() function
# Copy mediator restarts from DATA to COM
# Linking mediator restarts to COM causes the model to fail with a message.
# See MOM6_postdet() function for error message
mkdir -p "${COM_MED_RESTART}"
local idate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${restart_interval} hours" +%Y%m%d%H)
while [[ ${idate} -le ${forecast_end_cycle} ]]; do
local seconds=$(to_seconds "${idate:8:2}"0000) # use function to_seconds from forecast_predet.sh to convert HHMMSS to seconds
local idatestr="${idate:0:4}-${idate:4:2}-${idate:6:2}-${seconds}"
local mediator_file="${DATA}/RESTART/ufs.cpld.cpl.r.${idatestr}.nc"
if [[ -f ${mediator_file} ]]; then
${NCP} "${DATA}/RESTART/ufs.cpld.cpl.r.${idatestr}.nc" "${COM_MED_RESTART}/${idate:0:8}.${idate:8:2}0000.ufs.cpld.cpl.r.nc"
else
echo "Mediator restart ${mediator_file} not found."
fi
local idate=$(date --utc -d "${idate:0:8} ${idate:8:2} + ${restart_interval} hours" +%Y%m%d%H)
done
}
CICE_postdet() {
echo "SUB ${FUNCNAME[0]}: CICE after run type determination"
# Copy CICE ICs
echo "Link CICE ICs"
cice_restart_file="${COM_ICE_RESTART_PREV}/${sPDY}.${scyc}0000.cice_model.res.nc"
if [[ ! -f "${cice_restart_file}" ]]; then
echo "FATAL ERROR: CICE restart file not found at '${cice_restart_file}', ABORT!"
exit 112
else
${NLN} "${cice_restart_file}" "${DATA}/cice_model.res.nc"
fi
rm -f "${DATA}/ice.restart_file"
echo "${DATA}/cice_model.res.nc" > "${DATA}/ice.restart_file"
echo "Link CICE fixed files"
${NLN} "${FIXcice}/${ICERES}/${CICE_GRID}" "${DATA}/"
${NLN} "${FIXcice}/${ICERES}/${CICE_MASK}" "${DATA}/"
${NLN} "${FIXcice}/${ICERES}/${MESH_ICE}" "${DATA}/"
# Link CICE output files
if [[ ! -d "${COM_ICE_HISTORY}" ]]; then mkdir -p "${COM_ICE_HISTORY}"; fi
mkdir -p "${COM_ICE_RESTART}"
if [[ "${RUN}" =~ "gfs" || "${RUN}" =~ "gefs" ]]; then
# Link output files for RUN = gfs
# TODO: make these forecast output files consistent w/ GFS output
# TODO: Work w/ NB to determine appropriate naming convention for these files
# TODO: consult w/ NB on how to improve on this. Gather requirements and more information on what these files are and how they are used to properly catalog them
local vdate seconds vdatestr fhr last_fhr
for fhr in ${FV3_OUTPUT_FH}; do
vdate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${fhr} hours" +%Y%m%d%H)
seconds=$(to_seconds "${vdate:8:2}0000") # convert HHMMSS to seconds
vdatestr="${vdate:0:4}-${vdate:4:2}-${vdate:6:2}-${seconds}"
if [[ 10#${fhr} -eq 0 ]]; then
${NLN} "${COM_ICE_HISTORY}/iceic${vdate}.${ENSMEM}.${current_cycle}.nc" "${DATA}/CICE_OUTPUT/iceh_ic.${vdatestr}.nc"
else
(( interval = fhr - last_fhr )) # Umm.. isn't this CICE_HISTFREQ_N in hours (currently set to FHOUT)?
