[GCAFS] Move ROTDIR into JJOB & remove obsolete def variables

dev/jobs/JGCDAS_PREPARE_OBS

@@ -19,6 +19,8 @@ source "${USHglobal}/jjob_shell_setup.sh"
 # Setup Python path for pygfs
 PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 export COMOUT_OBS="${ROTDIR}/${RUN}.${PDY}/${cyc}/obs/chem"
 
 ##############################################

dev/jobs/JGDAS_AERO_ANALYSIS_GENERATE_BMATRIX

@@ -27,6 +27,8 @@ export PYTHONPATH
 ##############################################
 
 # Generate COM variables from templates
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_OBS="${ROTDIR}/${RUN}.${PDY}/${cyc}/obs"
 declare -rx COMOUT_CHEM_BMAT="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/chem/bmatrix"
 declare -rx COMIN_ATMOS_RESTART="${ROTDIR}/${RUN}.${PDY}/${cyc}/model/atmos/restart"

dev/jobs/JGDAS_ATMOS_CHGRES_FORENKF

@@ -26,7 +26,8 @@ export DO_CALC_ANALYSIS=${DO_CALC_ANALYSIS:-"YES"}
 
 export APREFIX="${RUN/enkf/}.t${cyc}z."
 export APREFIX_ENS="${RUN}.t${cyc}z."
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_HISTORY="${ROTDIR}/${RUN/enkf/}.${PDY}/${cyc}/model/atmos/history"
 declare -rx COMOUT_ATMOS_HISTORY="${ROTDIR}/${RUN/enkf/}.${PDY}/${cyc}/model/atmos/history"
 

dev/jobs/JGDAS_ATMOS_GEMPAK

@@ -22,6 +22,8 @@ export DBN_ALERT_TYPE=${DBN_ALERT_TYPE:-GDAS_GEMPAK}
 ##############################################
 # Define COM directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 for grid in 0p25 1p00; do
     declare -rx "COMIN_ATMOS_GRIB_${grid}"="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/${grid}"
 done

dev/jobs/JGDAS_ATMOS_GEMPAK_META_NCDC

@@ -43,6 +43,8 @@ export DBN_ALERT_TYPE=GDAS_METAFILE
 ##############################################
 # Define COM directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_GEMPAK_1p00="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/gempak/1p00"
 
 declare -rx COMOUT_ATMOS_GEMPAK_META="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/gempak/meta"

dev/jobs/JGDAS_ATMOS_VERFOZN

@@ -29,6 +29,8 @@ export gcyc=${GDATE:8:2}
 #---------------------------------------------
 # OZN_TANKDIR - WHERE OUTPUT DATA WILL RESIDE
 #
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export
 declare -rx COMIN_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"
 declare -rx COMOUT_ATMOS_OZNMON="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/oznmon"
 

dev/jobs/JGDAS_ATMOS_VERFRAD

@@ -30,6 +30,8 @@ export gcyc=${GDATE:8:2}
 # COMOUT - WHERE GSI OUTPUT RESIDES
 # TANKverf - WHERE OUTPUT DATA WILL RESIDE
 #############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"
 declare -rx COMOUT_ATMOS_RADMON="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/radmon"
 declare -rx COMIN_ATMOS_RADMON_PREV="${ROTDIR}/${RUN}.${gPDY}/${gcyc}/products/atmos/radmon"

dev/jobs/JGDAS_ENKF_POST

@@ -18,7 +18,8 @@ source "${USHglobal}/set_strict.sh"
 ##############################################
 # Set variables used in the script
 ##############################################
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################

dev/jobs/JGDAS_FIT2OBS

@@ -25,6 +25,8 @@ vday=${CDATE:0:8}
 vcyc=${CDATE:8:2}
 
 # These are used by fit2obs, so we can't change them to the standard COM variable names
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 # shellcheck disable=SC2153
 declare -rx COMIN_ANALYSIS="${ROTDIR}/${RUN}.${vday}/${vcyc}/analysis/atmos"
 declare -rx COMIN_OBS="${ROTDIR}/${RUN/enkf/}.${vday}/${vcyc}/obs"

dev/jobs/JGEFS_WAVE_STAT

@@ -17,7 +17,8 @@ source "${USHglobal}/set_strict.sh"
 source "${USHglobal}/wave_domain_grid.sh"
 
