/[MITgcm]/MITgcm/tools/genmake2

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-revision 1.155 by dfer,
Thu Oct  5 15:02:15 2006 UTC
+revision 1.192 by jmc,
Wed Apr 22 21:03:52 2009 UTC
 Line 325 
 find_possible_configs()  {
      #================================================================
      #  look for possible C compilers
-     tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc"
+     tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
      p_CC=
      for c in $tmp ; do
          rm -f ./genmake_hello.c  ./genmake_hello
 Line 364 
 EOF
      #================================================================
      #  look for possible FORTRAN compilers
-     tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc f90 f95 mpif77 mpf77 mpxlf95 gfortran"
+     tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 gfortran g95"
      p_FC=
      for c in $tmp ; do
          rm -f ./hello.f ./hello
 Line 601 
 Usage: "$0" [OPTIONS]
      -gsl | --gsl
            Use GSL to control floating point rounding and precision
+     -devel | --devel
+           Add additional warning and debugging flags for development
      -mpi | --mpi
            Include MPI header files and link to MPI libraries
-Line 609 
 Usage: "$0" [OPTIONS]
+Line 611 
 Usage: "$0" [OPTIONS]
            set to PATH. i.e. Include files from \$PATH/include, link to libraries
            from \$PATH/lib and use binaries from \$PATH/bin.
+     -omp | --omp
+           Activate OpenMP code + use Compiler option OMPFLAG
+     -omp=OMPFLAG | --omp=OMPFLAG
+           Activate OpenMP code + use Compiler option OMPFLAG
      -es | --es | -embed-source | --embed-source
            Embed a tarball containing the full source code
            (including the Makefile, etc.) used to build the
-Line 744 
 void FC_NAMEMANGLE(cloc) ( double *curti
+Line 751 
 void FC_NAMEMANGLE(cloc) ( double *curti
   *curtim = *curtim/1.E6;
  }
  EOF
-     make genmake_tc_1.o >> genmake_warnings 2>&1
+     COMM="$CC $CFLAGS -c genmake_tc_1.c"
+     echo $COMM >> genmake_warnings
+     $COMM >> genmake_warnings 2>&1
      RET_C=$?
      cat <<EOF > genmake_tc_2.$FS
        program hello
-Line 754 
 EOF
+Line 763 
 EOF
        print *," HELLO WORLD", wtime
        end
  EOF
-     $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"
+     echo $COMM >> genmake_warnings
+     $COMM >> genmake_warnings 2>&1
      RET_F=$?
      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1
      RETVAL=$?
-Line 801 
 void FC_NAMEMANGLE(sigreg) (int * aip)
+Line 812 
 void FC_NAMEMANGLE(sigreg) (int * aip)
      return;
  }
  EOF
-     make genmake_tc_1.o >> genmake_warnings 2>&1
+     COMM="$CC $CFLAGS -c genmake_tc_1.c"
+     echo $COMM >> genmake_warnings
+     $COMM >> genmake_warnings 2>&1
      RET_C=$?
      cat <<EOF > genmake_tc_2.$FS
        program hello
-Line 849 
 void FC_NAMEMANGLE(setrlstk) ()
+Line 862 
 void FC_NAMEMANGLE(setrlstk) ()
      return;
  }
  EOF
-     make genmake_tc_1.o >> genmake_warnings 2>&1
+     COMM="$CC $CFLAGS -c genmake_tc_1.c"
+     echo $COMM >> genmake_warnings
+     $COMM >> genmake_warnings 2>&1
      RET_C=$?
      cat <<EOF > genmake_tc_2.$FS
        program hello
-Line 893 
 void FC_NAMEMANGLE(tfsize) ( int *nbyte
+Line 908 
 void FC_NAMEMANGLE(tfsize) ( int *nbyte
          *nbyte = -1;
  }
  EOF
-     make genmake_tc_1.o >> genmake_tc.log 2>&1
+     COMM="$CC $CFLAGS -c genmake_tc_1.c"
+     echo $COMM >> genmake_warnings
+     $COMM >> genmake_tc.log 2>&1
      RET_C=$?
      cat <<EOF > genmake_tc_2.$FS
        program hello
-Line 983 
 EOF
+Line 1000 
 EOF
          if test "x$RET_COMPILE" = x0 ; then
              LIBS="$LIBS -lnetcdf"
              HAVE_NETCDF=t
+         else
+         # try again with "-lnetcdff" added to the libs
+             echo "try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
+             echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
+             echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
+             echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
+             cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
+                 &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
+                 &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
+             RET_COMPILE=$?
