| 1 | #!/bin/ksh |
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| 2 | #----------------------------------------------------------------- |
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| 3 | function OCE_Initialize |
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| 4 | { |
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| 5 | IGCM_debug_PushStack "OCE_Initialize" |
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| 6 | |
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| 7 | JOB_NAME=${config_UserChoices_JobName} |
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| 8 | |
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| 9 | |
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| 10 | if [ X$ResolOce != X ]; then |
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| 11 | #ResolOce is set in config.card |
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| 12 | RESOL_OCE=${ResolOce} |
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| 13 | IGCM_debug_Print 1 "RESOL_OCE : ${RESOL_OCE}" |
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| 14 | |
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| 15 | elif [ -f ${SUBMIT_DIR}/../.resol ] ; then |
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| 16 | RESOL_OCE_ICE=$( echo ${RESOL} | awk "-Fx" '{print $1}' ) |
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| 17 | case ${RESOL_OCE_ICE} in |
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| 18 | ( *LIM2* ) SEAICE_MODEL=LIM2 ; LIM_VERSION=2 ;; |
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| 19 | ( *LIM3* ) SEAICE_MODEL=LIM3 ; LIM_VERSION=3 ;; |
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| 20 | ( *CICE* ) SEAICE_MODEL=CICE ;; |
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| 21 | ( * ) SEAICE_MODEL=UNKNOWN ;; |
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| 22 | esac |
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| 23 | RESOL_OCE=$( echo ${RESOL_OCE_ICE} | sed "s/${SEAICE_MODEL}//" ) |
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| 24 | IGCM_debug_Print 1 "RESOL_OCE_ICE : ${RESOL_OCE_ICE}" |
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| 25 | IGCM_debug_Print 1 "RESOL : ${RESOL}" |
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| 26 | IGCM_debug_Print 1 "SEAICE_MODEL : ${SEAICE_MODEL}" |
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| 27 | IGCM_debug_Print 1 "LIM_VERSION : ${LIM_VERSION}" |
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| 28 | IGCM_debug_Print 1 "RESOL_OCE : ${RESOL_OCE}" |
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| 29 | else |
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| 30 | IGCM_debug_Exit "ResolAtm is not set in config.card and the .resol file does not exist." |
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| 31 | IGCM_debug_Verif_Exit |
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| 32 | fi |
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| 33 | |
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| 34 | # Local function to find namelists parameters |
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| 35 | #supergrep () { grep "^ *$1 *=" $2 | sed -e "s% *\!.*%%" ; } |
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| 36 | supergrep () { grep "^ *$1 *=" $2 | sed -e "s% *\!.*%%" -e "s%^ *$1 *=%%" ; } |
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| 37 | ##--Variables used by OPA -- |
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| 38 | if [ x${config_UserChoices_ConfExp} != X ]; then |
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| 39 | ISPALEO=${config_UserChoices_ConfExp} |
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| 40 | elif [ -f ${SUBMIT_DIR}/../.resol ] ; then |
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| 41 | ISPALEO=${config_UserChoices_ExpType##*/} |
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| 42 | fi |
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| 43 | |
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| 44 | echo "ISPALEO = " $ISPALEO |
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| 45 | if [ "${ISPALEO}" = "paleo" ] ; then |
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| 46 | NAMELIST_OPA_CFG=${SUBMIT_DIR}/PARAM/namelist_${RESOL_OCE}_cfg_paleo |
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| 47 | else |
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| 48 | NAMELIST_OPA_CFG=${SUBMIT_DIR}/PARAM/namelist_${RESOL_OCE}_cfg |
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| 49 | fi |
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| 50 | IGCM_debug_Print 1 "namelist_cfg : ${NAMELIST_OPA_CFG}" |
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| 51 | if [ ! -r ${NAMELIST_OPA_CFG} ] ; then |
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| 52 | IGCM_debug_Exit "${NAMELIST_OPA_CFG} not found" |
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| 53 | IGCM_debug_Verif_Exit |
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| 54 | fi |
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| 55 | OPA_RDT=$( supergrep rn_rdt ${NAMELIST_OPA_CFG} ) |
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| 56 | OPA_NN_FSBC=$( supergrep nn_fsbc ${NAMELIST_OPA_CFG} ) |
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| 57 | # |
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| 58 | # OPA_RDT=$( supergrep rn_rdt namelist_cfg ) |
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| 59 | # OPA_NN_FSBC=$( supergrep nn_fsbc namelist_cfg ) |
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| 60 | (( OPA_NPDT_DAY = 86400 / OPA_RDT )) |
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| 61 | (( OPA_RDT_SBC = OPA_RDT * OPA_NN_FSBC )) |
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| 62 | # nleapy configuration + OPA_NPDT_YEAR |
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| 63 | case ${config_UserChoices_CalendarType} in |
