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revision 1.163 by jmc, Wed May 18 22:03:57 2011 UTC revision 1.199 by mlosch, Wed Feb 18 16:11:31 2015 UTC
# Line 11  usage() Line 11  usage()
11      echo      echo
12      echo "where possible OPTIONS are:"      echo "where possible OPTIONS are:"
13      echo "  (-help|-h)               print usage"      echo "  (-help|-h)               print usage"
14        echo " ---- type of test : ----"
15        echo "  (-tlm)                   perform a Tangent Linear run"
16        echo "  (-adm|-ad)               perform an adjoint run"
17        echo "  (-oad)                   perform an OpenAD adjoint run"
18      echo "  (-mth)                   run multi-threaded (using eedata.mth)"      echo "  (-mth)                   run multi-threaded (using eedata.mth)"
19      echo "  (-mpi)                   use MPI to compile and run on 2 processors"      echo "  (-mpi)                   use MPI to compile and run on 2 processors"
20      echo "  (-MPI)  NUMBER           use MPI to compile and run on max NUMBER procs"      echo "  (-MPI)  NUMBER           use MPI to compile and run on max NUMBER procs"
21      echo "  (-mfile|-mf) STRING      MPI: file with list of possible machines to run on"      echo "  (-mfile|-mf) STRING      MPI: file with list of possible machines to run on"
22      echo "  (-ieee/-noieee)          if possible, use IEEE compiler flags"      echo "  (-command|-c) STRING     command to run (e.g., if non-standard MPI setting)"
23      echo "                             (DEF=\"-ieee\")"      echo "                            DEF='mitgcmuv' or ='mpirun -np TR_NPROC mitgcmuv'"
24        echo " ---- testing options : ----"
25        echo "  (-optfile|-of) STRING    list of optfiles to use"
26        echo "  (-fast)                  use optfile default for compiler flags (no '-ieee')"
27        echo "                            DEF=off => use IEEE numerics option (if available)"
28        echo "  (-devel)                 use optfile developement flags (if available)"
29      echo "  (-gsl)                   compile with \"-gsl\" flag"      echo "  (-gsl)                   compile with \"-gsl\" flag"
30      echo "  (-use_r4|-ur4)           if allowed, use real*4 type for '_RS' variable"      echo "  (-use_r4|-ur4)           if allowed, use real*4 type for '_RS' variable"
     echo "  (-optfile|-of) STRING    list of optfiles to use"  
     echo "  (-addr|-a) STRING        list of email recipients"  
     echo "                             (DEF=\"\" no email is sent)"  
     echo "  (-mpackdir|-mpd) DIR     location of the mpack utility"  
     echo "                             (DEF=\"../tools/mpack-1.6\")"  
31      echo "  (-tdir|-t) STRING        list of group and/or exp. dirs to test"      echo "  (-tdir|-t) STRING        list of group and/or exp. dirs to test"
32      echo "                             (recognized groups: basic, tutorials)"      echo "                             (recognized groups: basic, tutorials)"
33      echo "                             (DEF=\"\" which test all)"      echo "                             (DEF=\"\" which test all)"
# Line 31  usage() Line 35  usage()
35      echo "                              test THIS_EXP + all the following)"      echo "                              test THIS_EXP + all the following)"
36      echo "  (-skipdir|-skd) STRING   list of exp. dirs to skip"      echo "  (-skipdir|-skd) STRING   list of exp. dirs to skip"
37      echo "                             (DEF=\"\" which test all)"      echo "                             (DEF=\"\" which test all)"
38      echo "  (-bash|-b) STRING        preferred location of a \"bash\" or"      echo "  (-ts)                    provide timing information per timestep"
39      echo "                             Bourne-compatible \"sh\" shell"      echo "  (-papis)                 provide MFlop/s per timestep using PAPI"
40        echo "  (-pcls)                  provide MFlop/s per timestep using PCL"
41        echo " ---- system options : ----"
42        echo "  (-bash|-b) STRING        preferred location of a \"bash\" or \"sh\" shell"
43      echo "                             (DEF=\"\" for \"bash\")"      echo "                             (DEF=\"\" for \"bash\")"
44      echo "  (-adm|-ad)               perform an adjoint run"      echo "  (-ef) STRING             used as genmake2 \"-extra_flag\" argument"
     echo "  (-oad)                   perform an OpenAD adjoint run"  
     echo "  (-command|-c) STRING     command to run"  
45      echo "  (-makedepend|-md) STRING command to use for \"makedepend\""      echo "  (-makedepend|-md) STRING command to use for \"makedepend\""
46      echo "  (-make|-m) STRING        command to use for \"make\""      echo "  (-make|-m) STRING        command to use for \"make\""
47      echo "                             (DEF=\"make\")"      echo "                             (DEF=\"make\")"
48      echo "  (-odir) STRING           used to build output directory name"      echo "  (-j) JOBS                use \"make -j JOBS\" for parallel builds"
49      echo "                             (DEF=\"hostname\")"      echo " ---- output options : ----"
 #   echo "  (-ptracers|-ptr) STRING  specify which ptracers to test"  
 #   echo "                             (DEF=\"1 2 3 4 5\")"  
50      echo "  (-match) NUMBER          Matching Criteria (number of digits)"      echo "  (-match) NUMBER          Matching Criteria (number of digits)"
51      echo "                             (DEF=\"$MATCH_CRIT\")"      echo "                             (DEF=\"$MATCH_CRIT\")"
52      echo "  (-j) JOBS                use \"make -j JOBS\" for parallel builds"      echo "  (-odir) STRING           used to build output directory name"
53        echo "                             (DEF=\"hostname\")"
54        echo "  (-addr|-a) STRING        list of email recipients"
55        echo "                             (DEF=\"\" no email is sent)"
56        echo "  (-send)       STRING     sending command (instead of using mpack)"
57        echo "  (-savdir|-sd) STRING     location to save output tar file to send (DEF='$SAVDIR')"
58        echo "  (-mpackdir|-mpd) DIR     location of the mpack utility"
59        echo "                             (DEF=\"../tools/mpack-1.6\")"
60        echo " -- do only some parts: --"
61      echo "  (-clean)                 *ONLY* run \"make CLEAN\" & clean run-dir"      echo "  (-clean)                 *ONLY* run \"make CLEAN\" & clean run-dir"
62      echo "  (-norun|-nr)             skip the \"runmodel\" stage (stop after make)"      echo "  (-norun|-nr)             skip the \"runmodel\" stage (stop after make)"
63        echo "  (-obj)                   only produces objects (=norun & no executable)"
64      echo "  (-runonly|-ro)           *ONLY* run stage (=\"-quick\" without make)"      echo "  (-runonly|-ro)           *ONLY* run stage (=\"-quick\" without make)"
65      echo "  (-quick|-q)              same as \"-nogenmake -noclean -nodepend\""      echo "  (-quick|-q)              same as \"-nogenmake -noclean -nodepend\""
66      echo "  (-nogenmake|-ng)         skip the genmake stage"      echo "  (-nogenmake|-ng)         skip the genmake stage"
# Line 57  usage() Line 69  usage()
69      echo "  (-postclean|-pc)         after each exp. test, clean build-dir & run-dir"      echo "  (-postclean|-pc)         after each exp. test, clean build-dir & run-dir"
70      echo "  (-deloutp|-do)           delete output files after successful run"      echo "  (-deloutp|-do)           delete output files after successful run"
71      echo "  (-deldir|-dd)            on success, delete the output directory"      echo "  (-deldir|-dd)            on success, delete the output directory"
     echo "  (-ts)                    provide timing information per timestep"  
     echo "  (-papis)                 provide MFlop/s per timestep using PAPI"  
     echo "  (-pcls)                  provide MFlop/s per timestep using PCL"  
72      echo      echo
73      echo "and where STRING can be a whitespace-delimited list"      echo "and where STRING can be a whitespace-delimited list"
74      echo "such as:"      echo "such as:"
# Line 114  testoutput_var() Line 123  testoutput_var()
123      # testoutput_var dir s1 label subdir reference_output      # testoutput_var dir s1 label subdir reference_output
124      #      #
125      #  compares 1 variable output selected from file $dir/$subdir/$OUTPUTFILE      #  compares 1 variable output selected from file $dir/$subdir/$OUTPUTFILE
126      #     with same output from reference file $dir/results/$reference_output      #     with same output from reference file $dir/$reference_output
127      #  using search strings s1 and text label      #  using search strings s1 and text label
128    
129      if [ $debug -gt 0 ]; then      if [ $debug -gt 0 ]; then
130          echo testoutput_var: grep "$2" $1/$4/$OUTPUTFILE 1>&2          echo testoutput_var: grep "$2" $1/$4/$OUTPUTFILE 1>&2
131      fi      fi
132      if [ -r $1/$4/$OUTPUTFILE ]; then      if [ -r $1/$4/$OUTPUTFILE ]; then
133          grep "$2" $1/$4/$OUTPUTFILE | sed 's/.*=//' | cat -n > tmp1.txt          grep "$2" $1/$4/$OUTPUTFILE | sed 's/.*=//' | cat -n > ${TMP}a.txt
134          lncntA=`wc -l tmp1.txt | awk '{print $1}' `          lncntA=`wc -l ${TMP}a.txt | awk '{print $1}' `
135          if [ $lncntA -lt 2 ]; then          if [ $lncntA -lt 2 ]; then
136              if [ $verbose -gt 0 ]; then              if [ $verbose -gt 0 ]; then
137                  echo Not enough lines of output when searching for "$2" 1>&2                  echo Not enough lines of output when searching for "$2" 1>&2
138              fi              fi
139              return 99              rm -f ${TMP}a.txt ; return 99
140          fi          fi
141      else      else
142          echo testoutput_var: $OUTPUTFILE from model run was not readable 1>&2          echo testoutput_var: $OUTPUTFILE from model run was not readable 1>&2
143          return 99          return 99
144      fi      fi
145      if [ $debug -gt 0 ]; then      if [ $debug -gt 0 ]; then
146          echo testoutput_var: grep "$2" $1/results/$5 1>&2          echo testoutput_var: grep "$2" $1/$5 1>&2
147      fi      fi
148      grep "$2" $1/results/$5 | sed 's/.*=//' | cat -n > tmp2.txt      grep "$2" $1/$5 | sed 's/.*=//' | cat -n > ${TMP}b.txt
149      lncntB=`wc -l tmp2.txt | awk '{print $1}' `      lncntB=`wc -l ${TMP}b.txt | awk '{print $1}' `
