/[MITgcm]/MITgcm_contrib/jmc_script/runScript
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Contents of /MITgcm_contrib/jmc_script/runScript

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Revision 1.2 - (show annotations) (download)
Sun Nov 25 21:12:11 2007 UTC (12 years, 4 months ago) by jmc
Branch: MAIN
CVS Tags: testing_tag01, HEAD
Changes since 1.1: +3 -3 lines
cleaning up.

1 #!/bin/csh
2 #
3 # Example PBS script to run a job on the myrinet-3 cluster.
4 # The lines beginning #PBS set various queuing parameters.
5 #
6 # o -N Job Name
7 #PBS -N oce_1
8 #
9 #
10 # o -l resource lists that control where job goes
11 # here we ask for 3 nodes, each with the attribute "p4".
12 #PBS -l nodes=4:p4
13 #
14 # o Where to write output
15 # #PBS -e TTT.err
16
17 # #PBS -o TTT.out
18
19 #
20 # o Export all my environment variables to the job
21 #PBS -V
22 #
23
24 echo 'start'
25 #-------------------
26 set namPBS=oce_1
27 set runDir=$SC6/oce_glob/run_1
28 set r2nDir=$SC6/oce_glob/run00
29 set executable=mitgcmuv.ifc+mpi
30 set nit1mn=1800
31 set endRun=100
32 set partmn=25
33 #-------------------
34 # echo 'run in dir :' $runDir
35 set prc2='N'
36 cd $runDir
37
38 set its=`egrep 'nIter0' data | sed 's/ nIter0=//'| sed 's/,$//'`
39 set nms=`expr $its / $nit1mn`
40 set nMs = `printf "%3.3i\n" $nms`
41 set nme=`expr $nms + $partmn`
42 set nMe = `printf "%3.3i\n" $nme`
43 set ite=`expr $nme \* $nit1mn`
44
45 set numPBS=`echo $PBS_NODEFILE | sed 's/\/usr\/spool\/PBS\/aux\///g'| sed 's/\.cg01//g'`
46 touch move_TTT_files
47 echo mv $namPBS.o$numPBS TTT.out.$nMe >> move_TTT_files
48 echo mv $namPBS.e$numPBS TTT.err.$nMe >> move_TTT_files
49
50 #----------------------------------------------
51 echo $PBS_NODEFILE
52 cat $PBS_NODEFILE
53 echo 'The list above shows the nodes this job has exclusive access to.'
54 echo 'The list can be found in the file named in the variable $PBS_NODEFILE'
55
56 rm -f run_here
57 date > run_here
58 cat $PBS_NODEFILE >> run_here
59 echo 'PBS job Number:' $numPBS >> run_here
60 echo on `hostname` run $executable 'in dir:' $runDir >> run_here
61
62 if ( $nms >= $endRun ) then
63 echo 'Run already finished : month' $nms
64 exit 9
65 endif
66
67 echo on `hostname` run $executable 'in dir:' `pwd`
68 echo 'start at month=' $nMs '(it=' $its '), run until mn=' $nMe '(it=' $ite ')'
69 echo 'start at month=' $nms '(it=' $its '), run until mn=' $nme '(it=' $ite ')'>> run_here
70
71 #-------------------
72 if ( -f $r2nDir/IamReady ) then
73 set prc2=`sed -n '2 p' $PBS_NODEFILE`
74 echo send 2nd job on $prc2
75 rsh $prc2 $r2nDir/runscript >& $r2nDir/TTT.out2.$nMe &
76 else
77 echo 'no file dir_run_2/IamReady => no 2nd run.'
78 endif
79 #-------------------
80
81 #cp -p run_here std_outp
82 #echo ' ' >> std_outp
83 # ./$executable >>& std_outp
84
85 cat $PBS_NODEFILE > mf
86 set ncpus = ( `wc -l mf | awk '{print $1}'` )
87 /usr/local/pkg/mpi/mpi-1.2.4..8a-gm-1.5/intel/bin/mpirun.ch_gm -machinefile mf --gm-kill 5 -v -np $ncpus ./$executable
88 set out=$?
89 echo 'end with status' $out
90
91 set iTe = `printf "%10.10i\n" $ite`
92 if ( -f pickup.$iTe.001.001.data ) then
93 set out=0
94 else
95 set out=1
96 endif
97
98 echo 'end with status' $out
99
100 if ( $out != 0 ) then
101 echo 'bad return status => STOP here'
102 else
103 #mv std_outp std_outp.$nMe
104 cp -p run_here std_outp.$nMe
105 echo ' ' >> std_outp.$nMe
106 cat STDOUT.0000 >> std_outp.$nMe
107 mv -f STDOUT.000? STDERR.000? temp
108 #- prepare new submission :
109 sed "s/ nIter0=$its/ nIter0=$ite/" data > TTT.tmp
110 mv TTT.tmp data
111 endif
112
113 if ( $out == 0 ) then
114 if ( $nme >= $endRun ) then
115 echo 'Run finished : month' $nme 'done !'
116 else
117 qsub runScript
118 endif
119 endif
120 exit $out

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