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revision 1.159 by cnh, Wed Dec 13 02:24:53 2006 UTC revision 1.185 by jmc, Fri Mar 27 20:18:07 2009 UTC
# Line 601  Usage: "$0" [OPTIONS] Line 601  Usage: "$0" [OPTIONS]
601    
602      -gsl | --gsl      -gsl | --gsl
603            Use GSL to control floating point rounding and precision            Use GSL to control floating point rounding and precision
604        -devel | --devel
605              Add additional warning and debugging flags for development
606    
607      -mpi | --mpi      -mpi | --mpi
608            Include MPI header files and link to MPI libraries            Include MPI header files and link to MPI libraries
# Line 744  void FC_NAMEMANGLE(cloc) ( double *curti Line 746  void FC_NAMEMANGLE(cloc) ( double *curti
746   *curtim = *curtim/1.E6;   *curtim = *curtim/1.E6;
747  }  }
748  EOF  EOF
749      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
750        echo $COMM >> genmake_warnings
751        $COMM >> genmake_warnings 2>&1
752      RET_C=$?      RET_C=$?
753      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
754        program hello        program hello
# Line 754  EOF Line 758  EOF
758        print *," HELLO WORLD", wtime        print *," HELLO WORLD", wtime
759        end        end
760  EOF  EOF
761      $FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
762        echo $COMM >> genmake_warnings
763        $COMM >> genmake_warnings 2>&1
764      RET_F=$?      RET_F=$?
765      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1
766      RETVAL=$?      RETVAL=$?
# Line 801  void FC_NAMEMANGLE(sigreg) (int * aip) Line 807  void FC_NAMEMANGLE(sigreg) (int * aip)
807      return;      return;
808  }  }
809  EOF  EOF
810      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
811        echo $COMM >> genmake_warnings
812        $COMM >> genmake_warnings 2>&1
813      RET_C=$?      RET_C=$?
814      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
815        program hello        program hello
# Line 849  void FC_NAMEMANGLE(setrlstk) () Line 857  void FC_NAMEMANGLE(setrlstk) ()
857      return;      return;
858  }  }
859  EOF  EOF
860      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
861        echo $COMM >> genmake_warnings
862        $COMM >> genmake_warnings 2>&1
863      RET_C=$?      RET_C=$?
864      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
865        program hello        program hello
# Line 893  void FC_NAMEMANGLE(tfsize) ( int *nbyte Line 903  void FC_NAMEMANGLE(tfsize) ( int *nbyte
903          *nbyte = -1;          *nbyte = -1;
904  }  }
905  EOF  EOF
906      make genmake_tc_1.o >> genmake_tc.log 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
907        echo $COMM >> genmake_warnings
908        $COMM >> genmake_tc.log 2>&1
909      RET_C=$?      RET_C=$?
910      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
911        program hello        program hello
# Line 983  EOF Line 995  EOF
995          if test "x$RET_COMPILE" = x0 ; then          if test "x$RET_COMPILE" = x0 ; then
996              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
997              HAVE_NETCDF=t              HAVE_NETCDF=t
998            else
999            # try again with "-lnetcdff" added to the libs
1000                echo "try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
1001                echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1002                echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1003                echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
1004                cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
1005                    &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1006                    &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
1007                RET_COMPILE=$?
1008                cat genmake_tnc.log >> genmake_warnings
1009                if test "x$RET_COMPILE" = x0 ; then
1010                    LIBS="$LIBS -lnetcdff -lnetcdf"
1011                    HAVE_NETCDF=t
1012                fi
1013          fi          fi
1014      fi      fi
1015      rm -f genmake_tnc*      rm -f genmake_tnc*
# Line 1018  OPTFILE= Line 1045  OPTFILE=
1045  INCLUDES="-I. $INCLUDES"  INCLUDES="-I. $INCLUDES"
1046  FFLAGS=  FFLAGS=
1047  FOPTIM=  FOPTIM=
1048    FEXTRAFLAGS=
1049    USE_EXTENDED_SRC=
1050    EXTENDED_SRC_FLAG=
1051  CFLAGS=  CFLAGS=
1052  KFLAGS1=  KFLAGS1=
1053  KFLAGS2=  KFLAGS2=
# Line 1036  PAPI= Line 1066  PAPI=
1066  PCL=  PCL=
1067  HPMT=  HPMT=
1068  GSL=  GSL=
1069    DEVEL=
1070  HAVE_TEST_L=  HAVE_TEST_L=
1071    
1072  # DEFINES checked by test compilation or command-line  # DEFINES checked by test compilation or command-line
# Line 1094  TAMC_EXTRA= Line 1125  TAMC_EXTRA=
1125    
1126  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1127  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"
1128  gm_s2="FC CPP IEEE TS PAPIS PCLS PAPI PCL HPMT GSL MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="FC CPP IEEE TS PAPIS PCLS PAPI PCL HPMT GSL DEVEL MPI JAM DUMPSTATE STANDARDDIRS"
1129    
1130  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1131  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM "  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"
1132  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"
1133  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"
1134  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"
# Line 1124  EOF Line 1155  EOF
1155    
1156  echo "===  Processing options files and arguments  ==="  echo "===  Processing options files and arguments  ==="
1157  gm_local="genmake_local"  gm_local="genmake_local"
 for i in . $MODS ; do  
     if test -r $i/$gm_local ; then  
         . $i/$gm_local  
         break  
     fi  
 done  
1158  printf "  getting local config information:  "  printf "  getting local config information:  "
1159  if test -f $gm_local ; then  if test -f $gm_local ; then
1160      echo "using $gm_local"      echo "using $gm_local"
# Line 1292  for ac_option in "$@" ; do Line 1317  for ac_option in "$@" ; do
1317          -gsl | --gsl)          -gsl | --gsl)
1318              GSL=true ;;              GSL=true ;;
1319    
1320            -devel | --devel)
1321                DEVEL=true ;;
1322    
1323          -mpi | --mpi)          -mpi | --mpi)
1324              MPI=true ;;              MPI=true ;;
1325          -mpi=* | --mpi=*)          -mpi=* | --mpi=*)
# Line 1340  done Line 1368  done
1368  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1369      echo      echo
1370      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
1371      echo "  file.  This file format is no longer supported.  Please see:"      echo "  file.  This file format is no longer supported.  For directions on"
1372      echo      echo "  how to setup and use the new \"genmake2\" script, please see:"
1373      echo "    http://mitgcm.org/devel_HOWTO/"      echo "    http://mitgcm.org/devel_HOWTO/"
1374      echo      echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
1375      echo "  for directions on how to setup and use the new \"genmake2\" input"      echo "WARNING: ignore \"./.genmakerc\" and continue."