150      if [ $lncntB -lt 2 ]; then      if [ $lncntB -lt 2 ]; then
151          if [ $verbose -gt 0 ]; then          if [ $verbose -gt 0 ]; then
152              echo Not enough lines of output when searching for "$2" 1>&2              echo Not enough lines of output when searching for "$2" 1>&2
153          fi          fi
154          return 99          rm -f ${TMP}a.txt ${TMP}b.txt ; return 99
155      fi      fi
156      if [ $lncntA -ne $lncntB ]; then      if [ $lncntA -ne $lncntB ]; then
157          if [ $verbose -gt 0 ]; then          if [ $verbose -gt 0 ]; then
158              echo Not same Nb of lines when searching for "$2" ":" $lncntA $lncntB 1>&2              echo Not same Nb of lines when searching for "$2" ":" $lncntA $lncntB 1>&2
159          fi          fi
160          return 99          rm -f ${TMP}a.txt ${TMP}b.txt ; return 99
161      fi      fi
162      has_nan=`cat tmp1.txt | grep -i nan | wc -l`      has_nan=`cat ${TMP}a.txt | grep -i nan | wc -l`
163      if [ $has_nan -gt 0  ] ; then      if [ $has_nan -gt 0  ] ; then
164          echo testoutput_var: $OUTPUTFILE contains $has_nan NaN values  1>&2          echo testoutput_var: $OUTPUTFILE contains $has_nan NaN values  1>&2
165          return 99          rm -f ${TMP}a.txt ${TMP}b.txt ; return 99
166      fi      fi
167      has_inf=`cat tmp1.txt | grep -i inf | wc -l`      has_inf=`cat ${TMP}a.txt | grep -i inf | wc -l`
168      if [ $has_inf -gt 0  ] ; then      if [ $has_inf -gt 0  ] ; then
169          echo testoutput_var: $OUTPUTFILE contains $has_inf Inf values  1>&2          echo testoutput_var: $OUTPUTFILE contains $has_inf Inf values  1>&2
170          return 99          rm -f ${TMP}a.txt ${TMP}b.txt ; return 99
171      fi      fi
172      if [ $debug -gt 0 ]; then      if [ $debug -gt 0 ]; then
173          echo testoutput_var: join tmp1.txt tmp2.txt 1>&2          echo testoutput_var: join ${TMP}a.txt ${TMP}b.txt 1>&2
174      fi      fi
175      join tmp1.txt tmp2.txt | awk '{print $1 " " $2 " " $3}' > tmp3.txt      # On the SGI O3K (*not* the O2K), "cat -n" inserts a ":" after the line number
176        join ${TMP}a.txt ${TMP}b.txt | awk '{print $1 " " $2 " " $3}' | sed -e 's|:||g' > ${TMP}c.txt
177      if [ $debug -gt 0 ]; then      if [ $debug -gt 0 ]; then
178          echo testoutput_var: compare_lines 1>&2          echo testoutput_var: compare_lines 1>&2
179      fi      fi
180      if [ $verbose -gt 1 ]; then      if [ $verbose -gt 1 ]; then
181          cat tmp3.txt 1>&2          cat ${TMP}c.txt 1>&2
182      fi      fi
183      echo "-1" >> tmp3.txt      echo "-1" >> ${TMP}c.txt
184      # On the SGI O3K (*not* the O2K), "cat -n" inserts a ":" after the line number      digits_of_similarity=`./tr_cmpnum < ${TMP}c.txt`
     cat tmp3.txt | sed -e 's|:||g' > tmp4.txt  
     digits_of_similarity=`./tr_cmpnum < tmp4.txt`  
185      if [ $digits_of_similarity -eq 99 ]; then      if [ $digits_of_similarity -eq 99 ]; then
186          if [ $verbose -gt 0 ]; then          if [ $verbose -gt 0 ]; then
187              echo testoutput_var: No comparison was available for \"$3\" 1>&2              echo testoutput_var: No comparison was available for \"$3\" 1>&2
# Line 184  testoutput_var() Line 192  testoutput_var()
192              echo There were $digits_of_similarity decimal places of similarity for \"$3\" 1>&2              echo There were $digits_of_similarity decimal places of similarity for \"$3\" 1>&2
193          fi          fi
194      fi      fi
195      rm -f tmp1.txt tmp2.txt tmp3.txt tmp4.txt      rm -f ${TMP}a.txt ${TMP}b.txt ${TMP}c.txt
196    
197      return $digits_of_similarity      return $digits_of_similarity
198  }  }
# Line 195  testoutput_run() Line 203  testoutput_run()
203      #      #
204      #  test output from 1 run in "directory"      #  test output from 1 run in "directory"
205  # --> same processing for adjoint & forward test  # --> same processing for adjoint & forward test
206          # default list of output variables to be checked:          # default list of output variables to be checked:
207          #  1rst : main variable used to decide if it pass or FAIL          #  1rst : main variable used to decide if it pass or FAIL
208          #  others : number of matching digits to be printed in summary.txt          #  others : number of matching digits to be printed in summary.txt
209          listChk=$DEF_CHECK_LIST          listChk=$DEF_CHECK_LIST
210          #  load experiment-specific list from file "tr_checklist" (if it exist)          #  load experiment-specific list from file "tr_checklist" (if it exist)
211          if test -r $1/$2/tr_checklist ; then listChk=`cat $1/$2/tr_checklist` ; fi          if test -r $1/$2/tr_checklist ; then listChk=`cat $1/$2/tr_checklist` ; fi
212          sVar=`echo $listChk | awk '{print $1}'`          sVar=`echo $listChk | awk '{print $1}'`
213          # remove 1rst var and expand the list: + => min max mean s.d          # remove 1rst var and expand the list: + => min max mean s.d
214          listVar=`echo $listChk | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' \          listVar=`echo $listChk | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' \
215                                 | sed 's/+//g' | sed "s/^$sVar//"`                                 | sed 's/+//g' | sed "s/^$sVar//"`
216          if [ $debug -gt 0 ]; then echo "testoutput_run: listVar(I)='$listVar'" 1>&2 ; fi          if [ $debug -gt 0 ]; then echo "testoutput_run: listVar(I)='$listVar'" 1>&2 ; fi
217          # check for ptracer output in reference_output file :          # set ref.outp file-name and, if compressed, uncompress it into subdir
218          outpref=$1/results/$3          refoutp=results/$3
219          ptr_mon="trcstat_ptracerXX_min trcstat_ptracerXX_max"          if test ! -r $1/results/$3 ; then
220          ptr_mon="$ptr_mon trcstat_ptracerXX_mean trcstat_ptracerXX_sd"            if test -r $1/results/${3}.gz ; then
221          for ii in $PTRACERS_NUM ; do              tmpNam1=$3
222                tmpNam2=`echo $tmpNam1 | sed 's/\..*\././'`
223                if test "x$tmpNam1" = "x$tmpNam2" ; then
224                    tmpNam1=`echo $tmpNam2 | sed 's/\./.std./'`
225                fi
226                refoutp=$2/$tmpNam1
227                if [ $debug -gt 0 ]; then
228                    echo "testoutput_run: gunzip 'results/$3.gz' into '$refoutp'" 1>&2
229                fi
230                gzip -cd $1/results/${3}.gz > $1/$refoutp
231              else
232                echo "missing reference output file '$3' (.gz) in '$1/results/'"
233              fi
234            fi
235            # check for ptracer output in reference_output file :
236            if test $KIND = 0 ; then
237              ptr_mon="trcstat_ptracerXX_min trcstat_ptracerXX_max"
238              ptr_mon="$ptr_mon trcstat_ptracerXX_mean trcstat_ptracerXX_sd"
239              for ii in $PTRACERS_NUM ; do
240              ptrfound=0              ptrfound=0
241              for jj in $ptr_mon ; do              for jj in $ptr_mon ; do
242                  name=`eval "echo $jj | sed -e 's|XX|0"$ii"|g'"`                  name=`eval "echo $jj | sed -e 's|XX|0"$ii"|g'"`
243                  tst=`grep $name $outpref | wc -l | awk '{print $1}'`                  tst=`grep $name $1/$refoutp | wc -l | awk '{print $1}'`
244                  if test ! "x$tst" = x0 ; then ptrfound=1 ; fi                  if test ! "x$tst" = x0 ; then ptrfound=1 ; fi
245              done              done
246              if test $ptrfound = '1' ; then              if test $ptrfound = '1' ; then
247                  eval "HAVE_PTR0"$ii"=t"                  eval "HAVE_PTR0"$ii"=t"
248              else              else
249                  eval "HAVE_PTR0"$ii"=f"                  eval "HAVE_PTR0"$ii"=f"
               if test "x$ADM" = x -a "x$OADM" = x; then  
250                # remove this ptr from the list of output variable to check                # remove this ptr from the list of output variable to check
251                # echo "-- ptr test=" $tst "number of var=" `echo $listVar | awk '{print NF}'` 1>&2                # echo "-- ptr test=" $tst "number of var=" `echo $listVar | awk '{print NF}'` 1>&2
252                  listVar=`echo "$listVar" | sed "s/ pt$ii..//g"`                  listVar=`echo "$listVar" | sed "s/ pt$ii..//g"`
               fi  
253              fi              fi
254          #   eval 'echo "HAVE_PTR0'$ii' = $HAVE_PTR0'$ii'"' 1>&2            # eval 'echo "HAVE_PTR0'$ii' = $HAVE_PTR0'$ii'"' 1>&2
255          done            done
256          tst=`echo $sVar $listVar | awk '{ for(i=2;i<=NF;i++){if($i==$1)t+=1}; print t }'`          fi
257          if test $tst != 1 ; then          tst=`echo $sVar $listVar | awk '{ for(i=2;i<=NF;i++){if($i==$1)t+=1}; print t }'`
258            if test $tst = 0 ; then echo "==> WARNING: selected var >$sVar< not found" 1>&2          if test $tst != 1 ; then
259                   else echo "==> WARNING: found selected var >$sVar< $tst times" 1>&2 ; fi            if test $tst = 0 ; then echo "==> WARNING: selected var >$sVar< not found" 1>&2
260            echo "==> WARNING: in checked list:" $listVar 1>&2                   else echo "==> WARNING: found selected var >$sVar< $tst times" 1>&2 ; fi
261          #- put it back once:            echo "==> WARNING: in checked list:" $listVar 1>&2
262            listVar=" $sVar "`echo "$listVar " | sed "s/ $sVar / /g"`          #- put it back once:
263          fi            listVar=" $sVar "`echo "$listVar " | sed "s/ $sVar / /g"`
264            fi
265          if [ $debug -gt 0 ]; then echo "testoutput_run: listVar(M)='$listVar'" 1>&2 ; fi          if [ $debug -gt 0 ]; then echo "testoutput_run: listVar(M)='$listVar'" 1>&2 ; fi
266          echo "listVar='$listVar'" >> $locDIR"/summary.txt"          echo "listVar='$listVar'" >> $locDIR"/summary.txt"
267          #---          #---
268          allargs=""          allargs=""
269          for xx in $listVar          for xx in $listVar
270          do          do
271            case $xx in            case $xx in
272             'PS')  if [ $debug -gt 0 ]             'PS')  if [ $debug -gt 0 ]
273                    then echo testoutput_run: testoutput_var $1 cg2d_init_res 1>&2 ; fi                    then echo testoutput_run: testoutput_var $1 cg2d_init_res 1>&2 ; fi
274                    testoutput_var $1 "cg2d_init_res" "Press. Solver (cg2d)" $2 $3; yy=$?                    testoutput_var $1 "cg2d_init_res" "Press. Solver (cg2d)" $2 $refoutp ; yy=$?
