[Dart-dev] [5801] DART/branches/development/models/clm/shell_scripts/assimilate.csh: Made another type of LINK definition in support of the need to

[nancy at ucar.edu]

Revision: 5801
Author:   thoar
Date:     2012-07-18 15:16:32 -0600 (Wed, 18 Jul 2012)
Log Message:
-----------
Made another type of LINK definition in support of the need to
check the status after the obs sequence file link. All the
others can use the 'force' option, but that means the status
will always be good. 

Modified Paths:
--------------
    DART/branches/development/models/clm/shell_scripts/assimilate.csh

-------------- next part --------------
Modified: DART/branches/development/models/clm/shell_scripts/assimilate.csh
===================================================================
--- DART/branches/development/models/clm/shell_scripts/assimilate.csh	2012-07-18 20:57:01 UTC (rev 5800)
+++ DART/branches/development/models/clm/shell_scripts/assimilate.csh	2012-07-18 21:16:32 UTC (rev 5801)
@@ -19,7 +19,8 @@
 # the VERBOSE options are useful for debugging.
       set   MOVE = '/usr/local/bin/mv -fv'
       set   COPY = '/usr/local/bin/cp -fv --preserve=timestamps'
-      set   LINK = '/usr/local/bin/ln -fvs'
+      set  FLINK = '/usr/local/bin/ln -fvs'
+      set   LINK = '/usr/local/bin/ln -vs'
       set REMOVE = '/usr/local/bin/rm -fr'
 
       set BASEOBSDIR = /glade/proj3/image/Observations/FluxTower
@@ -31,7 +32,8 @@
       # NERSC "hopper"
       set   MOVE = 'mv -fv'
       set   COPY = 'cp -fv --preserve=timestamps'
-      set   LINK = 'ln -fvs'
+      set  FLINK = 'ln -fvs'
+      set   LINK = 'ln -vs'
       set REMOVE = 'rm -fr'
 
       set BASEOBSDIR = /scratch/scratchdirs/nscollin/ACARS
@@ -81,8 +83,8 @@
 set OBSFNAME = obs_seq.daybefore.${MODEL_YEAR}${MODEL_MONTH}${MODEL_DAY}
 set OBS_FILE = ${OBSDIR}/${OBSFNAME}
 
-\rm -f              obs_seq.out
-\ln -vs ${OBS_FILE} obs_seq.out
+${REMOVE}           obs_seq.out
+${LINK} ${OBS_FILE} obs_seq.out
 
 set lnstat = $status
 if ($lnstat != 0) then
@@ -225,7 +227,7 @@
    # If one exists, use it as input for this assimilation
    if ( $nfiles > 0 ) then
       set latest = `cat latestfile`
-      ${LINK} $latest ${PRIOR_INF_IFNAME}
+      ${FLINK} $latest ${PRIOR_INF_IFNAME}
    else
       echo "ERROR: Requested prior inflation but specified no incoming prior inflation file."
       echo "ERROR: expected something like ../${PRIOR_INF_OFNAME}.YYYY-MM-DD-SSSSS"
@@ -252,7 +254,7 @@
    # If one exists, use it as input for this assimilation
    if ( $nfiles > 0 ) then
       set latest = `cat latestfile`
-      ${LINK} $latest ${POSTE_INF_IFNAME}
+      ${FLINK} $latest ${POSTE_INF_IFNAME}
    else
       echo "ERROR: Requested POSTERIOR inflation but specified no incoming POSTERIOR inflation file."
       echo "ERROR: expected something like ../${POSTE_INF_OFNAME}.YYYY-MM-DD-SSSSS"
@@ -290,9 +292,9 @@
    set LND_HISTORY_FILENAME = `printf ../../${MYCASE}.clm2_%04d.h0.${MODEL_DATE_EXT}.nc ${member}`
    set     DART_IC_FILENAME = `printf ../filter_ics.%04d ${member}`
 
-   ${LINK} $LND_RESTART_FILENAME clm_restart.nc
-   ${LINK} $LND_HISTORY_FILENAME clm_history.nc
-   ${LINK}     $DART_IC_FILENAME dart_ics
+   ${FLINK} $LND_RESTART_FILENAME clm_restart.nc
+   ${FLINK} $LND_HISTORY_FILENAME clm_history.nc
+   ${FLINK}     $DART_IC_FILENAME dart_ics
 
    # patch the CLM restart files to ensure they have the proper
    # _FillValue and missing_value attributes.
@@ -352,8 +354,8 @@
 set LND_RESTART_FILENAME = ../${MYCASE}.clm2_0001.r.${MODEL_DATE_EXT}.nc
 set LND_HISTORY_FILENAME = ../${MYCASE}.clm2_0001.h0.${MODEL_DATE_EXT}.nc
 
-${LINK} $LND_RESTART_FILENAME clm_restart.nc
-${LINK} $LND_HISTORY_FILENAME clm_history.nc
+${FLINK} $LND_RESTART_FILENAME clm_restart.nc
+${FLINK} $LND_HISTORY_FILENAME clm_history.nc
 
 # FIXME: special for trying out non-monotonic task layouts.
 setenv ORG_PATH "${PATH}"
@@ -408,7 +410,7 @@
    cd member_${member}
 
    set DART_RESTART_FILE = `printf ../filter_restart.%04d ${member}`
-   ${LINK} $DART_RESTART_FILE dart_restart
+   ${FLINK} $DART_RESTART_FILE dart_restart
 
    echo "starting dart_to_clm for member ${member} at "`date`
    ${EXEROOT}/dart_to_clm >! output.${member}.dart_to_clm &