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exglobal_analysis_fv3gfs.sh.ecf
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#!/bin/sh
################################################################################
#### UNIX Script Documentation Block
# . .
# Script name: exglobal_analysis_fv3gfs.sh.ecf.sh
# Script description: Makes a global model upper air analysis with GSI
#
# Author: Rahul Mahajan Org: NCEP/EMC Date: 2017-03-02
#
# Abstract: This script makes a global model analysis using the GSI
#
# $Id$
#
# Attributes:
# Language: POSIX shell
# Machine: WCOSS-Cray / Theia
#
################################################################################
# Set environment.
export VERBOSE=${VERBOSE:-"YES"}
if [ $VERBOSE = "YES" ]; then
echo $(date) EXECUTING $0 $* >&2
set -x
fi
# Directories.
pwd=$(pwd)
export NWPROD=${NWPROD:-$pwd}
export BASE_GSM=${BASE_GSM:-$NWPROD}
export BASE_GSI=${BASE_GSI:-$NWPROD}
export FIXgsi=${FIXgsi:-$BASE_GSI/fix}
export GSIEXEC=${GSIEXEC:-$BASE_GSI/exec/global_gsi}
export DATA=${DATA:-$pwd/analysis.$$}
export DMPDIR=${DMPDIR:-$NWPROD}
export COMIN=${COMIN:-$pwd}
export COMIN_GES=${COMIN_GES:-$COMIN}
export COMIN_GES_ENS=${COMIN_GES_ENS:-$COMIN}
export COMOUT=${COMOUT:-$COMIN}
# Base variables
CDATE=${CDATE:-"2001010100"}
CDUMP=${CDUMP:-"gdas"}
GDUMP=${GDUMP:-"gdas"}
# Utilities
export NCP=${NCP:-"/bin/cp"}
export NMV=${NMV:-"/bin/mv"}
export NLN=${NLN:-"/bin/ln -sf"}
export CHGRP_CMD=${CHGRP_CMD:-"chgrp ${group_name:-rstprod}"}
export NEMSIOGET=${NEMSIOGET:-${NWPROD}/exec/nemsio_get}
export ERRSCRIPT=${ERRSCRIPT:-'eval [[ $err = 0 ]]'}
COMPRESS=${COMPRESS:-gzip}
UNCOMPRESS=${UNCOMPRESS:-gunzip}
APRUNCFP=${APRUNCFP:-""}
APRUN_GSI=${APRUN_GSI:-${APRUN:-""}}
NTHREADS_GSI=${NTHREADS_GSI:-${NTHREADS:-1}}
# Surface cycle related parameters
DOGCYCLE=${DOGCYCLE:-"NO"}
CYCLESH=${CYCLESH:-$BASE_GSM/ush/global_cycle.sh}
export CYCLEXEC=${CYCLEXEC:-$BASE_GSM/exec/global_cycle}
NTHREADS_CYCLE=${NTHREADS_CYCLE:-24}
APRUN_CYCLE=${APRUN_CYCLE:-${APRUN:-""}}
export SNOW_NUDGE_COEFF=${SNOW_NUDGE_COEFF:-'-2.'}
export CYCLVARS=${CYCLVARS:-""}
export FHOUR=${FHOUR:-0}
export DELTSFC=${DELTSFC:-6}
export FIXgsm=${FIXgsm:-$BASE_GSM/fix/fix_am}
export FIXfv3=${FIXfv3:-$BASE_GSM/fix/fix_fv3}
# FV3 specific info (required for global_cycle)
export CASE=${CASE:-"C384"}
ntiles=${ntiles:-6}
# Write component specific
QUILTING=${QUILTING:-".true."}
# Dependent Scripts and Executables
NTHREADS_CALCINC=${NTHREADS_CALCINC:-1}
APRUN_CALCINC=${APRUN_CALCINC:-${APRUN:-""}}
CALCINCEXEC=${CALCINCEXEC:-$BASE_GSI/exec/calc_increment_ens.x}
# OPS flags
RUN=${RUN:-""}
SENDECF=${SENDECF:-"NO"}
SENDDBN=${SENDDBN:-"NO"}
RUN_GETGES=${RUN_GETGES:-"NO"}
GETGESSH=${GETGESSH:-"getges.sh"}
export gesenvir=${gesenvir:-$envir}
# Observations
OPREFIX=${OPREFIX:-""}
OSUFFIX=${OSUFFIX:-""}
COMIN_OBS=${COMIN_OBS:-"$DMPDIR/$CDATE/$CDUMP"}
PREPQC=${PREPQC:-${COMIN_OBS}/${OPREFIX}prepbufr${OSUFFIX}}
PREPQCPF=${PREPQCPF:-${COMIN_OBS}/${OPREFIX}prepbufr.acft_profiles${OSUFFIX}}
NSSTBF=${NSSTBF:-${COMIN_OBS}/${OPREFIX}nsstbufr${OSUFFIX}}
SATWND=${SATWND:-${COMIN_OBS}/${OPREFIX}satwnd.tm00.bufr_d${OSUFFIX}}
OSCATBF=${OSCATBF:-${COMIN_OBS}/${OPREFIX}oscatw.tm00.bufr_d${OSUFFIX}}
RAPIDSCATBF=${RAPIDSCATBF:-${COMIN_OBS}/${OPREFIX}rapidscatw.tm00.bufr_d${OSUFFIX}}
GSNDBF=${GSNDBF:-${COMIN_OBS}/${OPREFIX}goesnd.tm00.bufr_d${OSUFFIX}}
GSNDBF1=${GSNDBF1:-${COMIN_OBS}/${OPREFIX}goesfv.tm00.bufr_d${OSUFFIX}}
B1HRS2=${B1HRS2:-${COMIN_OBS}/${OPREFIX}1bhrs2.tm00.bufr_d${OSUFFIX}}
B1MSU=${B1MSU:-${COMIN_OBS}/${OPREFIX}1bmsu.tm00.bufr_d${OSUFFIX}}
B1HRS3=${B1HRS3:-${COMIN_OBS}/${OPREFIX}1bhrs3.tm00.bufr_d${OSUFFIX}}
B1HRS4=${B1HRS4:-${COMIN_OBS}/${OPREFIX}1bhrs4.tm00.bufr_d${OSUFFIX}}
B1AMUA=${B1AMUA:-${COMIN_OBS}/${OPREFIX}1bamua.tm00.bufr_d${OSUFFIX}}
B1AMUB=${B1AMUB:-${COMIN_OBS}/${OPREFIX}1bamub.tm00.bufr_d${OSUFFIX}}
B1MHS=${B1MHS:-${COMIN_OBS}/${OPREFIX}1bmhs.tm00.bufr_d${OSUFFIX}}
ESHRS3=${ESHRS3:-${COMIN_OBS}/${OPREFIX}eshrs3.tm00.bufr_d${OSUFFIX}}
ESAMUA=${ESAMUA:-${COMIN_OBS}/${OPREFIX}esamua.tm00.bufr_d${OSUFFIX}}
ESAMUB=${ESAMUB:-${COMIN_OBS}/${OPREFIX}esamub.tm00.bufr_d${OSUFFIX}}
ESMHS=${ESMHS:-${COMIN_OBS}/${OPREFIX}esmhs.tm00.bufr_d${OSUFFIX}}
