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jmc |
1.1 |
#!/bin/bash |
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#SBATCH -J tst_ifcMpi |
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#SBATCH -p sched_mit_hill |
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#SBATCH --mem-per-cpu 4000 |
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#SBATCH -N 2 |
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#SBATCH --tasks-per-node 4 |
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jmc |
1.6 |
#SBATCH -x node[016,030,031,073,125,198,332] |
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jmc |
1.1 |
#SBATCH -e /home/jm_c/test_engaging/output/tst_ifcMpi.stderr |
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#SBATCH -o /home/jm_c/test_engaging/output/tst_ifcMpi.stdout |
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#SBATCH --no-requeue --constraint=centos6 |
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jmc |
1.7 |
# $Header: /u/gcmpack/MITgcm_contrib/test_scripts/engaging/test_engag_ifc_mpi,v 1.6 2018/01/06 16:05:39 jmc Exp $ |
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jmc |
1.1 |
# $Name: $ |
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if test -f /etc/profile.d/modules.sh ; then |
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. /etc/profile.d/modules.sh |
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fi |
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# Note: added "ulimit -s unlimited" in file "~/.bashrc" |
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# to pass big test (the 2 fizhi-cs-* test & adjoint tests) with MPI |
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umask 0022 |
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#- to get case insensitive "ls" (and order of tested experiments) |
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export LC_ALL="en_US.UTF-8" |
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echo " running on: "`hostname` |
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dNam='engaging' |
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HERE="$HOME/test_$dNam" |
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OUTP="$HERE/output"; SavD="$HERE/send" |
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SEND="ssh eofe4 $SavD/mpack" |
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TST_DIR="/pool001/jm_c/test_$dNam" |
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jmc |
1.7 |
tmpFil="/tmp/"`basename $0`".$$" |
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cmdCVS='cvs -d :pserver:cvsanon@mitgcm.org:/u/gcmpack -q' |
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#- and which GitHub repository to use: |
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git_repo='MITgcm'; git_code='MITgcm' |
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#git_repo='altMITgcm'; #git_code='MITgcm66h' |
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jmc |
1.1 |
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jmc |
1.2 |
typ='' ; addExp='' ; skipExp='' |
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sfx='ifcMpi' |
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jmc |
1.1 |
addExp='global_oce_cs32 global_oce_llc90' |
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module add slurm |
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module add gcc |
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module add engaging/intel/2013.1.046 |
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#export MPI_INC_DIR="$MPI_HOME/include" |
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OPTFILE="../tools/build_options/linux_amd64_ifort+impi" |
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mpiCMD="mpirun -env I_MPI_DEBUG 2 -n TR_NPROC ./mitgcmuv" #- currently not used |
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jmc |
1.4 |
options="$typ -MPI 8" |
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jmc |
1.5 |
#options="-j 4 $options" |
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jmc |
1.1 |
#export OMP_NUM_THREADS=2 |
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#export KMP_SLAVE_STACK_SIZE=400m |
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#options="$options -gsl" |
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#export GSL_IEEE_MODE=double-precision,mask-underflow,mask-denormalized |
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ulimit -s unlimited |
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#- need this to get "staf" & "do_make_syntax.sh": |
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export PATH="$PATH:$HOME/bin" |
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jmc |
1.7 |
gcmDIR="MITgcm_$sfx" |
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jmc |
1.1 |
dAlt=`date +%d` ; dAlt=`expr $dAlt % 3` |
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if [ $dAlt -eq 1 ] ; then options="$options -ur4 -match 5" ; fi |
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options="$options -devel" |
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checkOut=1 ; #options="$options -do" |
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#options="$options -nc" ; checkOut=1 |
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#options="$options -q" ; checkOut=0 |
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jmc |
1.7 |
if test -d $TST_DIR ; then |
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echo "start from TST_DIR='$TST_DIR' at: "`date` |
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else |
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#if test ! -d $TST_DIR ; then mkdir $TST_DIR ; fi |
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#if test ! -d $TST_DIR ; then |
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# echo "ERROR: Can't create directory \"$TST_DIR\"" |
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# exit 1 |
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#fi |
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#echo "start in new dir TST_DIR='$TST_DIR' at: "`date` |
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echo "ERROR: missing directory \"$TST_DIR\"" |
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exit 1 |
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fi |
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cd $TST_DIR |
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pwd |
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jmc |
1.1 |
NSLOTS=$SLURM_NTASKS |
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THEDATE=`date` |
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echo '********************************************************************************' |
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echo 'Start job '$THEDATE |
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echo 'NSLOTS = '$NSLOTS |
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echo '======= NODELIST ===============================================================' |