     echo "  files and send an email to MITgcm-support@mitgcm.org if you want help."  
1376      echo      echo
1377  fi  fi
1378    
# Line 1377  if test ! -d ${ROOTDIR} ; then Line 1404  if test ! -d ${ROOTDIR} ; then
1404  fi  fi
1405    
1406  #  Find the MITgcm ${THISVER}  #  Find the MITgcm ${THISVER}
1407  if test -f "${ROOTDIR}/doc/tag-index" ; then  version_file="${ROOTDIR}/doc/tag-index"
1408      THISVER=`grep '^checkpoint' ${ROOTDIR}/doc/tag-index | head -1`  if test -f $version_file ; then
1409        THISVER=`grep '^checkpoint' $version_file | head -1`
1410    #-  remove ./BUILD_INFO.h file if older than version_file
1411        if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
1412            echo "  remove ./BUILD_INFO.h (older than ${version_file})"
1413            rm -f ./BUILD_INFO.h
1414        fi
1415  fi  fi
1416    
1417  if test "x$MAKEFILE" = x ; then  if test "x$MAKEFILE" = x ; then
# Line 1542  if test ! "x$TS" = x ; then Line 1575  if test ! "x$TS" = x ; then
1575        else        else
1576              DEFINES="$DEFINES -DTIME_PER_TIMESTEP"              DEFINES="$DEFINES -DTIME_PER_TIMESTEP"
1577        fi        fi
1578          PACKAGES="$PACKAGES showflops"
1579  fi  fi
1580  if test ! "x$PAPIS" = x ; then  if test ! "x$PAPIS" = x ; then
1581        echo "  Turning on PAPI flop summary per timestep"        echo "  Turning on PAPI flop summary per timestep"
# Line 1553  if test ! "x$PAPIS" = x ; then Line 1587  if test ! "x$PAPIS" = x ; then
1587        fi        fi
1588        INCLUDES="$INCLUDES $PAPIINC"        INCLUDES="$INCLUDES $PAPIINC"
1589        LIBS="$LIBS $PAPILIB"        LIBS="$LIBS $PAPILIB"
1590          PACKAGES="$PACKAGES showflops"
1591  fi  fi
1592  if test ! "x$PCLS" = x ; then  if test ! "x$PCLS" = x ; then
1593        echo "  Turning on PCL counter summary per timestep"        echo "  Turning on PCL counter summary per timestep"
# Line 1564  if test ! "x$PCLS" = x ; then Line 1599  if test ! "x$PCLS" = x ; then
1599        fi        fi
1600        INCLUDES="$INCLUDES $PCLINC"        INCLUDES="$INCLUDES $PCLINC"
1601        LIBS="$LIBS $PCLLIB"        LIBS="$LIBS $PCLLIB"
1602          PACKAGES="$PACKAGES showflops"
1603  fi  fi
1604  if test ! "x$PAPI" = x ; then  if test ! "x$PAPI" = x ; then
1605        if test ! "x$PAPIS" = x ; then        if test ! "x$PAPIS" = x ; then
# Line 1612  if test ! "x$GSL" = x ; then Line 1648  if test ! "x$GSL" = x ; then
1648        INCLUDES="$INCLUDES $GSLINC"        INCLUDES="$INCLUDES $GSLINC"
1649        LIBS="$LIBS $GSLLIB"        LIBS="$LIBS $GSLLIB"
1650  fi  fi
1651    #- if USE_EXTENDED_SRC is set, add EXTENDED_SRC_FLAG to FFLAGS :
1652    if test ! "x$USE_EXTENDED_SRC" = x ; then
1653          FFLAGS="$FFLAGS $EXTENDED_SRC_FLAG"
1654          F90FIXEDFORMAT="$F90FIXEDFORMAT $EXTENDED_SRC_FLAG"
1655    fi
1656    
1657  printf "\n===  Checking system libraries  ===\n"  printf "\n===  Checking system libraries  ===\n"
1658  printf "  Do we have the system() command using $FC...  "  printf "  Do we have the system() command using $FC...  "
# Line 1734  fi Line 1775  fi
1775    
1776    
1777  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
1778  printf "  Adding MODS directories:  "  printf "  Adding MODS directories: "
1779    MPI_LNKF=
1780  for d in $MODS ; do  for d in $MODS ; do
1781      if test ! -d $d ; then      if test ! -d $d ; then
1782          echo          echo
1783          echo "Error: MODS directory \"$d\" not found!"          echo "Error: MODS directory \"$d\" not found!"