 # Set COM Paths
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 for grid in ${wavepostGRD}; do
     process_grdID "${grid}"
     prod_dir_grid="COMOUT_WAVE_GRID_${grid}"

dev/jobs/JGEFS_WAVE_STAT_PNT

@@ -16,7 +16,8 @@ source "${USHglobal}/jjob_shell_setup.sh"
 source "${USHglobal}/set_strict.sh"
 
 # Set COM Paths
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMOUT_WAVE_STATION_ENS="${ROTDIR}/${RUN}.${PDY}/${cyc}/ensstat/products/wave/station"
 if [[ ! -d "${COMOUT_WAVE_STATION_ENS}" ]]; then
     mkdir -m 775 -p "${COMOUT_WAVE_STATION_ENS}"

dev/jobs/JGFS_ATMOS_AWIPS_20KM_1P0DEG

@@ -22,7 +22,8 @@ export COMPONENT="atmos"
 ##############################################
 # Define COM directories
 ##############################################
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMOUT_ATMOS_WMO="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/wmo"
 declare -rx COMIN_ATMOS_GRIB_0p25="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/0p25"
 

dev/jobs/JGFS_ATMOS_CYCLONE_GENESIS

@@ -23,6 +23,8 @@ export cmodel=${RUN}
 ##############################################
 # Define COM directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMOUT_ATMOS_GENESIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/cyclone/genesis_vital"
 declare -rx COMIN_ATMOS_GRIB_0p25="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/0p25"
 

dev/jobs/JGFS_ATMOS_CYCLONE_TRACKER

@@ -20,6 +20,8 @@ export COMPONENT="atmos"
 ##############################################
 # Define COM and Data directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMOUT_ATMOS_TRACK="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/cyclone/tracks"
 declare -rx COMIN_ATMOS_GENESIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/cyclone/genesis_vital"
 declare -rx COMIN_ATMOS_GRIB_0p25="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/0p25"

dev/jobs/JGFS_ATMOS_FBWIND

@@ -25,7 +25,8 @@ export COMPONENT="atmos"
 ##############################################
 # Define COM directories
 ##############################################
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_GRIB_0p25="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/0p25"
 declare -rx COMOUT="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/wmo"
 if [[ ! -d "${COMOUT}" ]]; then

dev/jobs/JGFS_ATMOS_FSU_GENESIS

@@ -18,6 +18,8 @@ source "${USHglobal}/set_strict.sh"
 ##############################################
 # Define COM and Data directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMOUT_ATMOS_GENESIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/cyclone/genesis_vital"
 declare -rx COMIN_ATMOS_GRIB_0p25="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/0p25"
 

dev/jobs/JGFS_ATMOS_GEMPAK

@@ -28,6 +28,8 @@ export DO_HD_PGRB=${DO_HD_PGRB:-YES}
 ##############################################
 # Define COM directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 for grid in 0p25 0p50 1p00; do
     declare -rx "COMIN_ATMOS_GRIB_${grid}"="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/${grid}"
 done

dev/jobs/JGFS_ATMOS_GEMPAK_META

@@ -52,6 +52,8 @@ export DBN_ALERT_TYPE=GFS_METAFILE
 ##############################################
 # Define COM directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 export COMINukmet=${COMINukmet:-$(compath.py "${envir}/ukmet/${ukmet_ver}")/ukmet}
 export COMINecmwf=${COMINecmwf:-$(compath.py "${envir}/ecmwf/${ecmwf_ver}")/ecmwf}
 export COMINnam=${COMINnam:-$(compath.py "${envir}/nam/${nam_ver}")/nam}

dev/jobs/JGFS_ATMOS_GEMPAK_NCDC_UPAPGIF

@@ -37,6 +37,8 @@ export COMPONENT="atmos"
 ##############################################
 # Define COM directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_OBS="${ROTDIR}/${RUN}.${PDY}/${cyc}/obs"
 declare -rx COMIN_ATMOS_GEMPAK_1p00="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/gempak/1p00"
 

dev/jobs/JGFS_ATMOS_GEMPAK_PGRB2_SPEC

@@ -21,6 +21,8 @@ export EXT=""
 ##############################################
 # Define COM directories
 ##############################################
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 # shellcheck disable=SC2153
 declare -rx COMIN_ATMOS_GOES="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/goes_sim"
 # shellcheck disable=SC2153

