Additional top folder variable replacements

Includes changing HOMEgfs/ush to USHgfs for preamble command Refs NOAA-EMC#2332
KateFriedman-NOAA · Mar 6, 2024 · a2376ef · a2376ef
1 parent 4f142a7
commit a2376ef
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Showing 41 changed files with 58 additions and 69 deletions.
diff --git a/ush/forecast_postdet.sh b/ush/forecast_postdet.sh
@@ -190,7 +190,7 @@ EOF
   fi
 
   # NoahMP table
-  local noahmptablefile="${HOMEgfs}/parm/ufs/noahmptable.tbl"
+  local noahmptablefile="${PARMgfs}/ufs/noahmptable.tbl"
   if [[ ! -f ${noahmptablefile} ]]; then
     echo "FATAL ERROR: missing noahmp table file ${noahmptablefile}"
     exit 1
@@ -488,7 +488,7 @@ 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"
+  source "${USHgfs}/parsing_namelists_FV3.sh"
   FV3_namelists
   echo "SUB ${FUNCNAME[0]}: FV3 name lists and model configure file created"
 }
@@ -652,7 +652,7 @@ WW3_nml() {
       exit 4
     fi
   fi
-  source "${HOMEgfs}/ush/parsing_namelists_WW3.sh"
+  source "${USHgfs}/parsing_namelists_WW3.sh"
   WW3_namelists
 }
 
@@ -803,7 +803,7 @@ MOM6_postdet() {
 
 MOM6_nml() {
   echo "SUB ${FUNCNAME[0]}: Creating name list for MOM6"
-  source "${HOMEgfs}/ush/parsing_namelists_MOM6.sh"
+  source "${USHgfs}/parsing_namelists_MOM6.sh"
   MOM6_namelists
 }
 
@@ -884,7 +884,7 @@ CICE_postdet() {
 
 CICE_nml() {
   echo "SUB ${FUNCNAME[0]}: Creating name list for CICE"
-  source "${HOMEgfs}/ush/parsing_namelists_CICE.sh"
+  source "${USHgfs}/parsing_namelists_CICE.sh"
   CICE_namelists
 }
 

diff --git a/ush/fv3gfs_remap.sh b/ush/fv3gfs_remap.sh
@@ -5,7 +5,7 @@
 #-- Fanglin Yang, October 2016
 #--------------------------------------
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 export CDATE=${CDATE:-"2016100300"}
 export CASE=${CASE:-"C192"}           # C48 C96 C192 C384 C768 C1152 C3072

diff --git a/ush/gaussian_sfcanl.sh b/ush/gaussian_sfcanl.sh
@@ -23,13 +23,7 @@
 #     OUTPUT_FILE   Output gaussian analysis file format.  Default is "nemsio"
 #                   Set to "netcdf" for netcdf output file
 #                   Otherwise, output in nemsio.
-#     BASEDIR       Root directory where all scripts and fixed files reside.
-#                   Default is /nwprod2.
-#     HOMEgfs       Directory for gfs version.  Default is
-#                   $BASEDIR/gfs_ver.v15.0.0}
 #     FIXWGTS       Weight file to use for interpolation
-#     EXECgfs       Directory of the program executable.  Defaults to
-#                   $HOMEgfs/exec
 #     DATA          Working directory
 #                   (if nonexistent will be made, used and deleted)
 #                   Defaults to current working directory
@@ -106,7 +100,7 @@
 #
 ################################################################################
 
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 CASE=${CASE:-C768}
 res=$(echo $CASE | cut -c2-)
@@ -117,11 +111,6 @@ LATB_SFC=${LATB_SFC:-$LATB_CASE}
 DONST=${DONST:-"NO"}
 LEVS=${LEVS:-64}
 LEVSP1=$(($LEVS+1))
-#  Directories.
-gfs_ver=${gfs_ver:-v16.3.0}
-BASEDIR=${BASEDIR:-${PACKAGEROOT:-/lfs/h1/ops/prod/packages}}
-HOMEgfs=${HOMEgfs:-$BASEDIR/gfs.${gfs_ver}}
-EXECgfs=${EXECgfs:-$HOMEgfs/exec}
 FIXWGTS=${FIXWGTS:-${FIXgfs}/orog/${CASE}/fv3_SCRIP_${CASE}_GRIDSPEC_lon${LONB_SFC}_lat${LATB_SFC}.gaussian.neareststod.nc}
 DATA=${DATA:-$(pwd)}
 

diff --git a/ush/getdump.sh b/ush/getdump.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 COMPONENT=${COMPONENT:-atmos}
 

diff --git a/ush/getges.sh b/ush/getges.sh
@@ -76,7 +76,7 @@
 ################################################################################
 #-------------------------------------------------------------------------------
 