1784          exit 1          exit 1
1785      else      else
1786          printf " $d"          printf "$d "
1787          SOURCEDIRS="$SOURCEDIRS $d"          SOURCEDIRS="$SOURCEDIRS $d"
1788          INCLUDEDIRS="$INCLUDEDIRS $d"          INCLUDEDIRS="$INCLUDEDIRS $d"
1789            #-------------------------------------------------------
1790            # Put special links so that MPI specific files are used
1791            MPI_FILES=`(cd $d ; find . -name "*_mpi" -print)`
1792            for i in $MPI_FILES ; do
1793              ii=`echo $i | sed 's:^\./::'`
1794              name=`echo $ii | sed 's:_mpi::' `
1795              if test "x$MPI" = x ; then
1796              # NO: We undo an _mpi symbolically linked file
1797                if test -L $name ; then
1798                  cmp $name "$d/$ii" > /dev/null 2>&1
1799                  RETVAL=$?
1800                  if test "x$RETVAL" = x0 ; then
1801                    printf "Un-linking $name ; "
1802                    rm -f $name
1803                  fi
1804                fi
1805              else
1806              # YES: We symbolically link this file (with conditions if already there)
1807                if test -L $name ; then
1808                  cmp $d/$ii $name > /dev/null 2>&1
1809                  RETVAL=$?
1810                  xx=`echo $MPI_LNKF | grep -c $name`
1811                  if test "x$RETVAL" != x0 -a $xx == 0 ; then
1812                  # remove sym-link if different and has not just been linked
1813                    printf "Un-link + "
1814                    rm -f $name
1815                  fi
1816                  if test "x$RETVAL" = x0 ; then
1817                  # if identical, keep sym-link and keep record of it
1818                    MPI_LNKF="$MPI_LNKF $name"
1819                  fi
1820                fi
1821                if ! test -f $name ; then
1822                  # make sym-link and keep record of it
1823                    printf "Linking $ii to $name ; "
1824                    ln -s $d/$ii $name
1825                    MPI_LNKF="$MPI_LNKF $name"
1826                fi
1827              fi
1828            done
1829            #-------------------------------------------------------
1830      fi      fi
1831  done  done
1832  echo  echo
# Line 1943  done Line 2026  done
2026  rm -f ./.tmp_pack  rm -f ./.tmp_pack
2027  echo "    packages are:  $PACKAGES"  echo "    packages are:  $PACKAGES"
2028    
2029  #  Check availability of NetCDF and then either build the MNC template  #  Check for package MNC: if NetCDF is available, then build the MNC
2030  #  files or delete mnc from the list of available packages.  #  template files ; otherwise, delete mnc from the list of packages.
2031  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1
2032  RETVAL=$?  RETVAL=$?
2033  if test "x$RETVAL" = x0 ; then  if test "x$RETVAL" = x0 ; then
# Line 1978  EOF Line 2061  EOF
2061      fi      fi
2062  fi  fi
2063    
2064    #  Check for package PROFILES: if NetCDF is not available,
2065    #  then delete profiles from the list of available packages.
2066    echo $PACKAGES | grep ' profiles ' > /dev/null 2>&1
2067    RETVAL=$?
2068    if test "x$RETVAL" = x0 ; then
2069        if test "x$HAVE_NETCDF" != xt ; then
2070            cat <<EOF
2071    
2072    *********************************************************************
2073    WARNING: the "profiles" package was enabled but tests failed to
2074      compile NetCDF applications.  Please check that:
2075    
2076      1) NetCDF is correctly installed for this compiler and
2077      2) the LIBS variable (within the "optfile") specifies the correct
2078           NetCDF library to link against.
2079    
2080      Due to this failure, the "profiles" package is now DISABLED.
2081    *********************************************************************
2082    
2083    EOF
2084            PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
2085            DISABLE="$DISABLE profiles"
2086        fi
2087    fi
2088    
2089  echo "  applying package dependency rules"  echo "  applying package dependency rules"
2090  ck=  ck=
2091  while test "x$ck" != xtt ; do  while test "x$ck" != xtt ; do
2092      i=0      i=0
2093      # rtot=${#PNAME[@]}      # rtot=${#PNAME[@]}
2094      rtot=$nname      rtot=$nname
2095      while test $i -lt $rtot ; do      while test $i -le $rtot ; do
2096    
2097          #  Is $pname in the current $PACKAGES list?          #  Is $pname in the current $PACKAGES list?
2098          #  pname=${PNAME[$i]}          #  pname=${PNAME[$i]}
# Line 2018  while test "x$ck" != xtt ; do Line 2126  while test "x$ck" != xtt ; do
2126    
2127          #  Do we need to add $dname according to the dependency rules?          #  Do we need to add $dname according to the dependency rules?
2128          if test "x$pin" = xt -a "x$plus" = "x+" -a "x$din" = xf ; then          if test "x$pin" = xt -a "x$plus" = "x+" -a "x$din" = xf ; then
2129                #echo "   " $pname ": need to add :" $dname
2130              in_dis="f"              in_dis="f"
2131              for dis in $DISABLE ; do              for dis in $DISABLE ; do
2132                  if test "x$dis" = "x$dname" ; then                  if test "x$dis" = "x$dname" ; then
# Line 2162  fi Line 2271  fi
2271    
2272  #  Here, we build the list of files to be "run through" the adjoint  #  Here, we build the list of files to be "run through" the adjoint
2273  #  compiler.  #  compiler.
2274  if test -f ./ad_files ; then  if test -f ./adSrcFiles.tmp ; then
2275      rm -f ./ad_files      rm -f ./adSrcFiles.tmp
2276  fi  fi
2277  echo "  Creating the list of files for the adjoint compiler."  echo "  Creating the list of files for the adjoint compiler."