dev/jobs/JGFS_ATMOS_PGRB2_SPEC_NPOESS

@@ -25,7 +25,8 @@ export OMP_NUM_THREADS=${OMP_NUM_THREADS:-1}
 ##############################################
 # Define COM directories
 ##############################################
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_MASTER="${ROTDIR}/${RUN}.${PDY}/${cyc}/model/atmos/master"
 declare -rx COMOUT_ATMOS_GOES="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/goes_sim"
 declare -rx COMIN_ATMOS_GRIB_0p50="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/grib2/0p50"

dev/jobs/JGFS_ATMOS_POSTSND

@@ -22,7 +22,8 @@ source "${USHglobal}/set_strict.sh"
 ##############################
 # Define COM Directories
 ##############################
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_HISTORY="${ROTDIR}/${RUN}.${PDY}/${cyc}/model/atmos/history"
 declare -rx COMIN_ATMOS_BUFR="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/bufr"
 declare -rx COMOUT_ATMOS_BUFR="${ROTDIR}/${RUN}.${PDY}/${cyc}/products/atmos/bufr"

dev/jobs/JGFS_ATMOS_VERIFICATION

@@ -32,6 +32,8 @@ export VDATE=${VDATE:0:8}
 export CDATE=${PDY}${cyc}
 
 # Since this is currently a one-element list, shellcheck things we would rather run this as a command
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 # shellcheck disable=SC2041
 for grid in '1p00'; do
     prod_dir="COM_ATMOS_GRIB_${grid}"

dev/jobs/JGLOBAL_AERO_ANALYSIS_FINALIZE

@@ -28,7 +28,9 @@ export PYTHONPATH
 # Begin JOB SPECIFIC work
 ##############################################
 
-# Generate COM variables from templates
+# Generate COM variables
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMOUT_CHEM_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/chem"
 declare -rx COMOUT_CONF="${ROTDIR}/${RUN}.${PDY}/${cyc}/conf"
 declare -rx COMOUT_ATMOS_RESTART="${ROTDIR}/${RUN}.${PDY}/${cyc}/model/atmos/restart"

dev/jobs/JGLOBAL_AERO_ANALYSIS_INITIALIZE

@@ -38,7 +38,9 @@ GDUMP="${GDUMP/gcafs/gcdas}"
 # Begin JOB SPECIFIC work
 ##############################################
 
-# Generate COM variables from templates
+# Generate COM variables
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_OBS="${ROTDIR}/${RUN}.${PDY}/${cyc}/obs"
 declare -rx COMOUT_CHEM_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/chem"
 

dev/jobs/JGLOBAL_AERO_ANALYSIS_VARIATIONAL

@@ -23,7 +23,8 @@ source "${USHglobal}/set_strict.sh"
 # Setup Python path for pygfs
 PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################

dev/jobs/JGLOBAL_ANALYSIS_STATS

@@ -26,8 +26,9 @@ export PYTHONPATH
 # Begin JOB SPECIFIC work
 ##############################################
 
-# Generate COM variables from templates
-
+# Generate COM variables
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_OBS="${ROTDIR}/${RUN}.${PDY}/${cyc}/obs"
 declare -rx COMOUT_CONF="${ROTDIR}/${RUN}.${PDY}/${cyc}/conf"
 declare -rx COMIN_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"

dev/jobs/JGLOBAL_ARCHIVE_TARS

@@ -27,6 +27,8 @@ PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
 
 # Construct COM paths
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 # shellcheck disable=SC2309
 if [[ 10#${ENSMEM:--1} -ge 0 ]]; then
     memdir=$(printf "mem%03d" $((10#${ENSMEM})))

dev/jobs/JGLOBAL_ARCHIVE_VRFY

@@ -23,6 +23,8 @@ PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
 
 # Construct COM paths
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 # shellcheck disable=SC2309
 if [[ 10#${ENSMEM:--1} -ge 0 ]]; then
     memdir=$(printf "mem%03d" $((10#${ENSMEM})))

dev/jobs/JGLOBAL_ATMENS_ANALYSIS_FINALIZE

@@ -29,7 +29,9 @@ GDUMP_ENS="enkf${GDUMP}"
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################
-# Generate COM variable from template
+# Generate COM variables
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMOUT_ATMOS_ANALYSIS_ENS="${ROTDIR}/${GDUMP_ENS}.${PDY}/${cyc}/ensstat/analysis/atmos"
 declare -rx COMOUT_CONF="${ROTDIR}/${GDUMP_ENS}.${PDY}/${cyc}/ensstat/conf"
 

dev/jobs/JGLOBAL_ATMENS_ANALYSIS_FV3_INCREMENT

@@ -23,7 +23,8 @@ source "${USHglobal}/set_strict.sh"
 # Setup Python path for pygfs
 PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################

dev/jobs/JGLOBAL_ATMENS_ANALYSIS_INITIALIZE

@@ -32,9 +32,10 @@ GDUMP="gdas"
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################
-# Generate COM variables from templates
+# Generate COM variables
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_OBS="${ROTDIR}/${GDUMP}.${PDY}/${cyc}/obs"
-
 declare -rx COMIN_ATMOS_ANALYSIS_PREV="${ROTDIR}/${GDUMP}.${gPDY}/${gcyc}/analysis/atmos"
 
