1 | #!/bin/bash --login |
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2 | #PBS -N AMM7-v1-4 |
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3 | #PBS -l select=65 |
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4 | #PBS -l walltime=48:00:00 |
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5 | #PBS -q long |
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6 | ##PBS -l select=8 |
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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 -A n01-PML |
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10 | |
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11 | # NOTE: |
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12 | # the simulation year must be passed to this pbs script at runtime |
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13 | # by defning externally the variable y0 passing it to the pbs script, |
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14 | # e.g.: |
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15 | # "qsub -v y0=1981 MultipleYearHindcast.pbs" |
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16 | # |
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17 | |
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18 | set -u |
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19 | |
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20 | NNODES=64 |
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21 | #NNODES=8 |
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22 | NCORES=$(( NNODES*24 )) |
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23 | |
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24 | echo "Submitting year" $y0 "..." |
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25 | |
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26 | ystart=1981 |
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27 | yend=2015 |
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28 | |
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29 | RUNDIR=/work/n01/n01/momme/AMM7-v1 |
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30 | INPUTS=/work/n01/n01/momme/AMM7-INPUTS |
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31 | |
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32 | cd $RUNDIR |
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33 | |
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34 | echo $PBS_JOBID $y0 $m0 "MultiYear chain" >> jobs.log |
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35 | echo "Submitting year" $y0 "..." |
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36 | |
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37 | stopflag=0 |
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38 | |
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39 | #general time setting: |
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40 | dt=300 #time step |
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41 | nsstart=$(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 iy in {1..3} #annual increment |
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44 | do |
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45 | if [ $y0 -le $yend ] |
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46 | then |
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47 | |
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48 | |
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49 | #cleanup: |
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50 | ./annualclean.sh |
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51 | |
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52 | #link annual forcing files: |
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53 | ./setAnnualLinks.sh $y0 |
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54 | |
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55 | for m0 in {1..12} #Month loop |
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56 | do |
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57 | echo "Preparing $y0 $m0 ..." |
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58 | ./monthlyclean.sh |
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59 | #Compute previous and next month: |
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60 | mp=$(( $m0 + 1 )) |
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61 | if [ $mp -eq 13 ] |
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62 | then |
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63 | mp=1 |
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64 | yp=$(( y0 + 1 )) |
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65 | else |
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66 | yp=$y0 |
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67 | fi |
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68 | mm=$(( $m0 - 1 )) |
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69 | if [ $mm -eq 0 ] |
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70 | then |
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71 | mm=12 |
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72 | ym=$(( y0 - 1 )) |
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73 | else |
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74 | ym=$y0 |
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75 | fi |
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76 | |
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77 | m0str=$(printf %02d $m0) |
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78 | mpstr=$(printf %02d $mp) |
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79 | mmstr=$(printf %02d $mm) |
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80 | |
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81 | |
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82 | ARCHIVEDIR=$RUNDIR/$y0/$m0str |
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83 | |
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84 | #restarts: |
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85 | rm -rf restart.nc restart_trc.nc restart_[0-9]???.nc restart_trc_[0-9]???.nc |
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86 | if [ $y0 -eq $ystart ] && [ $m0 -eq 1 ] |
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87 | then |
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88 | ln -sf $INPUTS/RESTARTS/restart.nc restart.nc |
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89 | ln -sf $INPUTS/RESTARTS/restart_trc.v1.nc restart_trc.nc |
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90 | rst=0 |
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91 | euler=0 |
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92 | else |
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93 | if [ -s $RUNDIR/$ym/$mmstr/restart_0000.nc ] |
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94 | then |
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95 | ln -sf $RUNDIR/$ym/$mmstr/restart_????.nc . |
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96 | elif [ -s $RUNDIR/$ym/$mmstr/restart.nc ] |
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97 | then |
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98 | ln -sf $RUNDIR/$ym/$mmstr/restart.nc . |
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99 | else |
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100 | stopflag=1 |
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101 | fi |
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102 | if [ -s $RUNDIR/$ym/$mmstr/restart_trc_0000.nc ] |
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103 | then |
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104 | ln -sf $RUNDIR/$ym/$mmstr/restart_trc_????.nc . |
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105 | elif [ -s $RUNDIR/$ym/$mmstr/restart_trc.nc ] |