275                    if [ $debug -gt 0 ] ; then echo testoutput_run: cg2dres=$yy 1>&2 ; fi ;;                    if [ $debug -gt 0 ] ; then echo testoutput_run: cg2dres=$yy 1>&2 ; fi ;;
276            'Cost') testoutput_var $1 "ADM  precision_derivative_cost" "ADM Cost" $2 $3; yy=$? ;;            'Cost') testoutput_var $1 "ADM  ref_cost_function" "ADM CostFct" $2 $refoutp ; yy=$? ;;
277            'Grad') testoutput_var $1 "ADM  precision_derivative_grad" "ADM Grad" $2 $3; yy=$? ;;           'AdGrd') testoutput_var $1 "ADM  adjoint_gradient"  "ADM Ad Grad" $2 $refoutp ; yy=$? ;;
278             'Tmn') testoutput_var $1 "dynstat_theta_min"  "Theta minimum"  $2 $3; yy=$? ;;           'FDGrd') testoutput_var $1 "ADM  finite-diff_grad"  "ADM FD Grad" $2 $refoutp ; yy=$? ;;
279             'Tmx') testoutput_var $1 "dynstat_theta_max"  "Theta maximum"  $2 $3; yy=$? ;;          'tlmCst') testoutput_var $1 "TLM  ref_cost_function" "TLM CostFct" $2 $refoutp ; yy=$? ;;
280             'Tav') testoutput_var $1 "dynstat_theta_mean" "Theta mean"     $2 $3; yy=$? ;;          'tlmGrd') testoutput_var $1 "TLM  tangent-lin_grad"  "TLM TL Grad" $2 $refoutp ; yy=$? ;;
281             'Tsd') testoutput_var $1 "dynstat_theta_sd"   "Theta Std.Dev"  $2 $3; yy=$? ;;          'fwdGrd') testoutput_var $1 "TLM  finite-diff_grad"  "TLM FD Grad" $2 $refoutp ; yy=$? ;;
282             'Smn') testoutput_var $1 "dynstat_salt_min"  "Salt minimum"    $2 $3; yy=$? ;;             'Tmn') testoutput_var $1 "dynstat_theta_min"  "Theta minimum"  $2 $refoutp ; yy=$? ;;
283             'Smx') testoutput_var $1 "dynstat_salt_max"  "Salt maximum"    $2 $3; yy=$? ;;             'Tmx') testoutput_var $1 "dynstat_theta_max"  "Theta maximum"  $2 $refoutp ; yy=$? ;;
284             'Sav') testoutput_var $1 "dynstat_salt_mean" "Salt mean"       $2 $3; yy=$? ;;             'Tav') testoutput_var $1 "dynstat_theta_mean" "Theta mean"     $2 $refoutp ; yy=$? ;;
285             'Ssd') testoutput_var $1 "dynstat_salt_sd"   "Salt Std.Dev"    $2 $3; yy=$? ;;             'Tsd') testoutput_var $1 "dynstat_theta_sd"   "Theta Std.Dev"  $2 $refoutp ; yy=$? ;;
286             'Umn') testoutput_var $1 "dynstat_uvel_min"  "U minimum"       $2 $3; yy=$? ;;             'Smn') testoutput_var $1 "dynstat_salt_min"  "Salt minimum"    $2 $refoutp ; yy=$? ;;
287             'Umx') testoutput_var $1 "dynstat_uvel_max"  "U maximum"       $2 $3; yy=$? ;;             'Smx') testoutput_var $1 "dynstat_salt_max"  "Salt maximum"    $2 $refoutp ; yy=$? ;;
288             'Uav') testoutput_var $1 "dynstat_uvel_mean" "U mean"          $2 $3; yy=$? ;;             'Sav') testoutput_var $1 "dynstat_salt_mean" "Salt mean"       $2 $refoutp ; yy=$? ;;
289             'Usd') testoutput_var $1 "dynstat_uvel_sd"   "U Std.Dev"       $2 $3; yy=$? ;;             'Ssd') testoutput_var $1 "dynstat_salt_sd"   "Salt Std.Dev"    $2 $refoutp ; yy=$? ;;
290             'Vmn') testoutput_var $1 "dynstat_vvel_min"  "V minimum"       $2 $3; yy=$? ;;             'Umn') testoutput_var $1 "dynstat_uvel_min"  "U minimum"       $2 $refoutp ; yy=$? ;;
291             'Vmx') testoutput_var $1 "dynstat_vvel_max"  "V maximum"       $2 $3; yy=$? ;;             'Umx') testoutput_var $1 "dynstat_uvel_max"  "U maximum"       $2 $refoutp ; yy=$? ;;
292             'Vav') testoutput_var $1 "dynstat_vvel_mean" "V mean"          $2 $3; yy=$? ;;             'Uav') testoutput_var $1 "dynstat_uvel_mean" "U mean"          $2 $refoutp ; yy=$? ;;
293             'Vsd') testoutput_var $1 "dynstat_vvel_sd"   "V Std.Dev"       $2 $3; yy=$? ;;             'Usd') testoutput_var $1 "dynstat_uvel_sd"   "U Std.Dev"       $2 $refoutp ; yy=$? ;;
294               'Vmn') testoutput_var $1 "dynstat_vvel_min"  "V minimum"       $2 $refoutp ; yy=$? ;;
295               'Vmx') testoutput_var $1 "dynstat_vvel_max"  "V maximum"       $2 $refoutp ; yy=$? ;;
296               'Vav') testoutput_var $1 "dynstat_vvel_mean" "V mean"          $2 $refoutp ; yy=$? ;;
297               'Vsd') testoutput_var $1 "dynstat_vvel_sd"   "V Std.Dev"       $2 $refoutp ; yy=$? ;;
298          'pt1mn'|'pt2mn'|'pt3mn'|'pt4mn'|'pt5mn') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`          'pt1mn'|'pt2mn'|'pt3mn'|'pt4mn'|'pt5mn') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`
299             testoutput_var $1 "trcstat_ptracer0"$ii"_min"  "p0"$ii"_min"   $2 $3; yy=$? ;;             testoutput_var $1 "trcstat_ptracer0"$ii"_min"  "p0"$ii"_min"   $2 $refoutp ; yy=$? ;;
300          'pt1mx'|'pt2mx'|'pt3mx'|'pt4mx'|'pt5mx') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`          'pt1mx'|'pt2mx'|'pt3mx'|'pt4mx'|'pt5mx') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`
301             testoutput_var $1 "trcstat_ptracer0"$ii"_max"  "p0"$ii"_max"   $2 $3; yy=$? ;;             testoutput_var $1 "trcstat_ptracer0"$ii"_max"  "p0"$ii"_max"   $2 $refoutp ; yy=$? ;;
302          'pt1av'|'pt2av'|'pt3av'|'pt4av'|'pt5av') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`          'pt1av'|'pt2av'|'pt3av'|'pt4av'|'pt5av') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`
303             testoutput_var $1 "trcstat_ptracer0"$ii"_mean" "p0"$ii"_mean" $2 $3; yy=$? ;;             testoutput_var $1 "trcstat_ptracer0"$ii"_mean" "p0"$ii"_mean" $2 $refoutp ; yy=$? ;;
304          'pt1sd'|'pt2sd'|'pt3sd'|'pt4sd'|'pt5sd') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`          'pt1sd'|'pt2sd'|'pt3sd'|'pt4sd'|'pt5sd') ii=`echo $xx | sed 's/pt//' | sed 's/..$//'`
305             testoutput_var $1 "trcstat_ptracer0"$ii"_sd"   "p0"$ii"_StDv"  $2 $3; yy=$? ;;             testoutput_var $1 "trcstat_ptracer0"$ii"_sd"   "p0"$ii"_StDv"  $2 $refoutp ; yy=$? ;;
306           'Qntmn') testoutput_var $1 "forcing_qnet_min" "Qnet minimum"  $2 $3; yy=$? ;;           'Qntmn') testoutput_var $1 "forcing_qnet_min" "Qnet minimum"  $2 $refoutp ; yy=$? ;;
307           'Qntmx') testoutput_var $1 "forcing_qnet_max" "Qnet maximum"  $2 $3; yy=$? ;;           'Qntmx') testoutput_var $1 "forcing_qnet_max" "Qnet maximum"  $2 $refoutp ; yy=$? ;;
308           'Qntav') testoutput_var $1 "forcing_qnet_mean" "Qnet mean"       $2 $3; yy=$? ;;           'Qntav') testoutput_var $1 "forcing_qnet_mean" "Qnet mean"       $2 $refoutp ; yy=$? ;;
309           'Qntsd') testoutput_var $1 "forcing_qnet_sd"  "Qnet Std.Dev"  $2 $3; yy=$? ;;           'Qntsd') testoutput_var $1 "forcing_qnet_sd"  "Qnet Std.Dev"  $2 $refoutp ; yy=$? ;;
310           'aSImn') testoutput_var $1 "seaice_area_min"   "SIce Area min"   $2 $3; yy=$? ;;           'aSImn') testoutput_var $1 "seaice_area_min"   "SIce Area min"   $2 $refoutp ; yy=$? ;;
311           'aSImx') testoutput_var $1 "seaice_area_max"   "SIce Area max"   $2 $3; yy=$? ;;           'aSImx') testoutput_var $1 "seaice_area_max"   "SIce Area max"   $2 $refoutp ; yy=$? ;;
312           'aSIav') testoutput_var $1 "seaice_area_mean"  "SIce Area mean"  $2 $3; yy=$? ;;           'aSIav') testoutput_var $1 "seaice_area_mean"  "SIce Area mean"  $2 $refoutp ; yy=$? ;;
313           'aSIsd') testoutput_var $1 "seaice_area_sd"    "SIce Area StDv"  $2 $3; yy=$? ;;           'aSIsd') testoutput_var $1 "seaice_area_sd"    "SIce Area StDv"  $2 $refoutp ; yy=$? ;;
314           'hSImn') testoutput_var $1 "seaice_heff_min"   "SIce Heff min"   $2 $3; yy=$? ;;           'hSImn') testoutput_var $1 "seaice_heff_min"   "SIce Heff min"   $2 $refoutp ; yy=$? ;;
315           'hSImx') testoutput_var $1 "seaice_heff_max"   "SIce Heff max"   $2 $3; yy=$? ;;           'hSImx') testoutput_var $1 "seaice_heff_max"   "SIce Heff max"   $2 $refoutp ; yy=$? ;;
316           'hSIav') testoutput_var $1 "seaice_heff_mean"  "SIce Heff mean"  $2 $3; yy=$? ;;           'hSIav') testoutput_var $1 "seaice_heff_mean"  "SIce Heff mean"  $2 $refoutp ; yy=$? ;;
317           'hSIsd') testoutput_var $1 "seaice_heff_sd"    "SIce Heff StDv"  $2 $3; yy=$? ;;           'hSIsd') testoutput_var $1 "seaice_heff_sd"    "SIce Heff StDv"  $2 $refoutp ; yy=$? ;;
318          'AthSiG') testoutput_var $1 "thSI_Ice_Area_G" "thSIc Area Global" $2 $3; yy=$? ;;           'uSImn') testoutput_var $1 "seaice_uice_min"   "SIce Uice min"   $2 $refoutp ; yy=$? ;;
319          'AthSiS') testoutput_var $1 "thSI_Ice_Area_S" "thSIc Area South"  $2 $3; yy=$? ;;           'uSImx') testoutput_var $1 "seaice_uice_max"   "SIce Uice max"   $2 $refoutp ; yy=$? ;;
320          'AthSiN') testoutput_var $1 "thSI_Ice_Area_N" "thSIc Area North"  $2 $3; yy=$? ;;           'uSIav') testoutput_var $1 "seaice_uice_mean"  "SIce Uice mean"  $2 $refoutp ; yy=$? ;;
321          'HthSiG') testoutput_var $1 "thSI_IceH_ave_G" "thSIc H Global"    $2 $3; yy=$? ;;           'uSIsd') testoutput_var $1 "seaice_uice_sd"    "SIce Uice StDv"  $2 $refoutp ; yy=$? ;;
322          'HthSiS') testoutput_var $1 "thSI_IceH_ave_S" "thSIc H South"     $2 $3; yy=$? ;;           'vSImn') testoutput_var $1 "seaice_vice_min"   "SIce Vice min"   $2 $refoutp ; yy=$? ;;
323          'HthSiN') testoutput_var $1 "thSI_IceH_ave_N" "thSIc H North"     $2 $3; yy=$? ;;           'vSImx') testoutput_var $1 "seaice_vice_max"   "SIce Vice max"   $2 $refoutp ; yy=$? ;;
324                *) yy=99; echo "WARNING: asking for var=$xx : not recognized !" 1>&2 ;;           'vSIav') testoutput_var $1 "seaice_vice_mean"  "SIce Vice mean"  $2 $refoutp ; yy=$? ;;
325            esac           'vSIsd') testoutput_var $1 "seaice_vice_sd"    "SIce Vice StDv"  $2 $refoutp ; yy=$? ;;
326            if test $xx = $sVar          'AthSiG') testoutput_var $1 "thSI_Ice_Area_G" "thSIc Area Global" $2 $refoutp ; yy=$? ;;
327            then allargs="$allargs > $yy <"          'AthSiS') testoutput_var $1 "thSI_Ice_Area_S" "thSIc Area South"  $2 $refoutp ; yy=$? ;;
328            else allargs="$allargs $yy"          'AthSiN') testoutput_var $1 "thSI_Ice_Area_N" "thSIc Area North"  $2 $refoutp ; yy=$? ;;
329            fi          'HthSiG') testoutput_var $1 "thSI_IceH_ave_G" "thSIc H Glob-ave"  $2 $refoutp ; yy=$? ;;
330          done          'HthSiS') testoutput_var $1 "thSI_IceH_ave_S" "thSIc H South-av"  $2 $refoutp ; yy=$? ;;
331            'HthSiN') testoutput_var $1 "thSI_IceH_ave_N" "thSIc H North-av"  $2 $refoutp ; yy=$? ;;
332            'HthMxS') testoutput_var $1 "thSI_IceH_max_S" "thSIc H South-max" $2 $refoutp ; yy=$? ;;
333            'HthMxN') testoutput_var $1 "thSI_IceH_max_N" "thSIc H North-max" $2 $refoutp ; yy=$? ;;
334             'sbo_M') testoutput_var $1 "sbo_mass"          "SBO mass"        $2 $refoutp ; yy=$? ;;
335             'sboFW') testoutput_var $1 "sbo_mass_fw"       "SBO m-FW"        $2 $refoutp ; yy=$? ;;
336             'sboAc') testoutput_var $1 "sbo_zoamc"         "SBO AM-C"        $2 $refoutp ; yy=$? ;;
337             'sboAp') testoutput_var $1 "sbo_zoamp"         "SBO AM-P"        $2 $refoutp ; yy=$? ;;
338            'StrmIc') testoutput_var $1 "STREAMICE_FP_ERR" "StreamIce Solver" $2 $refoutp ; yy=$? ;;
339                  *) yy=99; echo "WARNING: asking for var=$xx : not recognized !" 1>&2 ;;
340              esac
341              if test $xx = $sVar
342              then allargs="$allargs > $yy <"
343              else allargs="$allargs $yy"
344              fi
345            done
346    
347          nbVar=`echo $listVar | awk '{print NF}'`          nbVar=`echo $listVar | awk '{print NF}'`
348          if [ $nbVar -lt $LEN_CHECK_LIST ] ; then          if [ $nbVar -lt $LEN_CHECK_LIST ] ; then
349          #-- fill line (up to standard length) with dot:          #-- fill line (up to standard length) with dot:
350            adNul=`expr $LEN_CHECK_LIST - $nbVar | awk '{for(i=1;i<=$1;i++){print "."}}'`            adNul=`expr $LEN_CHECK_LIST - $nbVar | awk '{for(i=1;i<=$1;i++){print "."}}'`
351            echo $allargs $adNul            echo $allargs $adNul
352          else          else
353            echo $allargs            echo $allargs
354          fi          fi
355  # <-- same processing for adjoint & forward test  # <-- same processing for adjoint & forward test
# Line 328  genmakemodel() Line 372  genmakemodel()
372              if test "x$MKDEPEND" != x ; then              if test "x$MKDEPEND" != x ; then
373                  command="$command -makedepend=$MKDEPEND"                  command="$command -makedepend=$MKDEPEND"
374              fi              fi
375              if test "x$ADM" = xt ; then              if test $KIND = 4 ; then
376                  command="$command --mods=../code_ad"                  command="$command -oad -mods=../$code_dir"
             elif test "x$OADM" = xt ; then  
                 command="$command -adof ../../../tools/adjoint_options/adjoint_oad -mods '../code_oad ../../OpenAD/code_oad_all'"  
377              else              else
378                  command="$command -mods=../code"                  command="$command -mods=../$code_dir"
379              fi              fi
380              if test "x$OPTFILE" != xNONE ; then              if test "x$OPTFILE" != xNONE ; then
381                  command="$command -optfile=$OPTFILE"                  command="$command -optfile=$OPTFILE"
382              fi              fi
383              if test "x$IEEE" != x ; then              if test $OptLev = 1 ; then
384                  command="$command -ieee"                  command="$command -ieee"
385              fi              fi
386                if test $OptLev = 0 ; then
387                    command="$command -devel"
388                fi
389              if test "x$GSL" = xt ; then              if test "x$GSL" = xt ; then
390                  command="$command -gsl"                  command="$command -gsl"
391              fi              fi
# Line 354  genmakemodel() Line 399  genmakemodel()
399              if test "x$USE_R4" = xt ; then              if test "x$USE_R4" = xt ; then
400                  command="$command -use_r4"                  command="$command -use_r4"
401              fi              fi
402                if test "x$EXTRFLG" != x ; then
403                    command="$command -extra_flag $EXTRFLG"
404                fi
405              if test "x$TS" = xt ; then              if test "x$TS" = xt ; then
406                  command="$command -ts"                  command="$command -ts"
407              fi              fi
# Line 384  genmakemodel() Line 432  genmakemodel()
432  makeclean()  makeclean()
433  {  {
434      # makeclean directory      # makeclean directory
435      if test "x$NODEPEND" = xf ; then rm -f $1/make.tr_log ; fi      if test "x$NOGENMAKE" = xf ; then rm -f $1/make.tr_log ; fi
436      if test "x$NOCLEAN" = xt ; then      if test "x$NOCLEAN" = xt ; then
437          echo "make Clean skipped!"          echo "make Clean skipped!"
