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#! /usr/bin/env bash |
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|
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# $Header: /u/gcmpack/MITgcm/tools/example_scripts/ACESgrid/aces_test_all,v 1.33 2014/05/07 16:22:24 jmc Exp $ |
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# $Name: $ |
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|
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# submit list of jobs or get list of submitted jobs |
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sub_list_jobs() |
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{ |
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# sub_list_jobs |
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# input : JOB_LIST |
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# output: NB_SUB_JOBS (+ status of jobs: M_{sfx}=submitted or skipped ) |
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|
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NB_SUB_JOBS=0 |
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for i in $JOB_LIST |
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do |
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( cd output ; test -e tst_${i}.stdout && mv -f tst_${i}.stdout tst_${i}.stdout.old ) |
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case $i in |
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'mth') sfx='ifc_'${i} ;; |
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'mp2') sfx='ifc_'${i} ;; |
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'tuv') sfx='op64_'${i} ;; |
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'tlm') sfx='op64_'${i} ;; |
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'opa') sfx='op64_adm' ;; |
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'g77') sfx=${i}'_adm' ;; |
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*) sfx=${i}'_mpi' ;; |
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esac |
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if test -f $SUB_DIR/aces_test_$sfx ; then |
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JOB="tst_"$i |
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job_exist=`$QSTAT -a | grep $USER | grep $JOB | wc -l` |
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if [ $action -eq 2 ] ; then |
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#-- to get outp back: |
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if test "x_$job_exist" = x_0 ; then |
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echo "did not find any job: $JOB" | tee -a $LOG_FIL |
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eval M_$i='skipped' |
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else |
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echo -n "found a job: $JOB" | tee -a $LOG_FIL |
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$QSTAT -a | grep $USER | grep $JOB | tee -a $LOG_FIL |
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eval M_$i='submitted' |
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NB_SUB_JOBS=`expr $NB_SUB_JOBS + 1` |
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fi |
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else |
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#-- to submit job |
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if test "x_$job_exist" = x_0 ; then |
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#-- update code if not done within submitted script |
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doUp=`grep -c '^ *checkOut=0' $SUB_DIR/aces_test_$sfx` |
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if test ! -e $TST_DIR/MITgcm_$i ; then doUp=0; fi |
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if [ $doUp -ge 1 ] ; then |
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echo "" >> $LOG_FIL |
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echo " update $TST_DIR/MITgcm_$i :" | tee -a $LOG_FIL |
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( cd $TST_DIR/MITgcm_$i |
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cvs -q -d :pserver:cvsanon@mitgcm.org:/u/gcmpack update -P -d |
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) >> $LOG_FIL 2>&1 |
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fi |
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echo -n " $JOB : " | tee -a $LOG_FIL |
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$QSUB $SUB_DIR/aces_test_$sfx | tee -a $LOG_FIL |
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eval M_$i='submitted' |
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NB_SUB_JOBS=`expr $NB_SUB_JOBS + 1` |
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else |
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echo $JOB | tee -a $LOG_FIL |
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$QSTAT -a | grep $USER | grep $JOB | tee -a $LOG_FIL |
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echo 'job already exist => skip this test' | tee -a $LOG_FIL |
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eval M_$i='skipped' |
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fi |
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fi |
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else |
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echo 'no file:' aces_test_$sfx 'to submit' | tee -a $LOG_FIL |
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eval M_$i='skipped' |
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fi |
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done |
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echo " info-sub-list: NB_SUB_JOBS='$NB_SUB_JOBS'" >> $LOG_FIL |
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} |
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|
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# retrieve output when job is finished |
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get_outp_back() |
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{ |
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# get_outp_back number_of_jobs |
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# input : JOB_LIST (+ status of jobs: M_{sfx}=submitted ) |
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# output: REJECTED (= list of fast-to-fail jobs) |
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# (+ change status of jobs to: M_{sfx}=done ) |
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|
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nbJobs=$1 |
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REJECTED= |
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minutes=0 ; freq=10 |
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fsec=`expr $freq \* 60` |
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echo "Check every $freq mn for $nbJobs test(s) to finish" | tee -a $LOG_FIL |
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echo "- start at :" `date` | tee -a $LOG_FIL |
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while test $nbJobs != 0 ; do |
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|
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sleep $fsec |
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minutes=$(( $minutes + $freq )) |
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|
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for i in $JOB_LIST ; do |
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|
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eval comm=\$M_$i |
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if test $comm = 'submitted' ; then |
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JOB="tst_"$i |
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$QSTAT -a > $TMP_FIL |
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RETVAL=$? |
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ready_to_send=`grep $USER $TMP_FIL | grep $JOB | wc -l` |
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rm -f $TMP_FIL |
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if test "x$RETVAL" != x0 ; then |
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echo " $QSTAT returned with error code: $RETVAL" | tee -a $LOG_FIL |
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continue |
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fi |
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|
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if test "x_$ready_to_send" = x_0 ; then |
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run_dir=${TST_DIR}"/MITgcm_"$i"/verification" |
