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jmc |
1.1 |
#!/bin/bash |
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#SBATCH -J pgiMth_tst |
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#SBATCH -p fdr |
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jmc |
1.4 |
#SBATCH -t 18:00:00 |
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jmc |
1.1 |
#SBATCH --mem-per-cpu 4000 |
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#SBATCH -N 1 |
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#SBATCH --tasks-per-node 3 |
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jmc |
1.8 |
#SBATCH -x curly,larry,moe,shemp |
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jmc |
1.1 |
#SBATCH -e /home/jm_c/test_svante/output/pgiMth_tst.stderr |
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#SBATCH -o /home/jm_c/test_svante/output/pgiMth_tst.stdout |
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#SBATCH --no-requeue |
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jmc |
1.9 |
# $Header: /u/gcmpack/MITgcm_contrib/test_scripts/svante/test_svante_pgi_mth,v 1.8 2018/06/12 21:42:22 jmc Exp $ |
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jmc |
1.1 |
# $Name: $ |
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if test -f /etc/profile.d/modules.sh ; then . /etc/profile.d/modules.sh ; fi |
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if test -f /etc/profile.d/zz_modules.sh ; then . /etc/profile.d/zz_modules.sh ; 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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headNode='svante-login' |
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dNam='svante' |
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HERE="$HOME/test_${dNam}" |
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OUTP="$HERE/output"; SavD="$HERE/send" |
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SEND="ssh $headNode $SavD/mpack" |
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jmc |
1.7 |
#TST_DISK="/net/fs09/d1/jm_c" |
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TST_DISK="/scratch/jm_c" |
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jmc |
1.1 |
TST_DIR="$TST_DISK/test_${dNam}" |
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jmc |
1.6 |
#- where local copy of code is (need to be consistent with "test_submit_svante"): |
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jmc |
1.7 |
#srcDIR='.' |
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srcDIR=$HERE |
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jmc |
1.6 |
srcCode="MITgcm_today" |
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jmc |
1.9 |
#- following lines are not used here: |
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cmdCVS='cvs -d :pserver:cvsanon@mitgcm.org:/u/gcmpack -q' |
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#- which GitHub repository to use and how to access it: |
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git_repo='MITgcm'; git_code='MITgcm' ; git_other='verification_other' |
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#git_repo='altMITgcm'; #git_code='MITgcm66h' |
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#-- |
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git_repo="https://github.com/$git_repo" |
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#git_repo="git://github.com/$git_repo" |
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#git_repo="git@github.com:$git_repo" |
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jmc |
1.1 |
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jmc |
1.2 |
typ='' ; addExp='' ; skipExp='' |
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sfx='pgiMth' |
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skipExp='internal_wave tutorial_advection_in_gyre' |
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jmc |
1.1 |
module add pgi/16.9 |
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#module add openmpi |
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module add netcdf |
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OPTFILE="../tools/build_options/linux_amd64_pgf77" |
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#- needed for DIVA with MPI: |
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#export MPI_INC_DIR="/home/software/pgi/16.9/linux86-64/2016/mpi/openmpi-1.10.2/include" |
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options="$typ -mth" |
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export OMP_NUM_THREADS=2 |
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export OMP_STACKSIZE=400m |
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#- need this to get "staf": |
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#export PATH="$PATH:$HOME/bin" |
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jmc |
1.9 |
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 -fast" |
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else options="$options -devel" ; fi |
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checkOut=2 ; #options="$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 |
1.9 |
echo "cd $TST_DISK ; pwd (x2)" |
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cd $TST_DISK |
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pwd |
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if test ! -d $TST_DIR ; then |
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echo -n "Creating a working dir: $TST_DIR ..." |
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#/bin/rm -rf $TST_DIR |
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mkdir $TST_DIR |
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retVal=$? |
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if test "x$retVal" != x0 ; then |
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echo "Error: unable to make dir: $TST_DIR (err=$retVal ) --> Exit" |
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exit 1 |
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fi |
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fi |
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echo "start from TST_DIR='$TST_DIR' at: "`date` |
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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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#- 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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jmc |
1.9 |
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jmc |
1.1 |
if [ $checkOut -eq 1 ] ; then |
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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 $dd |
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jmc |
1.6 |
retVal=$? |
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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: $dd" |
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jmc |
1.6 |
echo " on '"`hostname`"' (return val=$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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jmc |
1.9 |
echo "clean tst_2+2 + testreport output" |
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jmc |
1.1 |
( cd $gcmDIR/verification ; ../tools/do_tst_2+2 -clean ) |
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( cd $gcmDIR/verification ; ./testreport $typ -clean ) |
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jmc |
1.9 |
if test "x$addExp" != x ; then |
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( cd $gcmDIR/verification |
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listD=`ls -o | grep '^l' | awk '{print $8}' 2> /dev/null` |
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echo " + remove local links: $listD" |
