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mlosch |
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#!/bin/bash -e |
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# new script for running testreport on ollie.awi.de |
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# - split the testreport into 2 steps: |
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# 1/ compiling on head node, with -norun option |
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# 2/ running on compute node (using SBATCH), with -runonly option |
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#$Header: $ |
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#$Name: $ |
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# needed for cron-job |
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source /usr/Modules/3.2.10/init/bash |
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source /etc/profile.d/cray_pe.sh |
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source /etc/profile.d/AWI.sh |
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# |
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module purge |
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module load slurm |
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module load intel.compiler |
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module load intel.mpi |
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module load netcdf/4.4.0_intel |
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export LD_LIBRARY_PATH=${CRAY_LD_LIBRARY_PATH}:${LD_LIBRARY_PATH}: |
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export MPI_ROOT=$(dirname $(dirname `which mpiifort`)) |
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export MPI_INC_DIR=${MPI_ROOT}/include64 |
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dNam='ollie' |
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TST_DIR="/work/ollie/mlosch/test_$dNam" |
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echo "start from TST_DIR='$TST_DIR' at: "`date` |
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umask 0022 |
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sfx='ifort' |
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RUNIT="runit_"$sfx |
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OPTFILE=../tools/build_options/linux_ia64_ifort_ollie |
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options="-MPI 6" |
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options="$options -odir $dNam" |
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options="$options -devel" |
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#options="$options -j 2" |
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options="$options -j 6" |
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#options="$options -t global_ocean.90x40x15" |
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EXE='mpiexec.hydra -bootstrap slurm -n TR_NPROC ./mitgcmuv' |
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#EXE='srun --mpi=pmi2 -n TR_NPROC ./mitgcmuv' |
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if [ -e $TST_DIR ]; then |
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echo "$TST_DIR exists" |
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else |
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mkdir $TST_DIR |
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fi |
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cd $TST_DIR |
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HERE=$TST_DIR/output |
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if [ -e $HERE ]; then |
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echo "$HERE" |
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else |
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mkdir $HERE |
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fi |
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OUTFILE=$HERE/testreport.out |
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MYOUTPUT=$HERE/out_$sfx |
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if [ -e $MYOUTPUT ]; then |
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rm -rf $MYOUTPUT |
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fi |
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if [ -e $OUTFILE ]; then |
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rm -r $OUTFILE |
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fi |
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gcmDIR="MITgcm_$sfx" |
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#gcmDIR="MITgcm" |
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checkOut=1 |
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if [ $checkOut -eq 1 ] ; then |
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if test -d $gcmDIR/CVS ; then |
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/bin/rm -rf $gcmDIR/verification/??_${dNam}_????????_? |
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( cd $gcmDIR/verification ; ../tools/do_tst_2+2 -clean ) |
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echo "cvs update of dir $gcmDIR :" |
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( cd $gcmDIR ; cvs -q -d :pserver:cvsanon@mitgcm.org:/u/gcmpack update -P -d ) 2>&1 |
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RETVAL=$? |
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if test "x$RETVAL" != x0 ; then |
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echo "cvs update on '"`hostname`"' failed (return val=$RETVAL) => exit" |
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exit |
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fi |
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else |
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echo "no dir: $gcmDIR/CVS => try a fresh check-out" |
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checkOut=2 |
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fi |
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fi |
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if [ $checkOut -eq 2 ] ; then |
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if test -e $gcmDIR ; then |
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rm -rf $gcmDIR |
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fi |
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# cvs co MITgcm |
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cvs -d :pserver:cvsanon@mitgcm.org:/u/gcmpack co -P -d $gcmDIR MITgcm > /dev/null 2>&1 |
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/usr/bin/find $gcmDIR -type d | xargs chmod g+rxs |
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/usr/bin/find $gcmDIR -type f | xargs chmod g+r |
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fi |
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cd ${gcmDIR}/verification |
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runtestreport="./testreport $options -of $OPTFILE -command \"${EXE}\"" |
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if [ ! -e $MYOUTPUT ] |
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then |
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touch $MYOUTPUT |
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fi |
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echo "running testreport like this:" |
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echo ${runtestreport} -norun |
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eval "${runtestreport} -norun >> $MYOUTPUT 2>&1" |