2278  for i in $SOURCEDIRS ; do  for i in $SOURCEDIRS ; do
2279      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
2280      for j in $list_files ; do      for j in $list_files ; do
2281          cat $i/$j >> ad_files          cat $i/$j >> adSrcFiles.tmp
2282      done      done
2283  done  done
2284  if test ! "x"$FS = "x.f" ; then  if test ! "x"$FS = "x.f" ; then
2285      cat ad_files | sed -e "s/\.f/.$FS/g" > ad_files_f      cat adSrcFiles.tmp | sed -e "s/\.f/.$FS/g" > adSrcFiles.tmp_f
2286      mv -f ad_files_f ad_files      mv -f adSrcFiles.tmp_f adSrcFiles.tmp
2287  fi  fi
2288    
2289  echo  echo
# Line 2232  if test ! -r ".links.tmp/foo" ; then Line 2341  if test ! -r ".links.tmp/foo" ; then
2341      exit 1      exit 1
2342  fi  fi
2343  rm -f .links.tmp/foo  rm -f .links.tmp/foo
2344    
2345    if test "x$OPENAD" != x ; then
2346        OAD_DONT_COMPILE="/dev/null"
2347        OAD_DONT_TRANSFORM="/dev/null"
2348        OAD_KEEP_ORIGINAL="/dev/null"
2349        OAD_CB2M_FILES="/dev/null"
2350        echo "  looking for dontCompile file:  "
2351        for i in "." $MODS ; do
2352            if test -r $i"/dontCompile" ; then
2353                OAD_DONT_COMPILE=$i"/dontCompile"
2354                echo "     found $OAD_DONT_COMPILE"
2355                break
2356            fi
2357        done
2358        echo "  looking for dontTransform file:  "
2359        for i in "." $MODS ; do
2360            if test -r $i"/dontTransform" ; then
2361                OAD_DONT_TRANSFORM=$i"/dontTransform"
2362                echo "     found $OAD_DONT_TRANSFORM"
2363                break
2364            fi
2365        done
2366        echo "  looking for keepOriginal file:  "
2367        for i in "." $MODS ; do
2368            if test -r $i"/keepOriginal" ; then
2369                OAD_KEEP_ORIGINAL=$i"/keepOriginal"
2370                echo "     found $OAD_KEEP_ORIGINAL"
2371                break
2372            fi
2373        done
2374        echo "  looking for cb2mFiles:  "
2375        for i in "." $MODS ; do
2376            if test -r $i"/cb2mFiles" ; then
2377                OAD_CB2M_FILES=$i"/cb2mFiles"
2378                echo "     found $OAD_CB2M_FILES"
2379                break
2380            fi
2381        done
2382        echo "   OpenAD exceptions:  "
2383    fi
2384    
2385  echo "# This section creates symbolic links" > srclinks.tmp  echo "# This section creates symbolic links" > srclinks.tmp
2386  echo "" >> srclinks.tmp  echo "" >> srclinks.tmp
2387  printf 'SRCFILES = '    > srclist.inc  printf 'F77_SRC_FILES = ' > F77srclist.tmp
2388  printf 'CSRCFILES = '   > csrclist.inc  printf 'NON_AD_F77_SRC_FILES = ' > nonADF77srclist.tmp
2389  printf 'F90SRCFILES = ' > f90srclist.inc  printf 'C_SRC_FILES = '   > csrclist.tmp
2390  printf 'HEADERFILES = ' > hlist.inc  printf 'F90_SRC_FILES = ' > F90srclist.tmp
2391  printf 'AD_FLOW_FILES = ' > ad_flow_files.inc  printf 'H_SRC_FILES = '   > hsrclist.tmp
2392    printf 'AD_FLOW_FILES = ' > ad_flow_files.tmp
2393  alldirs="$SOURCEDIRS $INCLUDEDIRS ."  alldirs="$SOURCEDIRS $INCLUDEDIRS ."
2394  for d in $alldirs ; do  for d in $alldirs ; do
2395      deplist=      deplist=
2396      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
2397      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
2398        if test "x$OPENAD" != x ; then
2399            sfiles=`( echo $sfiles | grep -v _cb2m\. )`
2400        fi
2401      for sf in $sfiles ; do      for sf in $sfiles ; do
2402          if test ! -r ".links.tmp/$sf" ; then          if test ! -r ".links.tmp/$sf" ; then
2403              if test -f "$d/$sf" ; then              if test -f "$d/$sf" ; then
# Line 2278  for d in $alldirs ; do Line 2432  for d in $alldirs ; do
2432                  if test "x$ignore_f" = xf ; then                  if test "x$ignore_f" = xf ; then
2433                      extn=`echo $sf | $AWK -F. '{print $NF}'`                      extn=`echo $sf | $AWK -F. '{print $NF}'`
2434                      case $extn in                      case $extn in
2435                          F)                        F)
2436                              echo    " \\"  >> srclist.inc                          echo    " \\"  >> F77srclist.tmp
2437                              printf " $sf" >> srclist.inc                          printf " $sf" >> F77srclist.tmp
2438                              ;;                          if test "x$OPENAD" != x ; then
2439                          F90)                              basename=${sf%%.F}
2440                              echo    " \\"  >> f90srclist.inc                              isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`
2441                              printf " $sf" >> f90srclist.inc                              if test -z "$isAD" ; then
2442                              ;;                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
2443                          c)                                  if test -z "$toBeIgnored" ; then
2444                              echo    " \\"  >> csrclist.inc                                      echo    " \\"  >> nonADF77srclist.tmp
2445                              printf " $sf" >> csrclist.inc                                      printf " $sf" >> nonADF77srclist.tmp
2446                              ;;                                  else
2447                          h)                                      echo "    not to be compiled   :  $sf"
2448                              echo    " \\"  >> hlist.inc                                  fi
2449                              printf " $sf" >> hlist.inc                              else # file is initially listed as an AD file we want to exclude it
2450                              ;;                                   # or we want to retain the untransformed version
2451                          flow)                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
2452                              echo    " \\"  >> ad_flow_files.inc                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
2453                              printf " $sf" >> ad_flow_files.inc                                  if test -n "$notToBeTransformed"; then
2454                              ;;                                      echo "    not to be transformed:  $sf"
2455                      esac                                  fi
2456                  fi                                  if test -n "$untransformedVersionToBeKept" ; then
2457                                        echo "    original to be kept  :  $sf"
2458                                    fi    
2459                                    if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
2460                                        echo    " \\"  >> nonADF77srclist.tmp
2461                                        printf " $sf" >> nonADF77srclist.tmp
2462                                    fi
2463                                fi
2464                            fi
2465                            ;;
2466                        F90)
2467                            echo    " \\"  >> F90srclist.tmp
2468                            printf " $sf" >> F90srclist.tmp
2469                            ;;
2470                        c)
2471                            echo    " \\"  >> csrclist.tmp
2472                            printf " $sf" >> csrclist.tmp
2473                            ;;
2474                        h)
2475                            echo    " \\"  >> hsrclist.tmp
2476                            printf " $sf" >> hsrclist.tmp
2477                            ;;
2478                        flow)
2479                            echo    " \\"  >> ad_flow_files.tmp
2480                            printf " $sf" >> ad_flow_files.tmp
2481                            ;;
2482                       esac
2483                    fi
2484              fi              fi
2485          fi          fi
2486      done      done
2487      if test "x$deplist" != x ; then      if test "x$deplist" != x ; then
2488          echo "" >> srclinks.tmp        if test "$d" != "." ; then
2489            echo "" >> srclinks.tmp
2490          echo "#  These files are linked from $d" >> srclinks.tmp          echo "#  These files are linked from $d" >> srclinks.tmp
2491          echo "$deplist :" >> srclinks.tmp          echo "$deplist :" >> srclinks.tmp
2492          printf "\t\$(LN) %s/\$@ \$@\n" $d >> srclinks.tmp  # We need to make sure that the link isn't already there.
