1 | #!/bin/bash --login |
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2 | #PBS -N AMM7-hind |
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3 | #PBS -o AMM7-hind |
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4 | #PBS -l select=49 |
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5 | ##PBS -l select=8 |
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6 | #PBS -l walltime=36:00:00 |
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7 | ##PBS -l walltime=00:20:00 |
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8 | ##PBS -q short |
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9 | #PBS -q long |
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10 | #PBS -A n01-SSB |
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11 | |
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12 | # NOTE: |
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13 | # the simulation year must be passed to this pbs script at runtime |
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14 | # by defning externally the variable y0 passing it to the pbs script, |
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15 | # e.g.: |
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16 | # "qsub -v y0=1980 AnnualChainHindcast.pbs" |
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17 | # |
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18 | |
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19 | set -u |
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20 | |
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21 | echo "Submitting year" $y0 "..." |
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22 | |
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23 | ystart=1981 |
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24 | yend=2010 |
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25 | |
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26 | RUNDIR=/work/n01/n01/momme/AMM7 |
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27 | INPUTS=/work/n01/n01/momme/AMM7-INPUTS |
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28 | |
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29 | cd $RUNDIR |
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30 | |
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31 | #cleanup: |
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32 | ./annualclean.sh |
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33 | |
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34 | #link annual forcing files: |
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35 | ./setAnnualLinks.sh $y0 |
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36 | |
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37 | stopflag=0 |
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38 | |
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39 | #general time setting: |
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40 | dt=300 #time step |
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41 | nsstart=$(date -d "$ystart-01-01 00:00:00 GMT" +%s) #seconds since EPOCH for total simulation start |
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42 | |
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43 | for m0 in {1..12} #Month loop |
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44 | do |
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45 | ./monthlyclean.sh |
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46 | #Compute previous and next month: |
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47 | mp=$(( $m0 + 1 )) |
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48 | if [ $mp -eq 13 ] |
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49 | then |
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50 | mp=1 |
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51 | yp=$(( y0 + 1 )) |
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52 | else |
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53 | yp=$y0 |
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54 | fi |
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55 | mm=$(( $m0 - 1 )) |
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56 | if [ $mm -eq 0 ] |
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57 | then |
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58 | mm=12 |
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59 | ym=$(( y0 - 1 )) |
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60 | else |
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61 | ym=$y0 |
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62 | fi |
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63 | |
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64 | m0str=$(printf %02d $m0) |
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65 | mpstr=$(printf %02d $mp) |
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66 | mmstr=$(printf %02d $mm) |
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67 | |
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68 | echo "Launching" $y0 $m0 "..." |
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69 | |
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70 | ARCHIVEDIR=$RUNDIR/$y0/$m0str |
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71 | |
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72 | #restarts: |
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73 | rm -rf restart.nc restart_trc.nc restart_[0-9]???.nc restart_trc_[0-9]???.nc |
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74 | if [ $y0 -eq $ystart ] && [ $m0 -eq 1 ] |
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75 | then |
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76 | ln -sf $INPUTS/RESTARTS/restart.nc restart.nc |
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77 | ln -sf $INPUTS/RESTARTS/restart_trc.full.nc restart_trc.nc |
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78 | rst=0 |
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79 | euler=0 |
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80 | else |
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81 | if [ -s $RUNDIR/$ym/$mmstr/restart_0000.nc ] |
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82 | then |
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83 | ln -sf $RUNDIR/$ym/$mmstr/restart_????.nc . |
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84 | elif [ -s $RUNDIR/$ym/$mmstr/restart.nc ] |
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85 | then |
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86 | ln -sf $RUNDIR/$ym/$mmstr/restart.nc . |
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87 | else |
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88 | stopflag=1 |
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89 | fi |
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90 | if [ -s $RUNDIR/$ym/$mmstr/restart_trc_0000.nc ] |
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91 | then |
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92 | ln -sf $RUNDIR/$ym/$mmstr/restart_trc_????.nc . |
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93 | elif [ -s $RUNDIR/$ym/$mmstr/restart_trc.nc ] |
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94 | then |
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95 | ln -sf $RUNDIR/$ym/$mmstr/restart_trc.nc . |
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96 | else |
