[Dart-dev] [6482] DART/trunk/models/POP/shell_scripts/CESM1_1_setup_hybrid.csh:
nancy at ucar.edu
nancy at ucar.edu
Wed Sep 18 15:27:01 MDT 2013
Revision: 6482
Author: thoar
Date: 2013-09-18 15:27:01 -0600 (Wed, 18 Sep 2013)
Log Message:
-----------
Renamed CESM1_1_setup_hybrid.csh to CESM1_1_1_setup_hybrid to reflect the
newest supported version of CESM and dropped the extension on purpose.
Removed Paths:
-------------
DART/trunk/models/POP/shell_scripts/CESM1_1_setup_hybrid.csh
-------------- next part --------------
Deleted: DART/trunk/models/POP/shell_scripts/CESM1_1_setup_hybrid.csh
===================================================================
--- DART/trunk/models/POP/shell_scripts/CESM1_1_setup_hybrid.csh 2013-09-18 21:25:42 UTC (rev 6481)
+++ DART/trunk/models/POP/shell_scripts/CESM1_1_setup_hybrid.csh 2013-09-18 21:27:01 UTC (rev 6482)
@@ -1,721 +0,0 @@
-#!/bin/csh -f
-#
-# DART software - Copyright 2004 - 2013 UCAR. This open source software is
-# provided by UCAR, "as is", without charge, subject to all terms of use at
-# http://www.image.ucar.edu/DAReS/DART/DART_download
-#
-# DART $Id$
-
-# ---------------------
-# Purpose
-# ---------------------
-#
-# This script is designed to configure and build a multi-instance CESM model
-# that has POP as the only active component
-# and will use DART to assimilate observations at regular intervals.
-#
-# This script relies heavily on the information in:
-# http://www.cesm.ucar.edu/models/cesm1.1/cesm/doc/usersguide/book1.html
-#
-# ---------------------
-# How to use this script.
-# ---------------------
-#
-# -- You will have to read and understand the script in its entirety.
-# You will have to modify things outside this script.
-# This script sets up a CESM multi-instance run as we understand them and
-# it has almost nothing to do with DART. This is intentional.
-#
-# -- Edit and run this script in the $DART/models/CESM/shell_scripts directory
-# or copy it to somewhere that it will be preserved and run it there.
-# It will create a CESM 'CASE' directory, where the model will be built,
-# and an execution directory, where each forecast (and assimilation) will
-# take place. The short term archiver will use a third directory for
-# storage of model output until it can be moved to long term storage (HPSS)
-#
-# -- Examine the whole script to identify things to change for your experiments.
-#
-# -- Provide the CESM initial ensemble needed by your run.
-#
-# -- Run this script.
-#
-# -- If you want to run DART; read, understand, and execute ${CASEROOT}/CESM_DART_config
-#
-# -- Submit the job using ${CASEROOT}/${CASE}.submit
-#
-# ---------------------
-# Important features
-# ---------------------
-#
-# If you want to change something in your case other than the runtime
-# settings, it is safest to delete everything and start the run from scratch.
-# For the brave, read
-#
-# http://www.cesm.ucar.edu/models/cesm1.1/cesm/doc/usersguide/x1142.html
-#
-# and you may be able to salvage something with
-# ./cesm_setup -clean
-# ./cesm_setup
-# ./${case}.clean_build
-# ./${case}.build
-#
-# ==============================================================================
-# ==== Set case options
-# ==============================================================================
-
-# the value of "case" will be used many ways;
-# directory and file names, both locally and on HPSS, and
-# script names; so consider it's length and information content.
-# num_instances: Number of ensemble members
-
-setenv case pop_test2
-setenv compset GIAF
-setenv resolution T62_gx1v6
-setenv cesmtag cesm1_1_1
-setenv num_instances 4
-
-# ==============================================================================
-# define machines and directories
-#
-# mach Computer name
-# cesmroot Location of the cesm code base
-# For cesm1_1_1 on yellowstone
-# caseroot Your (future) cesm case directory, where this CESM+DART will be built.
-# Preferably not a frequently scrubbed location.
-# This script will delete any existing caseroot, so this script,
-# and other useful things should be kept elsewhere.
-# rundir (Future) Run-time directory; scrubbable, large amount of space needed.