2493    # This may happen when make thinks that a header file has to be "remade"
2494    # because a module it depends on has changed.  In this case we do nothing.
2495            printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp
2496          fi
2497      fi      fi
2498  done  done
2499  rm -rf .links.tmp  rm -rf .links.tmp
2500  echo "" >> srclist.inc  echo "" >> F77srclist.tmp
2501  echo "" >> csrclist.inc  echo "" >> nonADF77srclist.tmp
2502  echo "" >> f90srclist.inc  echo "" >> csrclist.tmp
2503  echo "" >> hlist.inc  echo "" >> F90srclist.tmp
2504  echo "" >> ad_flow_files.inc  echo "" >> hsrclist.tmp
2505    echo "" >> ad_flow_files.tmp
2506    
2507  if test -f $MAKEFILE ; then  if test -f $MAKEFILE ; then
2508      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.bak"
# Line 2410  INCLUDES = ${INCLUDES} Line 2597  INCLUDES = ${INCLUDES}
2597  KFLAGS1 = ${KFLAGS1}  KFLAGS1 = ${KFLAGS1}
2598  KFLAGS2 = ${KFLAGS2}  KFLAGS2 = ${KFLAGS2}
2599  # Optim./debug for FC  # Optim./debug for FC
2600  FFLAGS = ${FFLAGS}  FFLAGS = ${FFLAGS} ${FEXTRAFLAGS}
2601  FOPTIM = ${FOPTIM}  FOPTIM = ${FOPTIM}
2602  # Optim./debug for FC  # Optim./debug for FC
2603  F90FLAGS = ${F90FLAGS}  F90FLAGS = ${F90FLAGS}
2604  F90OPTIM = ${F90OPTIM}  F90OPTIM = ${F90OPTIM}
2605    F90FIXEDFORMAT = ${F90FIXEDFORMAT}
2606  # Flags for CC  # Flags for CC
2607  CFLAGS = ${CFLAGS}  CFLAGS = ${CFLAGS}
2608  # Files that should not be optimized  # Files that should not be optimized
# Line 2427  MAKEFILE=${MAKEFILE} Line 2615  MAKEFILE=${MAKEFILE}
2615    
2616  EOF  EOF
2617    
2618  cat srclist.inc       >> $MAKEFILE  cat F77srclist.tmp      >> $MAKEFILE
2619  cat csrclist.inc      >> $MAKEFILE  cat nonADF77srclist.tmp >> $MAKEFILE
2620  cat f90srclist.inc    >> $MAKEFILE  cat csrclist.tmp        >> $MAKEFILE
2621  cat hlist.inc         >> $MAKEFILE  cat F90srclist.tmp      >> $MAKEFILE
2622  cat ad_flow_files.inc >> $MAKEFILE  cat hsrclist.tmp        >> $MAKEFILE
2623    cat ad_flow_files.tmp   >> $MAKEFILE
2624    
2625    rm -f F77srclist.tmp nonADF77srclist.tmp csrclist.tmp F90srclist.tmp hsrclist.tmp ad_flow_files.tmp
2626    
2627  echo >> $MAKEFILE  echo >> $MAKEFILE
2628  echo 'F77FILES =  $(SRCFILES:.F=.'$FS')'      >> $MAKEFILE  
2629  echo 'F90FILES =  $(F90SRCFILES:.F90=.'$FS90')' >> $MAKEFILE  # add definitions for preprocessed sources
2630  echo 'OBJFILES =  $(SRCFILES:.F=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.F90=.o)' >> $MAKEFILE  # and note that not all systems allow case sensitive extensions
2631    # hence the $FS and $FS90 here.
2632    # for fixed format f90 files we use ff90 or FF90 resp
2633    # but these are not expected to be the original source files
2634    
2635    echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
2636    echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE
2637    echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE
2638    echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE
2639  echo >> $MAKEFILE  echo >> $MAKEFILE
2640  echo '.SUFFIXES:' >> $MAKEFILE  echo '.SUFFIXES:' >> $MAKEFILE
2641  echo '.SUFFIXES: .o .'$FS' .p .F .c .'$FS90' .F90' >> $MAKEFILE  echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE
 rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc  
 rm -f ad_flow_files.inc  
2642    
2643  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2644    
2645  all: \$(EXECUTABLE)  all: \$(EXECUTABLE)
2646  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(OBJFILES) \$(EMBEDDED_FILES)  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(OBJFILES) \$(EMBEDDED_FILES)
2647          @echo Creating \$@ ...          @echo Creating \$@ ...
