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#! /usr/bin/env bash |
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|
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# $Header: /u/gcmpack/MITgcm/verification/cpl_aim+ocn/run_cpl_test,v 1.23 2015/10/26 21:04:35 jmc Exp $ |
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# $Name: $ |
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|
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bdPfx='build'; # build-dir prefix |
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|
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#- default: |
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Npr=3 ; NpOc=1 ; |
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#Npr=25; NpOc=12; |
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MTH= |
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MTHo= |
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MTHa= |
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GMKopt='-devel' |
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#GMKopt='-ieee' |
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#GMKopt= |
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rnkO=1 ; rnkA=`expr $rnkO + $NpOc` |
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|
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#- parse options: |
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if [ $# -ge 1 ] ; then if test $1 = '-mth' ; then |
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MTH='-omp' ; shift |
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if test -f input_ocn/eedata.mth ; then MTHo=$MTH ; fi |
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if test -f input_atm/eedata.mth ; then MTHa=$MTH ; fi |
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fi ; fi |
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#- allows more argument for building step (step=1) |
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chkArg=$# ; if [ $# -gt 1 ]; then chkArg=$1 ; fi |
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if [ $chkArg -ne 1 ]; then |
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echo 'Usage:'`basename $0`' [opt] step [bld-arg]' |
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echo ' => test coupled set-up on linux box (1.cpu)' |
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echo 'opt = -mth : compile and run (if eedata.mth) 2-threads for ocn & atm' |
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echo ' step = 0 : clean all directories' |
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echo ' step = 1 : compile the 3 executables (cpl,ocn,atm); optional arg:' |
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echo ' -of Optfile_Name : using option-file "Optfile_Name"' |
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echo ' step = 2 : copy input files and dir(s)' |
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echo " step = 3 : run with $Npr mpi processes" |
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echo ' step = 4 : check the results' |
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echo ' step = 5 : remove output files in rank_0,1,2 dir.' |
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exit |
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fi |
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kpr=$1 |
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dir=`pwd` |
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|
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#============================================================================ |
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|
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if test $kpr = 0 |
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then |
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rm -f pr_group std_outp comp_res.{ocn,atm,land,sice} |
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rm -f ${bdPfx}_???/TTT.*make.* ${bdPfx}_???/TTT.mkdepend.* |
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/bin/rm -r -f rank_? rank_1? rank_2? |
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if test -f ${bdPfx}_cpl/Makefile ; then cd ${bdPfx}_cpl ; make Clean ; cd .. ; fi |
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if test -f ${bdPfx}_ocn/Makefile ; then cd ${bdPfx}_ocn ; make Clean ; cd .. ; fi |
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if test -f ${bdPfx}_atm/Makefile ; then cd ${bdPfx}_atm ; make Clean ; cd .. ; fi |
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fi |
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if test $kpr = 5 |
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then |
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echo 'remove output files in rank_0,1,2 dir.' |
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rm -f pr_group std_outp comp_res.{ocn,atm,land,sice} |
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test -f rank_0/Coupler.0000.clog && rm -f rank_0/Coupler.0000.clog |
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if test -d rank_$rnkO ; then |
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#( cd rank_$rnkO ; rm -f *.data *.meta *.txt *.log STD???.00?? UV-*.00??.clog ) |
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( cd rank_$rnkO ; $HOME/bin/move_res tmp_trash |
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mv STD???.00?? UV-*.00??.clog tmp_trash |
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/bin/rm -rf tmp_trash ) |
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fi |
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if test -d rank_$rnkA ; then |
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#( cd rank_$rnkA ; rm -f *.data *.meta *.txt *.log STD???.00?? UV-*.00??.clog ) |
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( cd rank_$rnkA ; $HOME/bin/move_res tmp_trash |
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mv STD???.00?? UV-*.00??.clog tmp_trash |
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/bin/rm -rf tmp_trash ) |
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fi |
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fi |
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|
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if test $kpr = 1 |
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then |
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|
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#- choice of the optfile: |
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# default: take a local one in dir verification with sufix '+mpi' |
