[1357] | 1 | # $Id: job_ORCA2_LIM.ksh 1301 2009-02-09 17:15:38Z ctlod $ |
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| 2 | set -xv |
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| 3 | |
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| 4 | CONF=ORCA2_LIM_PISCES |
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| 5 | # Variables changed by lance_batch.ksh script |
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| 6 | RUN=xxx |
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| 7 | NB_PROCS=xxx |
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| 8 | LAUNCH=xxx |
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| 9 | LEXE=xxx |
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| 10 | CPERF=xxx |
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| 11 | D_INPUT=xxx |
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| 12 | D_GET=xxx |
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| 13 | REF_TAG=xxx |
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| 14 | MYO_EXP=xxx |
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| 15 | TSYMB=xxx |
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| 16 | |
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| 17 | # Variables changed by ins_valid.ksh script |
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| 18 | MAINDIR=/workdir/rech/eee/reee534/AUTRE |
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| 19 | WORK=/workdir/rech/eee/reee534/AUTRE/modipsl/config/ |
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| 20 | REF_OD=/u/rech/eee/reee831/NEMO_VALIDATION |
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| 21 | |
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| 22 | # Arguments |
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| 23 | # type = 'long' or '1_short' or '2_short' |
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| 24 | type=$1 |
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| 25 | |
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| 26 | case ${type} in |
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| 27 | 'long' ) |
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| 28 | DIROUT='LONG' |
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[1403] | 29 | ITERATIONS=300 ;; |
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[1357] | 30 | |
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| 31 | '1_short' ) |
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| 32 | DIROUT='1_SHORT' |
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[1403] | 33 | ITERATIONS=150 ;; |
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[1357] | 34 | |
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| 35 | '2_short' ) |
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| 36 | DIROUT='2_SHORT' |
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[1403] | 37 | ITERATIONS=150 ;; |
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[1357] | 38 | |
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| 39 | 'gtime' ) |
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| 40 | DIROUT='GTIME' |
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| 41 | ITERATIONS=5475 ;; |
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| 42 | esac |
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| 43 | |
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| 44 | # Working directory |
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| 45 | cd ${TMPDIR} |
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| 46 | #-T- osxxlf mkdir -p ${WORK}/NEMO_VALID/W${CONF}/${RUN}/${DIROUT}/${MYO_EXP}/RUN |
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| 47 | #-T- osxxlf cd ${WORK}/NEMO_VALID/W${CONF}/${RUN}/${DIROUT}/${MYO_EXP}/RUN |
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| 48 | #-T- osxxlf zback=$? |
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| 49 | #-T- osxxlf if [ ${zback} = 0 ] ; then rm -rf namelist* *.nc memory* solver.stat ocean.output* mpp.output* mono.output* ; fi |
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| 50 | |
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| 51 | ############################################################## |
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| 52 | ############################################################## |
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| 53 | ############################################################## |
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| 54 | ### Input files |
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| 55 | ############################################################## |
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| 56 | ############################################################## |
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| 57 | ############################################################## |
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| 58 | # Local function to copy namelists files |
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| 59 | get_namelist () { |
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| 60 | if [ -a $1/$2_$3 ] ; then |
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| 61 | cp $1/$2_$3 $4 |
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| 62 | else |
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| 63 | echo ' ###############################################################' |
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| 64 | echo ' ######################## W A R N I N G ########################' |
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| 65 | echo ' ######################## W A R N I N G ########################' |
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| 66 | echo ' ######################## W A R N I N G ########################' |
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| 67 | echo ' ###############################################################' |
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| 68 | echo " $2_$3 file doesn't exist, we use the standard $2" |
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| 69 | echo ' ###############################################################' |
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| 70 | echo ' ######################## W A R N I N G ########################' |
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| 71 | echo ' ######################## W A R N I N G ########################' |