438      else      else
# Line 416  run_clean() Line 464  run_clean()
464      if test "x$NOCLEAN" = xt ; then      if test "x$NOCLEAN" = xt ; then
465          echo "run_clean skipped!"          echo "run_clean skipped!"
466      else      else
467          (        (
468              cd $1;          cd $1;
469              printf 'clean run-dir ... '          printf 'clean run-dir ... '
470              # part of what is done after "make clean" when doing "make CLEAN"          # part of what is done after "make clean" when doing "make CLEAN"
471              find . -name "*.meta" -exec rm {} \;          find . -name "*.meta" -exec rm {} \;
472              find . -name "*.data" -exec rm {} \;          find . -name "*.data" -exec rm {} \;
473              find . -name "fort.*" -exec rm {} \;          find . -name "fort.*" -exec rm {} \;
474              find . -type l -exec rm {} \;          find . -type l -exec rm {} \;
475              #- should remove executable only if sym-link (alredy done above)          #- should remove executable only if sym-link (already done above)
476              rm -f $RUNLOG *.txt STD* *diagnostics.log datetime          rm -f $RUNLOG *.txt STDOUT.* STDERR.* *diagnostics.log *.[0-9][0-9][0-9][0-9].log
477              rm -rf mnc_test_*          rm -f datetime costfinal divided.ctrl snapshot* output_adm.*.diva_*
478              rm -f *_MIT_CE_000.opt0000 costfunction*0000          rm -f *_MIT_CE_000.opt0000 costfunction*0000
479              echo successful          rm -f oad_cp.[0-9][0-9][0-9].?????
480              exit 0          rm -rf mnc_test_*
481          )          echo successful
482            exit 0
483          )
484      fi      fi
485  }  }
486    
# Line 474  makemodel() Line 524  makemodel()
524          cd $1;          cd $1;
525          if test -r Makefile ; then          if test -r Makefile ; then
526              printf 'make ... '              printf 'make ... '
527              if test "x$ADM" = xt ; then              if test "x$REPLMAKE" = x ; then
528                  $MAKE adall >> make.tr_log 2>&1                  $MAKE $TARG >> make.tr_log 2>&1
529              elif test "x$OADM" = xt ; then              else
530                  $MAKE adAll >> make.tr_log 2>&1                  $REPLMAKE $TARG >> make.tr_log 2>&1
             else  
                 if test "x$JOBS" = x ; then  
                     $MAKE >> make.tr_log 2>&1  
                 else  
                     $MAKE -j $JOBS >> make.tr_log 2>&1  
                 fi  
531              fi              fi
532              RETVAL=$?              RETVAL=$?
533              if test "x$RETVAL" != x0 ; then              if test "x$RETVAL" != x0 ; then
# Line 501  makemodel() Line 545  makemodel()
545              mk_fail=2              mk_fail=2
546          fi          fi
547      fi      fi
548      if test "x$ADM" = xt -a -f taf_ad.log ; then      if test $KIND = 1 -a -f taf_ftl.log ; then
549              head -1 taf_ad.log >> $CDIR"/summary.txt"          head -1 taf_ftl.log >> $CDIR"/summary.txt"
550              nerr=`grep -c 'TAF *.* ERROR ' taf_ad.log`      fi
551              nwar=`grep -c 'TAF RECOMPUTATION *.* WARNING ' taf_ad.log`      if test $KIND = 2 -a -f taf_ad.log ; then
552              echo " TAF reports $nerr Errors and $nwar Recomputation Warnings" \          head -1 taf_ad.log >> $CDIR"/summary.txt"
553            nerr=`grep -c 'TAF *.* ERROR ' taf_ad.log`
554            nwar=`grep -c 'TAF RECOMPUTATION *.* WARNING ' taf_ad.log`
555            if test -f taf_output ; then
556                n2er=`grep -c 'TAF *.* ERROR ' taf_output`
557                n3er=`grep -c '\*ERROR\* ' taf_output`
558                nerr=`expr $nerr + $n2er + $n3er`
559            fi
560            echo " TAF reports $nerr Errors and $nwar Recomputation Warnings" \
561                                  >> $CDIR"/summary.txt"                                  >> $CDIR"/summary.txt"
562      fi      fi
563      if test $mk_fail != 0 ; then return $mk_fail ; fi      if test $mk_fail != 0 ; then return $mk_fail ; fi
# Line 514  makemodel() Line 566  makemodel()
566    
567  mk_mpi_size()  mk_mpi_size()
568  {  {
569      # mk_mpi_size input_file output_file proc_Nb prefer_to_split_X      # mk_mpi_size input_file output_file proc_Nb threads_Nb_X threads_Nb_Y
570      #      #
571      # make new SIZE.h (=output_file) from SIZE.h_mpi (=input_file)      #  make new SIZE.h (=output_file) from SIZE.h_mpi (=input_file)
572      #     for an MPI build with no more than proc_Nb processors ;      #     for an MPI build with no more than proc_Nb processors ;
573      # return the effective number of processors.      #  ensure that enough tiles per proc (nSx,nSy) remain for the given
574        #     number of threads (nTx,nTy) ;
575        #  return the effective number of processors.
576    
577      inp=$1      inp=$1
578      out=$2      out=$2
579      np=$3      np=$3
580      dirX=$4      tx=$4
581        ty=$5
582      tmp=TTT.$$      tmp=TTT.$$
583    
584        # dirX : select with direction to favor in MPI process repartition
585        #   dirX=1 : prefer to put more proc in X direction
586        #   dirX=0 : prefer to put more proc in Y direction
587        dirX=0
588    
589      px=`grep "^     & *nPx *=" $inp | sed "s/^     & *nPx *= *//" | sed 's/, *$//'`      px=`grep "^     & *nPx *=" $inp | sed "s/^     & *nPx *= *//" | sed 's/, *$//'`
590      py=`grep "^     & *nPy *=" $inp | sed "s/^     & *nPy *= *//" | sed 's/, *$//'`      py=`grep "^     & *nPy *=" $inp | sed "s/^     & *nPy *= *//" | sed 's/, *$//'`
591      sx=`grep "^     & *nSx *=" $inp | sed "s/^     & *nSx *= *//" | sed 's/, *$//'`      sx=`grep "^     & *nSx *=" $inp | sed "s/^     & *nSx *= *//" | sed 's/, *$//'`
592      sy=`grep "^     & *nSy *=" $inp | sed "s/^     & *nSy *= *//" | sed 's/, *$//'`      sy=`grep "^     & *nSy *=" $inp | sed "s/^     & *nSy *= *//" | sed 's/, *$//'`
593    
594        #- for each direction, assume # of threads is a multiple of total number of tiles
595        nx=$px
596        if [ `expr $sx % $tx` -ne 0 -a `expr $sx \* $px % $tx` -eq 0 ] ; then
597            nx=`expr $sx \* $px / $tx`
598            if [ $verbose -gt 1 ]; then
599                echo " change px from $px to $nx to accommodate $tx threads"
600            fi
601        fi
602        ny=$py
603        if [ `expr $sy % $ty` -ne 0 -a `expr $sy \* $py % $ty` -eq 0 ] ; then
604            ny=`expr $sy \* $py / $ty`
605            if [ $verbose -gt 1 ]; then
606                echo " change py from $py to $ny to accommodate $ty threads"
607            fi
608        fi
609      #- find the largest divisor of input_file proc Nb, but not larger than $np      #- find the largest divisor of input_file proc Nb, but not larger than $np
610      pp=0      pp=0
611      i=1      i=1
612      while [ $i -le $px ] ; do      while [ $i -le $nx ] ; do
613        if [ `expr $px % $i` -eq 0 ] ; then        if [ `expr $nx % $i` -eq 0 ] ; then
614          j=1          j=1
615          while [ $j -le $py ] ; do          while [ $j -le $ny ] ; do
616            if [ `expr $py % $j` -eq 0 ] ; then            if [ `expr $ny % $j` -eq 0 ] ; then
617              ij=`expr $i \* $j`              ij=`expr $i \* $j`
618              if [ $ij -gt $pp ] ; then              if [ $ij -gt $pp ] ; then
619                  flag=1                  flag=1
# Line 631  linkdata() Line 706  linkdata()
706          (          (
707              cd $1 ; shift              cd $1 ; shift
708              echo 'linkdata from dirs:' $*              echo 'linkdata from dirs:' $*
709              inpMPI=`(cd ../$1 ; find . -name "*.mpi" -print | sed 's:^\./::')`              inpMPI=`(cd ../$1 ; find . -name "*.mpi" -print | sed 's:^\./::')`
710              for xx in $inpMPI ; do              for xx in $inpMPI ; do
711                if test -r "../"$1"/"$xx ; then                if test -r "../"$1"/"$xx ; then
712                  # found 1 _mpi sfx file in 1rst input dir and it is readable                  # found 1 _mpi sfx file in 1rst input dir and it is readable
713                  yy=`echo $xx | sed 's:\.mpi$::'`                  yy=`echo $xx | sed 's:\.mpi$::'`
714                  if test "x$MPI" = "x0" ; then                  if test "x$MPI" = "x0" ; then
715                      # not mpi test: remove symbolic link                      # not mpi test: remove symbolic link
# Line 666  linkdata() Line 741  linkdata()
741              prevDir='NONE'              prevDir='NONE'
742              for ldir in $* ; do              for ldir in $* ; do
743                  if test -d "../"$ldir -a $ldir != $prevDir ; then                  if test -d "../"$ldir -a $ldir != $prevDir ; then
744                      printf " ldir=${ldir}:" 1>&2                      printf " ldir=${ldir}:" 1>&2
745                      files=`( cd "../"$ldir ; ls -1 | grep -v CVS )`                      files=`( cd "../"$ldir ; ls -1 | grep -v CVS )`
746                      for i in $files ; do                      for i in $files ; do
747                          if test ! -d "../"$ldir/$i ; then                          if test ! -d "../"$ldir/$i ; then
# Line 714  runmodel() Line 789  runmodel()
789            else rm -f $EXECUTABLE            else rm -f $EXECUTABLE
790            fi            fi
791          fi          fi
792          if test ! -x $EXECUTABLE -a -x "../"$builddir"/"$EXECUTABLE ; then          if test ! -x $EXECUTABLE -a -x "../"$builddir"/"$EXECUTABLE ; then
793              echo " link" $EXECUTABLE "from dir ../"$builddir > run.log_tmp              echo " link" $EXECUTABLE "from dir ../"$builddir > run.log_tmp
794              ln -sf "../"$builddir"/"$EXECUTABLE .              ln -sf "../"$builddir"/"$EXECUTABLE .