-# exeroot (Future) directory for executables - scrubbable, large amount of space needed.
-# archdir (Future) Short-term archive directory
-# until the long-term archiver moves it to permanent storage.
-# dartroot Location of _your_ DART installation
-# This is passed on to the CESM_DART_config script.
-# ==============================================================================
-
-setenv mach yellowstone
-setenv cesmroot /glade/p/cesm/cseg/collections/$cesmtag
-setenv caseroot /glade/p/work/${USER}/cases/${case}
-setenv exeroot /glade/scratch/${USER}/${case}/bld
-setenv rundir /glade/scratch/${USER}/${case}/run
-setenv archdir /glade/scratch/${USER}/archive/${case}
-setenv dartroot /glade/u/home/${USER}/svn/DART/trunk
-
-# ==============================================================================
-# configure settings
-# The reference case has dates in it.
-# For a 'hybrid' start, these may be unrelated to the refyear, refmon, refday.
-# ==============================================================================
-
-setenv run_refcase cesm_hybrid
-setenv refyear 2004
-setenv refmon 01
-setenv refday 10
-setenv run_reftod 00000
-setenv run_refdate $refyear-$refmon-$refday
-
-setenv stream_year_first 2004
-setenv stream_year_last 2004
-setenv stream_year_align 2004
-
-# THIS IS THE LOCATION of the 'reference case'.
-
-setenv stagedir /glade/p/image/CESM_initial_ensemble/rest/2004-01-10-00000
-
-# ==============================================================================
-# runtime settings
-#
-# resubmit How many job steps to run on continue runs (will be 0 initially)
-# stop_option Units for determining the forecast length between assimilations
-# stop_n Number of time units in the first forecast
-# assim_n Number of time units between assimilations
-#
-# If the long-term archiver is off, you get a chance to examine the files before
-# they get moved to long-term storage. You can always submit $CASE.l_archive
-# whenever you want to free up space in the short-term archive directory.
-#
-# ==============================================================================
-
-setenv short_term_archiver on
-setenv long_term_archiver off
-setenv resubmit 0
-setenv stop_option ndays
-setenv stop_n 3
-setenv assim_n 1
-
-# ==============================================================================
-# job settings
-#
-# queue can be changed during a series by changing the ${case}.run
-# timewall can be changed during a series by changing the ${case}.run
-#
-# TJH: Advancing 30 instances for 72 hours with 900 pes (30*15*2) with
-# an assimilation step took less than 7 minutes on yellowstone.
-#
-# ==============================================================================
-
-setenv ACCOUNT P8685xxxx
-setenv queue economy
-setenv timewall 0:20
-
-# ==============================================================================
-# set these standard commands based on the machine you are running on.
-# ==============================================================================
-
-set nonomatch # suppress "rm" warnings if wildcard does not match anything
-
-# The FORCE options are not optional.
-# The VERBOSE options are useful for debugging though
-# some systems don't like the -v option to any of the following
-switch ("`hostname`")
- case be*:
- # NCAR "bluefire"
- set MOVE = '/usr/local/bin/mv -fv'
- set COPY = '/usr/local/bin/cp -fv --preserve=timestamps'
- set LINK = '/usr/local/bin/ln -fvs'
- set REMOVE = '/usr/local/bin/rm -fr'
-
- breaksw
- default:
- # NERSC "hopper", NWSC "yellowstone"
- set MOVE = '/bin/mv -fv'
- set COPY = '/bin/cp -fv --preserve=timestamps'
- set LINK = '/bin/ln -fvs'
- set REMOVE = '/bin/rm -fr'
-
- breaksw
-endsw
-
-# ==============================================================================
-# Make sure the CESM directories exist.
-# VAR is the shell variable name, DIR is the value
-# ==============================================================================
-
-foreach VAR ( cesmroot dartroot stagedir )
- set DIR = `eval echo \${$VAR}`
- if ( ! -d $DIR ) then
- echo "ERROR: directory '$DIR' not found"
- echo " In the setup script check the setting of: $VAR "
- exit -1
- endif
-end
-
-# ==============================================================================
-# Create the case - this creates the CASEROOT directory.
-#
-# For list of the pre-defined cases: ./create_newcase -list
-# To create a variant case, see the CESM documentation and carefully
-# incorporate any needed changes into this script.