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| 64 | ( leap|gregorian) OPA_NLEAPY=1 |
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| 65 | (( OPA_NPDT_YEAR = OPA_NPDT_DAY * 365 )) ;; |
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| 66 | ( noleap ) OPA_NLEAPY=0 |
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| 67 | (( OPA_NPDT_YEAR = OPA_NPDT_DAY * 365 )) ;; |
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| 68 | ( 360d ) OPA_NLEAPY=30 |
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| 69 | (( OPA_NPDT_YEAR = OPA_NPDT_DAY * 360 )) ;; |
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| 70 | ( * ) OPA_NLEAPY=30 |
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| 71 | (( OPA_NPDT_YEAR = OPA_NPDT_DAY * 360 )) ;; |
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| 72 | esac |
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| 73 | |
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| 74 | # Period Length In Days between DateBegin and first day of calendar 0001 01 01 |
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| 75 | # /!\ Needed by OPA namelist to compute file names /!\ |
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| 76 | (( DaysSinceJC = $( IGCM_date_DaysSinceJC ${DateBegin} ) + 1 )) |
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| 77 | |
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| 78 | IGCM_debug_Print 1 " " |
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| 79 | IGCM_debug_Print 1 "OPA_RDT ${OPA_RDT}" |
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| 80 | IGCM_debug_Print 1 "OPA_NN_FSBC ${OPA_NN_FSBC}" |
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| 81 | IGCM_debug_Print 1 "OPA_RDT_SBC ${OPA_RDT_SBC}" |
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| 82 | IGCM_debug_Print 1 "OPA_NPDT_DAY ${OPA_NPDT_DAY}" |
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| 83 | IGCM_debug_Print 1 "OPA_NPDT_YEAR ${OPA_NPDT_YEAR}" |
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| 84 | IGCM_debug_Print 1 "DaysSinceJC ${DaysSinceJC}" |
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| 85 | |
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| 86 | ## Check that nn_fsbc is correct compare to coupling frequency |
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| 87 | FreqCoupling=${oasis_UserChoices_FreqCoupling:-86400} |
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| 88 | |
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| 89 | ## This informations are used for diaptr, trends and diagap files |
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| 90 | ## only the first frequency is used for this files |
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| 91 | |
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| 92 | IGCM_debug_Print 1 "FreqCoupling ${FreqCoupling}" |
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| 93 | IGCM_debug_Print 1 "OPA_NN_FSBC ${OPA_NN_FSBC}" |
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| 94 | IGCM_debug_Print 1 "OPA_RDT ${OPA_RDT}" |
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| 95 | IGCM_debug_Print 1 "OPA_RDT_SBC ${OPA_RDT_SBC}" |
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| 96 | |
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| 97 | if [[ ${OPA_RDT_SBC} -gt ${FreqCoupling} ]] ; then |
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| 98 | IGCM_debug_Exit "OPA_RDT_SBC=${OPA_RDT_SBC} is greater than FreqCoupling=${FreqCoupling}" |
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| 99 | IGCM_debug_Verif_Exit |
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| 100 | fi |
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| 101 | |
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| 102 | IGCM_debug_PopStack "OCE_Initialize" |
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| 103 | |
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| 104 | } |
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| 105 | |
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| 106 | #----------------------------------------------------------------- |
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| 107 | function OCE_Update |
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| 108 | { |
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| 109 | IGCM_debug_PushStack "OCE_Update" |
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| 110 | |
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| 111 | ##--Write Frequency for iomput |
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| 112 | ## Differents frequencies are allowed for grid_[TUVW] and icemod files |
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| 113 | |
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| 114 | V1D_ENABLE=".FALSE." |
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| 115 | V1M_ENABLE=".FALSE." |
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| 116 | V1Y_ENABLE=".FALSE." |
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| 117 | |
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| 118 | for frequency in ${config_OCE_WriteFrequency} ; do |
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| 119 | case ${frequency} in |
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| 120 | ( 1D|1d ) V1D_ENABLE=".TRUE." ;; |
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| 121 | ( 1M|1m ) V1M_ENABLE=".TRUE." ;; |
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| 122 | ( *[yY] ) V1Y_ENABLE=".TRUE." ;; |
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| 123 | esac |
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| 124 | done |
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| 125 | |
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| 126 | # Period Length In Days between DateBegin and first day of calendar 0001 01 01 |
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| 127 | # Needed by OPA namelist to compute correct file names |