+             cat genmake_tnc.log >> genmake_warnings
+             if test "x$RET_COMPILE" = x0 ; then
+                 LIBS="$LIBS -lnetcdff -lnetcdf"
+                 HAVE_NETCDF=t
+             fi
          fi
      fi
      rm -f genmake_tnc*
-Line 1018 
 OPTFILE=
+Line 1050 
 OPTFILE=
  INCLUDES="-I. $INCLUDES"
  FFLAGS=
  FOPTIM=
+ FEXTRAFLAGS=
+ USE_EXTENDED_SRC=
+ EXTENDED_SRC_FLAG=
  CFLAGS=
  KFLAGS1=
  KFLAGS2=
-Line 1028 
 NOOPTFILES=
+Line 1063 
 NOOPTFILES=
  NOOPTFLAGS=
  MPI=
  MPIPATH=
+ OMP=
+ OMPFLAG=
  TS=
  PAPIS=
  PCLS=
-Line 1036 
 PAPI=
+Line 1073 
 PAPI=
  PCL=
  HPMT=
  GSL=
+ DEVEL=
  HAVE_TEST_L=
  # DEFINES checked by test compilation or command-line
-Line 1094 
 TAMC_EXTRA=
+Line 1132 
 TAMC_EXTRA=
  #  The following state can be set directly by command-line switches
  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"
- 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 OMP DUMPSTATE STANDARDDIRS"
  #  The following state is not directly set by command-line switches
- 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"
  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"
  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"
  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"
-Line 1124 
 EOF
+Line 1162 
 EOF
  echo "===  Processing options files and arguments  ==="
  gm_local="genmake_local"
- for i in . $MODS ; do
-     if test -r $i/$gm_local ; then
-         . $i/$gm_local
-         break
-     fi
- done
  printf "  getting local config information:  "
  if test -f $gm_local ; then
      echo "using $gm_local"
-Line 1141 
 else
+Line 1173 
 else
  fi
  #echo "$0::$1:$2:$3:$4:$5:$6:$7:"
- #OPTIONS=
- #n=0
- #for i ; do
- #   echo "$i  $n"
- #   setvar="OPTIONS[$n]='$i'"
- #   #  echo "  $setvar"
- #   eval "$setvar"
- #   n=$(( $n + 1 ))
- #done
  #parse_options
  ac_prev=
  for ac_option in "$@" ; do
-Line 1292 
 for ac_option in "$@" ; do
+Line 1315 
 for ac_option in "$@" ; do
          -gsl | --gsl)
              GSL=true ;;
+         -devel | --devel)
+             DEVEL=true ;;
          -mpi | --mpi)
              MPI=true ;;
          -mpi=* | --mpi=*)
              MPIPATH=$ac_optarg
              MPI=true ;;
- #       -jam | --jam)
+         -omp | --omp)
- #           JAM=1 ;;
+             OMP=true ;;
- #       -nojam | --nojam)
+         -omp=* | --omp=*)
- #           JAM=0 ;;
+             OMPFLAG=$ac_optarg
+             OMP=true ;;
          -ds | --ds)
              DUMPSTATE=t ;;
-Line 1340 
 done
+Line 1367 
 done
  if test -f ./.genmakerc ; then
      echo
      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
-     echo "  file.  This file format is no longer supported.  Please see:"
+     echo "  file.  This file format is no longer supported.  For directions on"
-     echo
+     echo "  how to setup and use the new \"genmake2\" script, please see:"
      echo "    http://mitgcm.org/devel_HOWTO/"
-     echo
+     echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
-     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."
