/[MITgcm]/MITgcm_contrib/test_scripts/svante/test_submit_svante
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revision 1.15 by jmc, Thu Dec 28 17:33:38 2017 UTC revision 1.26 by jmc, Sun Feb 19 14:56:32 2023 UTC
# Line 8  dInWeek=`date +%a` Line 8  dInWeek=`date +%a`
8    
9  if test $# = 0  if test $# = 0
10  then  then
11    TEST_LIST='ifcMPI pgiMPI pgiAdm pgiMth'    TEST_LIST='ifcMpi ifcAdm pgiMpi pgiAdm pgiMth'
12  else  else
13    TEST_LIST=$*    TEST_LIST=$*
14  fi  fi
15    
16  headNode=`hostname -s`  headNode=`hostname -s`
17  #QSUB="qsub"  #QSUB="qsub"
18  #QSTAT="qstat -u $USER"  #QLIST="qstat -u $USER"
19  #dNam=$headNode  #dNam=$headNode
20  QSUB="/usr/bin/sbatch"  QSUB="/usr/bin/sbatch"
21  QLIST="/usr/bin/squeue -u $USER"  QLIST="/usr/bin/squeue -u $USER"
# Line 23  dNam='svante' Line 23  dNam='svante'
23  HERE="$HOME/test_${dNam}"  HERE="$HOME/test_${dNam}"
24  TST_DISK="/net/fs09/d1/jm_c"  TST_DISK="/net/fs09/d1/jm_c"
25  TST_DIR="$TST_DISK/test_${dNam}"  TST_DIR="$TST_DISK/test_${dNam}"
26  logPfix='test_submit'  tmpFil="/tmp/"`basename $0`".$$"
27    #- where local copy of code is (need to be consistent with run-job scripts):
28    #srcDIR=$TST_DIR
29    srcDIR=$HERE
30    srcCode="MITgcm_today"
31    
32    logPfix='test_submit'
33  SUB_DIR="$HERE/$dNam"  SUB_DIR="$HERE/$dNam"
34  OUT_DIR="$HERE/output"  OUT_DIR="$HERE/output"
35  LOG_FIL="$OUT_DIR/$logPfix."`date +%m%d`".log"  LOG_FIL="$OUT_DIR/$logPfix."`date +%m%d`".log"
# Line 61  if test -f /etc/profile.d/zz_modules.sh Line 66  if test -f /etc/profile.d/zz_modules.sh
66  module add slurm  module add slurm
67  module list                                             >> $LOG_FIL 2>&1  module list                                             >> $LOG_FIL 2>&1
68    
69  #- method to acces CVS:  #- method to access CVS:
70  cmdCVS='cvs -d :pserver:cvsanon@mitgcm.org:/u/gcmpack -q'    cmdCVS='cvs -d :pserver:cvsanon@mitgcm.org:/u/gcmpack -q'
71    #- which GitHub repository to use and how to access it:
72      git_repo='MITgcm';  git_code='MITgcm' ; git_other='verification_other'
73     #git_repo='altMITgcm'; #git_code='MITgcm66h'
74    #--
75      git_repo="https://github.com/$git_repo"
76     #git_repo="git://github.com/$git_repo"
77     #git_repo="git@github.com:$git_repo"
78    
 #---+----1----+----2----+----3----+----4----+----5----+----6----+----7-|--+----|  
 #-- Download/Update reference version of MITgcm code:  
79  checkOut=1  checkOut=1
80  gcmDIR='MITgcm'  addExp=''
 exp2add=''  
81  updFile='updated_code'  updFile='updated_code'
82    
83  echo "cd $TST_DISK ; pwd (x2)" | tee -a $LOG_FIL  #---+----1----+----2----+----3----+----4----+----5----+----6----+----7-|--+----|
84  cd $TST_DISK    | tee -a $LOG_FIL 2>&1  if [ $checkOut -ge 1 ] ; then
85  pwd             | tee -a $LOG_FIL  #-- Download/Update reference version of MITgcm code:
 if test ! -d $TST_DIR ; then  
    echo -n "Creating a working dir: $TST_DIR ..."       | tee -a $LOG_FIL  
   #/bin/rm -rf $TST_DIR  
    mkdir $TST_DIR  
    retVal=$?  