${NLN} "${COM_ICE_HISTORY}/ice${vdate}.${ENSMEM}.${current_cycle}.nc" "${DATA}/CICE_OUTPUT/iceh_$(printf "%0.2d" "${interval}")h.${vdatestr}.nc"
fi
last_fhr=${fhr}
done
elif [[ "${RUN}" =~ "gdas" ]]; then
# Link CICE generated initial condition file from DATA/CICE_OUTPUT to COMOUTice
# This can be thought of as the f000 output from the CICE model
local seconds vdatestr
seconds=$(to_seconds "${current_cycle:8:2}0000") # convert HHMMSS to seconds
vdatestr="${current_cycle:0:4}-${current_cycle:4:2}-${current_cycle:6:2}-${seconds}"
${NLN} "${COM_ICE_HISTORY}/${RUN}.t${cyc}z.iceic.nc" "${DATA}/CICE_OUTPUT/iceh_ic.${vdatestr}.nc"
# Link instantaneous CICE forecast output files from DATA/CICE_OUTPUT to COMOUTice
local vdate vdatestr seconds fhr fhr3
fhr="${FHOUT}"
while [[ "${fhr}" -le "${FHMAX}" ]]; do
vdate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${fhr} hours" +%Y%m%d%H)
seconds=$(to_seconds "${vdate:8:2}0000") # convert HHMMSS to seconds
vdatestr="${vdate:0:4}-${vdate:4:2}-${vdate:6:2}-${seconds}"
fhr3=$(printf %03i "${fhr}")
${NLN} "${COM_ICE_HISTORY}/${RUN}.t${cyc}z.icef${fhr3}.nc" "${DATA}/CICE_OUTPUT/iceh_inst.${vdatestr}.nc"
fhr=$((fhr + FHOUT))
done
fi
# Link CICE restarts from CICE_RESTART to COMOUTice/RESTART
# Loop over restart_interval and link restarts from DATA to COM
local vdate vdatestr seconds
vdate=$(date --utc -d "${current_cycle:0:8} ${current_cycle:8:2} + ${restart_interval} hours" +%Y%m%d%H)
while [[ ${vdate} -le ${forecast_end_cycle} ]]; do
seconds=$(to_seconds "${vdate:8:2}0000") # convert HHMMSS to seconds
vdatestr="${vdate:0:4}-${vdate:4:2}-${vdate:6:2}-${seconds}"
${NLN} "${COM_ICE_RESTART}/${vdate:0:8}.${vdate:8:2}0000.cice_model.res.nc" "${DATA}/CICE_RESTART/cice_model.res.${vdatestr}.nc"
vdate=$(date --utc -d "${vdate:0:8} ${vdate:8:2} + ${restart_interval} hours" +%Y%m%d%H)
done
}
CICE_nml() {
echo "SUB ${FUNCNAME[0]}: Creating name list for CICE"
source "${HOMEgfs}/ush/parsing_namelists_CICE.sh"
CICE_namelists
}
CICE_out() {
echo "SUB ${FUNCNAME[0]}: Copying output data for CICE"
# Copy ice_in namelist from DATA to COMOUTice after the forecast is run (and successfull)
if [[ ! -d "${COM_ICE_INPUT}" ]]; then mkdir -p "${COM_ICE_INPUT}"; fi
${NCP} "${DATA}/ice_in" "${COM_CONF}/ufs.ice_in"
}
GOCART_rc() {
echo "SUB ${FUNCNAME[0]}: Linking input data and copying config files for GOCART"
# set input directory containing GOCART input data and configuration files
# this variable is platform-dependent and should be set via a YAML file
# link directory containing GOCART input dataset, if provided
if [[ ! -z "${AERO_INPUTS_DIR}" ]]; then
${NLN} "${AERO_INPUTS_DIR}" "${DATA}/ExtData"
status=$?
[[ ${status} -ne 0 ]] && exit "${status}"
fi
# copying GOCART configuration files
if [[ ! -z "${AERO_CONFIG_DIR}" ]]; then
${NCP} "${AERO_CONFIG_DIR}"/*.rc "${DATA}"
status=$?
[[ ${status} -ne 0 ]] && exit "${status}"
# attempt to generate ExtData configuration file if not provided
if [[ ! -f "${DATA}/AERO_ExtData.rc" ]]; then
{ \
echo "PrimaryExports%%" ; \
cat "${AERO_CONFIG_DIR}/ExtData.other" ; \
cat "${AERO_CONFIG_DIR}/ExtData.${AERO_EMIS_FIRE:-none}" ; \
echo "%%" ; \
} > "${DATA}/AERO_ExtData.rc"
status=$?