      echo
  fi
-Line 1377 
 if test ! -d ${ROOTDIR} ; then
+Line 1403 
 if test ! -d ${ROOTDIR} ; then
  fi
  #  Find the MITgcm ${THISVER}
- if test -f "${ROOTDIR}/doc/tag-index" ; then
+ version_file="${ROOTDIR}/doc/tag-index"
-     THISVER=`grep '^checkpoint' ${ROOTDIR}/doc/tag-index | head -1`
+ if test -f $version_file ; then
+     THISVER=`grep '^checkpoint' $version_file | head -1`
+ #-  remove ./BUILD_INFO.h file if older than version_file
+     if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
+         echo "  remove ./BUILD_INFO.h (older than ${version_file})"
+         rm -f ./BUILD_INFO.h
+     fi
  fi
  if test "x$MAKEFILE" = x ; then
-Line 1534 
 if test ! "x$MPI" = x ; then
+Line 1566 
 if test ! "x$MPI" = x ; then
        echo "  Turning on MPI cpp macros"
        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"
  fi
+ if test ! "x$OMP" = x ; then
+       echo "  Add OMPFLAG and turn on OpenMP cpp macros"
+       FFLAGS="$FFLAGS $OMPFLAG"
+       F90FLAGS="$F90FLAGS $OMPFLAG"
+       DEFINES="$DEFINES -DUSE_OMP_THREADING"
+ fi
  if test ! "x$TS" = x ; then
        echo "  Turning on timing per timestep"
-Line 1542 
 if test ! "x$TS" = x ; then
+Line 1580 
 if test ! "x$TS" = x ; then
        else
              DEFINES="$DEFINES -DTIME_PER_TIMESTEP"
        fi
+       PACKAGES="$PACKAGES showflops"
  fi
  if test ! "x$PAPIS" = x ; then
        echo "  Turning on PAPI flop summary per timestep"
-Line 1553 
 if test ! "x$PAPIS" = x ; then
+Line 1592 
 if test ! "x$PAPIS" = x ; then
        fi
        INCLUDES="$INCLUDES $PAPIINC"
        LIBS="$LIBS $PAPILIB"
+       PACKAGES="$PACKAGES showflops"
  fi
  if test ! "x$PCLS" = x ; then
        echo "  Turning on PCL counter summary per timestep"
-Line 1564 
 if test ! "x$PCLS" = x ; then
+Line 1604 
 if test ! "x$PCLS" = x ; then
        fi
        INCLUDES="$INCLUDES $PCLINC"
        LIBS="$LIBS $PCLLIB"
+       PACKAGES="$PACKAGES showflops"
  fi
  if test ! "x$PAPI" = x ; then
        if test ! "x$PAPIS" = x ; then
-Line 1612 
 if test ! "x$GSL" = x ; then
+Line 1653 
 if test ! "x$GSL" = x ; then
        INCLUDES="$INCLUDES $GSLINC"
        LIBS="$LIBS $GSLLIB"
  fi
+ #- if USE_EXTENDED_SRC is set, add EXTENDED_SRC_FLAG to FFLAGS :
+ if test ! "x$USE_EXTENDED_SRC" = x ; then
+       FFLAGS="$FFLAGS $EXTENDED_SRC_FLAG"
+       F90FIXEDFORMAT="$F90FIXEDFORMAT $EXTENDED_SRC_FLAG"
+ fi
  printf "\n===  Checking system libraries  ===\n"
  printf "  Do we have the system() command using $FC...  "
-Line 1734 
 fi
+Line 1780 
 fi
  printf "\n===  Setting defaults  ===\n"
- printf "  Adding MODS directories:  "
+ printf "  Adding MODS directories: "
  for d in $MODS ; do
      if test ! -d $d ; then
          echo
          echo "Error: MODS directory \"$d\" not found!"
          exit 1
      else
-         printf " $d"
+         printf "$d "
          SOURCEDIRS="$SOURCEDIRS $d"
          INCLUDEDIRS="$INCLUDEDIRS $d"
      fi
-Line 1943 
 done
+Line 1989 
 done
  rm -f ./.tmp_pack
  echo "    packages are:  $PACKAGES"
- #  Check availability of NetCDF and then either build the MNC template
+ #  Check for package MNC: if NetCDF is available, then build the MNC
- #  files or delete mnc from the list of available packages.
+ #  template files ; otherwise, delete mnc from the list of packages.
  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1
  RETVAL=$?
  if test "x$RETVAL" = x0 ; then
-Line 1978 
 EOF
+Line 2024 
 EOF
      fi
  fi
+ #  Check for package PROFILES: if NetCDF is not available,
+ #  then delete profiles from the list of available packages.