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| 72 | echo ' ######################## W A R N I N G ########################' |
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| 73 | echo ' ###############################################################' |
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| 74 | cp $1/$2 $4 |
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| 75 | fi |
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| 76 | } |
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| 77 | |
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| 78 | # Local function to find namelists parameters |
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| 79 | supergrep () { |
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| 80 | grep "^ *$1 *=" $2 | sed -e "s% *\!.*%%" |
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| 81 | } |
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| 82 | |
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| 83 | # Ocean namelist |
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| 84 | LOC_NAM=${MAINDIR}/modipsl/config/${CONF}/EXP00 |
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| 85 | get_namelist ${LOC_NAM} namelist ${MYO_EXP} namelist |
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| 86 | |
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| 87 | # Sea-Ice namelist |
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| 88 | get_namelist ${LOC_NAM} namelist_ice_lim2 ${MYO_EXP} namelist_ice |
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| 89 | |
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| 90 | # Passive transport namelist |
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| 91 | get_namelist ${LOC_NAM} namelist_top ${MYO_EXP} namelist_top |
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| 92 | |
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| 93 | # Pisces namelist |
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| 94 | get_namelist ${LOC_NAM} namelist_pisces ${MYO_EXP} namelist_pisces |
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| 95 | get_namelist ${LOC_NAM} kRGB61.txt ${MYO_EXP} kRGB61.txt |
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| 96 | |
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| 97 | # Local function to find namelists parameters |
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| 98 | supergrep () { |
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| 99 | grep "^ *$1 *=" $2 | sed -e "s% *\!.*%%" |
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| 100 | } |
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| 101 | |
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| 102 | # namelist modifications |
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| 103 | PAT_NIT000=$( supergrep nit000 namelist ) |
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| 104 | PAT_NITEND=$( supergrep nitend namelist ) |
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| 105 | PAT_NSTOCK=$( supergrep nstock namelist ) |
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| 106 | PAT_NWRITE=$( supergrep nwrite namelist ) |
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| 107 | PAT_NRSTDT=$( supergrep nrstdt namelist ) |
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| 108 | PAT_NBITCM=$( supergrep nbit_cmp namelist ) |
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| 109 | PAT_TRACEN=$( supergrep ln_traadv_cen2 namelist ) |
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| 110 | PAT_TRATVD=$( supergrep ln_traadv_tvd namelist ) |
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| 111 | PAT_N_CLAA=$( supergrep n_cla namelist ) |
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| 112 | PAT_NSOLVV=$( supergrep nsolv namelist ) |
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| 113 | PAT_RESTAR=$( supergrep ln_rstart namelist ) |
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| 114 | PAT_RESMLD=$( supergrep ln_trdmld_restart namelist ) |
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| 115 | |
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| 116 | sed -e "s%$PAT_RESTAR% ln_rstart = .false.%" \ |
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| 117 | -e "s%$PAT_NIT000% nit000 = 1 %" \ |
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| 118 | -e "s%$PAT_NITEND% nitend = ${ITERATIONS} %" \ |
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| 119 | -e "s%$PAT_NSTOCK% nstock = ${ITERATIONS} %" \ |
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| 120 | -e "s%$PAT_NWRITE% nwrite = 75 %" \ |
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| 121 | -e "s%$PAT_NRSTDT% nrstdt = 0 %" \ |
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| 122 | -e "s%$PAT_NBITCM% nbit_cmp = 1%" \ |
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| 123 | -e "s%$PAT_TRACEN% ln_traadv_cen2 = .false.%" \ |
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| 124 | -e "s%$PAT_TRATVD% ln_traadv_tvd = .true.%" \ |
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| 125 | -e "s%$PAT_N_CLAA% n_cla = 0%" \ |
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| 126 | -e "s%$PAT_NSOLVV% nsolv = 2%" \ |
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| 127 | -e "s%$PAT_RESMLD% ln_trdmld_restart = .false.%" namelist > nam.tmp |
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| 128 | |
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| 129 | mv nam.tmp namelist |
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| 130 | |
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[1507] | 131 | # namelist top modifications |
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[1357] | 132 | PAT_NWRTRC=$( supergrep nwritetrc namelist_top ) |
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| 133 | PAT_LRSTTR=$( supergrep lrsttr namelist_top ) |
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| 134 | PAT_NRSTTR=$( supergrep nrsttr namelist_top ) |
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| 135 | PAT_TRCRAD=$( supergrep ln_trcrad namelist_top ) |
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| 136 | |
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| 137 | sed -e "s%$PAT_NWRTRC% nwritetrc = ${ITERATIONS}%" \ |
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| 138 | -e "s%$PAT_LRSTTR% lrsttr = .false.%" \ |
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| 139 | -e "s%$PAT_NRSTTR% nrsttr = 0 %" \ |
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| 140 | -e "s%$PAT_TRCRAD% ln_trcrad = .false.%" namelist_top > nam.tmp |