    if test "x$retVal" != x0 ; then  
       echo "Error: unable to make dir: $TST_DIR (err=$retVal ) --> Exit" | tee -a $LOG_FIL  
       exit 1  
    fi  
 fi  
 cd $TST_DIR  
 pwd             | tee -a $LOG_FIL  
86    
87  #- remove date/lock-file:    if test $srcDIR = $TST_DIR ; then
88  if test -f $updFile ; then rm -f $updFile ; sleep 2 ; fi      echo "cd $TST_DISK ; pwd (x2)" | tee -a $LOG_FIL
89        cd $TST_DISK        | tee -a $LOG_FIL 2>&1
90        pwd                 | tee -a $LOG_FIL
91      fi
92      if test ! -d $srcDIR ; then
93         echo -n "Creating a working dir: $srcDIR ..."      | tee -a $LOG_FIL
94        #/bin/rm -rf $srcDIR
95         mkdir $srcDIR
96         retVal=$?
97         if test "x$retVal" != x0 ; then
98           echo "Error: unable to make dir: $srcDIR (err=$retVal ) --> Exit" | tee -a $LOG_FIL
99           exit 1
100         fi
101      fi
102      cd $srcDIR
103      pwd           | tee -a $LOG_FIL
104    
105  if [ $checkOut -eq 1 ] ; then    #- remove date/lock-file and old copy:
106    if test -d $gcmDIR/CVS ; then    if test -f $updFile ; then rm -f $updFile ; sleep 2 ; fi
107      echo -n "Update dir $gcmDIR using '$cmdCVS update -P -d' ..." | tee -a $LOG_FIL    test -e $srcCode && rm -rf $srcCode
108      echo '' >> $LOG_FIL  
109      ( cd $gcmDIR ; $cmdCVS update -P -d )               >> $LOG_FIL 2>&1    if [ $checkOut -eq 1 ] ; then
110      RETVAL=$?      if test ! -e $git_code/.git/config ; then
111      if test "x$RETVAL" != x0 ; then echo ''        echo "no file: $git_code/.git/config => try a new clone"  | tee -a $LOG_FIL
112         echo "cvs update on '"`hostname`"' fail (return val=$RETVAL) => exit" | tee -a $LOG_FIL        checkOut=2
113         exit      fi
114      else echo "  done"                                  | tee -a $LOG_FIL      if test ! -e $git_other/.git/config ; then
115          echo "no file: $git_other/.git/config => try a new clone" | tee -a $LOG_FIL
116          checkOut=2
117      fi      fi
  else  
     echo "no dir: $gcmDIR/CVS => try a fresh check-out" | tee -a $LOG_FIL  
     checkOut=2  
118    fi    fi
119  fi    if [ $checkOut -eq 2 ] ; then
120  if [ $checkOut -eq 2 ] ; then      if test -e $git_code ; then
121      test -e $gcmDIR && rm -rf $gcmDIR         echo -n " removing dir: $git_code ..."           | tee -a $LOG_FIL
122      echo -n "Downloading using '$cmdCVS co -P -d $gcmDIR MITgcm' ..."   | tee -a $LOG_FIL         rm -rf $git_code
123      $cmdCVS co -P -d $gcmDIR MITgcm > /dev/null         echo "  done"                                    | tee -a $LOG_FIL
124      RETVAL=$?      fi
125      if test "x$RETVAL" != x0 ; then echo ''             | tee -a $LOG_FIL      echo -n "Make a clone of $git_code from repo: $git_repo ..."        | tee -a $LOG_FIL
126        echo "cvs co on '"`hostname`"' fail (return val=$RETVAL) => exit" | tee -a $LOG_FIL      git clone $git_repo/${git_code}.git 2> $tmpFil
127        exit      retVal=$?
128        if test $retVal = 0 ; then
129           echo ' --> done!'                                | tee -a $LOG_FIL
130           rm -f $tmpFil
131        else echo ''                                        | tee -a $LOG_FIL
132           echo " Error: 'git clone' returned: $retVal"     | tee -a $LOG_FIL
133           cat $tmpFil ; rm -f $tmpFil
134           exit 2
135        fi
136       #--
137        if test -e $git_other ; then
138           echo -n " removing dir: $git_other ..."          | tee -a $LOG_FIL
139           rm -rf $git_other
140           echo "  done"                                    | tee -a $LOG_FIL
141        fi
142        echo -n "Make a clone of $git_other from repo: $git_repo ..."       | tee -a $LOG_FIL
143        git clone $git_repo/${git_other}.git 2> $tmpFil
144        retVal=$?