+ echo $PACKAGES | grep ' profiles ' > /dev/null 2>&1
+ RETVAL=$?
+ if test "x$RETVAL" = x0 ; then
+     if test "x$HAVE_NETCDF" != xt ; then
+         cat <<EOF
+ *********************************************************************
+ WARNING: the "profiles" package was enabled but tests failed to
+   compile NetCDF applications.  Please check that:
+) NetCDF is correctly installed for this compiler and
+) the LIBS variable (within the "optfile") specifies the correct
+        NetCDF library to link against.
+   Due to this failure, the "profiles" package is now DISABLED.
+ *********************************************************************
+ EOF
+         PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
+         DISABLE="$DISABLE profiles"
+     fi
+ fi
  echo "  applying package dependency rules"
  ck=
  while test "x$ck" != xtt ; do
      i=0
      # rtot=${#PNAME[@]}
      rtot=$nname
-     while test $i -lt $rtot ; do
+     while test $i -le $rtot ; do
          #  Is $pname in the current $PACKAGES list?
          #  pname=${PNAME[$i]}
-Line 2018 
 while test "x$ck" != xtt ; do
+Line 2089 
 while test "x$ck" != xtt ; do
          #  Do we need to add $dname according to the dependency rules?
          if test "x$pin" = xt -a "x$plus" = "x+" -a "x$din" = xf ; then
+             #echo "   " $pname ": need to add :" $dname
              in_dis="f"
              for dis in $DISABLE ; do
                  if test "x$dis" = "x$dname" ; then
-Line 2162 
 fi
+Line 2234 
 fi
  #  Here, we build the list of files to be "run through" the adjoint
  #  compiler.
- if test -f ./ad_files ; then
+ if test -f ./adSrcFiles.tmp ; then
-     rm -f ./ad_files
+     rm -f ./adSrcFiles.tmp
  fi
  echo "  Creating the list of files for the adjoint compiler."
  for i in $SOURCEDIRS ; do
      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
      for j in $list_files ; do
-         cat $i/$j >> ad_files
+         cat $i/$j >> adSrcFiles.tmp
      done
  done
  if test ! "x"$FS = "x.f" ; then
-     cat ad_files | sed -e "s/\.f/.$FS/g" > ad_files_f
+     cat adSrcFiles.tmp | sed -e "s/\.f/.$FS/g" > adSrcFiles.tmp_f
-     mv -f ad_files_f ad_files
+     mv -f adSrcFiles.tmp_f adSrcFiles.tmp
  fi
  echo
-Line 2207 
 if test ! "x$DIVA" = x ; then
+Line 2279 
 if test ! "x$DIVA" = x ; then
          perl -i -pe 's/MPI_DISPLACEMENT_CURRENT=-1_8/MPI_DISPLACEMENT_CURRENT=-1/g' mpi_headers/mpif.h
      else
          echo " We cannot create a copy of mpif.h!"
-         exit -1
+ #       exit -1
      fi
  fi
-Line 2232 
 if test ! -r ".links.tmp/foo" ; then
+Line 2304 
 if test ! -r ".links.tmp/foo" ; then
      exit 1
  fi
  rm -f .links.tmp/foo
+ if test "x$OPENAD" != x ; then
+     OAD_DONT_COMPILE="/dev/null"
+     OAD_DONT_TRANSFORM="/dev/null"
+     OAD_KEEP_ORIGINAL="/dev/null"
+     OAD_CB2M_FILES="/dev/null"
+     echo "  looking for dontCompile file:  "
+     for i in "." $MODS ; do
+         if test -r $i"/dontCompile" ; then
+             OAD_DONT_COMPILE=$i"/dontCompile"
+             echo "     found $OAD_DONT_COMPILE"
+             break
+         fi
+     done
+     echo "  looking for dontTransform file:  "
+     for i in "." $MODS ; do
+         if test -r $i"/dontTransform" ; then
+             OAD_DONT_TRANSFORM=$i"/dontTransform"
+             echo "     found $OAD_DONT_TRANSFORM"
+             break
+         fi
+     done
+     echo "  looking for keepOriginal file:  "
+     for i in "." $MODS ; do
+         if test -r $i"/keepOriginal" ; then
+             OAD_KEEP_ORIGINAL=$i"/keepOriginal"
+             echo "     found $OAD_KEEP_ORIGINAL"
+             break
+         fi
+     done
+     echo "  looking for cb2mFiles:  "
+     for i in "." $MODS ; do
+         if test -r $i"/cb2mFiles" ; then
+             OAD_CB2M_FILES=$i"/cb2mFiles"
+             echo "     found $OAD_CB2M_FILES"
+             break
+         fi
+     done
+     echo "   OpenAD exceptions:  "
+ fi
  echo "# This section creates symbolic links" > srclinks.tmp
  echo "" >> srclinks.tmp
- printf 'SRCFILES = '    > srclist.inc
+ printf 'F77_SRC_FILES = ' > F77srclist.tmp
- printf 'CSRCFILES = '   > csrclist.inc
+ printf 'NON_AD_F77_SRC_FILES = ' > nonADF77srclist.tmp
- printf 'F90SRCFILES = ' > f90srclist.inc
+ printf 'C_SRC_FILES = '   > csrclist.tmp
- printf 'HEADERFILES = ' > hlist.inc
+ printf 'F90_SRC_FILES = ' > F90srclist.tmp
- printf 'AD_FLOW_FILES = ' > ad_flow_files.inc
+ printf 'H_SRC_FILES = '   > hsrclist.tmp
+ printf 'AD_FLOW_FILES = ' > ad_flow_files.tmp
  alldirs="$SOURCEDIRS $INCLUDEDIRS ."
  for d in $alldirs ; do
