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#!/bin/bash |
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# new script for running testreport on stan1.awi.de |
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# - split the testreport into 3 steps: |
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# 1/ compiling on head node (tx7.awi.de), with -norun option |
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# 2/ running on compute node (using PBS qsub), with -runonly option |
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# 3/ evaluating result on head node with -runonly option |
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# |
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# Notes: |
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# - step 2 leads to many error messages, because the OS on the compute |
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# nodes does not have the appropriate shell tools, modifying the |
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# runonly option to skip the evalution step would be nice but not |
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# necessary; you'll just have to live with the error messages |
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# - step 3 assumes that all experiments have been run successfully, i.e. |
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# that the output files are up-to-date. |
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# if not, testreport will try to run the sx ace-code on the tx7 frontend |
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# which will fail inevitably and produce more errors, maybe we can |
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# have a flag that skips everything but the evaluation step to avoid this |
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# $Header: /u/gcmpack/MITgcm_contrib/test_scripts/sxace/mitgcmtestreport,v 1.4 2018/02/08 15:50:19 mlosch Exp $ |
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# $Name: $ |
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|
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# for some reason the module command is not available in a bash script on |
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# this computer so we have to create it here |
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#module () { eval `/usr/bin/modulecmd bash $*` ; } |
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# alternatively we can source this script that contains all relevant |
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# definitions |
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source /usr/share/Modules/init/bash |
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#module use --append /sx8/user2/awisoft/modulefiles |
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# load latest compilers: |
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#module load sxf90/460 |
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#module load sxc++/094 |
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module load sxf90 |
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module load sxc++ |
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module load sxmpi |
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module load sxnetcdf |
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# |
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# make sure that we have qsub and qstat |
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#export PATH=${PATH}:/usr/bin/nqsII |
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source /etc/profile.d/nec.sh |
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# |
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VENDOR=sxf90 |
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RUNIT="runit_"$VENDOR |
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HERE=`pwd` |
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EXE='mpirun -np TR_NPROC ./mitgcmuv' |
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NPROCS=2 |
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MPI="-MPI $NPROCS" |
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OUTFILE=$HOME/out_${VENDOR} |
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MYOUTPUT=$HOME/testreport_${VENDOR} |
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OUTFILE=out_${VENDOR} |
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JOBNAME=test_ace |
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JOBSCRIPT=job_${VENDOR} |
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selectexperiment='-t exp2' |
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selectexperiment='' |
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# download code into this directory |
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TDIR=/ace/user/mlosch/tmp_$VENDOR |
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gcmDIR=MITgcm |
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git_repo='MITgcm' |
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git_code='MITgcm' |
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|
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OPTFILE=../tools/build_options/SUPER-UX_SX-ACE_sxf90_awi |
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#OPTFILE=/home/ace/mlosch/MITgcm/tools/build_options/SUPER-UX_SX-ACE_sxf90_awi |
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|
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RUNTESTREPORT="./testreport $MPI -of=${OPTFILE} $selectexperiment -small_f" |
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# |
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# create batch script |
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# |
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cat << EOF > $HERE/$JOBSCRIPT |
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#PBS -q ace-r # job queue |
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#PBS -N $JOBNAME # give the job a name |
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#PBS -l cpunum_job=$NPROCS # cpus per node |
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#PBS -l elapstim_req=2:00:00 |
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#PBS -l cputim_job=2:00:00 # time limit |
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#PBS -l memsz_job=32gb # max accumulated memory, we need this much because of many netcdf files |
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#PBS -j o # join i/o |
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#PBS -S /bin/sh |
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#PBS -o $OUTFILE # o Where to write output |
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# |
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|
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cd \${PBS_O_WORKDIR} |
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$RUNTESTREPORT -runonly -command "$EXE" >> $MYOUTPUT 2>&1 |
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|
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EOF |
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|
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# clean up old testreport output |
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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 $OUTFILE |
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fi |
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|
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# checkOut determines how much checking out is being done |
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# checkOut = 3: new clone from GitHub and make a new copy |
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# checkOut = 2: update (git pull) existing repo and make a new copy |
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# checkOut = 1: skip update |
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# checkOut = 0: use existing test code (if available otherwise switch to 1) |