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# create batch script |
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# |
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JOBNAME=tstoll |
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echo "creating batch script $HERE/$RUNIT" |
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cat << EOF >| $HERE/$RUNIT |
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#!/bin/bash -x |
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#SBATCH --job-name=${JOBNAME} |
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#SBATCH -o ${OUTFILE} |
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#SBATCH --time=3:00:00 |
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#SBATCH --ntasks=6 |
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#SBATCH -p smp |
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#SBATCH --qos=short |
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ulimit -s 1048576 |
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cd \${SLURM_SUBMIT_DIR} |
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echo "running testreport like this:" |
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echo "${runtestreport} -runonly" |
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#${runtestreport} -runonly -match 10 -a 'Martin.Losch@awi.de' >> $MYOUTPUT |
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${runtestreport} -runonly -match 10 -a 'jmc@mitcm.org' >> $MYOUTPUT |
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EOF |
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chmod a+x $HERE/$RUNIT |
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echo " " >> $MYOUTPUT |
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echo "***********************************************************" >> $MYOUTPUT |
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echo "Submitting this job script:" >> $MYOUTPUT |
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echo "***********************************************************" >> $MYOUTPUT |
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cat $HERE/$RUNIT >> $MYOUTPUT |
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echo "***********************************************************" >> $MYOUTPUT |
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echo "end of job script" >> $MYOUTPUT |
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echo "***********************************************************" >> $MYOUTPUT |
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echo " " >> $MYOUTPUT |
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sbatch $HERE/$RUNIT |
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# keep looking for the job in the job queues and wait until has disappeared |
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jobruns=somedummy |
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while [ "${jobruns}"x != x ] |
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do |
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sleep 20 |
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jobruns=`squeue --noheader -u mlosch | grep "$JOBNAME" | awk '{print $1}'` |
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echo "waiting for job ${jobruns%% *} ($JOBNAME) to complete" |
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currentexp=`grep Experiment $MYOUTPUT | tail -1` |
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echo "currently running $currentexp" |
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done |
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# # after running the experiments send email to jmc (cannot be done from |
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# # the compute node, yet) |
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# MPACKCMD=../tools/mpack-1.6/mpack |
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# fn=`ls -dtr tr_ollie* | grep -v tar.gz | tail -1` |
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# echo "fn $fn" |
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# tar cf - $fn | gzip > "${fn}.tar.gz" |
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# ../tools/mpack-1.6/mpack -s MITgcm-test -m 3555000 ${fn}.tar.gz mlosch@awi.de |
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# sleep 2 |
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# \rm -f ${fn}.tar.gz |
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# ../tools/mpack-1.6/mpack -s MITgcm-test -m 3555000 ${fn}.tar.gz jmc@mitgcm.org |
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# after running the experiments on the compute node run testreport |
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# for a third time to evaluate results on the head node again |
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# echo " " >> $MYOUTPUT |
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# echo "now run testreport for a final time to evaluate results:" >> $MYOUTPUT |
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# echo "$RUNTESTREPORT -match 10 -runonly" >> $MYOUTPUT |
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# #$RUNTESTREPORT -match 10 -runonly >> $MYOUTPUT 2>&1 |
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# $RUNTESTREPORT -match 10 -runonly \ |
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# -a "jmc@mitgcm.org" >> $MYOUTPUT 2>&1 |
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# # -a "jmc@mitgcm.org, Martin.Losch@awi.de" >> $MYOUTPUT 2>&1 |
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# workaround for mailing the stuff |
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echo "mail the stuff" |
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# 1. set name of remote host where to do the mpack command |
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# 2. pack directory into an archive an compress it |
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# 3. copy gzipped archive to remote host |
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# 4. on the remote host execute the mpack command, that send the email |
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# 5. wait a little, just to be sure everything is done |
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# 6. remove archives |
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MPACKCMD=\${HOME}/bin/mpack |
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rmhost=rayl4.awi.de |
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pwd |
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fn=`ls -dtr tr_ollie* | grep -v tar.gz | tail -1` |
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echo "fname ${fn}" |
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tar cf - $fn | gzip > "${fn}.tar.gz" |
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eval "scp ${fn}.tar.gz ${rmhost}:" |
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#ssh -Y $rmhost "$MPACKCMD -s MITgcm-test -m 3555000 ${fn}.tar.gz mlosch@awi.de" |
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ssh -Y $rmhost "$MPACKCMD -s MITgcm-test -m 3555000 ${fn}.tar.gz jmc@mitgcm.org" |
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sleep 2 |
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ssh -Y $rmhost "rm -f ${fn}.tar.gz" |
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rm -rf "${fn}.tar.gz" |
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# end workaround for mailing the stuff |
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echo "end of mitgcmtestreport" |
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