2648          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
2649  depend:  depend:
2650          @make links          @make links
2651          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(SRCFILES)          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
2652          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2653          -rm -f makedepend.out          -rm -f makedepend.out
2654    
# Line 2460  libmitgcmuv.a: \$(OBJFILES) Line 2658  libmitgcmuv.a: \$(OBJFILES)
2658          ar rcv libmitgcmuv.a \$(OBJFILES)          ar rcv libmitgcmuv.a \$(OBJFILES)
2659          ar d   libmitgcmuv.a main.o          ar d   libmitgcmuv.a main.o
2660    
2661  links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)  links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)
2662    
2663  small_f: \$(F77FILES) \$(F90FILES)  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
2664    
2665  output.txt: \$(EXECUTABLE)  output.txt: \$(EXECUTABLE)
2666          @printf 'running ... '          @printf 'running ... '
# Line 2471  output.txt: \$(EXECUTABLE) Line 2669  output.txt: \$(EXECUTABLE)
2669  clean:  clean:
2670          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2671          -rm -rf *.o          -rm -rf *.o
2672          -rm -rf *.$FS          -rm -rf *.$FS *.flowdir
2673            -rm -rf *.f$FS90 *_mod.h *_mod.F90 *.FF90 *.mod-whirl ad_input*
2674            -rm -rf temp.sed
2675  Clean:  Clean:
2676          @make clean          @make clean
2677          @make cleanlinks          @make cleanlinks
2678          -rm -f \$(SPECIAL_FILES)          -rm -f \$(SPECIAL_FILES)
2679          -rm -f genmake_state genmake_*optfile genmake_warnings make.log run.log *.bak          -rm -f genmake_state genmake_*optfile genmake_warnings make.log run.log f90mkdepend.log *.bak
2680            -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log
2681  CLEAN:  CLEAN:
2682          @make Clean          @make Clean
2683          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
2684          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
2685          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
2686          -rm -f \$(EXECUTABLE) \$(EXE_AD) *.txt STD* *diagnostics.log datetime          -rm -f \$(EXECUTABLE) \$(EXE_AD) *.txt STD* *diagnostics.log datetime
2687            -rm -f *_MIT_CE_000.opt0000 costfunction*0000
2688          -rm -rf mnc_test_*          -rm -rf mnc_test_*
2689    
2690  #eh3 Makefile: makefile  #eh3 Makefile: makefile
# Line 2491  makefile: Line 2693  makefile:
2693  cleanlinks:  cleanlinks:
2694          -find . -type l -exec rm {} \;          -find . -type l -exec rm {} \;
2695    
2696  # Special targets (SPECIAL_FILES) which are create by make  # Special targets (SPECIAL_FILES) which are created by make
2697  ${PACKAGES_DOT_H}:  ${PACKAGES_DOT_H}:
2698          @echo Creating \$@ ...          @echo Creating \$@ ...
2699          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@
# Line 2516  if test "x$EMBED_SRC" = xt ; then Line 2718  if test "x$EMBED_SRC" = xt ; then
2718    
2719  decode_files.o : EMBEDDED_FILES.h  decode_files.o : EMBEDDED_FILES.h
2720    
2721  ##  \$(F77FILES)  ##  \$(F77_PP_SRC_FILES)
2722  all_fF.tar.gz : \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(F77FILES) Makefile  all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2723          @echo Creating \$@ ...          @echo Creating \$@ ...
2724          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(F77FILES) Makefile          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2725          -rm -f all_fF.tar.gz          -rm -f all_fF.tar.gz
2726          -gzip all_fF.tar          -gzip all_fF.tar
2727    
# Line 2541  cat >>$MAKEFILE <<EOF Line 2743  cat >>$MAKEFILE <<EOF
2743          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2744  .$FS.o:  .$FS.o:
2745          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2746  .F90.o:    .F90.$FS90:
2747            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2748    .FF90.f$FS90:
2749            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2750    .$FS90.o:
2751          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
2752    .f$FS90.o:
2753            cp \$< \$(basename  \$<).f90
2754            \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$(F90FIXEDFORMAT) \$(basename  \$<).f90
2755  .c.o:  .c.o:
2756          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
2757    .flow.flowdir:
2758            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2759    
2760  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain
2761  .F.p:  .F.p:
# Line 2552  cat >>$MAKEFILE <<EOF Line 2763  cat >>$MAKEFILE <<EOF
2763  .p.$FS:  .p.$FS:
2764          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
2765    
2766    EOF
2767    
2768  #=========================================  #=========================================
2769  #===  Automatic Differentiation Rules  ===  #===  Automatic Differentiation Rules  ===
2770    #===  for TAMC/TAF  ======================
2771    
2772    if test "x$OPENAD" == x ; then
2773    
2774    cat >>$MAKEFILE <<EOF
2775    
2776  TAMC           = ${TAMC}  TAMC           = ${TAMC}
2777  TAF            = ${TAF}  TAF            = ${TAF}
# Line 2577  done Line 2795  done
2795  echo "  Add the source list for AD code generation"  echo "  Add the source list for AD code generation"
2796  echo >> $MAKEFILE  echo >> $MAKEFILE
2797  printf "AD_FILES = " >> $MAKEFILE  printf "AD_FILES = " >> $MAKEFILE
2798  AD_FILES=`cat ad_files`  AD_FILES=`cat adSrcFiles.tmp`
2799  for i in $AD_FILES ; do  for i in $AD_FILES ; do
2800      echo    " \\" >> $MAKEFILE      echo    " \\" >> $MAKEFILE
2801      printf " $i" >> $MAKEFILE      printf " $i" >> $MAKEFILE
2802  done  done
2803  echo >> $MAKEFILE  echo >> $MAKEFILE
2804  rm -f ad_files  rm -f adSrcFiles.tmp
2805    
2806  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2807    
# Line 2592  adall: \$(EXE_AD) Line 2810  adall: \$(EXE_AD)
2810  adtaf: ad_taf_output.$FS  adtaf: ad_taf_output.$FS
2811  adtamc: ad_tamc_output.$FS  adtamc: ad_tamc_output.$FS
2812    