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| 128 | (( PeriodDaysSinceJC = $( IGCM_date_DaysSinceJC ${PeriodDateBegin} ) + 1 )) |
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| 129 | |
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| 130 | ##-- Number of time steps updated : the first, the last and the number of time steps |
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| 131 | (( OPA_NIT000 = ( PeriodDaysSinceJC - DaysSinceJC ) * OPA_NPDT_DAY + 1 )) |
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| 132 | (( OPA_NPDT = PeriodLengthInDays * OPA_NPDT_DAY )) |
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| 133 | (( OPA_NITEND = OPA_NIT000 + OPA_NPDT - 1)) |
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| 134 | |
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| 135 | ##-- We force one restart file at the end of the trunk |
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| 136 | OPA_NSTOCK="${OPA_NITEND}" |
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| 137 | |
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| 138 | ##-- Additionnal Restart Option to force reproducibility ; force kt to kt red in restart file |
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| 139 | ## ${opa9_UserChoices_Reproducibility_after_restart} |
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| 140 | |
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| 141 | IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/opa9.card UserChoices Reproducibility_after_restart |
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| 142 | |
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| 143 | ##-- Restart configuration |
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| 144 | if ( [ "${opa9_UserChoices_Reproducibility_after_restart}" = "y" ] ) ; then |
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| 145 | OPA_LRSTAR=.TRUE. |
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| 146 | OPA_NRSTDT=2 |
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| 147 | #echo "OPA RESTART" |
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| 148 | IGCM_debug_Print 1 'WARNING : dangerous option for NEMO opa9 pisces lim3' |
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| 149 | IGCM_debug_Print 1 'Reproducibility_after_Restart forced ie kt forced to kt red in restart file : ' ${opa9_UserChoices_Reproducibility_after_restart} |
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| 150 | OPA_NMSH=0 |
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| 151 | elif ( [ "${CumulPeriod}" -eq 1 ] && [ "${config_OCE_Restart}" = "n" ] ) ; then |
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| 152 | OPA_LRSTAR=.FALSE. |
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| 153 | OPA_NRSTDT=0 |
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| 154 | # Put OPA_NMSH=0 when OPA running in parallel mode |
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| 155 | OPA_NMSH=1 |
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| 156 | #echo "NO OPA RESTART" |
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| 157 | elif ( [ "${CumulPeriod}" -eq 1 ] && [ "${config_OCE_Restart}" = "y" ] ) ; then |
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| 158 | OPA_LRSTAR=.TRUE. |
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| 159 | OPA_NRSTDT=0 |
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| 160 | OPA_NMSH=1 |
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| 161 | #echo "OPA RESTART" |
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| 162 | else |
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| 163 | OPA_LRSTAR=.TRUE. |
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| 164 | OPA_NRSTDT=2 |
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| 165 | OPA_NMSH=0 |
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| 166 | #echo "OPA RESTART" |
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| 167 | fi |
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| 168 | |
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| 169 | ##-- Meshmask option |
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| 170 | IGCM_card_DefineVariableFromOption ${SUBMIT_DIR}/COMP/opa9.card UserChoices mesh_mask |
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| 171 | |
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| 172 | if [ "${opa9_UserChoices_mesh_mask}" = "y" ]; then |
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| 173 | OPA_NMSH=1 |
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| 174 | export opa9_UserChoices_mesh_mask=n |
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| 175 | IGCM_card_WriteOption ${SUBMIT_DIR}/COMP/opa9.card UserChoices mesh_mask "n" |
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| 176 | fi |
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| 177 | |
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| 178 | |
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| 179 | if ( [ "${opa9_UserChoices_Reproducibility_after_restart}" = "y" ] ) ; then |
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| 180 | ##-- choose the right restart file |
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| 181 | NEMO_RESTART_FILE=restartopa.nc |
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| 182 | [ -f restartopa_0000.nc ] && NEMO_RESTART_FILE=restartopa_0000.nc |
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| 183 | ##-- Getting from restart file the last time step of the run at which we want to re-start |
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| 184 | NEMO_KT_FROM_RESTART=$(ncdump -v kt ${NEMO_RESTART_FILE}|grep 'kt ='|awk '{print $3}' ) |
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| 185 | |
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| 186 | if ( [ "${CumulPeriod}" -eq 1 ] ) ; then |
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| 187 | ## Force the date in the restart file to be the last day before the begining of the new run |