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nbOpF=`ls ../linux_* | grep '+mpi' 2> /dev/null | wc -l` |
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# or take the one given as argument: |
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if [ $# -ge 3 ]; then |
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if test $2 = '-of' -a -f $3 ; then nbOpF=-1 ; OPTFILE=$3 ; fi |
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fi |
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if test $nbOpF = 1 ; then |
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OPTFILE=`ls ../linux_* | grep '+mpi'` |
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elif [ $nbOpF -ge 2 ] ; then |
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echo "pick the 1rst of these ( $nbOpF ) optfiles:" |
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ls ../linux_* | grep '+mpi' |
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OPTFILE=`ls ../linux_* | grep '+mpi' | head -1` |
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elif [ $nbOpF -ne -1 ] ; then |
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echo "Pb in finding optfile: found $nbOpF :" |
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ls ../linux_* | grep '+mpi' ; exit |
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fi |
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zz=`grep '^ *FC=' $OPTFILE | tail -1` |
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echo " Using optfile: $OPTFILE (compiler: $zz) $MTH" |
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zz=`echo $OPTFILE | grep -c '^\/'` |
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if test $zz = 0 ; then OPTFILE="../$OPTFILE" ; fi |
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#--- |
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echo '==== compile coupler:' |
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cd ${bdPfx}_cpl |
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echo ' --- genmake2 (cpl):' |
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../../../tools/genmake2 -of $OPTFILE -mpi $GMKopt > TTT.genmake.$$ 2>&1 |
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RetVal=$? ; tail -5 TTT.genmake.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in genmake2 (cpl)" ; exit 11 |
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fi |
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echo ' --- make depend (cpl):' |
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make depend > TTT.mkdepend.$$ 2>&1 |
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RetVal=$? ; tail -5 TTT.mkdepend.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in mkdepend (cpl)" ; exit 12 |
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fi |
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echo ' --- make (cpl):' ; touch TTT.make.$$ |
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#do_make_syntax.sh obj > TTT.make.$$ 2>&1 |
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make >> TTT.make.$$ 2>&1 |
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RetVal=$? ; tail -10 TTT.make.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in make (cpl)" ; exit 13 |
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fi |
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echo ' ' ; cd $dir |
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|
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echo '==== compile OGCM:' |
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cd ${bdPfx}_ocn |
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echo ' --- genmake2 (ocn):' |
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../../../tools/genmake2 -of $OPTFILE -mpi $MTHo $GMKopt > TTT.genmake.$$ 2>&1 |
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RetVal=$? ; tail -5 TTT.genmake.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in genmake2 (ocn)" ; exit 21 |
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fi |
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echo ' --- make depend (ocn):' |
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make depend > TTT.mkdepend.$$ 2>&1 |
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RetVal=$? ; tail -10 TTT.mkdepend.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in mkdepend (ocn)" ; exit 22 |
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fi |
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echo ' --- make (ocn):' ; touch TTT.make.$$ |
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#do_make_syntax.sh obj > TTT.make.$$ 2>&1 |
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make >> TTT.make.$$ 2>&1 |
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RetVal=$? ; tail -10 TTT.make.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in make (ocn)" ; exit 23 |
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fi |
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echo ' ' ; cd $dir |
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|
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echo '==== compile AGCM:' |
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cd ${bdPfx}_atm |
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echo ' --- genmake2 (atm):' |
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../../../tools/genmake2 -of $OPTFILE -mpi $MTHa $GMKopt > TTT.genmake.$$ 2>&1 |
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RetVal=$? ; tail -5 TTT.genmake.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in genmake2 (atm)" ; exit 31 |
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fi |
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echo ' --- make depend (atm):' |
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make depend > TTT.mkdepend.$$ 2>&1 |
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RetVal=$? ; tail -10 TTT.mkdepend.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in mkdepend (atm)" ; exit 32 |
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fi |
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echo ' --- make (atm):' ; touch TTT.make.$$ |
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#do_make_syntax.sh obj > TTT.make.$$ 2>&1 |
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make >> TTT.make.$$ 2>&1 |
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RetVal=$? ; tail -10 TTT.make.$$ |
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if test "x$RetVal" != x0 ; then |
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echo "Error in make (atm)" ; exit 33 |
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fi |
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echo ' ' ; cd $dir |
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|