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97 | stopflag=1 |
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98 | fi |
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99 | rst=2 |
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100 | euler=0 |
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101 | fi |
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102 | |
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103 | #compute run-time: |
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104 | case $m0 in |
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105 | 4|6|9|11) nit=$(( 86400*30/dt )) ;; |
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106 | 2) if [ $(( y0 % 4 )) -ne 0 -o $(( y0 % 100)) -eq 0 -a $(( $y0 % 400 )) -ne 0 ]; then nit=$(( 86400*28/dt )); else nit=$(( 86400*29/dt )); fi ;; |
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107 | *) nit=$(( 86400*31/dt )) ;; |
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108 | esac |
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109 | |
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110 | #compute start iteration and end iteration: |
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111 | ns0=$(date -d "$y0-${m0str}-01 00:00:00 GMT" +%s) #seconds since EPOCH for this chunk |
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112 | n0=$(( ns0 - nsstart )) |
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113 | n0=$(( n0 / dt + 1 )) |
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114 | nend=$(( n0 + nit -1 )) |
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115 | d0=$y0${m0str}01 |
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116 | if [ $y0 -lt 1990 -o $y0 -gt 2009 ] |
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117 | then |
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118 | lclim=.true. |
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119 | else |
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120 | lclim=.false. |
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121 | fi |
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122 | cat namelist.template \ |
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123 | | sed "s,__DATE0__,$d0,g" \ |
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124 | | sed "s,__RST__,$rst,g" \ |
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125 | | sed "s,__N0__,$n0,g" \ |
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126 | | sed "s,__NEND__,$nend,g" \ |
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127 | | sed "s,__LCLIM__,$lclim,g" \ |
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128 | | sed "s,__EULER__,$euler,g" \ |
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129 | > namelist_cfg |
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130 | cat namelist_top.template \ |
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131 | | sed "s,__RST__,$rst,g" \ |
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132 | > namelist_top_cfg |
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133 | |
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134 | if [ $stopflag -ne 0 ] |
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135 | then |
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136 | echo "Not ready to launch. Forced exit." |
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137 | exit |
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138 | fi |
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139 | |
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140 | echo "Launching $y0 $m0 at $(date +%s) seconds since 1970-01-01 00:00:00" |
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141 | |
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142 | aprun -b -n 1 -N 1 -S 1 ./xios_server.exe : -n 2304 -N 24 ./nemo.exe |
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143 | #aprun -n 192 -N 24 ./nemo.exe |
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144 | |
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145 | echo "Finished $y0 $m0 at $(date +%s) seconds since 1970-01-01 00:00:00" |
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146 | |
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147 | #prepare archive directory |
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148 | mkdir -p $ARCHIVEDIR |
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149 | #prepare restart files: |
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150 | for file in amm7_*${nend}_restart_????.nc |
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151 | do |
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152 | fn=${file: -7:4} #file number |
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153 | mv $file $ARCHIVEDIR/restart_$fn.nc |
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154 | done |
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155 | for file in amm7_*${nend}_restart_trc_????.nc |
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156 | do |
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157 | fn=${file: -7:4} #file number |
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158 | mv $file $ARCHIVEDIR/restart_trc_$fn.nc |
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159 | done |
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160 | |
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161 | #move outputs: |
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162 | mv amm7_1d_${d0}_[1-2]???????_*.nc $ARCHIVEDIR |
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163 | mv amm7_1m_${d0}_[1-2]???????_ptrc_T.nc $ARCHIVEDIR |
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164 | mv amm7_1m_${d0}_[1-2]???????_grid_?.nc $ARCHIVEDIR |
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165 | bzip2 ocean.output && mv -f ocean.output.bz2 $ARCHIVEDIR |
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166 | mv -f time.step $ARCHIVEDIR |
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167 | |
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168 | #archive: |
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169 | fname=$y0/$m0str |
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170 | echo "Archiving in $fname ..." |
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171 | qsub -v folder=$fname archiveFolder.pbs |
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172 | |
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173 | done #end of month loop |
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174 | |
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175 | yp=$(( y0 + 1 )) |
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176 | |
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177 | #resubmit: |
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178 | if [ $yp -le $yend ] |
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179 | then |
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180 | echo 'Submitting' $yp '...' |
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181 | qsub -v y0=$yp AnnualChainHindcast.pbs |
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182 | echo "Done." |
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183 | else |
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184 | echo "All done." |
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185 | fi |
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