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| 141 | |
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| 142 | mv nam.tmp namelist_top |
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| 143 | |
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[1507] | 144 | # namelist pisces modifications |
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[1513] | 145 | PAT_DUSTF=$( supergrep ln_dustfer namelist_pisces ) |
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| 146 | PAT_RIVER=$( supergrep ln_river namelist_pisces ) |
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| 147 | PAT_NDEPO=$( supergrep ln_ndepo namelist_pisces ) |
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| 148 | PAT_SEDIN=$( supergrep ln_sedinput namelist_pisces ) |
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[1507] | 149 | |
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[1513] | 150 | sed -e "s%$PAT_DUSTF% ln_dustfer = .false.%" \ |
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| 151 | -e "s%$PAT_RIVER% ln_river = .false.%" \ |
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| 152 | -e "s%$PAT_NDEPO% ln_ndepo = .false.%" \ |
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| 153 | -e "s%$PAT_SEDIN% ln_sedinput = .false.%" namelist_pisces > nam.tmp |
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[1507] | 154 | |
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| 155 | mv nam.tmp namelist_pisces |
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| 156 | |
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[1357] | 157 | # Get forcing files |
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| 158 | ${D_GET} ${D_INPUT}/ORCA2_LIM_nemo_v3.1.tar ORCA2_LIM_nemo_v3.1.tar |
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| 159 | tar xvf ORCA2_LIM_nemo_v3.1.tar |
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| 160 | rm -f ORCA2_LIM_nemo_v3.1.tar |
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| 161 | |
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| 162 | # Get forcing pisces files |
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| 163 | ${D_GET} ${D_INPUT}/INPUTS_PISCES_v3.tar INPUTS_PISCES_v3.tar |
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| 164 | tar xvf INPUTS_PISCES_v3.tar |
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| 165 | rm -f INPUTS_PISCES_v3.tar |
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| 166 | |
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| 167 | # Get restarts files if needed |
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| 168 | if [ $type = '2_short' ] |
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| 169 | then |
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| 170 | if [ ${RUN} = 'mon' -o ${RUN} = 'omp' ] ; then |
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| 171 | cp ${WORK}/NEMO_VALID/W${CONF}/${RUN}/1_SHORT/${MYO_EXP}/*_restart.nc restart.nc |
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| 172 | cp ${WORK}/NEMO_VALID/W${CONF}/${RUN}/1_SHORT/${MYO_EXP}/*restart_ice.nc restart_ice_in.nc |
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| 173 | cp ${WORK}/NEMO_VALID/W${CONF}/${RUN}/1_SHORT/${MYO_EXP}/*restart_trc.nc restart_trc.nc |
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| 174 | fi |
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| 175 | |
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| 176 | if [ ${RUN} = 'mpi' ] ; then |
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| 177 | typeset -Z4 i=0 |
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| 178 | while [ $i -lt $NB_PROCS ] |
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| 179 | do |
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| 180 | cp ${WORK}/NEMO_VALID/W${CONF}/${RUN}/1_SHORT/${MYO_EXP}/*_restart_${i}.nc restart_${i}.nc |
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| 181 | cp ${WORK}/NEMO_VALID/W${CONF}/${RUN}/1_SHORT/${MYO_EXP}/*restart_ice_${i}.nc restart_ice_in_${i}.nc |
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| 182 | cp ${WORK}/NEMO_VALID/W${CONF}/${RUN}/1_SHORT/${MYO_EXP}/*restart_trc_${i}.nc restart_trc_${i}.nc |
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| 183 | let i=$i+1 |
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| 184 | done |
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| 185 | fi |
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| 186 | |
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| 187 | # Ocean namelist modifications |
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| 188 | PAT_NIT000=$( supergrep nit000 namelist ) |
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| 189 | PAT_NITEND=$( supergrep nitend namelist ) |
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| 190 | PAT_NRSTDT=$( supergrep nrstdt namelist ) |
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| 191 | PAT_RESTAR=$( supergrep ln_rstart namelist ) |
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| 192 | PAT_RESMLD=$( supergrep ln_trdmld_restart namelist ) |
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| 193 | ORCA_NIT000=$(( $ITERATIONS + 1 )) |
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| 194 | ORCA_NITEND=$(( $ITERATIONS*2 )) |
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| 195 | |
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| 196 | sed -e "s%$PAT_RESTAR% ln_rstart = .true.%" \ |
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| 197 | -e "s%$PAT_NIT000% nit000 = $ORCA_NIT000 %" \ |
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| 198 | -e "s%$PAT_NITEND% nitend = $ORCA_NITEND %" \ |
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| 199 | -e "s%$PAT_NRSTDT% nrstdt = 2%" \ |
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| 200 | -e "s%$PAT_RESMLD% ln_trdmld_restart = .true.%" namelist > nam.tmp |
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| 201 | |
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| 202 | mv nam.tmp namelist |
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| 203 | |
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| 204 | # Biogeochemistry namelist modifications |
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| 205 | PAT_LRSTTR=$( supergrep lrsttr namelist_top ) |
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| 206 | PAT_NRSTTR=$( supergrep nrsttr namelist_top ) |
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| 207 | |
