Annotation of /MITgcm_contrib/test_scripts/ollie/mitgcmtestreport_cray

#!/bin/bash -e
# new script for running testreport on ollie.awi.de
# - compile and run on compute nodes
# - use ssh to call mpack command from the head node ollie0
#$Header: /u/gcmpack/MITgcm_contrib/test_scripts/ollie/mitgcmtestreport_cray,v 1.3 2016/06/21 09:43:58 mlosch Exp $
#$Name:  $

# needed for cron-job
source /usr/Modules/3.2.10/init/bash
source /etc/profile.d/cray_pe.sh
source /etc/profile.d/AWI.sh
#
module purge
module load slurm
module load craype-broadwell
module load PrgEnv-cray/1.0.0
module unload cudatoolkit
module swap mvapich2_cce cray-impi
module load intel/impi-5.1.3
export LD_LIBRARY_PATH=${CRAY_LD_LIBRARY_PATH}:${LD_LIBRARY_PATH}:

dNam='ollie'
TST_DIR="/work/ollie/mlosch/test_$dNam"
echo "start from TST_DIR='$TST_DIR' at: "`date`

umask 0022

sfx='cray'
RUNIT="runit_"$sfx

OPTFILE=../tools/build_options/linux_ia64_${sfx}_ollie
options="-MPI 6"
options="$options -odir ${dNam}-c"
p#options="$options -j 6"
#options="$options -t global_ocean.cs32x15"

#EXE='mpiexec.hydra -bootstrap slurm -n TR_NPROC ./mitgcmuv'
EXE='srun --mpi=pmi2 -n TR_NPROC ./mitgcmuv'

if [ -e $TST_DIR ]; then
    echo "$TST_DIR exists"
else 
    mkdir $TST_DIR
fi
cd $TST_DIR
HERE=$TST_DIR/output
if [ -e $HERE ]; then
    echo "$HERE"
else 
    mkdir $HERE
fi
OUTFILE=$HERE/slurm_${sfx}.out
MYOUTPUT=$HERE/out_$sfx
if [ -e $MYOUTPUT ]; then
  rm -rf $MYOUTPUT
fi
if [ -e $OUTFILE ]; then
  rm -r $OUTFILE
fi
gcmDIR="MITgcm_$sfx"
checkOut=1
if [ $checkOut -eq 1 ] ; then
 if test -d $gcmDIR/CVS ; then
  /bin/rm -rf $gcmDIR/verification/??_${dNam}_????????_?
  ( cd $gcmDIR/verification ; ../tools/do_tst_2+2 -clean )
  echo "cvs update of dir $gcmDIR :"
  ( cd $gcmDIR ; cvs -q -d :pserver:cvsanon@mitgcm.org:/u/gcmpack update -P -d ) 2>&1
  RETVAL=$?
  if test "x$RETVAL" != x0 ; then
   echo "cvs update on '"`hostname`"' failed (return val=$RETVAL) => exit"
   exit
  fi
 else
  echo "no dir: $gcmDIR/CVS => try a fresh check-out"
  checkOut=2
 fi
fi
if [ $checkOut -eq 2 ] ; then
  if test -e $gcmDIR ; then
   rm -rf $gcmDIR
  fi
# cvs co MITgcm
  cvs -d :pserver:cvsanon@mitgcm.org:/u/gcmpack co -P -d $gcmDIR MITgcm > /dev/null 2>&1
  /usr/bin/find $gcmDIR -type d | xargs chmod g+rxs
  /usr/bin/find $gcmDIR -type f | xargs chmod g+r
fi

cd ${gcmDIR}/verification

cwd=`pwd`
SENDCMD="ssh ollie0 ${TST_DIR}/${gcmDIR}/tools/mpack-1.6/mpack"
runtestreport="./testreport $options -of $OPTFILE -command \"${EXE}\" -send \"${SENDCMD}\" -sd ${cwd}" 

if [ ! -e $MYOUTPUT ]
    then
    touch $MYOUTPUT
fi

# echo "running testreport like this:"
# echo ${runtestreport} -norun
# eval "${runtestreport} -norun >> $MYOUTPUT 2>&1"

# create batch script
#
JOBNAME=tst$sfx
echo "creating batch script $HERE/$RUNIT"
cat << EOF >| $HERE/$RUNIT
#!/bin/bash
#SBATCH --job-name=${JOBNAME}
#SBATCH  -o ${OUTFILE}
#SBATCH --time=12:00:00
#SBATCH --ntasks=6

# still need this to be able to run a few experiments: 
# cfc_example, fizhi, tutorial_deep_convection
ulimit -s unlimited

cd \${SLURM_SUBMIT_DIR}

cwd=`pwd`
echo "running testreport like this in \${cwd}:"
echo "${runtestreport} -devel -match 10"
${runtestreport} -devel -match 10 -a jmc@mitgcm.org >> $MYOUTPUT 2>&1

echo "running testreport like this in \${cwd}:"
echo "./testreport -clean"
./testreport -clean

echo "running testreport like this in \${cwd}:"
echo "${runtestreport} -fast -match 10"
${runtestreport} -fast -match 10 -a jmc@mitgcm.org >> $MYOUTPUT 2>&1