795          fi          fi
796          if test ! -x $EXECUTABLE ; then          if test ! -x $EXECUTABLE ; then
797              rm -f $RUNLOG ; touch $RUNLOG              rm -f $RUNLOG ; touch $RUNLOG
798              if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi              if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi
799              echo " no executable:" $EXECUTABLE >> $RUNLOG              echo " no executable:" $EXECUTABLE >> $RUNLOG
800              RETVAL=8              RETVAL=8
801              ENDVAL=-1              ENDVAL=-1
802          else          else
803            if test ! -f $OUTPUTFILE -o $OUTPUTFILE -ot $EXECUTABLE ; then            if test ! -f $OUTPUTFILE -o $OUTPUTFILE -ot $EXECUTABLE ; then
804              # output do not exist or is older than executable:              # output do not exist or is older than executable:
805              rm -f $OUTPUTFILE $RUNLOG ; touch $RUNLOG              rm -f $OUTPUTFILE $RUNLOG ; touch $RUNLOG
806              if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi              if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi
807            #- Divided Adjoint Run:
808            #  get the number of additional runs (add_DIVA_runs) from file "run_ADM_DIVA"
809                if test $KIND = 2 -a -f run_ADM_DIVA ; then
810                  adm_diva_nb=`sed -n '/^ *add_DIVA_runs\>.*=/p' run_ADM_DIVA | sed 's/ //g'`
811                  echo " Divided Adjoint Run: $adm_diva_nb" >> $RUNLOG
812                  eval "let $adm_diva_nb"
813                  if [ $add_DIVA_runs -ge 1 ] ; then
814                    rm -f costf* divided.ctrl snapshot*
815                    echo -n "(add_DIVA_runs=$add_DIVA_runs) ... "
816                    for ii in `seq 1 $add_DIVA_runs` ; do
817                      ( eval $COMMAND ) >> $RUNLOG 2>&1
818                      echo " additional DIVA run # $ii : done" >> $RUNLOG
819                      mv -f $OUTPUTFILE ${OUTPUTFILE}.diva_${ii}
820                    done
821                  fi
822                fi
823            #- special DIVA processing ends here
824              ( eval $COMMAND ) >> $RUNLOG 2>&1              ( eval $COMMAND ) >> $RUNLOG 2>&1
825              RETVAL=$?              RETVAL=$?
826              ENDVAL=`tail $OUTPUTFILE | grep -c 'PROGRAM MAIN: Execution ended Normally'`              ENDVAL=`tail $OUTPUTFILE | grep -c 'PROGRAM MAIN: Execution ended Normally'`
# Line 742  runmodel() Line 834  runmodel()
834              ENDVAL=`tail $OUTPUTFILE | grep -c 'PROGRAM MAIN: Execution ended Normally'`              ENDVAL=`tail $OUTPUTFILE | grep -c 'PROGRAM MAIN: Execution ended Normally'`
835              touch $RUNLOG              touch $RUNLOG
836              if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi              if test -f run.log_tmp ; then cat run.log_tmp >> $RUNLOG ; fi
837              echo "---------->> $OUTPUTFILE is up to date " >> $RUNLOG 2>&1              echo "---------->> $OUTPUTFILE is up to date " >> $RUNLOG 2>&1
838            fi            fi
839          fi          fi
840          rm -f run.log_tmp          rm -f run.log_tmp
841          #- in all cases where OutputFile exists, report SIZE (and AD time)          #- in all cases where OutputFile exists, report SIZE and time
842          if test -f $OUTPUTFILE ; then          if test -f $OUTPUTFILE ; then
843            grep '(PID\.TID 0000\.0001)      n.. =' $OUTPUTFILE \            grep '(PID\.TID 0000\.0001)      n.. =' $OUTPUTFILE \
844                  | sed 's/(PID.TID 0000.0001)     //' >> $CDIR"/summary.txt"                  | sed 's/(PID.TID 0000.0001)   //' >> $CDIR"/summary.txt"
845            if test "x$ADM" = xt ; then            grep -A3 'Seconds in section "ALL' $OUTPUTFILE \
846              grep -A3 'Seconds in section "ALL' $OUTPUTFILE >> $CDIR"/summary.txt"                  | sed 's/(PID.TID 0000.0001)   //' >> $CDIR"/summary.txt"
           fi  
847          fi          fi
848          if test -s STDERR.0000 ; then cp STDERR.0000 $CDIR"/STDERR.0000" ; fi          if test -s STDERR.0000 ; then cp STDERR.0000 $CDIR"/STDERR.0000" ; fi
849          if [ $RETVAL -eq 0 -a $ENDVAL -gt 0 ] ; then          if [ $RETVAL -eq 0 -a $ENDVAL -gt 0 ] ; then
# Line 854  formatresults() Line 945  formatresults()
945          fi          fi
946      fi      fi
947      printf '  %s' $nm      printf '  %s' $nm
948        if test $KIND = 2 ; then
949            #-- apppend taf repport summary:
950            tafrep=`grep -c '^ TAF reports ' $CDIR/summary.txt`
951            if test $tafrep = 1 ; then
952                grep '^ TAF reports ' $CDIR/summary.txt | awk '{printf "  (e=%i, w=%i)",$3,$6}'
953            fi
954        fi
955      printf '\n'      printf '\n'
956    
957  }  }
# Line 862  scandirs() Line 960  scandirs()
960  {  {
961      if [ $# -eq 1 ]; then      if [ $# -eq 1 ]; then
962          for arg in * ; do          for arg in * ; do
963              test -f $arg/$1 && echo $arg             #test -f $arg/$1 && echo $arg
964                test -f $arg/$1 -o -f $arg/$1.gz && echo $arg
965          done          done
966      else      else
967          echo $*          echo $*
# Line 918  debug=0 Line 1017  debug=0
1017  verbose=1  verbose=1
1018  NBLINES_MKLOG=16000  NBLINES_MKLOG=16000
1019    
1020  IEEE=true  OptLev=1
 if test "x$MITGCM_IEEE" != x ; then  
     IEEE=$MITGCM_IEEE  
 fi  
1021  GSL=f  GSL=f
1022    
1023  CLEANUP=f  CLEANUP=f
# Line 941  SKIPDIRS= Line 1037  SKIPDIRS=
1037  MPACKDIR="../tools/mpack-1.6"  MPACKDIR="../tools/mpack-1.6"
1038  HAVE_MPACK=  HAVE_MPACK=
1039  MPACK=  MPACK=
1040    SENDCMD=
1041    SAVDIR='.'
1042  COMMAND=  COMMAND=
1043  MKDEPEND=  MKDEPEND=
1044  if test "x$MAKE" = x ; then  if test "x$MAKE" = x ; then
1045      MAKE=make      MAKE=make
1046  fi  fi
1047    REPLMAKE=
1048  if test "x$CC" = x ; then  if test "x$CC" = x ; then
1049      CC=cc      CC=cc
1050  fi  fi
1051  JOBS=  JOBS=
1052    TARG=
1053  MPI=0  MPI=0
1054  MPI_MFILE=  MPI_MFILE=
1055  MULTI_THREAD=f  MULTI_THREAD=f
1056  OUTDIR=  OUTDIR=
1057  DELDIR=  DELDIR=
1058  USE_R4=  USE_R4=
1059    EXTRFLG=
1060    
1061  ADM=  #- type of testing (KIND):
1062  OADM=  #   KIND=0 : forward (= default) ;  KIND=1 : Tangent Linear with TAF ;
1063    #   KIND=2 : Adjoint with TAF ;     KIND=4 : Adjoint with OpenAD
1064    KIND=0
1065    
1066  # list of pTracers to check for monitor output  # list of pTracers to check for monitor output
1067  PTRACERS_NUM="1 2 3 4 5"  PTRACERS_NUM="1 2 3 4 5"
# Line 991  for ac_option ; do Line 1094  for ac_option ; do
1094          -mpackdir | --mpackdir | -mpd | --mpd) ac_prev=MPACKDIR ;;          -mpackdir | --mpackdir | -mpd | --mpd) ac_prev=MPACKDIR ;;
1095          -mpackdir=* | --mpackdir=* | -mpd=* | --mpd=*) MPACKDIR=$ac_optarg ;;          -mpackdir=* | --mpackdir=* | -mpd=* | --mpd=*) MPACKDIR=$ac_optarg ;;
1096    
1097            -send | --send ) ac_prev=SENDCMD ;;
1098            -send=* | --send=* ) SENDCMD=$ac_optarg ;;
1099            -savdir | --savdir | -sd | --sd ) ac_prev=SAVDIR ;;
1100            -savdir=* | --savdir=* | -sd=* | --sd=* ) SAVDIR=$ac_optarg ;;
1101    
1102          -tdir | --tdir | -t | --t) ac_prev=TESTDIRS ;;          -tdir | --tdir | -t | --t) ac_prev=TESTDIRS ;;
1103          -tdir=* | --tdir=* | -t=* | --t=*) TESTDIRS=$ac_optarg ;;          -tdir=* | --tdir=* | -t=* | --t=*) TESTDIRS=$ac_optarg ;;
1104          -skipdir | --skipdir | -skd | --skd) ac_prev=SKIPDIRS ;;          -skipdir | --skipdir | -skd | --skd) ac_prev=SKIPDIRS ;;
# Line 1008  for ac_option ; do Line 1116  for ac_option ; do
1116          -make | --make | -m | --m) ac_prev=MAKE ;;          -make | --make | -m | --m) ac_prev=MAKE ;;
1117          -make=* | --make=* | -m=* | --m=*) MAKE=$ac_optarg ;;          -make=* | --make=* | -m=* | --m=*) MAKE=$ac_optarg ;;
1118    
1119            -repl_mk | --repl_mk ) ac_prev=REPLMAKE ;;
1120            -repl_mk=* | --repl_mk=*) REPLMAKE=$ac_optarg ;;
1121    
1122          -odir | --odir) ac_prev=OUTDIR ;;          -odir | --odir) ac_prev=OUTDIR ;;
1123          -odir=* | --odir=*) OUTDIR=$ac_optarg ;;          -odir=* | --odir=*) OUTDIR=$ac_optarg ;;
1124    
# Line 1020  for ac_option ; do Line 1131  for ac_option ; do
1131          -j | --j) ac_prev=JOBS ;;          -j | --j) ac_prev=JOBS ;;
1132          -j=* | --j=*) JOBS=$ac_optarg ;;          -j=* | --j=*) JOBS=$ac_optarg ;;
1133    
1134            -ef | --ef) ac_prev=EXTRFLG ;;
1135            -ef=* | --ef=*) EXTRFLG=$ac_optarg ;;
1136    
1137          -clean | --clean) CLEANUP=t ; DELDIR=t ;;          -clean | --clean) CLEANUP=t ; DELDIR=t ;;
1138    
1139          -norun | --norun | -nr | --nr) NORUN=t ;;          -norun | --norun | -nr | --nr) NORUN=t ;;
1140            -obj | --obj ) TARG='obj' ; NORUN=t ;;
1141          -runonly | --runonly | -ro | --ro) QUICK=t ; NOMAKE=t ;;          -runonly | --runonly | -ro | --ro) QUICK=t ; NOMAKE=t ;;
1142          -quick | --quick | -q | --q) QUICK=t ;;          -quick | --quick | -q | --q) QUICK=t ;;
1143          -nogenmake | --nogenmake | -ng | --ng) NOGENMAKE=t ;;          -nogenmake | --nogenmake | -ng | --ng) NOGENMAKE=t ;;
# Line 1041  for ac_option ; do Line 1156  for ac_option ; do
1156    
1157          -mth) MULTI_THREAD=t ;;          -mth) MULTI_THREAD=t ;;
1158    
1159          -adm | -ad) ADM=t ;;          -tlm) if test $KIND = 0 ; then KIND=1 ; else
1160          -oad) OADM=t; NODEPEND=t ;;                  echo "Error: '-tlm', '-adm' and '-oad' are exclusive" ; usage
1161                  fi ;;
1162          -ieee) IEEE=true ;;          -adm | -ad) if test $KIND = 0 ; then KIND=2 ; else
1163          -noieee) IEEE= ;;                  echo "Error: '-tlm', '-adm' and '-oad' are exclusive" ; usage
1164                  fi ;;
1165            -oad) if test $KIND = 0 ; then KIND=4 ; NODEPEND=t ; else
1166                    echo "Error: '-tlm', '-adm' and '-oad' are exclusive" ; usage
1167                  fi ;;
1168    
1169            -ieee)   echo "Warning: ignore option '-ieee' (already the default)"
1170                     printf " ... " ;;
1171            -noieee) echo "Warning: will use option '-fast' instead of '-noieee' (obsolete)"
1172                     printf " ... " ; OptLev=`expr $OptLev \* 2` ;;
1173            -fast)  OptLev=`expr $OptLev \* 2` ;;
1174            -devel) OptLev=0 ;;
1175          -gsl) GSL=t ;;          -gsl) GSL=t ;;
1176    
1177          -verbose) verbose=2 ;;          -verbose) verbose=2 ;;