 ###############################################################

dev/jobs/JGLOBAL_ATMENS_ANALYSIS_LETKF

@@ -22,7 +22,8 @@ source "${USHglobal}/set_strict.sh"
 # Setup Python path for pygfs
 PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################

dev/jobs/JGLOBAL_ATMENS_ANALYSIS_OBS

@@ -22,7 +22,8 @@ source "${USHglobal}/set_strict.sh"
 # Setup Python path for pygfs
 PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################

dev/jobs/JGLOBAL_ATMENS_ANALYSIS_SOL

@@ -23,7 +23,8 @@ source "${USHglobal}/set_strict.sh"
 # Setup Python path for pygfs
 PYTHONPATH="${HOMEglobal}/ush/python${PYTHONPATH:+:${PYTHONPATH}}"
 export PYTHONPATH
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 ##############################################
 # Begin JOB SPECIFIC work
 ##############################################

dev/jobs/JGLOBAL_ATMOS_ANALYSIS

@@ -37,7 +37,9 @@ export GPREFIX="${GDUMP}.t${gcyc}z."
 export APREFIX="${rCDUMP}.t${cyc}z."
 export GPREFIX_ENS="${GDUMP_ENS}.t${gcyc}z."
 
-# Generate COM variables from templates
+# Generate COM variables
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_OBS="${ROTDIR}/${RUN}.${PDY}/${cyc}/obs"
 declare -rx COMOUT_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"
 

dev/jobs/JGLOBAL_ATMOS_ANALYSIS_CALC

@@ -39,7 +39,8 @@ export OPREFIX="${rCDUMP}.t${cyc}z."
 export GPREFIX="${GDUMP}.t${gcyc}z."
 export APREFIX="${RUN}.t${cyc}z."
 export GPREFIX_ENS="${GDUMP_ENS}.t${gcyc}z."
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_OBS="${ROTDIR}/${rCDUMP}.${PDY}/${cyc}/obs"
 
 declare -rx COMOUT_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"

dev/jobs/JGLOBAL_ATMOS_ANALYSIS_CALC_FV3JEDI

@@ -32,7 +32,9 @@ export rCDUMP="${RUN/enkf/}"
 # Begin JOB SPECIFIC work
 ##############################################
 
-# Generate COM variables from templates
+# Generate COM variables
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"
 declare -rx COMOUT_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"
 declare -rx COMIN_ATMOS_HISTORY_PREV="${ROTDIR}/${GDUMP}.${gPDY}/${gcyc}/model/atmos/history"

dev/jobs/JGLOBAL_ATMOS_ANALYSIS_DIAG

@@ -33,7 +33,8 @@ source "${USHglobal}/set_strict.sh"
 #export OPREFIX="${RUN/enkf/}.t${cyc}z."
 #export GPREFIX="${GDUMP}.t${gcyc}z."
 #export APREFIX="${RUN}.t${cyc}z."
-
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 declare -rx COMIN_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"
 declare -rx COMOUT_ATMOS_ANALYSIS="${ROTDIR}/${RUN}.${PDY}/${cyc}/analysis/atmos"
 mkdir -m 775 -p "${COMOUT_ATMOS_ANALYSIS}"

dev/jobs/JGLOBAL_ATMOS_CHGRES_GEN_CONTROL

@@ -22,6 +22,8 @@ BDATE=$(date --utc +%Y%m%d%H -d "${PDY} ${cyc} - $((assim_freq / 2)) hours")
 export BDATE
 
 # Define COM directories
+ROTDIR=$(compath.py "${envir}/${NET}/${gcafs_ver}")
+export ROTDIR
 # TODO: uncomment when testing for realtime
 #COMINgfs=$(compath.py "${envir}/gfs/${gfs_ver}")
 declare -rx COMOUT_ATMOS_INPUT_MEM="${ROTDIR}/${RUN}.${PDY}/${cyc}/mem000/model/atmos/input"