2813  ad_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)
2814          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template
2815          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
2816          -rm -f ad_config.template          -rm -f ad_config.template
2817          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2818          @make \$(AD_FLOW_FILES)          @make \$(FLOFILES)
2819          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ad_input_code.$FS          cat \$(FLOFILES) \$(AD_FILES) > ad_input_code.$FS
2820    
2821  ad_taf_output.$FS: ad_input_code.$FS  ad_taf_output.$FS: ad_input_code.$FS
2822          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2823            ls -l ad_input_code_ad.$FS
2824          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2825    
2826  adtafonly:  adtafonly:
2827          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2828            ls -l ad_input_code_ad.$FS
2829          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2830    
2831  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)
# Line 2629  ftlall: ftl_taf Line 2849  ftlall: ftl_taf
2849  ftltaf: ftl_taf_output.$FS  ftltaf: ftl_taf_output.$FS
2850  ftltamc: ftl_tamc_output.$FS  ftltamc: ftl_tamc_output.$FS
2851    
2852  ftl_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ftl_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)
2853          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template
2854          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2855          -rm -f ftl_config.template          -rm -f ftl_config.template
2856          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2857          @make \$(AD_FLOW_FILES)          @make \$(AD_FLOW_FILES)
2858          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS
2859    
2860  ftl_taf_output.$FS: ftl_input_code.$FS  ftl_taf_output.$FS: ftl_input_code.$FS
2861          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2862            ls -l ftl_input_code_ftl.$FS
2863          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2864    
2865  ftltafonly:  ftltafonly:
2866          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2867            ls -l ftl_input_code_ftl.$FS
2868          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2869    
2870  ftl_taf: ftl_taf_output.o \$(OBJFILES)  ftl_taf: ftl_taf_output.o \$(OBJFILES)
# Line 2680  svd_touch: Line 2902  svd_touch:
2902          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2903          -rm -f ftl_config.template          -rm -f ftl_config.template
2904    
2905  #=========================================  EOF
2906    
2907    fi
2908    
2909    #===  for OpenAD  ========================
2910    
2911    if test "x$OPENAD" != x ; then
2912    
2913    # ============ begin OpenAD specific section ==============
2914    
2915    cat >>$MAKEFILE <<EOF
2916    
2917    # all the source files linked from the various locations:
2918    ALL_LINKED_FILES= \
2919    \$(F77_SRC_FILES) \
2920    \$(C_SRC_FILES) \
2921    \$(H_SRC_FILES) \
2922    \$(F90_SRC_FILES) \
2923    \$(SPECIAL_FILES)
2924    
2925    ifndef OPENADROOT
2926      \$(error "Error:  environment variable OPENADROOT not defined!")
2927    endif
2928    
2929    ifndef XAIFSCHEMAROOT
2930      \$(error "Error:  environment variable XAIFSCHEMAROOT not defined!")
2931    endif
2932    
2933    ifndef XAIFBOOSTERROOT
2934      \$(error "Error:  environment variable XAIFBOOSTERROOT not defined!")
2935    endif
2936    
2937  EOF  EOF
2938    
2939    echo "  Add the source list for common block to module conversion "
2940    echo >> $MAKEFILE
2941    printf "CB2M_F90_SRC_NAMES = " >> $MAKEFILE
2942    for i in `cat ${OAD_CB2M_FILES}` ; do
2943      echo    " \\" >> $MAKEFILE
2944      printf " $i" >> $MAKEFILE
2945    done
2946    echo >> $MAKEFILE
2947    
2948    echo "  Add the source list for AD code generation"
2949    echo >> $MAKEFILE
2950    printf "AD_FILES = " >> $MAKEFILE
2951    for i in `cat ${OAD_CB2M_FILES}` ; do
2952      echo    " \\" >> $MAKEFILE
2953      printf " ${i}_mod.f$FS90" >> $MAKEFILE
2954    done
2955    AD_FILES=`cat adSrcFiles.tmp`
2956    for i in $AD_FILES ; do
2957      basename=${i%%.f}
2958      toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`
2959      if test -z "$toBeIgnored" ; then
2960        echo    " \\" >> $MAKEFILE
2961        printf " $i" >> $MAKEFILE
2962      fi
2963    done
2964    echo >> $MAKEFILE
2965    rm -f adSrcFiles.tmp
2966    
2967    cat >>$MAKEFILE <<EOF
2968    
2969    adAll: \$(EXE_AD)
2970    .PHONY: adAll
2971    
2972    CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
2973    
2974    .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
2975    
2976    .PHONY: adDepend
2977    adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)
2978            \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
2979            \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2980            -rm -f makedepend.out
2981    
2982    OPENAD_SUPPORT_F90_SRC_FILES = \
2983    w2f__types.F90 \
2984    OAD_active.F90 \
2985    OAD_cp.F90 \
2986    OAD_rev.F90 \
2987    OAD_tape.F90        
2988    
2989    OPENAD_SUPPORT_C_SRC_FILES = \
2990    iaddr.c \
2991    timeRatio.c
2992    
2993    f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
2994            cat \$^ > \$@
2995    
2996    f95_test.f90: all_mods.xb.x2w.w2f.pp.f$FS90 \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90) ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
2997            cat \$^ > \$@
2998    
2999    f95_test.out: f95_test_mods.f90 f95_test.f90
3000            f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
3001            f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
3002    
3003    AD_OBJ_FILES=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) all_mods.xb.x2w.w2f.pp.o  ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.o \$(NON_AD_F77_SRC_FILES:.F=_cb2m.o) \$(C_SRC_FILES:.c=.o) \$(F90_SRC_FILES:.F90=.o)
3004    
3005    \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(AD_OBJ_FILES)
3006            @echo Creating \$@ ...