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 # Set some default parameters.
 fhbeg=03                         # hour to begin searching backward for guess

diff --git a/ush/gfs_bfr2gpk.sh b/ush/gfs_bfr2gpk.sh
@@ -10,7 +10,7 @@
 # Log:									#
 # K. Brill/HPC		04/12/05					#
 #########################################################################  
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 # Set GEMPAK paths.
 

diff --git a/ush/gfs_bufr.sh b/ush/gfs_bufr.sh
@@ -19,7 +19,7 @@
 # 2019-10-10  Guang Ping Lou: Read in NetCDF files
 # echo "History: February 2003 - First implementation of this utility script"
 #
-source "${HOMEgfs:?}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 if [[ "${F00FLAG}" == "YES" ]]; then
    f00flag=".true."

diff --git a/ush/gfs_bufr_netcdf.sh b/ush/gfs_bufr_netcdf.sh
@@ -19,7 +19,7 @@
 # 2019-10-10  Guang Ping Lou: Read in NetCDF files
 # echo "History: February 2003 - First implementation of this utility script"
 #
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 if test "$F00FLAG" = "YES"
 then

diff --git a/ush/gfs_sndp.sh b/ush/gfs_sndp.sh
@@ -7,7 +7,7 @@
 #   1) 2004-09-10       Steve Gilbert       First Implementation
 ################################################################
 
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
   #  Create "collectives" consisting of groupings of the soundings
   #  into files designated by geographical region.   Each input
@@ -16,7 +16,7 @@ source "$HOMEgfs/ush/preamble.sh"
 export m=$1
 mkdir $DATA/$m
 cd $DATA/$m
-  cp ${HOMEgfs}/fix/product/gfs_collective${m}.list $DATA/$m/.
+  cp ${FIXgfs}/product/gfs_collective${m}.list $DATA/$m/.
   CCCC=KWBC
     file_list=gfs_collective${m}.list
 

diff --git a/ush/gfs_truncate_enkf.sh b/ush/gfs_truncate_enkf.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 member=$1
 export SIGINP=$2

diff --git a/ush/global_savefits.sh b/ush/global_savefits.sh
@@ -3,7 +3,7 @@
 ########################################################
 #  save fit and horiz files for all analysis cycles
 ########################################################
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 export FIT_DIR=${FIT_DIR:-$COMOUT/fits}
 export HORZ_DIR=${HORZ_DIR:-$COMOUT/horiz}

diff --git a/ush/hpssarch_gen.sh b/ush/hpssarch_gen.sh
@@ -4,7 +4,7 @@
 # Fanglin Yang, 20180318
 # --create bunches of files to be archived to HPSS
 ###################################################
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 type=${1:-gfs}                ##gfs, gdas, enkfgdas or enkfggfs
 

diff --git a/ush/interp_atmos_master.sh b/ush/interp_atmos_master.sh
@@ -4,7 +4,7 @@
 # Generate 0.25 / 0.5 / 1 degree interpolated grib2 files for each input grib2 file
 # trim's RH and tweaks sea-ice cover
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 input_file=${1:-"pgb2file_in"}  # Input pressure grib2 file
 output_file_prefix=${2:-"pgb2file_out"}  # Prefix for output grib2 file; the prefix is appended by resolution e.g. _0p25
@@ -29,7 +29,7 @@ grid0p50="latlon 0:720:0.5 90:361:-0.5"
 grid1p00="latlon 0:360:1.0 90:181:-1.0"
 
 # "Import" functions used in this script
-source "${HOMEgfs}/ush/product_functions.sh"
+source "${USHgfs}/product_functions.sh"
 
 # Transform the input ${grid_string} into an array for processing
 IFS=':' read -ra grids <<< "${grid_string}"

diff --git a/ush/interp_atmos_sflux.sh b/ush/interp_atmos_sflux.sh
@@ -3,7 +3,7 @@
 # This script takes in a master flux file and creates interpolated flux files at various interpolated resolutions
 # Generate 0.25 / 0.5 / 1 degree interpolated grib2 flux files for each input sflux grib2 file
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 input_file=${1:-"sfluxfile_in"}  # Input sflux grib2 file
 output_file_prefix=${2:-"sfluxfile_out"}  # Prefix for output sflux grib2 file; the prefix is appended by resolution e.g. _0p25
@@ -46,4 +46,4 @@ ${WGRIB2} "${input_file}" ${defaults} \
                           ${output_grids}
 export err=$?; err_chk
 