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echo $SLURM_NODELIST |
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cat /etc/redhat-release |
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echo '======= env ====================================================================' |
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env | grep SLURM |
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echo '======= modules ================================================================' |
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module list 2>&1 |
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echo '================================================================================' |
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#- |
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MPI_MFile="${OUTP}/mf_${sfx}" #- currently not used |
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#mpiCMD="mpirun -hostfile TR_MFILE -n TR_NPROC ./mitgcmuv" |
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#- make the testreport MPI_MFILE: |
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listNODES=`echo $SLURM_NODELIST | sed -e 's/\[/ /' -e 's/\]//' -e 's/,/ /' -e 's/-/ /'` |
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# duplicate the 2 listed nodes into a 6 list file: |
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/bin/rm -f $MPI_MFile ; touch $MPI_MFile |
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for nc in `seq 1 4` ; do pfx='' |
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for nd in $listNODES ; do |
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if test "x$pfx" = x ; then pfx=$nd ; else |
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echo "${pfx}${nd}" >> $MPI_MFile |
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fi |
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done |
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done |
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#- check for disk space: relative space (99%) or absolute (10.G): |
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dsp=`df -P . | tail -1 | awk '{print $5}' | sed 's/%$//'` |
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if [ $dsp -gt 99 ] ; then |
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#dsp=`df -P . | tail -1 | awk '{print $4}'` |
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#if [ $dsp -le 100000000 ] ; then |
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echo 'Not enough space on this disk => do not run testreport.' |
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df . |
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exit |
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fi |
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if [ $checkOut -eq 1 ] ; then |
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jmc |
1.7 |
if test -e $gcmDIR/.git/config ; then |
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jmc |
1.1 |
echo "cleaning output from $gcmDIR/verification :" |
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#- remove previous output tar files and tar & remove previous output-dir |
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/bin/rm -f $gcmDIR/verification/??_${dNam}-${sfx}_????????_?.tar.gz |
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( cd $gcmDIR/verification |
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listD=`ls -1 -d ??_${dNam}-${sfx}_????????_? 2> /dev/null` |
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for dd in $listD |
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do |
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if test -d $dd ; then |
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tar -cf ${dd}".tar" $dd > /dev/null 2>&1 && gzip ${dd}".tar" && /bin/rm -rf $dd |
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jmc |
1.7 |
retVal=$? |
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if test "x$retVal" != x0 ; then |
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jmc |
1.1 |
echo "ERROR in tar+gzip prev outp-dir: $dd" |
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jmc |
1.7 |
echo " on '"`hostname`"' (return val=$retVal) but continue" |
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jmc |
1.1 |
fi |
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fi |
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done ) |
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echo "clean tst_2+2 + testreport output (+ Makefile_syntax files)" |
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( cd $gcmDIR/verification ; ../tools/do_tst_2+2 -clean ) |
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( cd $gcmDIR/verification ; ./testreport $typ -clean ) |
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( cd $gcmDIR/verification ; rm -f */build/Makefile_syntax ) |
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( cd $gcmDIR/verification ; rm -f */build/port_rand.i */build/ptracers_set_iolabel.i ) |
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jmc |
1.7 |
echo "Update MITgcm code in dir $gcmDIR :" |
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( cd $gcmDIR ; git pull ) 2>&1 |
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retVal=$? |
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if test "x$retVal" != x0 ; then |
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echo "git pull on '"`hostname`"' fail (return val=$retVal) => exit" |
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jmc |
1.1 |
exit |
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fi |
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else |
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jmc |
1.7 |
echo "no file: $gcmDIR/.git/config => try to download a fresh clone" |
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jmc |
1.1 |
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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echo -n "Removing working copy: $gcmDIR ..." |
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rm -rf $gcmDIR |
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echo " done" |
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fi |
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jmc |
1.7 |
echo -n "Make a clone of $git_code from repo: $git_repo ..." |
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git clone https://github.com/$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' ; rm -f $tmpFil |
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else |
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echo " Error: 'git clone' returned: $retVal" |
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cat $tmpFil ; rm -f $tmpFil |
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jmc |
1.1 |
exit |
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jmc |
1.7 |
fi |
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jmc |
1.1 |
if test -d $gcmDIR/verification ; then |