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106 | then |
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107 | ln -sf $RUNDIR/$ym/$mmstr/restart_trc.nc . |
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108 | else |
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109 | stopflag=1 |
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110 | fi |
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111 | rst=2 |
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112 | euler=0 |
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113 | fi |
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114 | |
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115 | #compute run-time: |
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116 | case $m0 in |
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117 | 4|6|9|11) nit=$(( 86400*30/dt )) ;; |
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118 | 2) if [ $(( y0 % 4 )) -ne 0 -o $(( y0 % 100)) -eq 0 -a $(( $y0 % 400 )) -ne 0 ]; then nit=$(( 86400*28/dt )); else nit=$(( 86400*29/dt )); fi ;; |
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119 | *) nit=$(( 86400*31/dt )) ;; |
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120 | esac |
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121 | |
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122 | #compute start iteration and end iteration: |
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123 | ns0=$(date -d "$y0-${m0str}-01 00:00:00 GMT" +%s) #seconds since EPOCH for this chunk |
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124 | n0=$(( ns0 - nsstart )) |
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125 | n0=$(( n0 / dt + 1 )) |
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126 | nend=$(( n0 + nit -1 )) |
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127 | d0=$y0${m0str}01 |
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128 | if [ $y0 -lt 1990 -o $y0 -gt 2009 ] |
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129 | then |
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130 | lclim=.true. |
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131 | else |
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132 | lclim=.false. |
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133 | fi |
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134 | cat namelist.template \ |
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135 | | sed "s,__DATE0__,$d0,g" \ |
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136 | | sed "s,__RST__,$rst,g" \ |
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137 | | sed "s,__N0__,$n0,g" \ |
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138 | | sed "s,__NEND__,$nend,g" \ |
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139 | | sed "s,__LCLIM__,$lclim,g" \ |
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140 | | sed "s,__EULER__,$euler,g" \ |
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141 | > namelist_cfg |
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142 | cat namelist_top.template \ |
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143 | | sed "s,__RST__,$rst,g" \ |
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144 | > namelist_top_cfg |
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145 | |
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146 | if [ $stopflag -ne 0 ] |
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147 | then |
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148 | echo "Not ready to launch. Forced exit." |
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149 | exit |
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150 | fi |
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151 | |
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152 | echo "Launching $y0 $m0 at $(date +%s) seconds since 1970-01-01 00:00:00 on $NCORES cores" |
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153 | |
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154 | aprun -b -n 1 -N 1 -S 1 ./xios_server.exe : -n $NCORES -N 24 ./nemo.exe |
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155 | #aprun -n 192 -N 24 ./nemo.exe |
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156 | |
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157 | echo "Finished $y0 $m0 at $(date +%s) seconds since 1970-01-01 00:00:00" |
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158 | |
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159 | #prepare archive directory |
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160 | mkdir -p $ARCHIVEDIR |
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161 | #prepare restart files: |
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162 | for file in amm7_*${nend}_restart_????.nc |
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163 | do |
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164 | fn=${file: -7:4} #file number |
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165 | mv $file $ARCHIVEDIR/restart_$fn.nc |
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166 | done |
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167 | for file in amm7_*${nend}_restart_trc_????.nc |
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168 | do |
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169 | fn=${file: -7:4} #file number |
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170 | mv $file $ARCHIVEDIR/restart_trc_$fn.nc |
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171 | done |
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172 | |
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173 | #move outputs: |
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174 | mv amm7_1d_${d0}_[1-2]???????_*.nc $ARCHIVEDIR |
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175 | mv amm7_1m_${d0}_[1-2]???????_ptrc_T.nc $ARCHIVEDIR |
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176 | mv amm7_1m_${d0}_[1-2]???????_grid_?.nc $ARCHIVEDIR |
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177 | bzip2 ocean.output && mv -f ocean.output.bz2 $ARCHIVEDIR |
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178 | mv -f time.step $ARCHIVEDIR |
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179 | |
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180 | #archive: |
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181 | fname=$y0/$m0str |
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182 | echo "Archiving in $fname ..." |
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183 | qsub -v folder=$fname archiveFolder.pbs |
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184 | |
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185 | done #end of month loop |
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186 | fi |
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187 | y0=$(( y0+1 )) |
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188 | done #end of annual loop |
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189 | |
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190 | |
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191 | #resubmit: |
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192 | if [ $y0 -le $yend ] |
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193 | then |
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194 | echo 'Submitting' $y0 '...' |
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195 | qsub -v y0=$yp MultipleYearHindcast.pbs |
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196 | echo "Done." |
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197 | else |
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198 | echo "All done." |
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199 | fi |
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