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ls -l ${bdPfx}_???/mitgcmuv |
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|
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fi |
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|
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if test $kpr = 2 |
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then |
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echo 'rm dir:' rank_? rank_1? rank_2? |
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/bin/rm -r -f rank_? rank_1? rank_2? |
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echo 'Link files from dir:' input_cpl '->' rank_0 |
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mkdir rank_0 |
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( cd rank_0 ; ln -s ../input_cpl/* . ) |
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|
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n=$rnkO |
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echo 'Link files from dir:' input_ocn '->' rank_$n |
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mkdir rank_$n |
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cd rank_$n |
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ln -s ../input_ocn/* . |
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if test -x prepare_run ; then ./prepare_run ; fi |
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if test "x$MTHo" != x ; then |
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echo " MTH run: mv -f eedata.mth eedata" |
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if test -h eedata ; then rm -f eedata ; fi |
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mv -f eedata.mth eedata |
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fi |
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cd $dir |
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n=`expr $n + 1` |
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while [ $n -le $NpOc ] ; do |
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ln -s rank_$rnkO rank_$n |
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n=`expr $n + 1` |
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done |
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|
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n=$rnkA |
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echo 'Link files from dir:' input_atm '->' rank_$n |
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mkdir rank_$n |
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cd rank_$n |
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ln -s ../input_atm/* . |
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if test -x prepare_run ; then ./prepare_run ; fi |
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if test "x$MTHa" != x ; then |
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echo " MTH run: mv -f eedata.mth eedata" |
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if test -h eedata ; then rm -f eedata ; fi |
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mv -f eedata.mth eedata |
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fi |
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cd $dir |
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n=`expr $n + 1` |
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while [ $n -lt $Npr ] ; do |
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ln -s rank_$rnkA rank_$n |
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n=`expr $n + 1` |
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done |
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|
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fi |
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|
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if test $kpr = 3 |
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then |
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ROOTDIR=$dir |
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# rm -f rank_?/pickup*.ckptA.00?.00?.??ta |
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echo $ROOTDIR |
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tmpfil=TTT.$$ |
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|
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#--- running on the same node: |
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list='' ; nc=0; xx=`hostname` |
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while [ $nc -lt $Npr ] ; do list="$list $xx" ; nc=`expr $nc + 1` ; done |
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#-- On darwin cluster node (from qrsh session): |
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# JOB_ID=`qstat | sed -n '3,$ p' | grep " $USER " | awk '{print $1}'` |
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# NODEFILE="/tmp/$JOB_ID.1.darwin/machines" |
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# echo " JOB_ID = '$JOB_ID' ; NODEFILE = '$NODEFILE'" |
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#-- On ACES cluster (in PBS batch job): |
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# NODEFILE=$PBS_NODEFILE |
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#--- running on different nodes: |
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# ls -l $NODEFILE |
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# nprc=`cat $NODEFILE | uniq | wc -l` |
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# if [ $nprc -ge $Npr ] ; then |
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# list=`cat $NODEFILE | uniq | head -$Npr` |
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# else |
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# list=`cat $NODEFILE | head -$Npr` |
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# fi |
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|
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nc=0; nn=0; dd1=cpl ; |
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rm -f pr_group ; touch pr_group |
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for xx in $list |
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do |
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echo $xx $nn $dir/${bdPfx}_$dd1/mitgcmuv >> pr_group |
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nc=`expr $nc + 1` |
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if [ $nc -le $NpOc ] ; then dd1=ocn ; else dd1=atm ; fi |
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nn=1 |
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done |
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NpAt=`expr $Npr - 1 - $NpOc` |
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RunOpt="-np 1 ./${bdPfx}_cpl/mitgcmuv" |