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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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fi |
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# -change dir to $gcmDIR/verification dir + add additional experiments: |
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if test -e $gcmDIR/verification ; then |
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if [ $checkOut -lt 2 ] ; then |
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echo " dir $gcmDIR/verification exist" ; fi |
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cd $gcmDIR/verification |
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for exp2add in $addExp ; do |
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if test -d ${exp2add}/CVS ; then |
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jmc |
1.7 |
echo " update dir: $exp2add (from Contrib:verification_other)" |
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( cd $exp2add ; $cmdCVS update -P -d ) 2>&1 |
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retVal=$? |
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if test "x$retVal" != x0 ; then |
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echo "cvs update on '"`hostname`"' fail (return val=$retVal)" |
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#exit |
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fi |
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jmc |
1.1 |
else |
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test -r $exp2add && /bin/rm -rf $exp2add |
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echo " add dir: $exp2add (from Contrib:verification_other)" |
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( $cmdCVS co -P -d $exp2add \ |
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MITgcm_contrib/verification_other/$exp2add > /dev/null ) |
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if test $exp2add = 'global_oce_cs32' ; then |
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echo " link dir 'other_input/core2_cnyf' in here" |
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( cd ${exp2add} ; ln -s ../../../other_input/core2_cnyf . ) |
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fi |
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if test $exp2add = 'global_oce_llc90' ; then |
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echo " link dir 'other_input/gael_oce_llc90_input' to 'input_fields'" |
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( cd ${exp2add} ; ln -s ../../../other_input/gael_oce_llc90_input input_fields ) |
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echo " link dirs: 'core2_cnyf' & 'global_oce_input_fields/*' in input_verifs" |
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( test ! -e ${exp2add}/input_verifs && mkdir ${exp2add}/input_verifs |
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cd ${exp2add}/input_verifs |
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ln -s ../../../../other_input/core2_cnyf . |
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ln -s ../../../../other_input/global_oce_input_fields/* . ) |
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fi |
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/usr/bin/find $exp2add -type d | xargs chmod g+rxs |
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/usr/bin/find $exp2add -type f | xargs chmod g+r |
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fi |
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done |
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else |
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echo "no dir: $gcmDIR/verification => exit" |
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exit |
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fi |
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jmc |
1.6 |
if [ $checkOut -ge 1 ] ; then |
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jmc |
1.1 |
echo '' |
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jmc |
1.5 |
#- 0) just make all module header ( *__genmod.mod files) using modified Makefile |
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jmc |
1.2 |
echo ./testreport $options -of $OPTFILE \ |
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jmc |
1.1 |
-nc -repl_mk do_make_syntax.sh -obj -dd |
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jmc |
1.2 |
./testreport $options -of $OPTFILE \ |
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jmc |
1.1 |
-nc -repl_mk do_make_syntax.sh -obj -dd |
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echo '' |
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jmc |
1.5 |
#- 1) just compile ("-nr"), using "-j 4" to speed up |
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echo ./testreport $options -of $OPTFILE \ |
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-j 4 -nr -q -odir ${dNam}-$sfx |
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./testreport $options -of $OPTFILE \ |
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-j 4 -nr -q -odir ${dNam}-$sfx |
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nFc=`grep -c '^Y . N N ' tr_out.txt` |
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echo " <= fail to compile $nFc experiments" |
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jmc |
1.6 |
fi |
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jmc |
1.5 |
|
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echo '' |
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#- 2) run and report results ; also finish to compile those who failed with "-j" |
| 236 |
jmc |
1.2 |
#echo ./testreport $options -of $OPTFILE -command \'$mpiCMD\' -mf $MPI_MFile \ |
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echo ./testreport $options -of $OPTFILE \ |
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jmc |
1.6 |
-q -odir ${dNam}-$sfx -send \'$SEND\' -sd $SavD -a jm_c@mitgcm.org |
| 239 |
jmc |
1.2 |
#./testreport $options -of $OPTFILE -command "$mpiCMD" -mf $MPI_MFile \ |
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./testreport $options -of $OPTFILE \ |
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jmc |
1.6 |
-q -odir ${dNam}-$sfx -send "$SEND" -sd $SavD -a jm_c@mitgcm.org |
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jmc |
1.1 |
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echo '' |
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jmc |
1.5 |
#- 3) test restart and report results |
| 245 |
jmc |
1.2 |
#echo ../tools/do_tst_2+2 -mpi -exe \'$mpiCMD\' -mf $MPI_MFile \ |
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echo ../tools/do_tst_2+2 -mpi \ |
| 247 |
jmc |
1.6 |
-o ${dNam}-$sfx -send \'$SEND\' -sd $SavD -a jm_c@mitgcm.org |
| 248 |
jmc |
1.2 |
#../tools/do_tst_2+2 -mpi -exe "$mpiCMD" -mf $MPI_MFile \ |
| 249 |
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../tools/do_tst_2+2 -mpi \ |
| 250 |
jmc |
1.6 |
-o ${dNam}-$sfx -send "$SEND" -sd $SavD -a jm_c@mitgcm.org |
| 251 |
jmc |
1.1 |
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