-exit 0
+exit 0
diff --git a/ush/link_crtm_fix.sh b/ush/link_crtm_fix.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 # Get CRTM fix directory from (in this order):
 # 1. First argument to script, or

diff --git a/ush/oceanice_nc2grib2.sh b/ush/oceanice_nc2grib2.sh
@@ -3,7 +3,7 @@
 # This script contains functions to convert ocean/ice rectilinear netCDF files to grib2 format
 # This script uses the wgrib2 utility to convert the netCDF files to grib2 format and then indexes it
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 ################################################################################
 function _ice_nc2grib2 {

diff --git a/ush/ozn_xtrct.sh b/ush/ozn_xtrct.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 #------------------------------------------------------------------
 #  ozn_xtrct.sh
@@ -132,12 +132,12 @@ else
    #--------------------------------------------------------------------
    #   Copy extraction programs to working directory
    #
-   ${NCP} "${HOMEgfs}/exec/oznmon_time.x" ./oznmon_time.x
+   ${NCP} "${EXECgfs}/oznmon_time.x" ./oznmon_time.x
    if [[ ! -e oznmon_time.x ]]; then
       iret=2
       exit ${iret}
    fi
-   ${NCP} "${HOMEgfs}/exec/oznmon_horiz.x" ./oznmon_horiz.x
+   ${NCP} "${EXECgfs}/oznmon_horiz.x" ./oznmon_horiz.x
    if [[ ! -e oznmon_horiz.x ]]; then
       iret=3
       exit ${iret}

diff --git a/ush/parsing_model_configure_FV3.sh b/ush/parsing_model_configure_FV3.sh
@@ -44,12 +44,12 @@ local OUTPUT_FH=${FV3_OUTPUT_FH}
 local IAU_OFFSET=${IAU_OFFSET:-0}
 
 # Ensure the template exists
-template="${HOMEgfs}/parm/ufs/model_configure.IN"
+template="${PARMgfs}/ufs/model_configure.IN"
 if [[ ! -f ${template} ]]; then
   echo "FATAL ERROR: template '${template}' does not exist, ABORT!"
   exit 1
 fi
-source "${HOMEgfs}/ush/atparse.bash"
+source "${USHgfs}/atparse.bash"
 rm -f "${DATA}/model_configure"
 atparse < "${template}" >> "${DATA}/model_configure"
 echo "Rendered model_configure"

diff --git a/ush/parsing_namelists_CICE.sh b/ush/parsing_namelists_CICE.sh
@@ -104,12 +104,12 @@ local CICE_BLCKY=${block_size_y}
 local CICE_DECOMP=${processor_shape}
 
 # Ensure the template exists
-local template=${CICE_TEMPLATE:-"${HOMEgfs}/parm/ufs/ice_in.IN"}
+local template=${CICE_TEMPLATE:-"${PARMgfs}/ufs/ice_in.IN"}
 if [[ ! -f "${template}" ]]; then
   echo "FATAL ERROR: template '${template}' does not exist, ABORT!"
   exit 1
 fi
-source "${HOMEgfs}/ush/atparse.bash"
+source "${USHgfs}/atparse.bash"
 rm -f "${DATA}/ice_in"
 atparse < "${template}" >> "${DATA}/ice_in"
 echo "Rendered ice_in:"

diff --git a/ush/parsing_namelists_FV3.sh b/ush/parsing_namelists_FV3.sh
@@ -14,10 +14,10 @@
 FV3_namelists(){
 
 # setup the tables
-DIAG_TABLE=${DIAG_TABLE:-${HOMEgfs}/parm/ufs/fv3/diag_table}
-DIAG_TABLE_APPEND=${DIAG_TABLE_APPEND:-${HOMEgfs}/parm/ufs/fv3/diag_table_aod}
-DATA_TABLE=${DATA_TABLE:-${HOMEgfs}/parm/ufs/MOM6_data_table.IN}
-FIELD_TABLE=${FIELD_TABLE:-${HOMEgfs}/parm/ufs/fv3/field_table}
+DIAG_TABLE=${DIAG_TABLE:-${PARMgfs}/ufs/fv3/diag_table}
+DIAG_TABLE_APPEND=${DIAG_TABLE_APPEND:-${PARMgfs}/ufs/fv3/diag_table_aod}
+DATA_TABLE=${DATA_TABLE:-${PARMgfs}/ufs/MOM6_data_table.IN}
+FIELD_TABLE=${FIELD_TABLE:-${PARMgfs}/ufs/fv3/field_table}
 