      deplist=
      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
+     if test "x$OPENAD" != x ; then
+         sfiles=`( echo $sfiles | grep -v _cb2m\. )`
+     fi
      for sf in $sfiles ; do
          if test ! -r ".links.tmp/$sf" ; then
              if test -f "$d/$sf" ; then
-Line 2278 
 for d in $alldirs ; do
+Line 2395 
 for d in $alldirs ; do
                  if test "x$ignore_f" = xf ; then
                      extn=`echo $sf | $AWK -F. '{print $NF}'`
                      case $extn in
-                         F)
+                       F)
-                             echo    " \\"  >> srclist.inc
+                         echo    " \\"  >> F77srclist.tmp
-                             printf " $sf" >> srclist.inc
+                         printf " $sf" >> F77srclist.tmp
-                             ;;
+                         if test "x$OPENAD" != x ; then
-                         F90)
+                             basename=${sf%%.F}
-                             echo    " \\"  >> f90srclist.inc
+                             isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`
-                             printf " $sf" >> f90srclist.inc
+                             if test -z "$isAD" ; then
-                             ;;
+                                 toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
-                         c)
+                                 if test -z "$toBeIgnored" ; then
-                             echo    " \\"  >> csrclist.inc
+                                     echo    " \\"  >> nonADF77srclist.tmp
-                             printf " $sf" >> csrclist.inc
+                                     printf " $sf" >> nonADF77srclist.tmp
-                             ;;
+                                 else
-                         h)
+                                     echo "    not to be compiled   :  $sf"
-                             echo    " \\"  >> hlist.inc
+                                 fi
-                             printf " $sf" >> hlist.inc
+                             else # file is initially listed as an AD file we want to exclude it
-                             ;;
+                                  # or we want to retain the untransformed version
-                         flow)
+                                 notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
-                             echo    " \\"  >> ad_flow_files.inc
+                                 untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
-                             printf " $sf" >> ad_flow_files.inc
+                                 if test -n "$notToBeTransformed"; then
-                             ;;
+                                     echo "    not to be transformed:  $sf"
-                     esac
+                                 fi
-                 fi
+                                 if test -n "$untransformedVersionToBeKept" ; then
+                                     echo "    original to be kept  :  $sf"
+                                 fi
+                                 if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
+                                     echo    " \\"  >> nonADF77srclist.tmp
+                                     printf " $sf" >> nonADF77srclist.tmp
+                                 fi
+                             fi
+                         fi
+                         ;;
+                     F90)
+                         echo    " \\"  >> F90srclist.tmp
+                         printf " $sf" >> F90srclist.tmp
+                         ;;
+                     c)
+                         echo    " \\"  >> csrclist.tmp
+                         printf " $sf" >> csrclist.tmp
+                         ;;
+                     h)
+                         echo    " \\"  >> hsrclist.tmp
+                         printf " $sf" >> hsrclist.tmp
+                         ;;
+                     flow)
+                         echo    " \\"  >> ad_flow_files.tmp
+                         printf " $sf" >> ad_flow_files.tmp
+                         ;;
+                    esac
+                 fi
              fi
          fi
      done
      if test "x$deplist" != x ; then
-         echo "" >> srclinks.tmp
+       if test "$d" != "." ; then
+         echo "" >> srclinks.tmp
          echo "#  These files are linked from $d" >> srclinks.tmp
          echo "$deplist :" >> srclinks.tmp
-         printf "\t\$(LN) %s/\$@ \$@\n" $d >> srclinks.tmp
+ # We need to make sure that the link isn't already there.