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#- results output: |
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tdir=`ls -1 -t $run_dir | grep -v tr_out | grep "^tr_$outPfix" | head -1` |
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if test "x$tdir" != x ; then |
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#- check this is the right output |
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chk=`echo $tdir | grep -c $today` |
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if test $chk = '0' ; then |
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curday=`date +%Y%m%d` |
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chk=`echo $tdir | grep -c $curday` |
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fi |
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if test $chk = '0' ; then |
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echo "tdir='$tdir'" | tee -a $LOG_FIL |
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echo "Output do not match, no email sent for $i" | tee -a $LOG_FIL |
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if [ $minutes -eq $freq ] ; then |
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#- add to rejected list if it fails in less than "freq" minutes |
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REJECTED="$REJECTED $i" |
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fi |
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elif [ $action -le 4 ] ; then |
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rm -f "/tmp/tr_$outPfix-"$i".tar.gz" |
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( cd $run_dir ; tar -czf "/tmp/tr_$outPfix-"$i".tar.gz" ./$tdir ) |
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if test "x$HAVE_MPACK" = xt ; then |
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$MPACK -s MITgcm-test -m 3555000 "/tmp/tr_$outPfix-"$i".tar.gz" jmc@mitgcm.org |
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echo "Email sent for $i at: " `date` | tee -a $LOG_FIL |
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else |
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echo " no email sent for $i (no mpack)" | tee -a $LOG_FIL |
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fi |
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fi |
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else |
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echo " no output found for $i" | tee -a $LOG_FIL |
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if [ $minutes -eq $freq ] ; then |
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#- add to rejected list if it fails in less than "freq" minutes |
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REJECTED="$REJECTED $i" |
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fi |
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fi |
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#- restart output: |
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tdir=`ls -1 -t $run_dir | grep -v tr_out | grep "^rs_$outPfix" | head -1` |
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if test "x$tdir" != x ; then |
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#- check this is the right output |
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chk=`echo $tdir | grep -c $today` |
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if test $chk = '0' ; then |
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curday=`date +%Y%m%d` |
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chk=`echo $tdir | grep -c $curday` |
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fi |
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if test $chk = '0' ; then |
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echo "tdir='$tdir'" | tee -a $LOG_FIL |
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echo "Restart output do not match, no email sent for $i" | tee -a $LOG_FIL |
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elif [ $action -le 4 ] ; then |
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rm -f "/tmp/rs_$outPfix-"$i".tar.gz" |
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( cd $run_dir ; tar -czf "/tmp/rs_$outPfix-"$i".tar.gz" ./$tdir ) |
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if test "x$HAVE_MPACK" = xt ; then |
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$MPACK -s MITgcm-test -m 3555000 "/tmp/rs_$outPfix-"$i".tar.gz" jmc@mitgcm.org |
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echo "Email sent for $i restart:" `date` | tee -a $LOG_FIL |
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else |
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echo " no email sent for $i restart (no mpack)" | tee -a $LOG_FIL |
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fi |
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fi |
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else |
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echo " no restart output for $i" | tee -a $LOG_FIL |
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fi |
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#- record successful sending |
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eval M_$i=done |
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nbJobs=`expr $nbJobs - 1` |
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chmod 644 output/tst_$i.std* |
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fi |
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fi |
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done |
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|
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# "long" queue is 24hrs = 24*60min = 1440min |
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if test $minutes -gt 2160 ; then |
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hrs=$(( $minutes / 60 )); |
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echo "Time expired after $minutes minutes ($hrs hours)" | tee -a $LOG_FIL |
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echo ' ' $nbJobs '/' $NB_SUB_JOBS 'tests not yet finished' | tee -a $LOG_FIL |
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exit 1 |
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fi |
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if [ $action -eq 5 ] ; then nbJobs=0 ; fi |
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|
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done |
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|
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echo "Retrieving $NB_SUB_JOBS tests finish :" `date` | tee -a $LOG_FIL |
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echo " info-get-outp: REJECTED='$REJECTED'" >> $LOG_FIL |
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|
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} |
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|
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#---+----1----+----2----+----3----+----4----+----5----+----6----+----7-|--+----| |
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#-- Sequential part of the script starts here: |
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#--------------------------------------------- |
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|
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# action =1 : submit test jobs ; =2 : get jobs output ; =3 : do both |
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# action =4 or 5 : same as, respectively, 3 or 1 but re-submit fast failed jobs |
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case $1 in |
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'-subOnly') action=1 ; shift ;; |
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'-getOnly') action=2 ; shift ;; |
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'-sub+get') action=3 ; shift ;; |
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'-double' ) action=4 ; shift ;; |
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*) action=5 ;; |
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esac |
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#echo "action= $action , Arg= $# " |
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|
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today=`date +%Y%m%d` |
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|
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if test $# = 0 |
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then |