# Line 1080  if test "x$MPI" != x0 -a "x$MPI_MFILE" ! Line 1206  if test "x$MPI" != x0 -a "x$MPI_MFILE" !
1206      if test -r $MPI_MFILE ; then      if test -r $MPI_MFILE ; then
1207          nl=`wc -l $MPI_MFILE | awk '{print $1}'`          nl=`wc -l $MPI_MFILE | awk '{print $1}'`
1208          if [ $nl -lt $MPI ] ; then          if [ $nl -lt $MPI ] ; then
1209            echo "Error: need at least $MPI nodes (currently only $nl) in MPI_MFILE=$MPI_FILE"            echo "Error: need at least $MPI nodes (currently only $nl) in MPI_MFILE=$MPI_FILE"
1210            usage            usage
1211          fi          fi
1212          if [ $verbose -gt 1 ]; then          if [ $verbose -gt 1 ]; then
1213              echo " MPI_MFILE=$MPI_MFILE : $nl procs for MPI=$MPI run"              echo " MPI_MFILE=$MPI_MFILE : $nl procs for MPI=$MPI run"
1214          fi          fi
1215      else      else
1216            echo "Error: cannot access MPI_MFILE=$MPI_FILE"            echo "Error: cannot access MPI_MFILE=$MPI_FILE"
1217            usage            usage
1218      fi      fi
1219  fi  fi
1220    
1221  #- setting for forward or ADM testing  #- setting for forward or ADM testing
1222  if test "x$ADM" = xt ; then  if test $KIND = 1 ; then
1223        TARG=ftlall
1224        code_dir=code_ad
1225        inputdir=input_ad
1226        ref_outp="output_tlm.txt"
1227        EXECUTABLE="mitgcmuv_ftl"
1228    elif test $KIND = 2 ; then
1229        if test "x$TARG" = xobj ; then TARG=adobj ; else TARG=adall ; fi
1230      code_dir=code_ad      code_dir=code_ad
1231      inputdir=input_ad      inputdir=input_ad
1232      ref_outp="output_adm.txt"      ref_outp="output_adm.txt"
1233      EXECUTABLE="mitgcmuv_ad"      EXECUTABLE="mitgcmuv_ad"
1234  elif test "x$OADM" = xt ; then  elif test $KIND = 4 ; then
1235        TARG=adAll
1236      code_dir=code_oad      code_dir=code_oad
1237      inputdir=input_oad      inputdir=input_oad
1238      ref_outp="output_oadm.txt"      ref_outp="output_oadm.txt"
1239      EXECUTABLE="mitgcmuv_ad"      EXECUTABLE="mitgcmuv_ad"
1240  else  else
1241        if test "x$JOBS" != x ; then TARG="-j $JOBS $TARG" ; fi
1242      code_dir=code      code_dir=code
1243      inputdir=input      inputdir=input
1244      ref_outp="output.txt"      ref_outp="output.txt"
# Line 1147  do Line 1282  do
1282              echo ""; echo -n " -- skip \"$xx\" (not a directory !)"              echo ""; echo -n " -- skip \"$xx\" (not a directory !)"
1283          fi          fi
1284      else      else
1285          if test $count = 1 ; then echo -n ", \"$xx\""          if test $count = 1 ; then echo -n ", \"$xx\""
1286          else count=1 ; echo "" ;  echo -n " skip: \"$xx\""          else count=1 ; echo "" ;  echo -n " skip: \"$xx\""
1287          fi          fi
1288      fi      fi
# Line 1161  fi Line 1296  fi
1296    
1297  LOC_MFILE='tr_mpi_mfile'  LOC_MFILE='tr_mpi_mfile'
1298  RUNLOG="run.tr_log"  RUNLOG="run.tr_log"
1299  OUTPUTFILE=$ref_outp  if test "x$MPI" = x0 ; then
1300  if test "x$COMMAND" = x ; then    OUTPUTFILE=$ref_outp
1301      COMMAND="./$EXECUTABLE > $OUTPUTFILE"    if test "x$COMMAND" = x ; then COMMAND="./$EXECUTABLE > $OUTPUTFILE" ; fi
1302  fi  else
1303  if test "x$MPI" != x0 ; then    OUTPUTFILE="STDOUT.0000"
1304      OUTPUTFILE="STDOUT.0000"    if test "x$COMMAND" = x ; then COMMAND="mpirun -v -np TR_NPROC ./$EXECUTABLE" ; fi
1305  fi  fi
1306    
1307  echo "OK (COMMAND= $COMMAND )"  echo "OK (COMMAND='$COMMAND')"
1308    
1309    TMP=./tr_$$
1310    #- try to put temporary files in system-local /tmp dir
1311    #TMP=/tmp/tr_$$
1312    #touch $TMP ; retVal=$?
1313    #if [ $retVal -eq 0 ] ; then
1314    #  if test ! -r $TMP ; then TMP=./tr_$$ ; fi
1315    #else
1316    #  TMP=./tr_$$
1317    #fi
1318    #rm -f $TMP
1319    #if [ $verbose -gt 1 ]; then echo " temp files: $TMP" ; fi
1320    
1321  # set the Default List of output variables to be checked:  # set the Default List of output variables to be checked:
1322  #  (use default or load experiment-specific list from file "tr_checklist")  #  (use default or load experiment-specific list from file "tr_checklist")
1323  # content : 1rst = main variable used to decide if it pass or FAIL  # content : 1rst = main variable used to decide if it pass or FAIL
1324  #         others = number of matching digits to be printed in summary.txt  #         others = number of matching digits to be printed in summary.txt
1325  if test "x$ADM" = x -a "x$OADM" = x; then  if test $KIND = 1 ; then
1326        DEF_CHECK_LIST='tlmGrd tlmCst tlmGrd fwdGrd'
1327        EMPTY_RESULTS='.. .. ..'
1328        LEN_CHECK_LIST=`echo $DEF_CHECK_LIST | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' | awk '{print NF-1}'`
1329    elif test $KIND = 2 -o $KIND = 4 ; then
1330        DEF_CHECK_LIST='AdGrd Cost AdGrd FDGrd'
1331        EMPTY_RESULTS='.. .. ..'
1332        LEN_CHECK_LIST=`echo $DEF_CHECK_LIST | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' | awk '{print NF-1}'`
1333    else
1334      DEF_CHECK_LIST='PS PS T+ S+ U+ V+ pt1+ pt2+ pt3+ pt4+ pt5+'      DEF_CHECK_LIST='PS PS T+ S+ U+ V+ pt1+ pt2+ pt3+ pt4+ pt5+'
1335      EMPTY_RESULTS='.. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. ..'      EMPTY_RESULTS='.. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. ..'
1336      LEN_CHECK_LIST=`echo $DEF_CHECK_LIST | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' | awk '{print NF-1}'`      LEN_CHECK_LIST=`echo $DEF_CHECK_LIST | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' | awk '{print NF-1}'`
1337      ii=`echo $EMPTY_RESULTS | awk '{print NF}'`      ii=`echo $EMPTY_RESULTS | awk '{print NF}'`
1338      EMPTY_RESULTS=$EMPTY_RESULTS`expr $LEN_CHECK_LIST - $ii | awk 'BEGIN{FS=":"}{for(i=1;i<=$1;i++){printf "  ."}}'`      EMPTY_RESULTS=$EMPTY_RESULTS`expr $LEN_CHECK_LIST - $ii | awk 'BEGIN{FS=":"}{for(i=1;i<=$1;i++){printf "  ."}}'`
 else  
     DEF_CHECK_LIST='Grad Cost Grad'  
     EMPTY_RESULTS='.. ..'  