HRS3DB=${HRS3DB:-${COMIN_OBS}/${OPREFIX}hrs3db.tm00.bufr_d${OSUFFIX}}
AMUADB=${AMUADB:-${COMIN_OBS}/${OPREFIX}amuadb.tm00.bufr_d${OSUFFIX}}
AMUBDB=${AMUBDB:-${COMIN_OBS}/${OPREFIX}amubdb.tm00.bufr_d${OSUFFIX}}
MHSDB=${MHSDB:-${COMIN_OBS}/${OPREFIX}mhsdb.tm00.bufr_d${OSUFFIX}}
AIRSBF=${AIRSBF:-${COMIN_OBS}/${OPREFIX}airsev.tm00.bufr_d${OSUFFIX}}
IASIBF=${IASIBF:-${COMIN_OBS}/${OPREFIX}mtiasi.tm00.bufr_d${OSUFFIX}}
ESIASI=${ESIASI:-${COMIN_OBS}/${OPREFIX}esiasi.tm00.bufr_d${OSUFFIX}}
IASIDB=${IASIDB:-${COMIN_OBS}/${OPREFIX}iasidb.tm00.bufr_d${OSUFFIX}}
AMSREBF=${AMSREBF:-${COMIN_OBS}/${OPREFIX}amsre.tm00.bufr_d${OSUFFIX}}
AMSR2BF=${AMSR2BF:-${COMIN_OBS}/${OPREFIX}amsr2.tm00.bufr_d${OSUFFIX}}
GMI1CRBF=${GMI1CRBF:-${COMIN_OBS}/${OPREFIX}gmi1cr.tm00.bufr_d${OSUFFIX}}
SAPHIRBF=${SAPHIRBF:-${COMIN_OBS}/${OPREFIX}saphir.tm00.bufr_d${OSUFFIX}}
SEVIRIBF=${SEVIRIBF:-${COMIN_OBS}/${OPREFIX}sevcsr.tm00.bufr_d${OSUFFIX}}
AHIBF=${AHIBF:-${COMIN_OBS}/${OPREFIX}ahi.tm00.bufr_d${OSUFFIX}}
CRISBF=${CRISBF:-${COMIN_OBS}/${OPREFIX}cris.tm00.bufr_d${OSUFFIX}}
ESCRIS=${ESCRIS:-${COMIN_OBS}/${OPREFIX}escris.tm00.bufr_d${OSUFFIX}}
CRISDB=${CRISDB:-${COMIN_OBS}/${OPREFIX}crisdb.tm00.bufr_d${OSUFFIX}}
CRISFSBF=${CRISFSBF:-${COMIN_OBS}/${OPREFIX}crisf4.tm00.bufr_d${OSUFFIX}}
ESCRISFS=${ESCRISFS:-${COMIN_OBS}/${OPREFIX}escrisf4.tm00.bufr_d${OSUFFIX}}
CRISFSDB=${CRISFSDB:-${COMIN_OBS}/${OPREFIX}crisf4db.tm00.bufr_d${OSUFFIX}}
ATMSBF=${ATMSBF:-${COMIN_OBS}/${OPREFIX}atms.tm00.bufr_d${OSUFFIX}}
ESATMS=${ESATMS:-${COMIN_OBS}/${OPREFIX}esatms.tm00.bufr_d${OSUFFIX}}
ATMSDB=${ATMSDB:-${COMIN_OBS}/${OPREFIX}atmsdb.tm00.bufr_d${OSUFFIX}}
SSMITBF=${SSMITBF:-${COMIN_OBS}/${OPREFIX}ssmit.tm00.bufr_d${OSUFFIX}}
SSMISBF=${SSMISBF:-${COMIN_OBS}/${OPREFIX}ssmisu.tm00.bufr_d${OSUFFIX}}
SBUVBF=${SBUVBF:-${COMIN_OBS}/${OPREFIX}osbuv8.tm00.bufr_d${OSUFFIX}}
GOMEBF=${GOMEBF:-${COMIN_OBS}/${OPREFIX}gome.tm00.bufr_d${OSUFFIX}}
OMIBF=${OMIBF:-${COMIN_OBS}/${OPREFIX}omi.tm00.bufr_d${OSUFFIX}}
MLSBF=${MLSBF:-${COMIN_OBS}/${OPREFIX}mls.tm00.bufr_d${OSUFFIX}}
SMIPCP=${SMIPCP:-${COMIN_OBS}/${OPREFIX}spssmi.tm00.bufr_d${OSUFFIX}}
TMIPCP=${TMIPCP:-${COMIN_OBS}/${OPREFIX}sptrmm.tm00.bufr_d${OSUFFIX}}
GPSROBF=${GPSROBF:-${COMIN_OBS}/${OPREFIX}gpsro.tm00.bufr_d${OSUFFIX}}
TCVITL=${TCVITL:-${COMIN_OBS}/${OPREFIX}syndata.tcvitals.tm00}
B1AVHAM=${B1AVHAM:-${COMIN_OBS}/${OPREFIX}avcsam.tm00.bufr_d${OSUFFIX}}
B1AVHPM=${B1AVHPM:-${COMIN_OBS}/${OPREFIX}avcspm.tm00.bufr_d${OSUFFIX}}
# Guess files
GPREFIX=${GPREFIX:-""}
GSUFFIX=${GSUFFIX:-""}
SFCG03=${SFCG03:-${COMIN_GES}/${GPREFIX}sfcf003${GSUFFIX}}
SFCG04=${SFCG04:-${COMIN_GES}/${GPREFIX}sfcf004${GSUFFIX}}
SFCG05=${SFCG05:-${COMIN_GES}/${GPREFIX}sfcf005${GSUFFIX}}
SFCGES=${SFCGES:-${COMIN_GES}/${GPREFIX}sfcf006${GSUFFIX}}
SFCG07=${SFCG07:-${COMIN_GES}/${GPREFIX}sfcf007${GSUFFIX}}
SFCG08=${SFCG08:-${COMIN_GES}/${GPREFIX}sfcf008${GSUFFIX}}
SFCG09=${SFCG09:-${COMIN_GES}/${GPREFIX}sfcf009${GSUFFIX}}
ATMG03=${ATMG03:-${COMIN_GES}/${GPREFIX}atmf003${GSUFFIX}}
ATMG04=${ATMG04:-${COMIN_GES}/${GPREFIX}atmf004${GSUFFIX}}
ATMG05=${ATMG05:-${COMIN_GES}/${GPREFIX}atmf005${GSUFFIX}}
ATMGES=${ATMGES:-${COMIN_GES}/${GPREFIX}atmf006${GSUFFIX}}
ATMG07=${ATMG07:-${COMIN_GES}/${GPREFIX}atmf007${GSUFFIX}}
ATMG08=${ATMG08:-${COMIN_GES}/${GPREFIX}atmf008${GSUFFIX}}
ATMG09=${ATMG09:-${COMIN_GES}/${GPREFIX}atmf009${GSUFFIX}}
GBIAS=${GBIAS:-${COMIN_GES}/${GPREFIX}abias}
GBIASPC=${GBIASPC:-${COMIN_GES}/${GPREFIX}abias_pc}
GBIASAIR=${GBIASAIR:-${COMIN_GES}/${GPREFIX}abias_air}
GRADSTAT=${GRADSTAT:-${COMIN_GES}/${GPREFIX}radstat}
# Analysis files
APREFIX=${APREFIX:-""}
ASUFFIX=${ASUFFIX:-""}
SFCANL=${SFCANL:-${COMOUT}/${APREFIX}sfcanl${ASUFFIX}}
DTFANL=${DTFANL:-${COMOUT}/${APREFIX}dtfanl.nc}
ATMANL=${ATMANL:-${COMOUT}/${APREFIX}atmanl${ASUFFIX}}
ABIAS=${ABIAS:-${COMOUT}/${APREFIX}abias}
ABIASPC=${ABIASPC:-${COMOUT}/${APREFIX}abias_pc}
ABIASAIR=${ABIASAIR:-${COMOUT}/${APREFIX}abias_air}
ABIASe=${ABIASe:-${COMOUT}/${APREFIX}abias_int}
RADSTAT=${RADSTAT:-${COMOUT}/${APREFIX}radstat}
GSISTAT=${GSISTAT:-${COMOUT}/${APREFIX}gsistat}
PCPSTAT=${PCPSTAT:-${COMOUT}/${APREFIX}pcpstat}
CNVSTAT=${CNVSTAT:-${COMOUT}/${APREFIX}cnvstat}
OZNSTAT=${OZNSTAT:-${COMOUT}/${APREFIX}oznstat}
# Obs diag
RUN_SELECT=${RUN_SELECT:-"NO"}
USE_SELECT=${USE_SELECT:-"NO"}