-# ==============================================================================
-
-# fatal idea to make caseroot the same dir as where this setup script is
-# since the build process removes all files in the caseroot dir before
-# populating it. try to prevent shooting yourself in the foot.
-
-if ( $caseroot == `dirname $0` ) then
- echo "ERROR: the setup script should not be located in the caseroot"
- echo "directory, because all files in the caseroot dir will be removed"
- echo "before creating the new case. move the script to a safer place."
- exit -1
-endif
-
-echo "removing old files from ${caseroot}"
-echo "removing old files from ${exeroot}"
-echo "removing old files from ${rundir}"
-${REMOVE} ${caseroot}
-${REMOVE} ${exeroot}
-${REMOVE} ${rundir}
-
-${cesmroot}/scripts/create_newcase -case ${caseroot} -mach ${mach} \
- -res ${resolution} -compset ${compset}
-
-if ( $status != 0 ) then
- echo "ERROR: Case could not be created."
- exit -1
-endif
-
-# ==============================================================================
-# Record the DARTROOT directory and copy the DART setup script to CASEROOT.
-# CESM_DART_config can be run at some later date if desired, but it presumes
-# to be run from a CASEROOT directory. If CESM_DART_config does not exist locally,
-# then it better exist in the expected part of the DARTROOT tree.
-# ==============================================================================
-
-if ( ! -e CESM_DART_config ) then
- ${COPY} ${dartroot}/models/POP/shell_scripts/CESM_DART_config .
-endif
-
-if ( -e CESM_DART_config ) then
- sed -e "s#BOGUS_DART_ROOT_STRING#$dartroot#" < CESM_DART_config >! temp.$$
- ${MOVE} temp.$$ ${caseroot}/CESM_DART_config
- chmod 755 ${caseroot}/CESM_DART_config
-else
- echo "WARNING: the script to configure for data assimilation is not available."
- echo " CESM_DART_config should be present locally or in"
- echo " ${dartroot}/models/POP/shell_scripts/"
- echo " You can stage this script later, but you must manually edit it"
- echo " to reflect the location of the DART code tree."
-endif
-
-# ==============================================================================
-# Configure the case.
-# ==============================================================================
-
-cd ${caseroot}
-
-source ./Tools/ccsm_getenv || exit -2
-
-@ ptile = $MAX_TASKS_PER_NODE / 2
-@ nthreads = 1
-
-# Save a copy for debug purposes
-foreach FILE ( *xml )
- if ( ! -e ${FILE}.original ) then
- ${COPY} $FILE ${FILE}.original
- endif
-end
-
-if ($num_instances < 10) then
-
- # This is only for the purpose of debugging the code.
- @ atm_tasks = $ptile * $num_instances
- @ lnd_tasks = $ptile * $num_instances
- @ ice_tasks = $ptile * $num_instances
- @ ocn_tasks = $ptile * $num_instances * 4
- @ cpl_tasks = $ptile * $num_instances
- @ glc_tasks = $ptile * $num_instances
- @ rof_tasks = $ptile * $num_instances
-
-else
-
- # This works, but a more efficient layout should be used
- @ atm_tasks = $ptile * $num_instances
- @ lnd_tasks = $ptile * $num_instances
- @ ice_tasks = $ptile * $num_instances
- @ ocn_tasks = $ptile * $num_instances * 2
- @ cpl_tasks = $ptile * $num_instances
- @ glc_tasks = $ptile * $num_instances
- @ rof_tasks = $ptile * $num_instances
-
-endif
-
-# echo "task partitioning ... perhaps ... atm // ocn // lnd+ice+glc+rof"
-# presently, all components run 'serially' - one after another.