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| 188 | dateendprevious=$( IGCM_date_AddDaysToGregorianDate ${DateBegin} -1 ) |
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| 189 | IGCM_debug_Print 1 "Previous Date ${dateendprevious}" |
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| 190 | IGCM_debug_Print 1 "cmd done to modify NEMO restartfile: ncap2 -s ndastp=${dateendprevious} ${NEMO_RESTART_FILE} tmp.nc" |
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| 191 | if [ -f restartopa_0000.nc ] ; then |
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| 192 | typeset -Z4 ncpu=0 |
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| 193 | while [ $ncpu -lt ${OCE_PROC_MPI} ] ; do |
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| 194 | ncap2 -s "ndastp=${dateendprevious}" restartopa_${ncpu}.nc tmp.nc |
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| 195 | mv tmp.nc restartopa_${ncpu}.nc |
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| 196 | (( ncpu = ncpu + 1 )) |
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| 197 | done |
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| 198 | else |
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| 199 | ncap2 -s "ndastp=${dateendprevious}" ${NEMO_RESTART_FILE} tmp.nc |
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| 200 | mv tmp.nc ${NEMO_RESTART_FILE} |
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| 201 | fi |
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| 202 | ##-- Getting from restart file the "new" restart date of run at which we want to re-start |
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| 203 | NEMO_NDASTP_FROM_RESTART=$(ncdump -v ndastp ${NEMO_RESTART_FILE}|grep 'ndastp ='|awk '{print $3}' ) |
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| 204 | IGCM_debug_Print 1 "NEMO_NDASTP (from Restart) for 1st Period : ${NEMO_NDASTP_FROM_RESTART}" |
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| 205 | |
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| 206 | fi |
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| 207 | |
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| 208 | (( NEMO_NIT000 = NEMO_KT_FROM_RESTART + 1 )) |
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| 209 | (( NEMO_NITEND = NEMO_KT_FROM_RESTART + OPA_NITEND - OPA_NIT000 + 1 )) |
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| 210 | IGCM_debug_Print 1 "NEMO_NIT000 (from Restart) : ${NEMO_NIT000}" |
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| 211 | IGCM_debug_Print 1 "NEMO_NITEND (from Restart + ... ) : ${NEMO_NITEND}" |
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| 212 | ##-- We force one restart file at the end of the trunk |
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| 213 | OPA_NSTOCK="${NEMO_NITEND}" |
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| 214 | OPA_NIT000="${NEMO_NIT000}" |
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| 215 | OPA_NITEND="${NEMO_NITEND}" |
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| 216 | fi |
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| 217 | |
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| 218 | typeset -r PRECIS=8 |
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| 219 | NEMO_END=$( echo $( awk "BEGIN { printf \"%0${PRECIS}d\",${OPA_NITEND} }" ) ) |
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| 220 | |
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| 221 | IGCM_comp_modifyNamelist blocker namelist_cfg cn_exp ${config_UserChoices_JobName} |
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| 222 | IGCM_comp_modifyNamelist blocker namelist_cfg nn_it000 ${OPA_NIT000} |
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| 223 | IGCM_comp_modifyNamelist blocker namelist_cfg nn_itend ${OPA_NITEND} |
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| 224 | IGCM_comp_modifyNamelist blocker namelist_cfg ln_rstart ${OPA_LRSTAR} |
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| 225 | IGCM_comp_modifyNamelist blocker namelist_cfg nn_stock ${OPA_NSTOCK} |
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| 226 | IGCM_comp_modifyNamelist blocker namelist_cfg nn_rstctl ${OPA_NRSTDT} |
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| 227 | IGCM_comp_modifyNamelist blocker namelist_cfg nn_date0 ${PeriodDateBegin} |
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| 228 | IGCM_comp_modifyNamelist nonblocker namelist_cfg nn_msh ${OPA_NMSH} |
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| 229 | IGCM_comp_modifyNamelist nonblocker namelist_cfg nn_rnf_depth_file ${OPA_NMSH} |
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| 230 | IGCM_comp_modifyNamelist blocker namelist_cfg nn_leapy ${OPA_NLEAPY} |
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| 231 | |
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| 232 | # Update iodef.xml |
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| 233 | |
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| 234 | IGCM_debug_Print 1 'Informations into iodef.xml : V1D_ENABLE V1M_ENABLE V1Y_ENABLE ' |
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| 235 | IGCM_debug_Print 1 ${V1D_ENABLE} ${V1M_ENABLE} ${V1Y_ENABLE} |
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| 236 | |
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| 237 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-opa.xml 1d enabled ${V1D_ENABLE} |
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| 238 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-opa.xml 1m enabled ${V1M_ENABLE} |
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| 239 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-opa.xml 1y enabled ${V1Y_ENABLE} |
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| 240 | |
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| 241 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-lim.xml 1d enabled ${V1D_ENABLE} |