SELECT_OBS=${SELECT_OBS:-${COMOUT}/${APREFIX}obsinput}
DIAG_SUFFIX=${DIAG_SUFFIX:-""}
DIAG_COMPRESS=${DIAG_COMPRESS:-"YES"}
DIAG_TARBALL=${DIAG_TARBALL:-"YES"}
USE_CFP=${USE_CFP:-"NO"}
# Set script / GSI control parameters
DOHYBVAR=${DOHYBVAR:-"NO"}
NMEM_ENKF=${NMEM_ENKF:-0}
DONST=${DONST:-"NO"}
NST_GSI=${NST_GSI:-0}
NSTINFO=${NSTINFO:-0}
ZSEA1=${ZSEA1:-0}
ZSEA2=${ZSEA2:-0}
FAC_DTL=${FAC_DTL:-1}
FAC_TSL=${FAC_TSL:-1}
TZR_QC=${TZR_QC:-1}
USE_READIN_ANL_SFCMASK=${USE_READIN_ANL_SFCMASK:-.false.}
SMOOTH_ENKF=${SMOOTH_ENKF:-"YES"}
DOIAU=${DOIAU:-"NO"}
DO_CALC_INCREMENT=${DO_CALC_INCREMENT:-"YES"}
# Get header information from Guess files
LONB=${LONB:-$($NEMSIOGET $ATMGES dimx | grep -i "dimx" | awk -F"= " '{print $2}' | awk -F" " '{print $1}')}
status=$?
[[ $status -ne 0 ]] && exit $status
LATB=${LATB:-$($NEMSIOGET $ATMGES dimy | grep -i "dimy" | awk -F"= " '{print $2}' | awk -F" " '{print $1}')}
status=$?
[[ $status -ne 0 ]] && exit $status
LEVS=${LEVS:-$($NEMSIOGET $ATMGES dimz | grep -i "dimz" | awk -F"= " '{print $2}' | awk -F" " '{print $1}')}
status=$?
[[ $status -ne 0 ]] && exit $status
if [ $QUILTING = ".false." ]; then
JCAP=${JCAP:-$($NEMSIOGET $ATMGES jcap | grep -i "jcap" | awk -F"= " '{print $2}' | awk -F" " '{print $1}')}
status=$?
[[ $status -ne 0 ]] && exit $status
else
# using write component
JCAP=${JCAP:-$((LATB-2))}
fi
#CDATE=${CDATE:-$($NEMSIOGET $ATMGES fcstdate | grep -i "fcstdate_ymdh" | awk -F= '{print $2}')}
PDY=$(echo $CDATE | cut -c1-8)
cyc=$(echo $CDATE | cut -c9-10)
GDATE=$($NDATE -$assim_freq $CDATE)
gPDY=$(echo $GDATE | cut -c1-8)
gcyc=$(echo $GDATE | cut -c9-10)
# Get header information from Ensemble Guess files
if [ $DOHYBVAR = "YES" ]; then
SFCGES_ENSMEAN=${SFCGES_ENSMEAN:-${COMIN_GES_ENS}/${GPREFIX}sfcf006.ensmean${GSUFFIX}}
ATMGES_ENSMEAN=${ATMGES_ENSMEAN:-${COMIN_GES_ENS}/${GPREFIX}atmf006.ensmean${GSUFFIX}}
LONB_ENKF=${LONB_ENKF:-$($NEMSIOGET $ATMGES_ENSMEAN dimx | grep -i "dimx" | awk -F"= " '{print $2}' | awk -F" " '{print $1}')}
status=$?
[[ $status -ne 0 ]] && exit $status
LATB_ENKF=${LATB_ENKF:-$($NEMSIOGET $ATMGES_ENSMEAN dimy | grep -i "dimy" | awk -F"= " '{print $2}' | awk -F" " '{print $1}')}
status=$?
[[ $status -ne 0 ]] && exit $status
NLON_ENKF=${NLON_ENKF:-$LONB_ENKF}
NLAT_ENKF=${NLAT_ENKF:-$(($LATB_ENKF+2))}
if [ $QUILTING = ".false." ]; then
JCAP_ENKF=${JCAP_ENKF:-$($NEMSIOGET $ATMGES_ENSMEAN jcap | grep -i "jcap" | awk -F"= " '{print $2}' | awk -F" " '{print $1}')}
status=$?
[[ $status -ne 0 ]] && exit $status
else
# using write component
JCAP_ENKF=${JCAP_ENKF:-$((LATB_ENKF-2))}
fi
fi
# Set analysis resolution information
if [ $DOHYBVAR = "YES" ]; then
JCAP_A=${JCAP_A:-${JCAP_ENKF:-$JCAP}}
LONA=${LONA:-${LONB_ENKF:-$LONB}}
LATA=${LATA:-${LATB_ENKF:-$LATB}}
else
JCAP_A=${JCAP_A:-$JCAP}
LONA=${LONA:-$LONB}
LATA=${LATA:-$LATB}
fi
NLON_A=${NLON_A:-$LONA}
NLAT_A=${NLAT_A:-$(($LATA+2))}
DELTIM=${DELTIM:-$((3600/($JCAP_A/20)))}
# GSI Fix files
RTMFIX=${RTMFIX:-$NWROOT/lib/crtm/${crtm_ver}/fix}
BERROR=${BERROR:-${FIXgsi}/Big_Endian/global_berror.l${LEVS}y${NLAT_A}.f77}
SATANGL=${SATANGL:-${FIXgsi}/global_satangbias.txt}
SATINFO=${SATINFO:-${FIXgsi}/global_satinfo.txt}
ATMSFILTER=${ATMSFILTER:-${FIXgsi}/atms_beamwidth.txt}
ANAVINFO=${ANAVINFO:-${FIXgsi}/global_anavinfo.l${LEVS}.txt}
CONVINFO=${CONVINFO:-${FIXgsi}/global_convinfo.txt}
INSITUINFO=${INSITUINFO:-${FIXgsi}/global_insituinfo.txt}
OZINFO=${OZINFO:-${FIXgsi}/global_ozinfo.txt}
PCPINFO=${PCPINFO:-${FIXgsi}/global_pcpinfo.txt}
AEROINFO=${AEROINFO:-${FIXgsi}/global_aeroinfo.txt}
SCANINFO=${SCANINFO:-${FIXgsi}/global_scaninfo.txt}
HYBENSINFO=${HYBENSINFO:-${FIXgsi}/global_hybens_info.l${LEVS}.txt}
OBERROR=${OBERROR:-${FIXgsi}/prepobs_errtable.global}
# GSI namelist
SETUP=${SETUP:-""}
GRIDOPTS=${GRIDOPTS:-""}
BKGVERR=${BKGVERR:-""}
ANBKGERR=${ANBKGERR:-""}
JCOPTS=${JCOPTS:-""}
STRONGOPTS=${STRONGOPTS:-""}
OBSQC=${OBSQC:-""}
OBSINPUT=${OBSINPUT:-""}
SUPERRAD=${SUPERRAD:-""}
SINGLEOB=${SINGLEOB:-""}
LAGDATA=${LAGDATA:-""}
HYBRID_ENSEMBLE=${HYBRID_ENSEMBLE:-""}
RAPIDREFRESH_CLDSURF=${RAPIDREFRESH_CLDSURF:-""}
CHEM=${CHEM:-""}
NST=${NST:-""}
#uGSI Namelist parameters
lrun_subdirs=${lrun_subdirs:-".true."}
if [ $DOHYBVAR = "YES" ]; then
l_hyb_ens=.true.
