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#! /usr/bin/env bash |
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|
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# $Header: /u/gcmpack/MITgcm_contrib/nesting_sannino/utils/mk_pgfile.sh,v 1.1 2010/11/28 17:59:03 jmc Exp $ |
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# $Name: $ |
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|
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#-- Get list of machines |
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# NODEFILE=/tmp/53210.1.darwin/machines |
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# NODEFILE=$1 |
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#-- On darwin cluster node (from qrsh session): |
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JOB_ID=`qstat | sed -n '3,$ p' | grep " $USER " | awk '{print $1}'` |
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NODEFILE="/tmp/$JOB_ID.1.darwin/machines" |
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echo " JOB_ID = '$JOB_ID' ; NODEFILE = '$NODEFILE'" |
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#-- |
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if [ -f $NODEFILE ]; then |
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echo 'Machine file == '$NODEFILE |
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else |
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echo 'No machine file '$NODEFILE |
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exit |
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fi |
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ml=( `cat $NODEFILE` ) |
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|
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# Set root directory for run |
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#exe_root=/scratch/jmc/nesting |
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exe_root=`pwd` |
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|
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# Settings for driver |
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exe1=${exe_root}/run_driv/mitgcmuv |
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wdir1=${exe_root}/run_driv |
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np1=4 |
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|
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# Settings for Med model config |
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exe2=${exe_root}/run_med/mitgcmuv |
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np2=40 |
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wdir2=${exe_root}/run_med |
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|
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|
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# Settings for Gib model config |
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exe3=${exe_root}/run_gib/mitgcmuv |
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np3=20 |
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wdir3=${exe_root}/run_gib |
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|
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echo "== root_dir: $exe_root" |
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echo "= driver on $np1 procs:" |
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ls -l $exe1 |
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echo " in dir: $wdir1" |
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echo "= parent on $np2 procs:" |
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ls -l $exe2 |
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echo " in dir: $wdir2" |
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echo "= child on $np3 procs:" |
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ls -l $exe3 |
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echo " in dir: $wdir3" |
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npTot=`expr $np1 + $np2 + $np3` |
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echo "== total Nb of procs = $npTot" |
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|
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# remove all rank_N links |
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rm -f pgfile; touch pgfile |
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rm -f rank_[0-9] rank_[0-9][0-9] |
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|
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# Make proc group file for run and link directories |
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i=0 |
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|
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#- Driver |
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exe=$exe1 |
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wdir=$wdir1 |
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ihi=$((${i}+${np1})) |
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echo ${ml[${i}]} 0 ${exe} >> pgfile |
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rdir=`echo $i | awk '{printf "rank_%d", $1}'` |
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echo ln -s $wdir $rdir |
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ln -s $wdir $rdir |
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i=$((${i}+1)) |
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while [ $i -lt $ihi ]; do |
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echo ${ml[${i}]} 1 ${exe} >> pgfile |
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rdir=`echo $i | awk '{printf "rank_%d", $1}'` |
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echo ln -s $wdir $rdir |
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ln -s $wdir $rdir |
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i=$((${i}+1)) |
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done |
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|
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#- MED |
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exe=${exe2} |
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wdir=$wdir2 |
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ihi=$((${i}+${np2})) |
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while [ $i -lt $ihi ]; do |
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echo ${ml[${i}]} 1 ${exe} >> pgfile |
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rdir=`echo $i | awk '{printf "rank_%d", $1}'` |
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echo ln -s $wdir $rdir |
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ln -s $wdir $rdir |
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i=$((${i}+1)) |
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done |
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|
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#- GIB |
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exe=${exe3} |
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wdir=$wdir3 |
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ihi=$((${i}+${np3})) |
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while [ $i -lt $ihi ]; do |
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echo ${ml[${i}]} 1 ${exe} >> pgfile |
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rdir=`echo $i | awk '{printf "rank_%d", $1}'` |
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echo ln -s $wdir $rdir |
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ln -s $wdir $rdir |
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i=$((${i}+1)) |
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done |
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npgfile=${i} |
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|
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source /etc/profile.d/modules.sh |
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module load mitgcm |
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echo '== command line to run:' |
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#echo ' mpirun.ch_mx -pg pgfile -np' $npgfile -wd ${wdir1} ${exe1} |
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echo ' mpirun -pg pgfile -np' $npgfile ${exe1} '>& std_outp' |
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