EOF

chmod a+x $HERE/$RUNIT

echo " " >> $MYOUTPUT
echo "***********************************************************" >> $MYOUTPUT
echo "Submitting this job script:" >> $MYOUTPUT
echo "***********************************************************" >> $MYOUTPUT
cat $HERE/$RUNIT >> $MYOUTPUT
echo "***********************************************************" >> $MYOUTPUT
echo "end of job script" >> $MYOUTPUT
echo "***********************************************************" >> $MYOUTPUT
echo " " >> $MYOUTPUT

sbatch $HERE/$RUNIT

# # keep looking for the job in the job queues and wait until it has disappeared
# jobruns=somedummy
# while [ "${jobruns}"x != x ]
# do
#   sleep 200
#   jobruns=`squeue --noheader -u mlosch | grep "$JOBNAME" | awk '{print $1}'`
#   echo "waiting for job ${jobruns%% *} ($JOBNAME) to complete"
#   currentexp=`grep Experiment $MYOUTPUT | tail -1`
#   echo "currently running $currentexp"
# done

# # workaround for mailing the stuff
# echo "mail the stuff"

# MPACKCMD=../tools/mpack-1.6/mpack
# fn=`ls -dtr tr_$dNam* | grep -v tar.gz | tail -1`
# echo "fname ${fn}"
# tar cf - $fn | gzip > "${fn}.tar.gz"
# $MPACKCMD -s MITgcm-test -m 3555000 ${fn}.tar.gz jmc@mitgcm.org
# sleep 2
# rm -rf "${fn}.tar.gz"

echo "end of mitgcmtestreport"