145        if test $retVal = 0 ; then
146           echo ' --> done!'                                | tee -a $LOG_FIL
147           rm -f $tmpFil
148        else echo ''                                        | tee -a $LOG_FIL
149           echo " Error: 'git clone' returned: $retVal"     | tee -a $LOG_FIL
150           cat $tmpFil ; rm -f $tmpFil
151           exit 2
152        fi
153      fi
154      #--
155      if [ $checkOut -eq 1 ] ; then
156        echo -n "Updating current clone ( $git_code ) ..."  | tee -a $LOG_FIL
157        echo '' >> $LOG_FIL
158        ( cd $git_code ; git pull )                         >> $LOG_FIL 2>&1
159        retVal=$?
160        if test "x$retVal" != x0 ; then echo ''
161             echo "'git pull' on '"`hostname`"' fail (return val=$retVal) => exit" | tee -a $LOG_FIL
162             exit
163      else echo "  done"                                  | tee -a $LOG_FIL      else echo "  done"                                  | tee -a $LOG_FIL
164      fi      fi
165      if test -d $gcmDIR/verification ; then      echo "  and checkout master:"                       | tee -a $LOG_FIL
166        for exp2add in $addExp ; do      ( cd $git_code ; git checkout master -- . )         | tee -a $LOG_FIL
167          echo " add dir: $exp2add (from Contrib:verification_other)" | tee -a $LOG_FIL     #---
168          ( cd $gcmDIR/verification ; $cmdCVS co -P -d $exp2add \      echo -n "Updating current clone ( $git_other ) ..." | tee -a $LOG_FIL
169                         MITgcm_contrib/verification_other/$exp2add > /dev/null )      echo '' >> $LOG_FIL
170        done      ( cd $git_other ; git pull )                        >> $LOG_FIL 2>&1
171        retVal=$?
172        if test "x$retVal" != x0 ; then echo ''
173             echo "'git pull' on '"`hostname`"' fail (return val=$retVal) => exit" | tee -a $LOG_FIL
174             exit
175        else echo "  done"                                  | tee -a $LOG_FIL
176      fi      fi
177      /usr/bin/find $gcmDIR -type d | xargs chmod g+rxs      echo "  and checkout master:"                       | tee -a $LOG_FIL
178      /usr/bin/find $gcmDIR -type f | xargs chmod g+r      ( cd $git_other ; git checkout master -- . )        | tee -a $LOG_FIL
179  fi    fi
180      #---- making a new working copy: MITgcm_today
181      rsync -a $git_code/ $srcCode --exclude '.git'
182      ls -ld $srcCode                                       | tee -a $LOG_FIL
183      /usr/bin/find $srcCode -type d | xargs chmod g+rxs
184      /usr/bin/find $srcCode -type f | xargs chmod g+r
185      #- update date/lock-file:
186      if test -d $srcCode/verification ; then
187        echo $today > $updFile ; sleep 2
188        ls -l $updFile                                      | tee -a $LOG_FIL
189        echo ''                                             | tee -a $LOG_FIL
190      fi
191    
192  #- update date/lock-file:  #-- Done with Download/Update of MITgcm code
 if test -d $gcmDIR/verification ; then  
   echo $today > $updFile ; sleep 2  
   ls -l $updFile                                        | tee -a $LOG_FIL  
193  fi  fi
194    #---+----1----+----2----+----3----+----4----+----5----+----6----+----7-|--+----|
195    
196  #-- leave TST Dir and go back to output dir  #-- leave srcDIR and go back to output dir
197  cd $OUT_DIR  cd $OUT_DIR
 #---+----1----+----2----+----3----+----4----+----5----+----6----+----7-|--+----|  
198  #-- now really do something:  #-- now really do something:
199    