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/bin/rm -f $listD |
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) |
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fi |
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echo "Update $git_code code in dir $gcmDIR :" |
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( cd $gcmDIR ; git pull ) 2>&1 |
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jmc |
1.6 |
retVal=$? |
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if test "x$retVal" != x0 ; then |
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jmc |
1.9 |
echo "git pull on '"`hostname`"' fail (return val=$retVal) => exit" |
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jmc |
1.1 |
exit |
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fi |
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jmc |
1.9 |
echo " and checkout master:" |
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( cd $gcmDIR ; git checkout master -- . ) 2>&1 |
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if test "x$addExp" != x ; then |
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echo "Update $git_other code in dir $gcmDIR/$git_other :" |
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( cd $gcmDIR/$git_other ; 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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exit |
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fi |
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echo " and checkout master:" |
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( cd $gcmDIR/$git_other ; git checkout master -- . ) 2>&1 |
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jmc |
1.1 |
fi |
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fi |
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jmc |
1.9 |
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jmc |
1.1 |
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 $gcmDIR |
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echo " done" |
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fi |
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jmc |
1.9 |
# make a local copy (instead of making a new clone): |
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jmc |
1.1 |
today=`date +%Y%m%d` |
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jmc |
1.6 |
nCount=0; updFile="${srcDIR}/updated_code" |
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jmc |
1.1 |
updDate=0 ; test -f $updFile && updDate=`cat $updFile` |
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while [ $today -gt $updDate ] ; do |
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nCount=`expr $nCount + 1` |
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if [ $nCount -gt 40 ] ; then |
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echo " waiting too long (nCount=$nCount) for updated code" |
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echo " today=$today , updDate=$updDate " |
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ls -l $updFile |
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exit |
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fi |
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sleep 60 |
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updDate=0 ; test -f $updFile && updDate=`cat $updFile` |
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done |
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ls -l $updFile |
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echo " waited nCount=$nCount for updated code ($updDate) to copy" |
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jmc |
1.6 |
if test -d $srcDIR/$srcCode ; then |
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echo -n "Make local copy of dir '$srcDIR/$srcCode' to: $gcmDIR ..." |
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cp -pra $srcDIR/$srcCode $gcmDIR |
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jmc |
1.1 |
echo " done" |
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jmc |
1.6 |
else echo " dir: $srcDIR/$srcCode missing => exit" ; exit ; fi |
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jmc |
1.1 |
fi |
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#- change dir to $gcmDIR/verification dir: |
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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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jmc |
1.9 |
for exp2add in $addExp ; do |
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test -r $exp2add && /bin/rm -rf $exp2add |
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if test -d ../$git_other/$exp2add ; then |
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echo " add $exp2add link from $git_other" |
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ln -s ../$git_other/$exp2add . |
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if test $exp2add = 'global_oce_cs32' ; then |
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echo " link dir 'other_input/core2_cnyf' in here" |
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( cd ../${git_other}/${exp2add} |
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test -L core2_cnyf && /bin/rm -f core2_cnyf |
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ln -s ../../../other_input/core2_cnyf . ) |
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fi |
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if test $exp2add = 'global_oce_llc90' ; then |
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echo " link dir 'other_input/gael_oce_llc90_input' to 'input_fields'" |
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( cd ../${git_other}/${exp2add} |
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test -L input_fields && /bin/rm -f input_fields |
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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 input_verifs && mkdir input_verifs |
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( cd input_verifs ; /bin/rm -f * |
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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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) |
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fi |
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else |
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echo " missing dir: $git_other/$exp2add" |
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continue |
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fi |
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done |
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jmc |
1.1 |
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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echo '' |
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jmc |
1.2 |
echo ./testreport $options -of $OPTFILE -skd \'$skipExp\' \ |
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jmc |
1.5 |
-odir ${dNam}-$sfx -send \'$SEND\' -sd $SavD -a jm_c@mitgcm.org |
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jmc |
1.2 |
./testreport $options -of $OPTFILE -skd "$skipExp" \ |
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jmc |
1.5 |
-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 |
1.2 |
echo ../tools/do_tst_2+2 \ |
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jmc |
1.5 |
-o ${dNam}-$sfx -send \'$SEND\' -sd $SavD -a jm_c@mitgcm.org |
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jmc |
1.2 |
../tools/do_tst_2+2 \ |
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jmc |
1.5 |
-o ${dNam}-$sfx -send "$SEND" -sd $SavD -a jm_c@mitgcm.org |
| 242 |
jmc |
1.1 |
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