-echo ""
-echo "ATM gets $atm_tasks"
-echo "LND gets $lnd_tasks"
-echo "ICE gets $ice_tasks"
-echo "OCN gets $ocn_tasks"
-echo "CPL gets $cpl_tasks"
-echo "GLC gets $glc_tasks"
-echo "ROF gets $rof_tasks"
-echo ""
-
-./xmlchange NTHRDS_ATM=$nthreads,NTASKS_ATM=$atm_tasks,NINST_ATM=$num_instances
-./xmlchange NTHRDS_LND=$nthreads,NTASKS_LND=$lnd_tasks,NINST_LND=1
-./xmlchange NTHRDS_ICE=$nthreads,NTASKS_ICE=$ice_tasks,NINST_ICE=$num_instances
-./xmlchange NTHRDS_OCN=$nthreads,NTASKS_OCN=$ocn_tasks,NINST_OCN=$num_instances
-./xmlchange NTHRDS_CPL=$nthreads,NTASKS_CPL=$cpl_tasks
-./xmlchange NTHRDS_GLC=$nthreads,NTASKS_GLC=$glc_tasks,NINST_GLC=1
-./xmlchange NTHRDS_ROF=$nthreads,NTASKS_ROF=$rof_tasks,NINST_ROF=1
-./xmlchange ROOTPE_ATM=0
-./xmlchange ROOTPE_LND=0
-./xmlchange ROOTPE_ICE=0
-./xmlchange ROOTPE_OCN=0
-./xmlchange ROOTPE_CPL=0
-./xmlchange ROOTPE_GLC=0
-./xmlchange ROOTPE_ROF=0
-
-# http://www.cesm.ucar.edu/models/cesm1.1/cesm/doc/usersguide/c1158.html#run_start_stop
-# "A hybrid run indicates that CESM is initialized more like a startup, but uses
-# initialization datasets from a previous case. This is somewhat analogous to a
-# branch run with relaxed restart constraints. A hybrid run allows users to bring
-# together combinations of initial/restart files from a previous case (specified
-# by $RUN_REFCASE) at a given model output date (specified by $RUN_REFDATE).
-# Unlike a branch run, the starting date of a hybrid run (specified by $RUN_STARTDATE)
-# can be modified relative to the reference case. In a hybrid run, the model does not
-# continue in a bit-for-bit fashion with respect to the reference case. The resulting
-# climate, however, should be continuous provided that no model source code or
-# namelists are changed in the hybrid run. In a hybrid initialization, the ocean
-# model does not start until the second ocean coupling (normally the second day),
-# and the coupler does a "cold start" without a restart file.
-
-./xmlchange RUN_TYPE=hybrid
-./xmlchange RUN_STARTDATE=$run_refdate
-./xmlchange START_TOD=$run_reftod
-./xmlchange RUN_REFCASE=$run_refcase
-./xmlchange RUN_REFDATE=$run_refdate
-./xmlchange RUN_REFTOD=$run_reftod
-./xmlchange BRNCH_RETAIN_CASENAME=FALSE
-./xmlchange GET_REFCASE=FALSE
-./xmlchange EXEROOT=${exeroot}
-
-./xmlchange DATM_MODE=CPLHIST3HrWx
-./xmlchange DATM_CPLHIST_CASE=$case
-./xmlchange DATM_CPLHIST_YR_ALIGN=$refyear
-./xmlchange DATM_CPLHIST_YR_START=$refyear
-./xmlchange DATM_CPLHIST_YR_END=$refyear
-
-# The streams files were generated with a NO_LEAP calendar in mind.
-# We need to test these with a GREGORIAN calendar.
-./xmlchange CALENDAR=GREGORIAN
-./xmlchange STOP_OPTION=$stop_option
-./xmlchange STOP_N=$stop_n
-./xmlchange CONTINUE_RUN=FALSE
-./xmlchange RESUBMIT=$resubmit
-
-./xmlchange PIO_TYPENAME=pnetcdf
-
-# The river transport model ON is useful only when using an active ocean or
-# land surface diagnostics. Setting ROF_GRID to 'null' turns off the RTM.
-# TJH - guidance needed from Alicia
-
-# ./xmlchange ROF_GRID='null'
-# ./xmlchange ROF_GRID='r05'
-
-if ($short_term_archiver == 'off') then
- ./xmlchange DOUT_S=FALSE
-else
- ./xmlchange DOUT_S=TRUE
- ./xmlchange DOUT_S_ROOT=${archdir}
- ./xmlchange DOUT_S_SAVE_INT_REST_FILES=FALSE
-endif
-if ($long_term_archiver == 'off') then
- ./xmlchange DOUT_L_MS=FALSE
-else
- ./xmlchange DOUT_L_MS=TRUE
- ./xmlchange DOUT_L_MSROOT="csm/${case}"
- ./xmlchange DOUT_L_HTAR=FALSE
-endif
-
-# level of debug output, 0=minimum, 1=normal, 2=more, 3=too much, valid values: 0,1,2,3 (integer)
-
-./xmlchange DEBUG=FALSE
-./xmlchange INFO_DBUG=0
-
-# ==============================================================================
-# Set up the case.