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| 208 | sed -e "s%$PAT_LRSTTR% lrsttr = .true. %" \ |
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| 209 | -e "s%$PAT_NRSTTR% nrsttr = 2%" namelist_top > nam.tmp |
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| 210 | |
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| 211 | mv nam.tmp namelist_top |
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| 212 | |
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| 213 | PAT_PISDMP=$( supergrep ln_pisdmp namelist_pisces ) |
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| 214 | sed -e "s%$PAT_PISDMP% ln_pisdmp = .false.%" namelist_pisces > nam.tmp |
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| 215 | mv nam.tmp namelist_pisces |
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| 216 | fi |
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| 217 | |
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| 218 | ############################################################## |
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| 219 | ############################################################## |
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| 220 | ############################################################## |
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| 221 | ### Launch run |
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| 222 | ############################################################## |
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| 223 | ############################################################## |
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| 224 | ############################################################## |
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| 225 | |
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| 226 | cp ${WORK}/NEMO_VALID/W${CONF}/opa_${CONF}_${RUN}_${MYO_EXP} opa_${CONF}_${RUN}_${MYO_EXP} |
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| 227 | cp ${WORK}/NEMO_VALID/W${CONF}/opa_${CONF}_memo_${MYO_EXP} opa_${CONF}_memo_${MYO_EXP} |
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| 228 | chmod 777 opa_${CONF}_${RUN}_${MYO_EXP} |
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| 229 | chmod 777 opa_${CONF}_memo_${MYO_EXP} |
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| 230 | |
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| 231 | # |
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| 232 | # Profiling & Executable memory size |
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| 233 | #################################### |
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| 234 | touch memory_size.txt |
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| 235 | |
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| 236 | case ${RUN} in |
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| 237 | 'mon' ) |
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| 238 | #-T- sx8brodie export F_PROGINF=detail |
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| 239 | #-T- sx8brodie echo "Stack memory: $( (size opa_${CONF}_${RUN}_${MYO_EXP}) )" >> memory_size.txt |
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| 240 | #-T- sx8brodie echo "Static memory: $( (size opa_${CONF}_memo_${MYO_EXP}) )" >> memory_size.txt ;; |
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| 241 | #-T- sx8mercure export F_PROGINF=detail |
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| 242 | #-T- sx8mercure echo "Stack memory: $( (size opa_${CONF}_${RUN}_${MYO_EXP}) )" >> memory_size.txt |
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| 243 | #-T- sx8mercure echo "Static memory: $( (size opa_${CONF}_memo_${MYO_EXP}) )" >> memory_size.txt ;; |
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[1402] | 244 | #-T- aix6 echo "Stack memory: $( (size opa_${CONF}_memo_${MYO_EXP}) )" >> memory_size.txt |
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| 245 | #-T- aix6 echo "Static memory: $( (size opa_${CONF}_${RUN}_${MYO_EXP}) )" >> memory_size.txt ;; |
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[1357] | 246 | #-T- osxxlf echo "Stack memory: $( (size opa_${CONF}_memo_${MYO_EXP}) )" >> memory_size.txt |
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| 247 | #-T- osxxlf echo "Static memory: $( (size opa_${CONF}_${RUN}_${MYO_EXP}) )" >> memory_size.txt ;; |
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| 248 | 'mpi' ) |
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| 249 | #-T- sx8brodie export MPIPROGINF=detail ;; |
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| 250 | #-T- sx8mercure export MPIPROGINF=detail ;; |
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| 251 | #-T- aix6 ;; |
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| 252 | #-T- osxxlf ;; |
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| 253 | 'omp' ) |
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| 254 | #-T- sx8brodie export F_PROGINF=detail |
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| 255 | #-T- sx8brodie export OMP_NUM_THREADS=${NB_PROCS} ;; |
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| 256 | #-T- sx8mercure export F_PROGINF=detail |
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| 257 | #-T- sx8mercure export OMP_NUM_THREADS=${NB_PROCS} ;; |
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| 258 | #-T- aix6 ;; |
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| 259 | #-T- osxxlf ;; |
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| 260 | esac |
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| 261 | # |
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| 262 | # >>>>>> EXECUTION < < < < |
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| 263 | ########################## |
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| 264 | |
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| 265 | case ${RUN} in |
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| 266 | 'mon' | 'omp' ) |
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| 267 | ${CPERF} ./opa_${CONF}_${RUN}_${MYO_EXP} ;; |
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| 268 | 'mpi' ) |
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| 269 | #-T- sx8brodie ${CPERF} ${LEXE} ./opa_${CONF}_${RUN}_${MYO_EXP} ;; |
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| 270 | #-T- sx8mercure ${CPERF} ${LEXE} ./opa_${CONF}_${RUN}_${MYO_EXP} ;; |
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| 271 | #-T- aix6 ${CPERF} ${LEXE} ./opa_${CONF}_${RUN}_${MYO_EXP} ;; |