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TEST_LIST='opa g77 adm tlm ifc mp2 mth pgi tuv gnu' |
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else |
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TEST_LIST=$* |
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fi |
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|
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# QSUB="/usr/bin/qsub" |
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# QSTAT="/usr/bin/qstat" |
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# logPfix='tst_submit' |
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# outPfix='acesgrid' |
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# HERE="$HOME/test_$outPfix" |
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# #TST_DIR="/data/jm_c/test_$outPfix" |
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# TST_DIR="/scratch/jm_c/test_$outPfix" |
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QSUB=qsub |
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QSTAT=qstat |
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logPfix='tst_all' |
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outPfix='aces' |
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HERE="$HOME/test_$outPfix" |
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TST_DIR=$HERE |
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|
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MPACK="MITgcm_tools/mpack-1.6/mpack" |
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SUB_DIR="MITgcm_tools/example_scripts/ACESgrid" |
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TMP_FIL="$HERE/output/TTT.$$" |
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LOG_FIL="$HERE/output/$logPfix."`date +%m%d`".log" |
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|
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#-- clean up old log files and start a new one: |
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cd $HERE/output |
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|
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rm -f $logPfix.*.log_bak |
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if test -f $LOG_FIL ; then mv -f $LOG_FIL ${LOG_FIL}_bak ; fi |
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echo -n '-- Starting: ' | tee -a $LOG_FIL |
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date | tee -a $LOG_FIL |
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|
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n=$(( `ls $logPfix.*.log | wc -l` - 10 )) |
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if test $n -gt 0 ; then |
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echo ' remove old log files:' | tee -a $LOG_FIL |
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ls -lt $logPfix.*.log | tail -"$n" | tee -a $LOG_FIL |
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ls -t $logPfix.*.log | tail -"$n" | xargs rm -f |
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fi |
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|
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. /etc/profile.d/modules.sh |
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module list >> $LOG_FIL 2>&1 |
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|
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#-- now really do something: |
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cd $HERE |
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|
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JOB_LIST=$TEST_LIST |
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sub_list_jobs |
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#echo " info-main: NB_SUB_JOBS='$NB_SUB_JOBS'" >> $LOG_FIL |
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|
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if test $action = 1 ; then |
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NB_JOBS2GET=0 |
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elif test $action = 5 ; then |
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NB_JOBS2GET=$NB_SUB_JOBS |
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else |
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#date_str=`date +%Y%m%d`"_0" |
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|
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echo "" | tee -a $LOG_FIL |
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#- build the mpack utility (from build_mpack in testreport): |
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MPACKDIR=`dirname $MPACK` |
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( cd $MPACKDIR && ./configure && make ) > TTT.build_mpack.$$ 2>&1 |
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RETVAL=$? |
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if test "x$RETVAL" != x0 ; then |
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echo "Error building the mpack tools at: $MPACK_DIR" | tee -a $LOG_FIL |
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if test -x $MPACK ; then |
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HAVE_MPACK=t |
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echo " use (old ?) executable:" | tee -a $LOG_FIL |
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ls -l $MPACK | tee -a $LOG_FIL |
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else |
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HAVE_MPACK=f |
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fi |
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else |
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if test -x $MPACK ; then |
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rm -f TTT.build_mpack.$$ |
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HAVE_MPACK=t |
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echo "Building mpack: OK" | tee -a $LOG_FIL |
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else |
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echo " $MPACK not executable" | tee -a $LOG_FIL |
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HAVE_MPACK=f |
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fi |
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fi |
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echo "" >> $LOG_FIL |
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|
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NB_JOBS2GET=$NB_SUB_JOBS |
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fi |
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|
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#- when it's done, retrieve output and send e-mail |
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sleep 60 |
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get_outp_back $NB_JOBS2GET |
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#echo " info-main: REJECTED='$REJECTED'" >> $LOG_FIL |
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|
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if test "x$REJECTED" != x ; then |
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|
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if [ $action -ge 4 ] ; then |
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echo "" >> $LOG_FIL |
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echo "Try 2nd round for fast-failed jobs: '$REJECTED'" | tee -a $LOG_FIL |
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JOB_LIST=$REJECTED |
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sub_list_jobs |
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#echo " info-main: NB_SUB_JOBS='$NB_SUB_JOBS'" >> $LOG_FIL |
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fi |
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|
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if [ $action -eq 4 ] ; then |
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echo "" >> $LOG_FIL |
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get_outp_back $NB_SUB_JOBS |
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#echo " info-main: REJECTED='$REJECTED'" >> $LOG_FIL |
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fi |
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|
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fi |
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|
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#------------------------ |
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exit 0 |
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