-# This creates the EXEROOT and RUNDIR directories.
-# ==============================================================================
-
-./cesm_setup
-
-if ( $status != 0 ) then
- echo "ERROR: Case could not be set up."
- exit -2
-endif
-
-# ==============================================================================
-# Edit the run script to reflect queue and wallclock
-# ==============================================================================
-
-echo ''
-echo 'Updating the run script to set wallclock and queue.'
-echo ''
-
-if ( ! -e ${case}.run.original ) then
- ${COPY} ${case}.run ${case}.run.original
-endif
-
-source Tools/ccsm_getenv
-set BATCH = `echo $BATCHSUBMIT | sed 's/ .*$//'`
-switch ( $BATCH )
- case bsub*:
- # NCAR "bluefire", "yellowstone"
- set TIMEWALL=`grep BSUB ${case}.run | grep -e '-W' `
- set QUEUE=`grep BSUB ${case}.run | grep -e '-q' `
- sed -e "s/$TIMEWALL[3]/$timewall/" \
- -e "s/ptile=[0-9][0-9]*/ptile=$ptile/" \
- -e "s/$QUEUE[3]/$queue/" < ${case}.run >! temp.$$
- ${MOVE} temp.$$ ${case}.run
- chmod 755 ${case}.run
- breaksw
-
- default:
-
- breaksw
-endsw
-
-# ==============================================================================
-# Update source files.
-# Ideally, using DART would not require any modifications to the model source.
-# Until then, this script accesses sourcemods from a hardwired location.
-# If you have additional sourcemods, they will need to be merged into any DART
-# mods and put in the SourceMods subdirectory found in the 'case' directory.
-# ==============================================================================
-
-if ( -d ~/${cesmtag}/SourceMods ) then
- ${COPY} -r ~/${cesmtag}/SourceMods/* ${caseroot}/SourceMods/
-else
- echo "ERROR - No SourceMods for this case."
- echo "ERROR - No SourceMods for this case."
- echo "DART requires modifications to several src files."
- echo "These files can be downloaded from:"
- echo "http://www.image.ucar.edu/pub/DART/CESM/DART_SourceMods_cesm1_1_1.tar"
- echo "untar these into your HOME directory - they will create a"
- echo "~/cesm_1_1_1 directory with the appropriate SourceMods structure."
- exit -4
-endif
-
-# The CESM multi-instance capability is relatively new and still has a few
-# implementation bugs. These are known problems and will be fixed soon.
-# this should be removed when the files are fixed:
-
-echo "REPLACING BROKEN CESM FILES HERE - SHOULD BE REMOVED WHEN FIXED"
-echo caseroot is ${caseroot}
-if ( -d ~/${cesmtag} ) then
-
- # preserve the original version of the files
- if ( ! -e ${caseroot}/Buildconf/rtm.buildnml.csh.original ) then
- ${MOVE} ${caseroot}/Buildconf/rtm.buildnml.csh \
- ${caseroot}/Buildconf/rtm.buildnml.csh.original
- endif
- if ( ! -e ${caseroot}/preview_namelists.original ) then
- ${MOVE} ${caseroot}/preview_namelists \
- ${caseroot}/preview_namelists.original
- endif
-
- # patch/replace the broken files
- ${COPY} ~/${cesmtag}/rtm.buildnml.csh ${caseroot}/Buildconf/.
- ${COPY} ~/${cesmtag}/preview_namelists ${caseroot}/.
-
-endif
-
-# ==============================================================================
-# Modify namelist templates for each instance.