1	mlosch	1.1	#!/bin/bash -e
2			# new script for running testreport on ollie.awi.de
3	mlosch	1.4	# - compile and run on compute nodes
4	mlosch	1.3	# - use ssh to call mpack command from the head node ollie0
5	mlosch	1.4	#$Header: /u/gcmpack/MITgcm_contrib/test_scripts/ollie/mitgcmtestreport_cray,v 1.3 2016/06/21 09:43:58 mlosch Exp $
6	mlosch	1.2	#$Name: $
7	mlosch	1.1
8			# needed for cron-job
9			source /usr/Modules/3.2.10/init/bash
10			source /etc/profile.d/cray_pe.sh
11			source /etc/profile.d/AWI.sh
12			#
13			module purge
14			module load slurm
15			module load craype-broadwell
16			module load PrgEnv-cray/1.0.0
17			module unload cudatoolkit
18			module swap mvapich2_cce cray-impi
19			module load intel/impi-5.1.3
20			export LD_LIBRARY_PATH=${CRAY_LD_LIBRARY_PATH}:${LD_LIBRARY_PATH}:
21
22			dNam='ollie'
23			TST_DIR="/work/ollie/mlosch/test_$dNam"
24			echo "start from TST_DIR='$TST_DIR' at: "`date`
25
26			umask 0022
27
28	mlosch	1.2	sfx='cray'
29	mlosch	1.1	RUNIT="runit_"$sfx
30
31	mlosch	1.2	OPTFILE=../tools/build_options/linux_ia64_${sfx}_ollie
32	mlosch	1.1	options="-MPI 6"
33	mlosch	1.2	options="$options -odir ${dNam}-c"
34	mlosch	1.3	p#options="$options -j 6"
35			#options="$options -t global_ocean.cs32x15"
36
37	mlosch	1.1	#EXE='mpiexec.hydra -bootstrap slurm -n TR_NPROC ./mitgcmuv'
38			EXE='srun --mpi=pmi2 -n TR_NPROC ./mitgcmuv'
39
40			if [ -e $TST_DIR ]; then
41			echo "$TST_DIR exists"
42			else
43			mkdir $TST_DIR
44			fi
45			cd $TST_DIR
46			HERE=$TST_DIR/output
47			if [ -e $HERE ]; then
48			echo "$HERE"
49			else
50			mkdir $HERE
51			fi
52	mlosch	1.2	OUTFILE=$HERE/slurm_${sfx}.out
53	mlosch	1.1	MYOUTPUT=$HERE/out_$sfx
54			if [ -e $MYOUTPUT ]; then
55			rm -rf $MYOUTPUT
56			fi
57			if [ -e $OUTFILE ]; then
58			rm -r $OUTFILE
59			fi
60			gcmDIR="MITgcm_$sfx"
61			checkOut=1
62			if [ $checkOut -eq 1 ] ; then
63			if test -d $gcmDIR/CVS ; then
64			/bin/rm -rf $gcmDIR/verification/??_${dNam}_????????_?
65			( cd $gcmDIR/verification ; ../tools/do_tst_2+2 -clean )
66			echo "cvs update of dir $gcmDIR :"
67			( cd $gcmDIR ; cvs -q -d :pserver:cvsanon@mitgcm.org:/u/gcmpack update -P -d ) 2>&1
68			RETVAL=$?
69			if test "x$RETVAL" != x0 ; then
70			echo "cvs update on '"`hostname`"' failed (return val=$RETVAL) => exit"
71			exit
72			fi
73			else
74			echo "no dir: $gcmDIR/CVS => try a fresh check-out"
75			checkOut=2
76			fi
77			fi
78			if [ $checkOut -eq 2 ] ; then
79			if test -e $gcmDIR ; then
80			rm -rf $gcmDIR
81			fi
82			# cvs co MITgcm
83			cvs -d :pserver:cvsanon@mitgcm.org:/u/gcmpack co -P -d $gcmDIR MITgcm > /dev/null 2>&1
84			/usr/bin/find $gcmDIR -type d \| xargs chmod g+rxs
85			/usr/bin/find $gcmDIR -type f \| xargs chmod g+r
86			fi
87
88			cd ${gcmDIR}/verification
89
90	mlosch	1.3	cwd=`pwd`
91			SENDCMD="ssh ollie0 ${TST_DIR}/${gcmDIR}/tools/mpack-1.6/mpack"
92			runtestreport="./testreport $options -of $OPTFILE -command \"${EXE}\" -send \"${SENDCMD}\" -sd ${cwd}"
93	mlosch	1.1
94			if [ ! -e $MYOUTPUT ]
95			then
96			touch $MYOUTPUT
97			fi
98
99	mlosch	1.2	# echo "running testreport like this:"
100			# echo ${runtestreport} -norun
101			# eval "${runtestreport} -norun >> $MYOUTPUT 2>&1"
102	mlosch	1.1
103			# create batch script
104			#
105	mlosch	1.2	JOBNAME=tst$sfx
106	mlosch	1.1	echo "creating batch script $HERE/$RUNIT"
107			cat << EOF >\| $HERE/$RUNIT
108	mlosch	1.3	#!/bin/bash
109	mlosch	1.1	#SBATCH --job-name=${JOBNAME}
110			#SBATCH -o ${OUTFILE}
111	mlosch	1.3	#SBATCH --time=12:00:00
112	mlosch	1.1	#SBATCH --ntasks=6
113
114	mlosch	1.3	# still need this to be able to run a few experiments:
115			# cfc_example, fizhi, tutorial_deep_convection
116			ulimit -s unlimited
117	mlosch	1.1
118			cd \${SLURM_SUBMIT_DIR}
119
120	mlosch	1.3	cwd=`pwd`
121			echo "running testreport like this in \${cwd}:"
122			echo "${runtestreport} -devel -match 10"
123			${runtestreport} -devel -match 10 -a jmc@mitgcm.org >> $MYOUTPUT 2>&1
124
125			echo "running testreport like this in \${cwd}:"
126			echo "./testreport -clean"
127			./testreport -clean
128
129			echo "running testreport like this in \${cwd}:"
130			echo "${runtestreport} -fast -match 10"
131			${runtestreport} -fast -match 10 -a jmc@mitgcm.org >> $MYOUTPUT 2>&1
132	mlosch	1.1
133			EOF
134
135			chmod a+x $HERE/$RUNIT
136
137			echo " " >> $MYOUTPUT
138			echo "***********************************************************" >> $MYOUTPUT
139			echo "Submitting this job script:" >> $MYOUTPUT
140			echo "***********************************************************" >> $MYOUTPUT
141			cat $HERE/$RUNIT >> $MYOUTPUT
142			echo "***********************************************************" >> $MYOUTPUT
143			echo "end of job script" >> $MYOUTPUT
144			echo "***********************************************************" >> $MYOUTPUT
145			echo " " >> $MYOUTPUT
146
147			sbatch $HERE/$RUNIT
148
149	mlosch	1.3	# # keep looking for the job in the job queues and wait until it has disappeared
150			# jobruns=somedummy
151			# while [ "${jobruns}"x != x ]
152			# do
153			# sleep 200
154			# jobruns=`squeue --noheader -u mlosch \| grep "$JOBNAME" \| awk '{print $1}'`
155			# echo "waiting for job ${jobruns%% *} ($JOBNAME) to complete"
156			# currentexp=`grep Experiment $MYOUTPUT \| tail -1`
157			# echo "currently running $currentexp"
158			# done
159
160			# # workaround for mailing the stuff
161			# echo "mail the stuff"
162
163			# MPACKCMD=../tools/mpack-1.6/mpack
164			# fn=`ls -dtr tr_$dNam* \| grep -v tar.gz \| tail -1`
165			# echo "fname ${fn}"
166			# tar cf - $fn \| gzip > "${fn}.tar.gz"
167			# $MPACKCMD -s MITgcm-test -m 3555000 ${fn}.tar.gz jmc@mitgcm.org
168			# sleep 2
169			# rm -rf "${fn}.tar.gz"
170	mlosch	1.1
171			echo "end of mitgcmtestreport"
172
173
174
175
176