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| 272 | #-T- osxxlf mpd& |
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| 273 | #-T- osxxlf sleep 5 |
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| 274 | #-T- osxxlf ${CPERF} ${LEXE} ./opa_${CONF}_${RUN}_${MYO_EXP} |
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| 275 | #-T- osxxlf mpdallexit ;; |
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| 276 | esac |
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| 277 | |
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| 278 | ls -l |
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| 279 | # |
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| 280 | |
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| 281 | ############################################################## |
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| 282 | ############################################################## |
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| 283 | ############################################################## |
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| 284 | ### Save output files |
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| 285 | ############################################################## |
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| 286 | ############################################################## |
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| 287 | ############################################################## |
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| 288 | case ${RUN} in |
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| 289 | 'mon' | 'omp' ) |
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| 290 | liste_files='*abort* memory* namelist* perfs* solver.stat ocean.output layout* ORCA2* restart* mono*' ;; |
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| 291 | 'mpi' ) |
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| 292 | liste_files='*abort* namelist* solver.stat perfs* ocean.output* layout* ORCA2* restart* mpp*' ;; |
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| 293 | esac |
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| 294 | |
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| 295 | # Ensure that all files saved are coming from the current run |
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| 296 | ind=1 |
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| 297 | for k in $liste_files |
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| 298 | do |
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| 299 | echo $k > temp |
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| 300 | var=$( ( awk '{printf("%-.4s", varin ) } ' varin=$k temp ) ) |
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| 301 | if [ ${ind} = 1 -a ${var} = 'perf' ] ; then |
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| 302 | kc='perf*' |
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| 303 | rm -f ${WORK}/NEMO_VALID/W${CONF}/${RUN}/${DIROUT}/${MYO_EXP}/${kc} |
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| 304 | ind=0 |
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| 305 | fi |
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| 306 | cp $k ${WORK}/NEMO_VALID/W${CONF}/${RUN}/${DIROUT}/${MYO_EXP}/$k |
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| 307 | done |
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| 308 | |
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| 309 | ############################################################## |
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| 310 | ############################################################## |
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| 311 | ############################################################## |
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| 312 | ### Retrieve some reference run files |
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| 313 | ############################################################## |
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| 314 | ############################################################## |
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| 315 | ############################################################## |
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| 316 | if [ ${REF_TAG} ] |
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| 317 | then |
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| 318 | STORE_DATA=${REF_OD}/${CONF}/${REF_TAG}/${RUN}/${DIROUT} |
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| 319 | LFILES="solver.stat memory_size.txt ocean.output ${RUN}${CONF}_err" |
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| 320 | for ref_file in ${LFILES} |
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| 321 | do |
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| 322 | ${D_GET} ${STORE_DATA}/${TSYMB}${ref_file} ${WORK}/NEMO_VALID/W${CONF}/${RUN}/${DIROUT}/REF/${ref_file} |
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| 323 | done |
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| 324 | fi |
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| 325 | |
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| 326 | ############################################################## |
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| 327 | ############################################################## |
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| 328 | ############################################################## |
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| 329 | ### Launch restart job |
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| 330 | ############################################################## |
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| 331 | ############################################################## |
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| 332 | ############################################################## |
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| 333 | if [ $type = '1_short' ] ; then |
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| 334 | cd ${WORK}/NEMO_VALID/W${CONF}/${RUN}/2_SHORT/${MYO_EXP} |
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| 335 | ${LAUNCH}job_${RUN}_2_short_${MYO_EXP}.ksh |
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| 336 | fi |
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