     LEN_CHECK_LIST=`echo $DEF_CHECK_LIST | sed 's/ [a-zA-Z0-9]*+/&mn &mx &av &sd/g' | awk '{print NF-1}'`  
1339  fi  fi
1340    
1341  #  create the FORTRAN comparison code  #  create the FORTRAN comparison code
1342  if test -x tr_cmpnum ; then  if test "x$CLEANUP" = xt -o -x tr_cmpnum ; then
1343      echo "skipping comparison code build"      echo "skipping comparison code build"
1344  else  else
1345      createcodelet      createcodelet
1346  fi  fi
1347    
1348  #  build the mpack utility (if ADDRESSES = NONE, do it to test the build)  #  build the mpack utility (if ADDRESSES = NONE, do it to test the build)
1349  if test "x$ADDRESSES" = x ; then  if test "x$ADDRESSES" = x -o "x$SENDCMD" != x ; then
1350      echo "skipping mpack build"      echo "skipping mpack build"
1351  else  else
1352      build_mpack      build_mpack
1353        if test "x$HAVE_MPACK" = xt ; then SENDCMD=$MPACK ; fi
1354  fi  fi
1355    
1356  #  Create a uniquely named directory to store results  #  Create a uniquely named directory to store results
1357  CMDLINE=$0  CMDLINE=$0
1358  for xx in "$@" ; do nw=`echo $xx | wc -w`  for xx in "$@" ; do nw=`echo $xx | wc -w`
1359      if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"      if test $nw = '1' ; then CMDLINE="$CMDLINE $xx" ; else
1360                          else CMDLINE="$CMDLINE '$xx'" ; fi        nb=`echo $xx | grep -c '='`
1361          if test $nb = 0 ; then CMDLINE="$CMDLINE '$xx'"
1362          else yy=`echo "$xx'" | sed "s/=/='/"` ;
1363                                 CMDLINE="$CMDLINE $yy" ; fi
1364        fi
1365  done  done
 #for xx in "$@" ; do CMDLINE="$CMDLINE '$xx'" ; done  
1366  MACH=`hostname`  MACH=`hostname`
1367  UNAMEA=`uname -a`  UNAMEA=`uname -a`
1368  DATE=`date +%Y%m%d`  DATE=`date +%Y%m%d`
# Line 1215  BASE="tr_"$MACH"_"$DATE"_" Line 1370  BASE="tr_"$MACH"_"$DATE"_"
1370  if test "x$OUTDIR" != x ; then  if test "x$OUTDIR" != x ; then
1371      BASE="tr_"$OUTDIR"_"$DATE"_"      BASE="tr_"$OUTDIR"_"$DATE"_"
1372  else  else
1373      short_name=`hostname | sed 's/\..*$//'`     #short_name=`hostname -s | tr '[:upper:]' '[:lower:]'`
1374       # hostname -s is not universal (does work on AIX system)
1375       short_name=`hostname | sed 's/\..*$//' | tr '[:upper:]' '[:lower:]'`
1376      
1377      BASE="tr_"$short_name"_"$DATE"_"      BASE="tr_"$short_name"_"$DATE"_"
1378  fi  fi
1379  DNUM=0  DNUM=0
# Line 1252  if test "x$OPTFILE" != xNONE ; then Line 1410  if test "x$OPTFILE" != xNONE ; then
1410          echo >> $SUMMARY          echo >> $SUMMARY
1411          echo "  OPTFILE=$OPTFILE" >> $SUMMARY          echo "  OPTFILE=$OPTFILE" >> $SUMMARY
1412      else      else
1413          echo | tee $SUMMARY          echo | tee -a $SUMMARY
1414          echo "ERROR: can't read OPTFILE=\"$OPTFILE\"" | tee $SUMMARY          echo "ERROR: can't read OPTFILE=\"$OPTFILE\"" | tee -a $SUMMARY
1415          exit 1          exit 1
1416      fi      fi
1417  else  else
# Line 1263  else Line 1421  else
1421  fi  fi
1422  echo  echo
1423  echo >> $SUMMARY  echo >> $SUMMARY
1424  if test "x$ADM" = x -a "x$OADM" = x; then  if test $KIND = 0 ; then
1425      if [ $MATCH_CRIT -lt 10 ] ;      line_0=`printf '%s %2i' 'default' $MATCH_CRIT`
     then line_0="default  "$MATCH_CRIT ;  
     else line_0="default "$MATCH_CRIT ; fi  
1426         line_0="$line_0  ----T-----  ----S-----  ----U-----  ----V-----"         line_0="$line_0  ----T-----  ----S-----  ----U-----  ----V-----"
1427      line_1="G D M    c        m  s        m  s        m  s        m  s"      line_1="G D M    c        m  s        m  s        m  s        m  s"
1428      line_2="E p a R  g  m  m  e  .  m  m  e  .  m  m  e  .  m  m  e  ."      line_2="e p a R  g  m  m  e  .  m  m  e  .  m  m  e  .  m  m  e  ."
1429      line_3="N n k u  2  i  a  a  d  i  a  a  d  i  a  a  d  i  a  a  d"      line_3="n n k u  2  i  a  a  d  i  a  a  d  i  a  a  d  i  a  a  d"
1430      line_4="2 d e n  d  n  x  n  .  n  x  n  .  n  x  n  .  n  x  n  ."      line_4="2 d e n  d  n  x  n  .  n  x  n  .  n  x  n  .  n  x  n  ."
1431      for ii in $PTRACERS_NUM ; do      for ii in $PTRACERS_NUM ; do
1432          line_0="$line_0  --PTR 0"$ii"--"          line_0="$line_0  --PTR 0"$ii"--"
# Line 1279  if test "x$ADM" = x -a "x$OADM" = x; the Line 1435  if test "x$ADM" = x -a "x$OADM" = x; the
1435          line_3="$line_3  i  a  a  d"          line_3="$line_3  i  a  a  d"
1436          line_4="$line_4  n  x  n  ."          line_4="$line_4  n  x  n  ."
1437      done      done
1438    else
1439        line_0=`printf '%s %2i' 'default   ' $MATCH_CRIT`
1440      if test $KIND = 1 ; then
1441       #echo "TANGLIN=true" >> $SUMMARY
1442        echo "TangLin generated by TAF" >> $SUMMARY
1443      elif test $KIND = 3 ; then
1444        echo "TangLin generated by OpenAD" >> $SUMMARY
1445      elif test $KIND = 2 ; then
1446       #echo "ADJOINT=true" >> $SUMMARY
1447        echo "Adjoint generated by TAF" >> $SUMMARY
1448      else
1449        echo "Adjoint generated by OpenAD" >> $SUMMARY
1450      fi
1451      if test $KIND = 1 -o $KIND = 3 ; then
1452        line_1="G D M    C  T  F"
1453        line_2="e p a R  o  L  D"
1454      else
1455        line_1="G D M    C  A  F"
1456        line_2="e p a R  o  d  D"
1457      fi
1458        line_3="n n k u  s  G  G"
1459        line_4="2 d e n  t  r  r"
1460        echo >> $SUMMARY
1461    fi
1462    if test "x$CLEANUP" != xt ; then
1463      echo "$line_0" | tee -a $SUMMARY      echo "$line_0" | tee -a $SUMMARY
1464      echo "$line_1" | tee -a $SUMMARY      echo "$line_1" | tee -a $SUMMARY
1465      echo "$line_2" | tee -a $SUMMARY      echo "$line_2" | tee -a $SUMMARY
1466      echo "$line_3" | tee -a $SUMMARY      echo "$line_3" | tee -a $SUMMARY
1467      echo "$line_4" | tee -a $SUMMARY      echo "$line_4" | tee -a $SUMMARY
1468      echo " "       | tee -a $SUMMARY      echo ""        | tee -a $SUMMARY
 else  
     echo "ADJOINT=true" >> $SUMMARY  
     echo >> $SUMMARY  
     if [ $MATCH_CRIT -lt 10 ] ;  
     then line_0="default     "$MATCH_CRIT ;  
     else line_0="default    "$MATCH_CRIT ; fi  
     echo "$line_0" | tee -a $SUMMARY  
     cat << EOF | tee -a $SUMMARY  
 G D M    C  G  
 E p a R  o  r  
 N n k u  s  a  
 2 d e n  t  d  
   
 EOF  
1469  fi  fi
1470  echo "-------------------------------------------------------------------------------"  echo "-------------------------------------------------------------------------------"
1471    
# Line 1324  for dir in $TESTDIRS ; do Line 1491  for dir in $TESTDIRS ; do
1491              rm -f $EXECUTABLE *.bak              rm -f $EXECUTABLE *.bak
1492              rm -f genmake_state genmake_*optfile genmake.log              rm -f genmake_state genmake_*optfile genmake.log
1493              rm -f SIZE.h.mpi genmake.tr_log make.tr_log              rm -f SIZE.h.mpi genmake.tr_log make.tr_log
1494                rm -rf mpi_headers
1495          )          )
1496          if test -d $dir/$rundir/CVS ; then          if test -d $dir/$rundir/CVS ; then
1497              echo -n '  --- dir:' $dir/$rundir ': '              echo -n '  --- dir:' $dir/$rundir ': '
1498              run_clean $dir/$rundir              run_clean $dir/$rundir
1499          fi          fi
1500          trdir=`( cd $dir ; find . -type d -name "$pfxdir.*" -print | sed 's/^.\///')`          trdir=`( cd $dir ; find . -type d -name "$pfxdir.*" -print | sed 's/^.\///')`
# Line 1341  for dir in $TESTDIRS ; do Line 1509  for dir in $TESTDIRS ; do
1509      #  Verify that the testdir exists and contains previous      #  Verify that the testdir exists and contains previous
1510      #  results in the correct location--or skip this directory!      #  results in the correct location--or skip this directory!
1511      fout=$dir"/results/"$ref_outp      fout=$dir"/results/"$ref_outp
1512      if test ! -r $fout ; then     #if test ! -r $fout ; then
1513        if test ! -r $fout -a ! -r ${fout}.gz ; then
1514          echo "can't read \"$fout\" -- skipping $dir"          echo "can't read \"$fout\" -- skipping $dir"
1515          continue          continue
1516      fi      fi
# Line 1358  for dir in $TESTDIRS ; do Line 1527  for dir in $TESTDIRS ; do
1527      fi      fi
1528    
1529      if test "x$MPI" != "x0" ; then      if test "x$MPI" != "x0" ; then
1530          prefer_X=0          ntx=1 ; nty=1
1531          if test "x$MULTI_THREAD" = "xt" ; then          if test "x$MULTI_THREAD" = "xt" ; then
1532              retv=`check_eedata $dir"/input/eedata.mth"`            ff=$dir"/input/eedata.mth"
1533              if test $retv = 1 ; then prefer_X=1 ; fi            ntx=`grep "^ *nTx *=" $ff | tail -1 | sed 's/^ *nTx *= *//' | sed "s/, *$//"`
1534              nty=`grep "^ *nTy *=" $ff | tail -1 | sed 's/^ *nTy *= *//' | sed "s/, *$//"`
1535              if test "x$ntx" = x ; then ntx=1 ; fi
1536              if test "x$nty" = x ; then nty=1 ; fi
1537          fi          fi
1538          #- create new SIZE.h with no more than '$MPI' Procs          #- create new SIZE.h with no more than '$MPI' Procs
1539          mk_mpi_size $CODE_DIR"/SIZE.h_mpi" $BUILD_DIR"/tr_size.mpi" $MPI $prefer_X          mk_mpi_size $CODE_DIR"/SIZE.h_mpi" $BUILD_DIR"/tr_size.mpi" $MPI $ntx $nty