-# ==============================================================================
-
-@ inst = 1
-while ($inst <= $num_instances)
-
- # following the CESM strategy for 'inst_string'
- set inst_string = `printf _%04d $inst`
-
- # ===========================================================================
- set fname = "user_nl_datm${inst_string}"
- # ===========================================================================
-
- echo "dtlimit = 1.5, 1.5" >> $fname
- echo "fillalgo = 'nn', 'nn'" >> $fname
- echo "fillmask = 'nomask','nomask'" >> $fname
- echo "mapalgo = 'bilinear','bilinear'" >> $fname
- echo "mapmask = 'nomask','nomask'" >> $fname
- echo "streams = 'datm.streams.txt.CPLHIST3HrWx.Solar$inst_string $stream_year_align $stream_year_first $stream_year_last'," >> $fname
- echo " 'datm.streams.txt.CPLHIST3HrWx.nonSolarNonPrecip$inst_string $stream_year_align $stream_year_first $stream_year_last'" >> $fname
- echo "taxmode = 'cycle','cycle'" >> $fname
- echo "tintalgo = 'linear','linear'" >> $fname
- echo "restfils = 'unset'" >> $fname
- echo "restfilm = 'unset'" >> $fname
-
- # ===========================================================================
- set fname = "user_nl_cice$inst_string"
- # ===========================================================================
- # CICE Namelists
- # this is only used for a hybrid start, else rpointers are used.
-
- echo "ice_ic = '${run_refcase}.cice${inst_string}.r.2004-01-10-00000.nc'" >> $fname
-
- # ===========================================================================
- set fname = "user_nl_pop2$inst_string"
- # ===========================================================================
-
- # POP Namelists
- # init_ts_suboption = 'data_assim' for non bit-for-bit restarting (assimilation mode)
- # init_ts_suboption = 'rest' --> default behavior
- #
- # DEFAULT values for these are:
- # tavg_file_freq_opt = 'nmonth' 'nmonth' 'once'
- # tavg_freq_opt = 'nmonth' 'nday' 'once'
- # The first entry indicates we get a monthly average once a month.
- # The second entry indicates we get a monthly average as it is being created.
- # The third entry indicates we get a daily timeslice
- #
- # IFF values for these are:
- # tavg_file_freq_opt = 'nmonth' 'never' 'never'
- # tavg_freq_opt = 'nmonth' 'never' 'never'
- # The first entry indicates we get a monthly average once a month, and thats all we get..
-
- echo "init_ts_suboption = 'data_assim'" >> $fname
- echo "tavg_file_freq_opt = 'nmonth' 'never' 'never'" >> $fname
- echo "tavg_freq_opt = 'nmonth' 'never' 'never'" >> $fname
-
- @ inst ++
-end
-
-# DLND
-
-echo "streams = 'drof.streams.txt.rof.diatren_iaf_rx1" 1 1948 2009"'" >> user_nl_drof
-
-# ==============================================================================
-# to create custom streamfiles ...
-# "To modify the contents of a stream txt file, first use preview_namelists to
-# obtain the contents of the stream txt files in CaseDocs, and then place a copy
-# of the modified stream txt file in $CASEROOT with the string user_ prepended."
-#
-# -or-
-#
-# we copy a template stream txt file from the
-# $dartroot/models/POP/shell_scripts directory and modify one for each instance.
-#
-# ==============================================================================
-
-./preview_namelists
-
-# This gives us a stream txt file for each instance that we can
-# modify for our own purpose.
-
-foreach FILE (CaseDocs/*streams*)
- set FNAME = $FILE:t
-
- switch ( ${FNAME} )
- case *presaero*:
- echo "Using default prescribed aerosol stream.txt file ${FNAME}"
- breaksw
- case *diatren*:
- echo "Using default runoff stream.txt file ${FNAME}"
- breaksw
- case *\.Precip_*:
- echo "Precipitation in nonSolarNonPrecip stream.txt file - not ${FNAME}"
- breaksw
- default:
- ${COPY} $FILE user_$FNAME
- chmod 644 user_$FNAME
- breaksw
- endsw
-
-end
-
-# Replace each default stream txt file with one that uses the CAM DATM
-# conditions for a default year and modify the instance number.
-
-foreach FNAME (user*streams*)
- set name_parse = `echo $FNAME | sed 's/\_/ /g'`
- @ instance_index = $#name_parse
- @ filename_index = $#name_parse - 1
- set streamname = $name_parse[$filename_index]
- set instance = `echo $name_parse[$instance_index] | bc`
-
- if (-e $dartroot/models/POP/shell_scripts/user_$streamname*template) then
-
- echo "Copying DART template for $FNAME and changing instances."