l4densvar=${l4densvar:-".false."}
lwrite4danl=${lwrite4danl:-".false."}
else
l_hyb_ens=.false.
l4densvar=.false.
lwrite4danl=.false.
fi
# Set 4D-EnVar specific variables
if [ $DOHYBVAR = "YES" -a $l4densvar = ".true." -a $lwrite4danl = ".true." ]; then
ATMA03=${ATMA03:-${COMOUT}/${APREFIX}atma003${ASUFFIX}}
ATMA04=${ATMA04:-${COMOUT}/${APREFIX}atma004${ASUFFIX}}
ATMA05=${ATMA05:-${COMOUT}/${APREFIX}atma005${ASUFFIX}}
ATMA07=${ATMA07:-${COMOUT}/${APREFIX}atma007${ASUFFIX}}
ATMA08=${ATMA08:-${COMOUT}/${APREFIX}atma008${ASUFFIX}}
ATMA09=${ATMA09:-${COMOUT}/${APREFIX}atma009${ASUFFIX}}
fi
################################################################################
# Preprocessing
if [ ! -d $DATA ]; then mkdir -p $DATA; fi
cd $DATA || exit 99
################################################################################
# Clean the run-directory
rm berror_stats hybens_info
rm scaninfo satbias_angle satinfo
rm anavinfo convinfo ozinfo pcpinfo aeroinfo
rm errtable atms_beamwidth.txt
rm prepbufr prepbufr_profl
rm gpsrobufr
rm tcvitl
rm gsndrbufr gsnd1bufr
rm ssmisbufr ssmitbufr ssmirrbufr tmirrbufr
rm sbuvbufr gomebufr omibufr mlsbufr msubufr
rm airsbufr
rm iasibufr iasibufrears iasibufr_db
rm amsrebufr amsr2bufr
rm gmibufr saphirbufr
rm hirs2bufr hirs3bufr hirs4bufr hirs3bufr_db hirs3bufrears
rm amsuabufr amsuabufr_db amsuabufrears
rm amsubbufr amsubbufr_db amsubbufrears
rm mhsbufr mhsbufr_db mhsbufrears
rm seviribufr ahibufr
rm crisbufr crisbufrears crisbufr_db crisfsbufr crisfsbufrears crisfsbufr_db
rm atmsbufr atmsbufr_db atmsbufrears
rm satbias_in satbias_ang.in satbias_out satbias_pc satbias_pc.out satbias_out.int
rm aircftbias_in aircftbias_out
rm sfcf* sigf* nstf*
rm sfca* siga* nsta*
rm gsiparm.anl
rm -rf dir*
rm -rf crtm_coeffs
rm -rf ensemble_data
##############################################################
# Fixed files
$NLN $BERROR berror_stats
$NLN $SATANGL satbias_angle
$NLN $SATINFO satinfo
$NLN $ATMSFILTER atms_beamwidth.txt
$NLN $ANAVINFO anavinfo
$NLN $CONVINFO convinfo
$NLN $INSITUINFO insituinfo
$NLN $OZINFO ozinfo
$NLN $PCPINFO pcpinfo
$NLN $AEROINFO aeroinfo
$NLN $SCANINFO scaninfo
$NLN $HYBENSINFO hybens_info
$NLN $OBERROR errtable
##############################################################
# CRTM Spectral and Transmittance coefficients
mkdir -p crtm_coeffs
for file in $(awk '{if($1!~"!"){print $1}}' satinfo | sort | uniq); do
$NLN $RTMFIX/${file}.SpcCoeff.bin ./crtm_coeffs/
$NLN $RTMFIX/${file}.TauCoeff.bin ./crtm_coeffs/
done
$NLN $RTMFIX/Nalli.IRwater.EmisCoeff.bin ./crtm_coeffs/Nalli.IRwater.EmisCoeff.bin
$NLN $RTMFIX/NPOESS.IRice.EmisCoeff.bin ./crtm_coeffs/NPOESS.IRice.EmisCoeff.bin
$NLN $RTMFIX/NPOESS.IRland.EmisCoeff.bin ./crtm_coeffs/NPOESS.IRland.EmisCoeff.bin
$NLN $RTMFIX/NPOESS.IRsnow.EmisCoeff.bin ./crtm_coeffs/NPOESS.IRsnow.EmisCoeff.bin
$NLN $RTMFIX/NPOESS.VISice.EmisCoeff.bin ./crtm_coeffs/NPOESS.VISice.EmisCoeff.bin
$NLN $RTMFIX/NPOESS.VISland.EmisCoeff.bin ./crtm_coeffs/NPOESS.VISland.EmisCoeff.bin
$NLN $RTMFIX/NPOESS.VISsnow.EmisCoeff.bin ./crtm_coeffs/NPOESS.VISsnow.EmisCoeff.bin
$NLN $RTMFIX/NPOESS.VISwater.EmisCoeff.bin ./crtm_coeffs/NPOESS.VISwater.EmisCoeff.bin
$NLN $RTMFIX/FASTEM6.MWwater.EmisCoeff.bin ./crtm_coeffs/FASTEM6.MWwater.EmisCoeff.bin
$NLN $RTMFIX/AerosolCoeff.bin ./crtm_coeffs/AerosolCoeff.bin
$NLN $RTMFIX/CloudCoeff.bin ./crtm_coeffs/CloudCoeff.bin
##############################################################
# Observational data
$NLN $PREPQC prepbufr
$NLN $PREPQCPF prepbufr_profl
$NLN $SATWND satwndbufr
$NLN $OSCATBF oscatbufr
$NLN $RAPIDSCATBF rapidscatbufr
$NLN $GSNDBF gsndrbufr
$NLN $GSNDBF1 gsnd1bufr
$NLN $B1HRS2 hirs2bufr
$NLN $B1MSU msubufr
$NLN $B1HRS3 hirs3bufr
$NLN $B1HRS4 hirs4bufr
$NLN $B1AMUA amsuabufr
$NLN $B1AMUB amsubbufr
$NLN $B1MHS mhsbufr
$NLN $ESHRS3 hirs3bufrears
$NLN $ESAMUA amsuabufrears
$NLN $ESAMUB amsubbufrears
#$NLN $ESMHS mhsbufrears
$NLN $HRS3DB hirs3bufr_db
$NLN $AMUADB amsuabufr_db
$NLN $AMUBDB amsubbufr_db
#$NLN $MHSDB mhsbufr_db
$NLN $SBUVBF sbuvbufr
$NLN $GOMEBF gomebufr
$NLN $OMIBF omibufr
$NLN $MLSBF mlsbufr