 # ensure non-prognostic tracers are set
 dnats=${dnats:-0}
@@ -42,7 +42,7 @@ local SYEAR=${current_cycle:0:4}
 local SMONTH=${current_cycle:4:2}
 local SDAY=${current_cycle:6:2} 
 local CHOUR=${current_cycle:8:2}
-source "${HOMEgfs}/ush/atparse.bash"
+source "${USHgfs}/atparse.bash"
 atparse < "${template}" >> "diag_table"
 
 

diff --git a/ush/parsing_namelists_MOM6.sh b/ush/parsing_namelists_MOM6.sh
@@ -55,7 +55,7 @@ echo "Rendered input.nml:"
 cat input.nml
 
 # Source functions from this file for filling in templates
-source "${HOMEgfs}/ush/atparse.bash"
+source "${USHgfs}/atparse.bash"
 
 # ================================================================
 # MOM_input
@@ -107,7 +107,7 @@ else
   local PERT_EPBL="False"
 fi
 # Ensure the template exists
-local template=${MOM6_INPUT_TEMPLATE:-"${HOMEgfs}/parm/ufs/MOM_input_${OCNRES}.IN"}
+local template=${MOM6_INPUT_TEMPLATE:-"${PARMgfs}/ufs/MOM_input_${OCNRES}.IN"}
 if [[ ! -f "${template}" ]]; then
   echo "FATAL ERROR: template '${template}' does not exist, ABORT!"
   exit 1
@@ -124,7 +124,7 @@ cat "${DATA}/INPUT/MOM_input"
 local MOM6_FRUNOFF=${FRUNOFF}
 
 # Ensure the template exists
-local template=${MOM6_DATA_TABLE_TEMPLATE:-"${HOMEgfs}/parm/ufs/MOM6_data_table.IN"}
+local template=${MOM6_DATA_TABLE_TEMPLATE:-"${PARMgfs}/ufs/MOM6_data_table.IN"}
 if [[ ! -f "${template}" ]]; then
   echo "FATAL ERROR: template '${template}' does not exist, ABORT!"
   exit 1

diff --git a/ush/parsing_ufs_configure.sh b/ush/parsing_ufs_configure.sh
@@ -93,7 +93,7 @@ else
   echo "INFO: using ufs.configure template: '${ufs_configure_template}'"
 fi
 
-source "${HOMEgfs}/ush/atparse.bash"
+source "${USHgfs}/atparse.bash"
 rm -f "${DATA}/ufs.configure"
 atparse < "${ufs_configure_template}" >> "${DATA}/ufs.configure"
 echo "Rendered ufs.configure:"

diff --git a/ush/radmon_err_rpt.sh b/ush/radmon_err_rpt.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 ################################################################################
 ####  UNIX Script Documentation Block

diff --git a/ush/radmon_verf_angle.sh b/ush/radmon_verf_angle.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 ################################################################################
 ####  UNIX Script Documentation Block

diff --git a/ush/radmon_verf_bcoef.sh b/ush/radmon_verf_bcoef.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 ################################################################################
 ####  UNIX Script Documentation Block

diff --git a/ush/radmon_verf_bcor.sh b/ush/radmon_verf_bcor.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 ################################################################################
 ####  UNIX Script Documentation Block

diff --git a/ush/radmon_verf_time.sh b/ush/radmon_verf_time.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 ################################################################################
 ####  UNIX Script Documentation Block

diff --git a/ush/rstprod.sh b/ush/rstprod.sh
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 
-source "$HOMEgfs/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 #---------------------------------------------------------
 #  rstprod.sh

diff --git a/ush/run_mpmd.sh b/ush/run_mpmd.sh
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash
 
-source "${HOMEgfs}/ush/preamble.sh"
+source "${USHgfs}/preamble.sh"
 
 cmdfile=${1:?"run_mpmd requires an input file containing commands to execute in MPMD mode"}