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RunOpt="$RunOpt : -np $NpOc ./${bdPfx}_ocn/mitgcmuv" |
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RunOpt="$RunOpt : -np $NpAt ./${bdPfx}_atm/mitgcmuv" |
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|
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cd $ROOTDIR |
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if test "x$MTH" != x ; then |
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export OMP_NUM_THREADS=2 ; export KMP_STACKSIZE=400m |
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if test "x$MTHo" != x ; then |
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echo -n " run OCN ($MTHo) with $OMP_NUM_THREADS threads ;" |
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fi |
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if test "x$MTHa" != x ; then |
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echo -n " run ATM ($MTHa) with $OMP_NUM_THREADS threads ;" |
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fi |
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echo "" |
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fi |
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mpich=`which mpirun` |
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echo $mpich | grep 'mpich-mx' > /dev/null 2>&1 |
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mpichmx=$? |
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echo $mpich | grep 'mpich-1' > /dev/null 2>&1 |
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mpich1=$? |
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echo $mpich | grep 'mpich2' > /dev/null 2>&1 |
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mpich2=$? |
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echo $mpich | grep 'openmpi' > /dev/null 2>&1 |
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opnmpi=$? |
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if test $mpich1 == 0 ; then |
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# /usr/local/pkg/mpi/mpi-1.2.4..8a-gm-1.5/pgi/bin/mpirun.ch_gm -pg pr_group -wd $ROOTDIR --gm-kill 5 -v ./${bdPfx}_cpl/mitgcmuv > std_outp 2>&1 |
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#- with mpich-1 (on danton, old aces: ao, geo, itrda): |
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echo "execute 'mpirun -p4pg pr_group -v ./${bdPfx}_cpl/mitgcmuv' :" |
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mpirun -p4pg pr_group -v ./${bdPfx}_cpl/mitgcmuv > std_outp 2>&1 |
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elif test $mpichmx == 0 ; then |
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#- with mpich-mx (on beagle): |
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echo "execute 'mpirun -pg pr_group -v ./${bdPfx}_cpl/mitgcmuv' :" |
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mpirun -pg pr_group -v ./${bdPfx}_cpl/mitgcmuv > std_outp 2>&1 |
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elif test $mpich2 == 0 -o $opnmpi == 0 ; then |
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#- with Hydra mpich2 (on baudelaire) or with openmpi: |
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echo "execute 'mpirun $RunOpt' :" |
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mpirun $RunOpt > std_outp 2>&1 |
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else |
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#- new mpich (mpich2) installation often just put in "mpich" dir |
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echo "execute 'mpirun $RunOpt' :" |
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mpirun $RunOpt > std_outp 2>&1 |
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fi |
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tail -20 std_outp |
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#ls -l rank_$rnkO/pickup*.ckptA.001.001.data |
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#ls -l rank_$rnkA/pickup*.ckptA.001.001.data |
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ls -l rank_$rnkO/pickup.ckptA.*data | tail -1 |
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ls -l rank_$rnkA/pickup.ckptA.*data | tail -1 |
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|
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fi |
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|
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if test $kpr = 4 |
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then |
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CompRes="$HOME/bin/comp_res" |
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|
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if test -f rank_$rnkO/STDOUT.0000 |
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then echo '==> check Ocean output:' |
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$CompRes rank_$rnkO/STDOUT.0000 results/ocnSTDOUT.0000 |
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mv -f comp_res.log comp_res.ocn |
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echo ' ' |
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else echo "No Ocean output file in rank_$rnkO" ; fi |
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|
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if test -f rank_$rnkA/STDOUT.0000 |
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then |
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echo '==> check Atmos output:' |
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$CompRes rank_$rnkA/STDOUT.0000 results/atmSTDOUT.0000 |
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mv -f comp_res.log comp_res.atm |
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#echo '==> check Land output:' |
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#$CompRes rank_$rnkA/STDOUT.0000 results/atmSTDOUT.0000 L |
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#mv -f comp_res.log comp_res.land |
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#echo '==> check thSIce output:' |
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#$CompRes rank_$rnkA/STDOUT.0000 results/atmSTDOUT.0000 I |
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#mv -f comp_res.log comp_res.sice |
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echo ' ' |
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else echo "No Atmos output file in rank_$rnkA" ; fi |
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|
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fi |
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|
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exit 0 |
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