$NLN $SMIPCP ssmirrbufr
$NLN $TMIPCP tmirrbufr
$NLN $AIRSBF airsbufr
$NLN $IASIBF iasibufr
$NLN $ESIASI iasibufrears
$NLN $IASIDB iasibufr_db
$NLN $AMSREBF amsrebufr
$NLN $AMSR2BF amsr2bufr
$NLN $GMI1CRBF gmibufr
$NLN $SAPHIRBF saphirbufr
$NLN $SEVIRIBF seviribufr
$NLN $CRISBF crisbufr
$NLN $ESCRIS crisbufrears
$NLN $CRISDB crisbufr_db
$NLN $CRISFSBF crisfsbufr
#$NLN $ESCRISFS crisfsbufrears
#$NLN $CRISFSDB crisfsbufr_db
$NLN $ATMSBF atmsbufr
$NLN $ESATMS atmsbufrears
$NLN $ATMSDB atmsbufr_db
$NLN $SSMITBF ssmitbufr
$NLN $SSMISBF ssmisbufr
$NLN $GPSROBF gpsrobufr
$NLN $TCVITL tcvitl
$NLN $NSSTBF nsstbufr
$NLN $B1AVHAM avhambufr
$NLN $B1AVHPM avhpmbufr
$NLN $AHIBF ahibufr
##############################################################
# Required bias guess files
$NLN $GBIAS satbias_in
$NLN $GBIASPC satbias_pc
$NLN $GBIASAIR aircftbias_in
$NLN $GRADSTAT radstat.gdas
##############################################################
# Required model guess files
$NLN $ATMG03 sigf03
$NLN $ATMGES sigf06
$NLN $ATMG09 sigf09
$NLN $SFCG03 sfcf03
$NLN $SFCGES sfcf06
$NLN $SFCG09 sfcf09
# Link hourly backgrounds (if present)
if [ -f $ATMG04 -a -f $ATMG05 -a -f $ATMG07 -a -f $ATMG08 ]; then
nhr_obsbin=1
fi
[[ -f $ATMG04 ]] && $NLN $ATMG04 sigf04
[[ -f $ATMG05 ]] && $NLN $ATMG05 sigf05
[[ -f $ATMG07 ]] && $NLN $ATMG07 sigf07
[[ -f $ATMG08 ]] && $NLN $ATMG08 sigf08
[[ -f $SFCG04 ]] && $NLN $SFCG04 sfcf04
[[ -f $SFCG05 ]] && $NLN $SFCG05 sfcf05
[[ -f $SFCG07 ]] && $NLN $SFCG07 sfcf07
[[ -f $SFCG08 ]] && $NLN $SFCG08 sfcf08
if [ $DOHYBVAR = "YES" ]; then
# Link ensemble members
mkdir -p ensemble_data
ENKF_SUFFIX="s"
[[ $SMOOTH_ENKF = "NO" ]] && ENKF_SUFFIX=""
fhrs="06"
if [ $l4densvar = ".true." ]; then
fhrs="03 04 05 06 07 08 09"
fi
for imem in $(seq 1 $NMEM_ENKF); do
memchar="mem"$(printf %03i $imem)
for fhr in $fhrs; do
$NLN ${COMIN_GES_ENS}/$memchar/${GPREFIX}atmf0${fhr}${ENKF_SUFFIX}${GSUFFIX} ./ensemble_data/sigf${fhr}_ens_$memchar
done
done
fi
##############################################################
# Handle inconsistent surface mask between background, ensemble and analysis grids
# This needs re-visiting in the context of NSST; especially references to JCAP*
if [ $JCAP -ne $JCAP_A ]; then
if [ $DOHYBVAR = "YES" -a $JCAP_A = $JCAP_ENKF ]; then
if [ -e $SFCGES_ENSMEAN ]; then
USE_READIN_ANL_SFCMASK=.true.
$NLN $SFCGES_ENSMEAN sfcf06_anlgrid
else
echo "Warning: Inconsistent sfc mask between analysis and ensemble grids, GSI will interpolate"
fi
else
echo "Warning: Inconsistent sfc mask between analysis and background grids, GSI will interpolate"
fi
fi
##############################################################
# Output files
# $SFCANL is no longer created here since global_cycle is not called
$NLN $ATMANL siganl
if [ $DOHYBVAR = "YES" -a $l4densvar = ".true." -a $lwrite4danl = ".true." ]; then
$NLN $ATMA03 siga03
$NLN $ATMA04 siga04
$NLN $ATMA05 siga05
$NLN $ATMA07 siga07
$NLN $ATMA08 siga08
$NLN $ATMA09 siga09
fi
$NLN $ABIAS satbias_out
$NLN $ABIASPC satbias_pc.out
$NLN $ABIASAIR aircftbias_out
if [ $DONST = "YES" ]; then
$NLN $DTFANL dtfanl
fi
# If requested, link and de-tar obs_input
if [ $USE_SELECT = "YES" ]; then
rm obs_input*
$NLN $SELECT_OBS obs_input.tar
tar -xvf obs_input.tar
fi
##############################################################
# If requested, copy and de-tar guess radstat file
if [ $USE_CFP = "YES" ]; then
rm $DATA/unzip.sh $DATA/mp_unzip.sh
cat > $DATA/unzip.sh << EOFunzip
#!/bin/sh
diag_file=\$1
fname=\$(echo \$diag_file | cut -d'.' -f1)
fdate=\$(echo \$diag_file | cut -d'.' -f2)
$UNCOMPRESS \$diag_file
fnameges=\$(echo \$fname | sed 's/_ges//g')
$NMV \$fname.\$fdate \$fnameges
EOFunzip
chmod 755 $DATA/unzip.sh
fi
listdiag=$(tar xvf radstat.gdas | cut -d' ' -f2 | grep _ges)
for type in $listdiag; do
diag_file=$(echo $type | cut -d',' -f1)
if [ $USE_CFP = "YES" ] ; then
echo "$DATA/unzip.sh $diag_file" | tee -a $DATA/mp_unzip.sh
else
fname=$(echo $diag_file | cut -d'.' -f1)
date=$(echo $diag_file | cut -d'.' -f2)
$UNCOMPRESS $diag_file
fnameges=$(echo $fname|sed 's/_ges//g')
$NMV $fname.$date $fnameges