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| 242 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-lim.xml 1m enabled ${V1M_ENABLE} |
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| 243 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-lim.xml 1y enabled ${V1Y_ENABLE} |
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| 244 | |
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| 245 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-pisces.xml 1d enabled ${V1D_ENABLE} |
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| 246 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-pisces.xml 1m enabled ${V1M_ENABLE} |
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| 247 | IGCM_comp_modifyXmlFile nonblocker file_def_nemo-pisces.xml 1y enabled ${V1Y_ENABLE} |
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| 248 | |
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| 249 | # Update reference year/month/day |
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| 250 | IGCM_date_GetYearMonthDay ${DateBegin} iyear imonth iday |
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| 251 | IGCM_comp_modifyXmlFile force context_nemo.xml ref_year NONE ${iyear} |
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| 252 | IGCM_comp_modifyXmlFile force context_nemo.xml ref_month NONE ${imonth} |
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| 253 | IGCM_comp_modifyXmlFile force context_nemo.xml ref_day NONE ${iday} |
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| 254 | |
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| 255 | # vargas/titane/MPP and switch from 1 proc to 5 procs. We need to suppres restartopa the second month, if restartopa_0000 exist |
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| 256 | # same thing for restart_trc and restart_ice_in |
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| 257 | |
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| 258 | for restartfilenemo in restartopa restart_trc restart_ice_in ; do |
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| 259 | [ -f ${restartfilenemo}.nc ] && [ -f ${restartfilenemo}_0000.nc ] && IGCM_sys_Rm -f ${restartfilenemo}.nc |
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| 260 | done |
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| 261 | |
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| 262 | # Add include of nemo context in iodef.xml |
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| 263 | # In iodef.xml add on next line after "COMPONENT CONTEXT" |
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| 264 | # <context id="nemo" src="./context_nemo.xml"/> |
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| 265 | echo '<context id="nemo" src="./context_nemo.xml"/>' > add.tmp |
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| 266 | if [ X"$( echo ${config_UserChoices_ExpType} | grep CMIP6 )" != "X" ] ; then |
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| 267 | echo '<context id="nemo" src="./ping_nemo.xml"/>' >> add.tmp |
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| 268 | echo '<context id="nemo" src="./dr2xml_opa9.xml"/>' >> add.tmp |
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| 269 | fi |
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| 270 | cp iodef.xml iodef.xml.tmp |
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| 271 | sed -e "/COMPONENT CONTEXT/r add.tmp" \ |
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| 272 | iodef.xml.tmp > iodef.xml |
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| 273 | rm iodef.xml.tmp add.tmp |
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| 274 | |
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| 275 | #Long Name as global attribute (if LongName is not empty) |
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| 276 | if [ ! "X${config_UserChoices_LongName}" = "X" ] ; then |
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| 277 | listfile=$(ls file_def_nemo*.xml) |
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| 278 | echo "<variable id=\"LongName\" type=\"string\">${config_UserChoices_LongName}</variable>" > add.tmp |
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| 279 | for file in ${listfile} |
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| 280 | do |
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| 281 | cp ${file} ${file}.tmp |
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| 282 | sed -e "/<file id/r add.tmp" \ |
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| 283 | ${file}.tmp > ${file} |
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| 284 | rm ${file}.tmp |
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| 285 | done |
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| 286 | rm add.tmp |
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| 287 | fi |
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| 288 | |
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| 289 | IGCM_debug_PopStack "OCE_Update" |
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| 290 | } |
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| 291 | |
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| 292 | #----------------------------------- |
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| 293 | function OCE_Finalize |
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| 294 | { |
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| 295 | IGCM_debug_PushStack "OCE_Finalize" |
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| 296 | |
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| 297 | IGCM_debug_Print 1 FINALIZE OCE !!! |
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| 298 | |
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| 299 | IGCM_debug_PopStack "OCE_Finalize" |
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| 300 | } |
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