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|
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checkOut=2 |
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|
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gitcmd=$HOME/git/git |
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tmpFil=$TDIR/error.out |
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if [ $checkOut -le 1 ] ; then |
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if test -e $TDIR/${gcmDIR}/doc ; then |
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echo $TDIR/${gcmDIR}/doc 'exist' |
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else |
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echo -n $TDIR/${gcmDIR} 'missing ; ' |
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checkOut=2 |
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echo "will make a new copy ( checkOut=$checkOut )" |
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fi |
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fi |
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|
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if [ $checkOut -ge 2 ] ; then |
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#---- cleaning: |
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cd $TDIR |
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|
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#---- Make a new clone or update existing one: |
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if test -e ${gcmDIR}/.git/config ; then |
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echo "${gcmDIR}/.git/config exist" |
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else |
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echo -n "${gcmDIR}/.git/config 'missing, " |
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checkOut=3 |
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echo "will get new clone ( checkOut=$checkOut )" |
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fi |
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if [ $checkOut -eq 3 ] ; then |
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echo -n "Removing old clone: $TDIR/${gcmDIR} ..." |
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test -e $TDIR/${gcmDIR} && rm -rf $TDIR/${gcmDIR} |
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echo " done" |
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echo -n "Make a new clone of $git_code from repo: $git_repo ..." |
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${gitcmd} clone https://github.com/$git_repo/${git_code}.git ${gcmDIR} 2> $tmpFil |
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retVal=$? |
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if test $retVal = 0 ; then |
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echo ' --> done!' |
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rm -f $tmpFil |
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else |
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echo " Error: 'git clone' returned: $retVal" |
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cat $tmpFil |
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rm -f $tmpFil |
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exit 2 |
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fi |
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else |
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echo "Updating current clone ( $git_code ) ..." |
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( cd ${gcmDIR}; ${gitcmd} checkout master ; ${gitcmd} pull ) |
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retVal=$? |
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if test $retVal = 0 ; then |
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echo ' --> done!' |
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else |
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echo " Error: 'git pull' returned: $retVal" |
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echo " Error: 'git pull' returned: $retVal" \ |
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| mail -s "Git-error on Stan" Martin.Losch@awi.de |
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exit 2 |
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fi |
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fi |
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else |
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cd $TDIR |
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fi |
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|
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cd $TDIR/MITgcm/verification |
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|
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# make sure that we do not use the cross compiler for testreport |
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unset CC |
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# make sure that do use the cross compiler for testreport |
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#export CC=sxcc |
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|
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$RUNTESTREPORT -j 8 -norun > $MYOUTPUT 2>&1 |
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|
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if [ "$?" != "0" ] |
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then |
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echo "something wrong with testreport" |
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echo "keeping the working directory" |
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#else |
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# echo "check restarts" |
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# echo ../tools/do_tst_2+2 -mpi -exe \"$HERE/$RUNIT\" -a NONE |
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# ../tools/do_tst_2+2 -mpi -exe $HERE/$RUNIT -a NONE |
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# everything OK: delete working directory |
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# rm -rf $TDIR |
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fi |
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|
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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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|
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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 $HERE/$JOBSCRIPT >> $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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|
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# now submit the job that actually runs all the experiments in one go |
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echo "qsub $HERE/$JOBSCRIPT" |
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qsub $HERE/$JOBSCRIPT |
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# keep looking for the job in the job queues and wait until has disappeared |
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jobruns=`qstat -n -u mlosch | grep "$JOBNAME"` |
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while [ "${jobruns}"x != x ] |
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do |
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sleep 200 |
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jobruns=`qstat -n -u mlosch | grep "$JOBNAME"` |
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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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|
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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 "jm_c@mitgcm.org" >> $MYOUTPUT 2>&1 |
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# -a "jm_c@mitgcm.org, Martin.Losch@awi.de" >> $MYOUTPUT 2>&1 |
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|
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echo "end of mitgcmtestreport" |
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