fi
done
if [ $USE_CFP = "YES" ] ; then
chmod 755 $DATA/mp_unzip.sh
ncmd=$(cat $DATA/mp_unzip.sh | wc -l)
if [ $ncmd -gt 0 ]; then
ncmd_max=$((ncmd < npe_node_max ? ncmd : npe_node_max))
APRUNCFP_UNZIP=$(eval echo $APRUNCFP)
$APRUNCFP_UNZIP $DATA/mp_unzip.sh
fi
fi
##############################################################
# GSI Namelist options
if [ $DOHYBVAR = "YES" ]; then
HYBRID_ENSEMBLE="n_ens=$NMEM_ENKF,jcap_ens=$JCAP_ENKF,nlat_ens=$NLAT_ENKF,nlon_ens=$NLON_ENKF,jcap_ens_test=$JCAP_ENKF,$HYBRID_ENSEMBLE"
if [ $l4densvar = ".true." ]; then
SETUP="niter(1)=50,niter(2)=150,niter_no_qc(1)=25,niter_no_qc(2)=0,thin4d=.true.,ens_nstarthr=3,l4densvar=$l4densvar,lwrite4danl=$lwrite4danl,$SETUP"
JCOPTS="ljc4tlevs=.true.,$JCOPTS"
STRONGOPTS="tlnmc_option=3,$STRONGOPTS"
OBSQC="c_varqc=0.04,$OBSQC"
fi
fi
if [ $NST_GSI -gt 0 ]; then
NST="nstinfo=$NSTINFO,fac_dtl=$FAC_DTL,fac_tsl=$FAC_TSL,zsea1=$ZSEA1,zsea2=$ZSEA2,$NST"
fi
##############################################################
# Create global_gsi namelist
cat > gsiparm.anl << EOF
&SETUP
miter=2,
niter(1)=100,niter(2)=100,
niter_no_qc(1)=50,niter_no_qc(2)=0,
write_diag(1)=.true.,write_diag(2)=.false.,write_diag(3)=.true.,
qoption=2,
gencode=${IGEN:-0},deltim=$DELTIM,
factqmin=5.0,factqmax=0.005,
iguess=-1,
tzr_qc=$TZR_QC,
oneobtest=.false.,retrieval=.false.,l_foto=.false.,
use_pbl=.false.,use_compress=.true.,nsig_ext=12,gpstop=50.,
use_gfs_nemsio=.true.,sfcnst_comb=.true.,
use_readin_anl_sfcmask=${USE_READIN_ANL_SFCMASK},
lrun_subdirs=$lrun_subdirs,
crtm_coeffs_path='./crtm_coeffs/',
newpc4pred=.true.,adp_anglebc=.true.,angord=4,passive_bc=.true.,use_edges=.false.,
diag_precon=.true.,step_start=1.e-3,emiss_bc=.true.,nhr_obsbin=${nhr_obsbin:-3},
cwoption=3,
$SETUP
/
&GRIDOPTS
JCAP_B=$JCAP,JCAP=$JCAP_A,NLAT=$NLAT_A,NLON=$NLON_A,nsig=$LEVS,
regional=.false.,nlayers(63)=3,nlayers(64)=6,
$GRIDOPTS
/
&BKGERR
vs=0.7,
hzscl=1.7,0.8,0.5,
hswgt=0.45,0.3,0.25,
bw=0.0,norsp=4,
bkgv_flowdep=.true.,bkgv_rewgtfct=1.5,
bkgv_write=.false.,
cwcoveqqcov=.false.,
$BKGVERR
/
&ANBKGERR
anisotropic=.false.,
$ANBKGERR
/
&JCOPTS
ljcdfi=.false.,alphajc=0.0,ljcpdry=.true.,bamp_jcpdry=5.0e7,
$JCOPTS
/
&STRONGOPTS
tlnmc_option=2,nstrong=1,nvmodes_keep=8,period_max=6.,period_width=1.5,
$STRONGOPTS
/
&OBSQC
dfact=0.75,dfact1=3.0,noiqc=.true.,oberrflg=.false.,c_varqc=0.02,
use_poq7=.true.,qc_noirjaco3_pole=.true.,vqc=.true.,
aircraft_t_bc=.true.,biaspredt=1000.0,upd_aircraft=.true.,
$OBSQC
/
&OBS_INPUT
dmesh(1)=145.0,dmesh(2)=150.0,dmesh(3)=100.0,time_window_max=3.0,
$OBSINPUT
/
OBS_INPUT::
! dfile dtype dplat dsis dval dthin dsfcalc
prepbufr ps null ps 0.0 0 0
prepbufr t null t 0.0 0 0
prepbufr_profl t null t 0.0 0 0
prepbufr q null q 0.0 0 0
prepbufr_profl q null q 0.0 0 0
prepbufr pw null pw 0.0 0 0
prepbufr uv null uv 0.0 0 0
prepbufr_profl uv null uv 0.0 0 0
satwndbufr uv null uv 0.0 0 0
prepbufr spd null spd 0.0 0 0
prepbufr dw null dw 0.0 0 0
radarbufr rw null rw 0.0 0 0
nsstbufr sst nsst sst 0.0 0 0
gpsrobufr gps_bnd null gps 0.0 0 0
ssmirrbufr pcp_ssmi dmsp pcp_ssmi 0.0 -1 0
tmirrbufr pcp_tmi trmm pcp_tmi 0.0 -1 0
sbuvbufr sbuv2 n16 sbuv8_n16 0.0 0 0
sbuvbufr sbuv2 n17 sbuv8_n17 0.0 0 0
sbuvbufr sbuv2 n18 sbuv8_n18 0.0 0 0
hirs3bufr hirs3 n17 hirs3_n17 0.0 1 0
hirs4bufr hirs4 metop-a hirs4_metop-a 0.0 1 1
gimgrbufr goes_img g11 imgr_g11 0.0 1 0
gimgrbufr goes_img g12 imgr_g12 0.0 1 0
airsbufr airs aqua airs_aqua 0.0 1 1
amsuabufr amsua n15 amsua_n15 0.0 1 1
amsuabufr amsua n18 amsua_n18 0.0 1 1
amsuabufr amsua metop-a amsua_metop-a 0.0 1 1
airsbufr amsua aqua amsua_aqua 0.0 1 1
amsubbufr amsub n17 amsub_n17 0.0 1 1
mhsbufr mhs n18 mhs_n18 0.0 1 1
mhsbufr mhs metop-a mhs_metop-a 0.0 1 1
ssmitbufr ssmi f15 ssmi_f15 0.0 1 0
amsrebufr amsre_low aqua amsre_aqua 0.0 1 0
amsrebufr amsre_mid aqua amsre_aqua 0.0 1 0
amsrebufr amsre_hig aqua amsre_aqua 0.0 1 0
ssmisbufr ssmis f16 ssmis_f16 0.0 1 0
ssmisbufr ssmis f17 ssmis_f17 0.0 1 0
ssmisbufr ssmis f18 ssmis_f18 0.0 1 0
ssmisbufr ssmis f19 ssmis_f19 0.0 1 0
gsnd1bufr sndrd1 g12 sndrD1_g12 0.0 1 0
gsnd1bufr sndrd2 g12 sndrD2_g12 0.0 1 0