200    JOB_LIST=$TEST_LIST    JOB_LIST=$TEST_LIST
201    NB_SUB_JOBS=0    NB_SUB_JOBS=0
202    for i in $JOB_LIST    for i in $JOB_LIST
203    do    do
204      case $i in      sfx=`echo ${i} | sed 's/^.../&_/' | tr '[:upper:]' '[:lower:]'`
       'pgiAdm') sfx='pgi_adm' ;;  
       'pgiMth') sfx='pgi_mth' ;;  
              *) sfx=`echo ${i} | sed 's/MPI$/_mpi/'`  ;;  
     esac  
205      BATCH_SCRIPT="test_${dNam}_$sfx"      BATCH_SCRIPT="test_${dNam}_$sfx"
206      if test -f $SUB_DIR/$BATCH_SCRIPT ; then      if test -f $SUB_DIR/$BATCH_SCRIPT ; then
207        #- job name ( $JOB ) & output-file name ( $JOB.std??? ) must match        #- job name ( $JOB ) & output-file name ( $JOB.std??? ) must match
208        #  definition within $BATCH_SCRIPT slurm script        #  definition within $BATCH_SCRIPT slurm script
209        JOB="${i}_tst"        JOB="${i}_tst"
210        sJob=`printf "%8.8s" $JOB` #- squeue truncate name to only 1rst 8c        sJob=`printf "%8.8s" $JOB` #- squeue truncate name to only 1rst 8c
211        #job_exist=`$QSTAT | grep $JOB | wc -l`        #job_exist=`$QLIST | grep $JOB | wc -l`
212        job_exist=`$QLIST | grep $sJob | wc -l`        job_exist=`$QLIST | grep $sJob | wc -l`
213        if test "x_$job_exist" = x_0 ; then        if test "x_$job_exist" = x_0 ; then
214          #-- move previous output file          #-- move previous output file
# Line 174  cd $OUT_DIR Line 229  cd $OUT_DIR
229          else echo " no old output files from job '$JOB'" | tee -a $LOG_FIL          else echo " no old output files from job '$JOB'" | tee -a $LOG_FIL
230          fi          fi
231          #-- submit job          #-- submit job
232            echo -n "--> $JOB : "                         | tee -a $LOG_FIL            echo -n "--> $JOB : $BATCH_SCRIPT , "         | tee -a $LOG_FIL
233            $QSUB $SUB_DIR/$BATCH_SCRIPT                  | tee -a $LOG_FIL            $QSUB $SUB_DIR/$BATCH_SCRIPT                  | tee -a $LOG_FIL
234            NB_SUB_JOBS=`expr $NB_SUB_JOBS + 1`            NB_SUB_JOBS=`expr $NB_SUB_JOBS + 1`
235              sleep 1
236        else        else
237            echo "--> $JOB :"                             | tee -a $LOG_FIL            echo "--> $JOB :"                             | tee -a $LOG_FIL
           #$QSTAT | grep $JOB                           | tee -a $LOG_FIL  
238            $QLIST | grep $sJob                           | tee -a $LOG_FIL            $QLIST | grep $sJob                           | tee -a $LOG_FIL
239            echo ' job already exist => skip this test'   | tee -a $LOG_FIL            echo ' job already exist => skip this test'   | tee -a $LOG_FIL
240        fi        fi
# Line 187  cd $OUT_DIR Line 242  cd $OUT_DIR
242         echo 'no file:' $BATCH_SCRIPT 'to submit'        | tee -a $LOG_FIL         echo 'no file:' $BATCH_SCRIPT 'to submit'        | tee -a $LOG_FIL
243      fi      fi
244    done    done
245    echo "info-sub-list: NB_SUB_JOBS='$NB_SUB_JOBS'"      >> $LOG_FIL    #echo "info-sub-list: NB_SUB_JOBS='$NB_SUB_JOBS'"     >> $LOG_FIL
246      echo "Submitted $NB_SUB_JOBS jobs from dir: $SUB_DIR" | tee -a $LOG_FIL
247    echo -n '-- Finished at: '                            | tee -a $LOG_FIL    echo -n '-- Finished at: '                            | tee -a $LOG_FIL
248    date                                                  | tee -a $LOG_FIL    date                                                  | tee -a $LOG_FIL
249    
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