3007            \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES) \$(LIBS)
3008    
3009    # makefile debug rule
3010    openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3011    .PHONY: openad
3012    
3013    # create the module files
3014    %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk
3015            ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk
3016    
3017    # create the header files
3018    %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk
3019            ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
3020    
3021    # change everybody else to use the new module files:
3022    %_cb2m.FF90 : %.F ../OAD_support/cb2mUseModules.bash
3023            ../OAD_support/cb2mUseModules.bash $< ${MPI}
3024    
3025    # makefile debug rule
3026    small_f: \$(CB2M_F90_PP_SRC_FILES)
3027    .PHONY: small_f
3028    
3029    ad_output.txt: \$(EXE_AD)
3030            @printf 'linking data files ... '
3031            \$(LN) -f ../input_ad/data* ../input_ad/eedata .
3032            \$(LN) -f ../../global_ocean.90x40x15/input/*.bin .
3033            @printf 'running ... '
3034            @./\$(EXE_AD) > \$@
3035    
3036    CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
3037    ad_input_code.f$FS90: ../OAD_support/maxMinDefs.f \$(CB2M_AD_FILES)
3038            cat \$^ > \$@
3039    
3040    # strip all comments and blanks to reduce
3041    # the file size in order to reduce perl's memory requirements
3042    ad_input_code_sf.f$FS90 : ad_input_code.f$FS90
3043            cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@
3044    
3045    # mfef90 preprocessing
3046    # expand statement functions
3047    # expose mfef90 specific substring handling
3048    # add the w2f__types module
3049    ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90
3050            ./mfef90 -r8 -z -F -N132 \$<
3051            mv \$<.B \$(basename \$<).B
3052            ./whirl2f -openad \$(basename \$<).B
3053            cat w2f__types.f90 \$(basename \$<).w2f.f > \$@
3054    
3055    # canonicalizer
3056    ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py
3057            ./preProcess.py -H -S \$< -o \$@
3058    
3059    # F -> WHIRL
3060    # note that the canonicalized version cuts off at col 72
3061    # doing this also for string constants which is ok as long
3062    # as we are in fixed mode and cut of exactly there.
3063    # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)
3064    # characters respectively.
3065    ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90
3066            ./mfef90 -r8 -z -F \$<
3067            mv \$<.B \$@
3068    
3069    # WHIRL -> XAIF
3070    ad_input_code_sf.w2f.pre.xaif : ad_input_code_sf.w2f.pre.B whirl2xaif
3071            ./whirl2xaif -s -n --debug 1 -o \$@ \$<
3072    
3073    # XAIF -> XAIF'
3074    ad_input_code_sf.w2f.pre.xb.xaif : ad_input_code_sf.w2f.pre.xaif xaif.xsd xaif_base.xsd xaif_inlinable_intrinsics.xsd xaif_derivative_propagator.xsd xaif_output.xsd oadDriver
3075            ./oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
3076    
3077    # XAIF' -> WHIRL'
3078    ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl
3079            ./xaif2whirl --debug 1 --structured ad_input_code_sf.w2f.pre.B \$<
3080    
3081    # WHIRL' -> F'
3082    ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be
3083            ./whirl2f -FLIST:ftn_file=\$@ -openad \$<
3084    
3085    # insert template directives
3086    ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash
3087            ../OAD_support/insertTemplateDir.bash \$< \$@
3088    
3089    PPEXTRAS=\$(wildcard ../OAD_support/ad_template.*.F) ../OAD_support/ad_inline.F
3090    # postprocess F'
3091    ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 multi-pp.pl \$(PPEXTRAS:.F=.f)
3092            perl multi-pp.pl -inline=../OAD_support/ad_inline.f \$<
3093            # the postprocessor still gets the name wrong
3094            cat \$<.pp | sed 's/RETURN//' > \$@
3095    
3096    # extract all transformed modules
3097    all_mods.xb.x2w.w2f.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3098            cat \$< | sed -n '/MODULE /,/END MODULE/p' > \$@
3099    
3100    # remove the transformed globals module from the
3101    # transformed ad_input_code file
3102    # and remove for now the duplicate variables
3103    # and fix 2 data statements
3104    ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3105            cat \$< | sed '/MODULE /,/END MODULE/d' | sed '/^      INTEGER(w2f__i4) DOLOOP_UB/d' > \$@
3106    
3107    # setup some links
3108    %.xsd:
3109            \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
3110    
3111    mfef90:
3112            \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .
3113    
3114    # link the support files:
3115    \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):
3116            \$(LN) ../OAD_support/\$@ .
3117    
3118    whirl2xaif xaif2whirl:
3119            \$(LN) \${OPENADFORTTK}/bin/\$@ .
3120    
3121    %.pl:
3122            \$(LN) \${OPENADFORTTK}/bin/\$@ .
3123    
3124    preProcess.py:
3125            \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .
3126    
3127    whirl2f whirl2f_be:
3128            \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .
3129    
3130    oadDriver:
3131            \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver \$@
3132    
3133    # ============ end OpenAD specific section ==============
3134    
3135    EOF
3136    
3137    fi
3138    
3139    #=========================================
3140    
3141  if test "x$EXEHOOK" != x ; then  if test "x$EXEHOOK" != x ; then
3142      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE
3143  fi  fi

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