gsnd1bufr sndrd3 g12 sndrD3_g12 0.0 1 0
gsnd1bufr sndrd4 g12 sndrD4_g12 0.0 1 0
gsnd1bufr sndrd1 g11 sndrD1_g11 0.0 1 0
gsnd1bufr sndrd2 g11 sndrD2_g11 0.0 1 0
gsnd1bufr sndrd3 g11 sndrD3_g11 0.0 1 0
gsnd1bufr sndrd4 g11 sndrD4_g11 0.0 1 0
gsnd1bufr sndrd1 g13 sndrD1_g13 0.0 1 0
gsnd1bufr sndrd2 g13 sndrD2_g13 0.0 1 0
gsnd1bufr sndrd3 g13 sndrD3_g13 0.0 1 0
gsnd1bufr sndrd4 g13 sndrD4_g13 0.0 1 0
iasibufr iasi metop-a iasi_metop-a 0.0 1 1
gomebufr gome metop-a gome_metop-a 0.0 2 0
omibufr omi aura omi_aura 0.0 2 0
sbuvbufr sbuv2 n19 sbuv8_n19 0.0 0 0
hirs4bufr hirs4 n19 hirs4_n19 0.0 1 1
amsuabufr amsua n19 amsua_n19 0.0 1 1
mhsbufr mhs n19 mhs_n19 0.0 1 1
tcvitl tcp null tcp 0.0 0 0
seviribufr seviri m08 seviri_m08 0.0 1 0
seviribufr seviri m09 seviri_m09 0.0 1 0
seviribufr seviri m10 seviri_m10 0.0 1 0
hirs4bufr hirs4 metop-b hirs4_metop-b 0.0 1 1
amsuabufr amsua metop-b amsua_metop-b 0.0 1 1
mhsbufr mhs metop-b mhs_metop-b 0.0 1 1
iasibufr iasi metop-b iasi_metop-b 0.0 1 1
gomebufr gome metop-b gome_metop-b 0.0 2 0
atmsbufr atms npp atms_npp 0.0 1 0
atmsbufr atms n20 atms_n20 0.0 1 0
crisbufr cris npp cris_npp 0.0 1 0
crisfsbufr cris-fsr npp cris-fsr_npp 0.0 1 0
crisfsbufr cris-fsr n20 cris-fsr_n20 0.0 1 0
gsnd1bufr sndrd1 g14 sndrD1_g14 0.0 1 0
gsnd1bufr sndrd2 g14 sndrD2_g14 0.0 1 0
gsnd1bufr sndrd3 g14 sndrD3_g14 0.0 1 0
gsnd1bufr sndrd4 g14 sndrD4_g14 0.0 1 0
gsnd1bufr sndrd1 g15 sndrD1_g15 0.0 1 0
gsnd1bufr sndrd2 g15 sndrD2_g15 0.0 1 0
gsnd1bufr sndrd3 g15 sndrD3_g15 0.0 1 0
gsnd1bufr sndrd4 g15 sndrD4_g15 0.0 1 0
oscatbufr uv null uv 0.0 0 0
mlsbufr mls30 aura mls30_aura 0.0 0 0
avhambufr avhrr metop-a avhrr3_metop-a 0.0 1 0
avhpmbufr avhrr n18 avhrr3_n18 0.0 1 0
amsr2bufr amsr2 gcom-w1 amsr2_gcom-w1 0.0 3 0
gmibufr gmi gpm gmi_gpm 0.0 3 0
saphirbufr saphir meghat saphir_meghat 0.0 3 0
ahibufr ahi himawari8 ahi_himawari8 0.0 3 0
rapidscatbufr uv null uv 0.0 0 0
::
&SUPEROB_RADAR
$SUPERRAD
/
&LAG_DATA
$LAGDATA
/
&HYBRID_ENSEMBLE
l_hyb_ens=$l_hyb_ens,
generate_ens=.false.,
beta_s0=0.125,readin_beta=.false.,
s_ens_h=800.,s_ens_v=-0.8,readin_localization=.true.,
aniso_a_en=.false.,oz_univ_static=.false.,uv_hyb_ens=.true.,
ensemble_path='./ensemble_data/',
ens_fast_read=.true.,
$HYBRID_ENSEMBLE
/
&RAPIDREFRESH_CLDSURF
dfi_radar_latent_heat_time_period=30.0,
$RAPIDREFRESH_CLDSURF
/
&CHEM
$CHEM
/
&SINGLEOB_TEST
maginnov=0.1,magoberr=0.1,oneob_type='t',
oblat=45.,oblon=180.,obpres=1000.,obdattim=$CDATE,
obhourset=0.,
$SINGLEOB
/
&NST
nst_gsi=$NST_GSI,
$NST
/
EOF
cat gsiparm.anl
##############################################################
# Make atmospheric analysis
$NCP $GSIEXEC $DATA/gsi.x
export OMP_NUM_THREADS=$NTHREADS_GSI
$APRUN_GSI ${DATA}/gsi.x 1>&1 2>&2
export ERR=$?
export err=$ERR
$ERRSCRIPT || exit 2
##############################################################
# Calculate analysis increment here before releasing FV3 forecast
if [ $DO_CALC_INCREMENT = "YES" ]; then
if [ $DOIAU = "YES" -a $l4densvar = ".true." -a $lwrite4danl = ".true." ]; then
ncmd=7
$NLN sigf03 atmges_mem001 ; $NLN siga03 atmanl_mem001 ; $NLN ${COMOUT}/${APREFIX}atmi003.nc atminc_mem001
$NLN sigf04 atmges_mem002 ; $NLN siga04 atmanl_mem002 ; $NLN ${COMOUT}/${APREFIX}atmi004.nc atminc_mem002
$NLN sigf05 atmges_mem003 ; $NLN siga05 atmanl_mem003 ; $NLN ${COMOUT}/${APREFIX}atmi005.nc atminc_mem003
$NLN sigf06 atmges_mem004 ; $NLN siganl atmanl_mem004 ; $NLN ${COMOUT}/${APREFIX}atminc.nc atminc_mem004
$NLN sigf07 atmges_mem005 ; $NLN siga07 atmanl_mem005 ; $NLN ${COMOUT}/${APREFIX}atmi007.nc atminc_mem005
$NLN sigf08 atmges_mem006 ; $NLN siga08 atmanl_mem006 ; $NLN ${COMOUT}/${APREFIX}atmi008.nc atminc_mem006
$NLN sigf09 atmges_mem007 ; $NLN siga09 atmanl_mem007 ; $NLN ${COMOUT}/${APREFIX}atmi009.nc atminc_mem007
else
ncmd=1
$NLN sigf06 atmges_mem001 ; $NLN siganl atmanl_mem001 ; $NLN ${COMOUT}/${APREFIX}atminc.nc atminc_mem001
fi
export OMP_NUM_THREADS=$NTHREADS_CALCINC
$NCP $CALCINCEXEC $DATA
APRUN=$(eval echo $APRUN_CALCINC)
DATAPATH="./"
ATMANLFNAME="atmanl"
ATMGESFNAME="atmges"
ATMINCFNAME="atminc"
DEBUG_CALCINC=".false."