1540          LOC_NPROC=$?          LOC_NPROC=$?
1541          (   cd $BUILD_DIR          (   cd $BUILD_DIR
1542              if test -r SIZE.h.mpi ; then              if test -r SIZE.h.mpi ; then
# Line 1404  for dir in $TESTDIRS ; do Line 1576  for dir in $TESTDIRS ; do
1576      #  Check whether there are "extra runs" for this testdir      #  Check whether there are "extra runs" for this testdir
1577      extra_runs=      extra_runs=
1578      if test "x$NORUN" = xf ; then      if test "x$NORUN" = xf ; then
1579          ex_run_dirs=`( cd $dir ; echo $inputdir.* )`          ex_run_dirs=`( cd $dir ; ls -d $inputdir.* 2> /dev/null )`
1580      fi      fi
1581      #echo "ex_run_dirs='$ex_run_dirs'"      #echo "ex_run_dirs='$ex_run_dirs'"
1582      for exd in $ex_run_dirs ; do      for exd in $ex_run_dirs ; do
1583          name=`echo $exd | sed -e "s/$inputdir\.//"`          name=`echo $exd | sed -e "s/$inputdir\.//"`
1584          refExOut=`echo $ref_outp | sed "s/\./.${name}./"`          refExOut=`echo $ref_outp | sed "s/\./.${name}./"`
1585          outf="$dir/results/$refExOut"          outf="$dir/results/$refExOut"
1586          if test -f $outf -a -r $outf ; then          if test -r $outf -o -r ${outf}.gz ; then
1587            if test "x$MULTI_THREAD" = "xt" ; then            if test "x$MULTI_THREAD" = "xt" ; then
1588              if test -r $dir"/"$exd"/eedata.mth" ; then              if test -r $dir"/"$exd"/eedata.mth" ; then
1589                if test "x$MPI" = "x0" ; then                if test "x$MPI" = "x0" ; then
# Line 1434  for dir in $TESTDIRS ; do Line 1606  for dir in $TESTDIRS ; do
1606    
1607      echo      echo
1608      if test "x$extra_runs" = "x" ; then      if test "x$extra_runs" = "x" ; then
1609         echo "Experiment:  $dir"          echo "Experiment:  $dir"
1610      else      else
1611         echo "Experiment:  $dir ; extra_runs=$extra_runs"          echo "Experiment:  $dir ; extra_runs=$extra_runs"
1612      fi      fi
1613      echo      echo
1614      unset genmake makedepend make run      unset genmake makedepend make run
# Line 1455  for dir in $TESTDIRS ; do Line 1627  for dir in $TESTDIRS ; do
1627              run=N              run=N
1628          genmakemodel $dir/$builddir && genmake=Y \          genmakemodel $dir/$builddir && genmake=Y \
1629              && makeclean $dir/$builddir \              && makeclean $dir/$builddir \
1630              && symlink_mpifiles $dir $code_dir $builddir \              && symlink_mpifiles $dir $code_dir $builddir \
1631              && makedependmodel $dir/$builddir && makedepend=Y \              && makedependmodel $dir/$builddir && makedepend=Y \
1632              && makemodel $dir/$builddir && make=Y              && makemodel $dir/$builddir && make=Y
1633      else      else
1634          genmakemodel $dir/$builddir && genmake=Y \          genmakemodel $dir/$builddir && genmake=Y \
1635              && makeclean $dir/$builddir \              && makeclean $dir/$builddir \
1636              && symlink_mpifiles $dir $code_dir $builddir \              && symlink_mpifiles $dir $code_dir $builddir \
1637              && makedependmodel $dir/$builddir && makedepend=Y \              && makedependmodel $dir/$builddir && makedepend=Y \
1638              && makemodel $dir/$builddir && make=Y \              && makemodel $dir/$builddir && make=Y \
1639              && run_clean $dir/$rundir \              && run_clean $dir/$rundir \
# Line 1473  for dir in $TESTDIRS ; do Line 1645  for dir in $TESTDIRS ; do
1645    
1646          fres=`formatresults $dir ${genmake:-N} ${makedepend:-N} ${make:-N} ${run:-N} $results`          fres=`formatresults $dir ${genmake:-N} ${makedepend:-N} ${make:-N} ${run:-N} $results`
1647          echo 1>&2          echo 1>&2
1648          echo "$fres" | sed 's/ 99/ --/g' | sed 's/  > />/' | sed 's/  < /</' >> $SUMMARY          echo "$fres" | sed 's/ 99/ --/g' | sed 's/  > />/' | sed 's/  < /</' >> $SUMMARY
1649          echo "fresults='$fres'" | sed 's/ 99/ --/g' >> $locDIR"/summary.txt"          echo "fresults='$fres'" | sed 's/ 99/ --/g' >> $locDIR"/summary.txt"
1650    
1651          for ex in $extra_runs ; do          for ex in $extra_runs ; do
1652              unset run              unset run
1653              results=$EMPTY_RESULTS              results=$EMPTY_RESULTS
1654              #  reference output file              #  reference output file
1655              refExOut=`echo $ref_outp | sed "s/\./.${ex}./g"`              refExOut=`echo $ref_outp | sed "s/\./.${ex}./g"`
1656              #  Create an output dir & summary.txt file for each extra run (tdir.ex)              #  Create an output dir & summary.txt file for each extra run (tdir.ex)
# Line 1494  for dir in $TESTDIRS ; do Line 1666  for dir in $TESTDIRS ; do
1666              linkdata $dir/$pfxdir.$ex $inputdir.$ex $inputdir              linkdata $dir/$pfxdir.$ex $inputdir.$ex $inputdir
1667              runmodel $dir/$pfxdir.$ex && run=Y \              runmodel $dir/$pfxdir.$ex && run=Y \
1668              && results=`testoutput_run $dir $pfxdir.$ex $refExOut`              && results=`testoutput_run $dir $pfxdir.$ex $refExOut`
1669              fres=`formatresults $dir ${genmake:-N} ${makedepend:-N} ${make:-N} ${run:-N} $results`              fres=`formatresults $dir.$ex ${genmake:-N} ${makedepend:-N} ${make:-N} ${run:-N} $results`
             fres="$fres.$ex"  
1670              echo 1>&2              echo 1>&2
1671              echo "$fres" | sed 's/ 99/ --/g' | sed 's/  > />/' | sed 's/  < /</' >> $SUMMARY              echo "$fres" | sed 's/ 99/ --/g' | sed 's/  > />/' | sed 's/  < /</' >> $SUMMARY
1672              echo "fresults='$fres'" | sed 's/ 99/ --/g' >> $locDIR"/summary.txt"              echo "fresults='$fres'" | sed 's/ 99/ --/g' >> $locDIR"/summary.txt"
# Line 1504  for dir in $TESTDIRS ; do Line 1675  for dir in $TESTDIRS ; do
1675              fi              fi
1676          done          done
1677    
1678      if test -f $DRESULTS"/"genmake_state ; then : ; else      if test ! -f $DRESULTS"/"genmake_state ; then
1679          if test -f $dir/$builddir/Makefile ; then          if test -f $dir/$builddir/Makefile ; then
1680              mkOpt=`grep '^# OPTFILE=' $dir/$builddir/Makefile 2>/dev/null | head -1 | sed 's/^# //'`              mkOpt=`grep '^# OPTFILE=' $dir/$builddir/Makefile 2>/dev/null | head -1 | sed 's/^# //'`
1681              echo "from '$dir/$builddir/Makefile', extract:" > $DRESULTS/genmake_state              echo "from '$dir/$builddir/Makefile', extract:" > $DRESULTS/genmake_state
1682              sed -n '/^# executed by:/,+1 p' $dir/$builddir/Makefile >> $DRESULTS/genmake_state  #           sed -n '/^# executed by:/,+1 p' $dir/$builddir/Makefile >> $DRESULTS/genmake_state
1683    # bsd-sed cannot do the above code
1684                cat $dir/$builddir/Makefile | \
1685                    sed  -n '/^# executed by:/{N
1686                                               p
1687                                               }' >> $DRESULTS/genmake_state
1688              echo " $mkOpt" >> $DRESULTS/genmake_state              echo " $mkOpt" >> $DRESULTS/genmake_state
1689              if test "x$OPTFILE" = xNONE ; then              if test "x$OPTFILE" = xNONE ; then
1690                  eval $mkOpt                  eval $mkOpt
1691                  sed "/^No \"OPTFILE\" was specified ; genmake2/a\  OPTFILE=${OPTFILE}"\  #               sed "/^No \"OPTFILE\" was specified ; genmake2/a\  OPTFILE=${OPTFILE}"\
1692                          $SUMMARY > tr_0.tmp_log  #                       $SUMMARY > tmp.tr_log
1693    # bsd-sed requires a newline after "a\":
1694                    sed "/^No \"OPTFILE\" was specified ; genmake2/a\\
1695                             OPTFILE=${OPTFILE}" $SUMMARY > tmp.tr_log
1696                  RETVAL=$?                  RETVAL=$?
1697                  if test "x$RETVAL" = x0 ; then rm -f $SUMMARY                  if test "x$RETVAL" = x0 ; then
1698                          cp tr_0.tmp_log $SUMMARY                      cp -f tmp.tr_log $SUMMARY
                 else rm -f tr_0.tmp_log  
1699                  fi                  fi
1700                    rm -f tmp.tr_log
1701              fi              fi
1702              gmkLog=$dir/$builddir/genmake.log              gmkLog=$dir/$builddir/genmake.log
1703              grep '^Get compiler version using:' $gmkLog > /dev/null 2>&1              if test -r $gmkLog ; then
1704              RETVAL=$?                  grep '^Get compiler version using:' $gmkLog > /dev/null 2>&1
1705              if test "x$RETVAL" = x0 ; then                  RETVAL=$?
1706                  echo "from '$gmkLog', extract compiler version:" >> $DRESULTS/genmake_state                  if test "x$RETVAL" = x0 ; then
1707                  sed -n '/Get compiler version/,/<-- compiler version/p' $gmkLog \                    echo -n "from '$gmkLog', " >> $DRESULTS/genmake_state
1708                         | grep -v '^... compiler version ' > tr_1.tmp_log                    echo "extract compiler version:"   >> $DRESULTS/genmake_state
1709                  sed -n '1,/^$/p' tr_1.tmp_log | sed '/^$/d' | sed 's/^./ &/' \                    sed -n '/Get compiler version/,/<-- compiler version/p' \
1710                          >> $DRESULTS/genmake_state                       $gmkLog | grep -v '^... compiler version ' > tmp.tr_log
1711                  rm -f tr_1.tmp_log                    sed -n '1p' tmp.tr_log >> $DRESULTS/genmake_state
1712                      sed -n '2,/^$/p' tmp.tr_log | sed '/^$/d' | sed 's/^./ &/' \
1713                                             >> $DRESULTS/genmake_state
1714                      rm -f tmp.tr_log
1715                    fi
1716                    echo -n "from '$gmkLog', " >> $DRESULTS/genmake_state
1717                    echo "get NETCDF & LAPACK settings:" >> $DRESULTS/genmake_state
1718                    sed -n '/set HAVE_NETCDF=/p' $gmkLog >> $DRESULTS/genmake_state
1719                    sed -n '/set HAVE_LAPACK=/p' $gmkLog >> $DRESULTS/genmake_state
1720              fi              fi
1721          fi          fi
1722      fi      fi
1723      #postclean $dir/$builddir      #postclean $dir/$builddir
1724      if test "x$POSTCLEAN" = x2 ; then      if test "x$POSTCLEAN" = x2 ; then
1725          makeclean $dir/$builddir \          makeclean $dir/$builddir \
1726              && run_clean $dir/$rundir              && run_clean $dir/$rundir
1727      fi      fi
1728      if test "x$MPI" != x0 -a "x$MPI_MFILE" != x ; then rm -f $LOC_MFILE ; fi      if test "x$MPI" != x0 -a "x$MPI_MFILE" != x ; then rm -f $LOC_MFILE ; fi
1729    
# Line 1554  date >> $SUMMARY Line 1741  date >> $SUMMARY
1741  if test "x$ADDRESSES" = xNONE -o "x$ADDRESSES" = x ; then  if test "x$ADDRESSES" = xNONE -o "x$ADDRESSES" = x ; then
1742      echo "No results email was sent."      echo "No results email was sent."
1743  else  else
1744      if test "x$HAVE_MPACK" = xt ; then      if test "x$SENDCMD" != x ; then
1745          tar -cf $DRESULTS".tar" $DRESULTS > /dev/null 2>&1 \          if [ $verbose -gt 1 ]; then
1746              && gzip $DRESULTS".tar" \             echo " run: $SENDCMD -s MITgcm-test -m 3555000 ${SAVDIR}/${DRESULTS}".tar.gz" $ADDRESSES"
1747              && $MPACK -s MITgcm-test -m 3555000 $DRESULTS".tar.gz" $ADDRESSES          fi
1748            tar -cf ${SAVDIR}/${DRESULTS}".tar" $DRESULTS > /dev/null 2>&1 \
1749                && gzip ${SAVDIR}/${DRESULTS}".tar" \
1750                && $SENDCMD -s MITgcm-test -m 3555000 ${SAVDIR}/${DRESULTS}".tar.gz" $ADDRESSES
1751          RETVAL=$?          RETVAL=$?
1752          if test "x$RETVAL" != x0 ; then          if test "x$RETVAL" != x0 ; then
1753              echo              echo
# Line 1570  else Line 1760  else
1760              echo "An email containing results was sent to the following addresses:"              echo "An email containing results was sent to the following addresses:"
1761              echo "  \"$ADDRESSES\""              echo "  \"$ADDRESSES\""
1762              echo              echo
1763              test -f $DRESULTS".tar"  &&  rm -f $DRESULTS".tar"              test -f ${SAVDIR}/${DRESULTS}".tar" &&  rm -f ${SAVDIR}/${DRESULTS}".tar"
1764              test -f $DRESULTS".tar.gz"  &&  rm -f $DRESULTS".tar.gz"              test -f ${SAVDIR}/${DRESULTS}".tar.gz" &&  rm -f ${SAVDIR}/${DRESULTS}".tar.gz"
1765          fi          fi
1766      fi      fi
1767  fi  fi
# Line 1583  fi Line 1773  fi
1773  if test "x$CLEANUP" != xt ; then  if test "x$CLEANUP" != xt ; then
1774      cat $SUMMARY | sed 's/ \.  \.  \.  \.  \.  \.  \.  \.  \.  \.  \.  \. //'      cat $SUMMARY | sed 's/ \.  \.  \.  \.  \.  \.  \.  \.  \.  \.  \.  \. //'
1775      if test -e tr_out.txt ; then      if test -e tr_out.txt ; then
1776          mv tr_out.txt tr_out.txt.old          mv tr_out.txt tr_out.txt.old
1777      fi      fi
1778      cat $SUMMARY | sed '/^[YN] [YN] [YN] [YN]/ s/ \. //g' > tr_out.txt      cat $SUMMARY | sed '/^[YN] [YN] [YN] [YN]/ s/ \. //g' > tr_out.txt
1779  fi  fi
# Line 1591  fi Line 1781  fi
1781  if test "x$DELDIR" = xt ; then  if test "x$DELDIR" = xt ; then
1782      rm -rf $DRESULTS      rm -rf $DRESULTS
1783  fi  fi
1784    echo "======== End of testreport execution ========"

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