-
- ${COPY} $dartroot/models/POP/shell_scripts/user_$streamname*template $FNAME
-
- sed s/NINST/$instance/g $FNAME >! out.$$
- ${MOVE} out.$$ $FNAME
-
- else
- echo "DIED Looking for a DART stream txt template for $FNAME"
- echo "DIED Looking for a DART stream txt template for $FNAME"
- exit -3
- endif
-
-end
-
-./preview_namelists
-
-# ==============================================================================
-# Stage the restarts now that the run directory exists
-# ==============================================================================
-
-cat << EndOfText >! stage_initial_cesm_files
-#!/bin/sh
-
-cd ${rundir}
-
-echo ''
-echo 'Copying the restart files from the staging directories'
-echo 'into the CESM run directory and creating the pointer files.'
-echo ''
-
-let inst=1
-while ((\$inst <= $num_instances)); do
- inst_string=\`printf _%04d \$inst\`
-
- echo ''
- echo "Staging restarts for instance \$inst of $num_instances"
-
- ${LINK} ${stagedir}/${run_refcase}.pop\${inst_string}.r.2004-01-10-00000.nc .
- ${LINK} ${stagedir}/${run_refcase}.pop\${inst_string}.ro.2004-01-10-00000 .
-# ${LINK} ${stagedir}/${run_refcase}.pop\${inst_string}.rh.2004-01-10-00000.nc .
-
- #TH: The cice fname must match that in the user_nl_cice file
-
- ${LINK} ${stagedir}/${run_refcase}.cice\${inst_string}.r.2004-01-10-00000.nc .
-
- echo "${run_refcase}.pop\${inst_string}.ro.2004-01-10-00000" \
- >| rpointer.ocn\${inst_string}.ovf
- echo "${run_refcase}.pop\${inst_string}.r.2004-01-10-00000.nc" \
- >| rpointer.ocn\${inst_string}.restart
- echo "RESTART_FMT=nc" \
- >> rpointer.ocn\${inst_string}.restart
-
- let inst+=1
-done
-
-exit 0
-
-EndOfText
-chmod 0755 stage_initial_cesm_files
-
-./stage_initial_cesm_files
-
-# ==============================================================================
-# build
-# ==============================================================================
-
-echo ''
-echo 'Building the case'
-echo ''
-
-./${case}.build
-
-if ( $status != 0 ) then
- echo "ERROR: Case could not be built."
- exit -5
-endif
-
-# ==============================================================================
-# What to do next
-# ==============================================================================
-
-echo ""
-echo "Time to check the case."
-echo ""
-echo "1) cd ${rundir}"
-echo " check the compatibility between the namelists and the files that were staged."
-echo ""
-echo "2) cd ${caseroot}"
-echo " (on yellowstone) If the ${case}.run script still contains:"
-echo ' #BSUB -R "select[scratch_ok > 0]"'
-echo " around line 9, delete it."
-echo ""
-echo "3) If you want to assimilate 'right away', configure and execute"
-echo " the ${caseroot}/CESM_DART_config script."
-echo ""
-echo "3) Verify the contents of env_run.xml and submit the CESM job:"
-echo " ./${case}.submit"
-echo ""
-echo "4) After the run finishes ... check the contents of the DART observation sequence file"
-echo " ${archdir}/dart/hist/obs_seq.YYYY-MM-DD-SSSSS"
-echo " to make sure there are good values in the file. (not -888888.)"
-echo ""
-echo "5) To extend the run in $assim_n '"$stop_option"' steps,"
-echo " change the env_run.xml variables:"
-echo ""
-echo " ./xmlchange CONTINUE_RUN=TRUE"
-echo " ./xmlchange RESUBMIT=<number_of_cycles_to_run>"
-echo " ./xmlchange STOP_N=$assim_n"
-echo ""
-echo "Check the streams listed in the streams text files. If more or different"
-echo 'dates need to be added, then do this in the $CASEROOT/user_*files*'
-echo "then invoke 'preview_namelists' so you can check the information in the"
-echo "CaseDocs or ${rundir} directories."
-echo ""
-
-exit 0
-
-# <next few lines under version control, do not edit>
-# $URL$
-# $Revision$
-# $Date$
-
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