$APRUN $DATA/$(basename $CALCINCEXEC) $DATAPATH $ATMANLFNAME $ATMGESFNAME $ATMINCFNAME $DEBUG_CALCINC $ncmd
rc=$?
export ERR=$rc
export err=$ERR
$ERRSCRIPT || exit 3
fi
# Update surface fields in the FV3 restart's using global_cycle
if [ $DOGCYCLE = "YES" ]; then
mkdir -p $COMOUT/RESTART
# Get dimension information based on CASE
res=$(echo $CASE | cut -c2-)
JCAP_CASE=$((res*2-2))
LATB_CASE=$((res*2))
LONB_CASE=$((res*4))
# Global cycle requires these files
export FNTSFA=${FNTSFA:-$COMIN_OBS/${OPREFIX}rtgssthr.grb}
export FNACNA=${FNACNA:-$COMIN_OBS/${OPREFIX}seaice.5min.blend.grb}
export FNSNOA=${FNSNOA:-$COMIN_OBS/${OPREFIX}snogrb_t${JCAP_CASE}.${LONB_CASE}.${LATB_CASE}}
[[ ! -f $FNSNOA ]] && export FNSNOA="$COMIN_OBS/${OPREFIX}snogrb_t1534.3072.1536"
FNSNOG=${FNSNOG:-$DMPDIR/$GDATE/$GDUMP/${GDUMP}.t${gcyc}z.snogrb_t${JCAP_CASE}.${LONB_CASE}.${LATB_CASE}}
[[ ! -f $FNSNOG ]] && FNSNOG="$DMPDIR/$GDATE/$GDUMP/${GDUMP}.t${gcyc}z.snogrb_t1534.3072.1536"
# Set CYCLVARS by checking grib date of current snogrb vs that of prev cycle
if [ $RUN_GETGES = "YES" ]; then
snoprv=$($GETGESSH -q -t snogrb_$JCAP_CASE -e $gesenvir -n $GDUMP -v $GDATE)
else
snoprv=${snoprv:-$FNSNOG}
fi
if [ $($WGRIB -4yr $FNSNOA 2>/dev/null | grep -i snowc | awk -F: '{print $3}' | awk -F= '{print $2}') -le \
$($WGRIB -4yr $snoprv 2>/dev/null | grep -i snowc | awk -F: '{print $3}' | awk -F= '{print $2}') ] ; then
export FNSNOA=" "
export CYCLVARS="FSNOL=99999.,FSNOS=99999.,"
else
export SNOW_NUDGE_COEFF=${SNOW_NUDGE_COEFF:-0.}
export CYCLVARS="FSNOL=${SNOW_NUDGE_COEFF},$CYCLVARS"
fi
if [ $DONST = "YES" ]; then
export NST_ANL=".true."
export GSI_FILE=${GSI_FILE:-$COMOUT/${APREFIX}dtfanl.nc}
else
export NST_ANL=".false."
export GSI_FILE="NULL"
fi
for n in $(seq 1 $ntiles); do
$NLN $COMIN_GES/RESTART/$PDY.${cyc}0000.sfc_data.tile${n}.nc $DATA/fnbgsi.00$n
$NLN $COMOUT/RESTART/$PDY.${cyc}0000.sfcanl_data.tile${n}.nc $DATA/fnbgso.00$n
$NLN $FIXfv3/$CASE/${CASE}_grid.tile${n}.nc $DATA/fngrid.00$n
$NLN $FIXfv3/$CASE/${CASE}_oro_data.tile${n}.nc $DATA/fnorog.00$n
done
export APRUNCY=$APRUN_CYCLE
export OMP_NUM_THREADS_CY=$NTHREADS_CYCLE
export MAX_TASKS_CY=$ntiles
$CYCLESH
rc=$?
export ERR=$rc
export err=$ERR
$ERRSCRIPT || exit 11
fi
##############################################################
# For eupd
if [ -s satbias_out.int ]; then
$NCP satbias_out.int $ABIASe
else
$NCP satbias_in $ABIASe
fi
##############################################################
# Add this statement to release the forecast job once the GSI
# step is completed. Do not release forecast when RUN=enkf
##############################################################
if [ $SENDECF = "YES" -a "$RUN" != "enkf" ]; then
ecflow_client --event release_fcst
fi
# We should already be in $DATA, but extra cd to be sure.
cd $DATA
# Cat runtime output files.
cat fort.2* > $GSISTAT
# If requested, create obs_input tarball
if [ $RUN_SELECT = "YES" ]; then
echo $(date) START tar obs_input >&2
rm obs_input.tar
$NLN $SELECT_OBS obs_input.tar
tar -cvf obs_input.tar obs_input*
chmod 750 $SELECT_OBS
${CHGRP_CMD} $SELECT_OBS
echo $(date) END tar obs_input >&2
fi
# Set up lists and variables for various types of diagnostic files.
ntype=3
diagtype[0]="conv"
diagtype[1]="pcp_ssmi_dmsp pcp_tmi_trmm"
diagtype[2]="sbuv2_n16 sbuv2_n17 sbuv2_n18 sbuv2_n19 gome_metop-a gome_metop-b omi_aura mls30_aura"
diagtype[3]="hirs2_n14 msu_n14 sndr_g08 sndr_g11 sndr_g12 sndr_g13 sndr_g08_prep sndr_g11_prep sndr_g12_prep sndr_g13_prep sndrd1_g11 sndrd2_g11 sndrd3_g11 sndrd4_g11 sndrd1_g12 sndrd2_g12 sndrd3_g12 sndrd4_g12 sndrd1_g13 sndrd2_g13 sndrd3_g13 sndrd4_g13 sndrd1_g14 sndrd2_g14 sndrd3_g14 sndrd4_g14 sndrd1_g15 sndrd2_g15 sndrd3_g15 sndrd4_g15 hirs3_n15 hirs3_n16 hirs3_n17 amsua_n15 amsua_n16 amsua_n17 amsub_n15 amsub_n16 amsub_n17 hsb_aqua airs_aqua amsua_aqua imgr_g08 imgr_g11 imgr_g12 imgr_g14 imgr_g15 ssmi_f13 ssmi_f15 hirs4_n18 hirs4_metop-a amsua_n18 amsua_metop-a mhs_n18 mhs_metop-a amsre_low_aqua amsre_mid_aqua amsre_hig_aqua ssmis_f16 ssmis_f17 ssmis_f18 ssmis_f19 ssmis_f20 iasi_metop-a hirs4_n19 amsua_n19 mhs_n19 seviri_m08 seviri_m09 seviri_m10 cris_npp cris-fsr_npp cris-fsr_n20 atms_npp atms_n20 hirs4_metop-b amsua_metop-b mhs_metop-b iasi_metop-b avhrr_n18 avhrr_metop-a amsr2_gcom-w1 gmi_gpm saphir_meghat ahi_himawari8"
diaglist[0]=listcnv
diaglist[1]=listpcp
diaglist[2]=listozn
diaglist[3]=listrad
diagfile[0]=$CNVSTAT
diagfile[1]=$PCPSTAT
diagfile[2]=$OZNSTAT
diagfile[3]=$RADSTAT
numfile[0]=0
numfile[1]=0
numfile[2]=0
numfile[3]=0
# Set diagnostic file prefix based on lrun_subdirs variable
if [ $lrun_subdirs = ".true." ]; then
prefix=" dir.*/"
else
prefix="pe*"
fi
if [ $USE_CFP = "YES" ]; then
rm $DATA/diag.sh $DATA/mp_diag.sh
cat > $DATA/diag.sh << EOFdiag
#!/bin/sh
lrun_subdirs=\$1
type=\$2
loop=\$3
string=\$4
CDATE=\$5
DIAG_COMPRESS=\$6
DIAG_SUFFIX=\$7
if [ \$lrun_subdirs = ".true." ]; then
prefix=" dir.*/"
else
prefix="pe*"
fi
file=diag_\${type}_\${string}.\${CDATE}\${DIAG_SUFFIX}
cat \${prefix}\${type}_\${loop}* > \$file
if [ \$DIAG_COMPRESS = "YES" ]; then
$COMPRESS \$file
fi
EOFdiag
chmod 755 $DATA/diag.sh