+ # This may happen when make thinks that a header file has to be "remade"
+ # because a module it depends on has changed.  In this case we do nothing.
+         printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp
+       fi
      fi
  done
  rm -rf .links.tmp
- echo "" >> srclist.inc
+ echo "" >> F77srclist.tmp
- echo "" >> csrclist.inc
+ echo "" >> nonADF77srclist.tmp
- echo "" >> f90srclist.inc
+ echo "" >> csrclist.tmp
- echo "" >> hlist.inc
+ echo "" >> F90srclist.tmp
- echo "" >> ad_flow_files.inc
+ echo "" >> hsrclist.tmp
+ echo "" >> ad_flow_files.tmp
+ CMDLINE=$0
+ for xx in "$@" ; do nw=`echo $xx | wc -w`
+     if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
+                         else CMDLINE="$CMDLINE '$xx'" ; fi
+ done
  if test -f $MAKEFILE ; then
      mv -f $MAKEFILE "$MAKEFILE.bak"
-Line 2326 
 echo "#    $MACHINE" >> $MAKEFILE
+Line 2482 
 echo "#    $MACHINE" >> $MAKEFILE
  echo "# This makefile was generated automatically on" >> $MAKEFILE
  echo "#    $THISDATE" >> $MAKEFILE
  echo "# by the command:" >> $MAKEFILE
- echo "#    $0 $G2ARGS" >> $MAKEFILE
+ echo "#    $CMDLINE"  >> $MAKEFILE
  echo "# executed by:" >> $MAKEFILE
  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
-Line 2383 
 else
+Line 2539 
 else
      echo "EMBEDDED_FILES = " >>$MAKEFILE
  fi
- #  Note: figure out some way to add Hyades JAM libraries here
  cat >>$MAKEFILE <<EOF
  # Unix ln (link)
  LN = ${LN}
-Line 2410 
 INCLUDES = ${INCLUDES}
+Line 2565 
 INCLUDES = ${INCLUDES}
  KFLAGS1 = ${KFLAGS1}
  KFLAGS2 = ${KFLAGS2}
  # Optim./debug for FC
- FFLAGS = ${FFLAGS}
+ FFLAGS = ${FFLAGS} ${FEXTRAFLAGS}
  FOPTIM = ${FOPTIM}
  # Optim./debug for FC
  F90FLAGS = ${F90FLAGS}
  F90OPTIM = ${F90OPTIM}
+ F90FIXEDFORMAT = ${F90FIXEDFORMAT}
  # Flags for CC
  CFLAGS = ${CFLAGS}
  # Files that should not be optimized
-Line 2427 
 MAKEFILE=${MAKEFILE}
+Line 2583 
 MAKEFILE=${MAKEFILE}
  EOF
- cat srclist.inc       >> $MAKEFILE
+ cat F77srclist.tmp      >> $MAKEFILE
- cat csrclist.inc      >> $MAKEFILE
+ cat nonADF77srclist.tmp >> $MAKEFILE
- cat f90srclist.inc    >> $MAKEFILE
+ cat csrclist.tmp        >> $MAKEFILE
- cat hlist.inc         >> $MAKEFILE
+ cat F90srclist.tmp      >> $MAKEFILE
- cat ad_flow_files.inc >> $MAKEFILE
+ cat hsrclist.tmp        >> $MAKEFILE
+ cat ad_flow_files.tmp   >> $MAKEFILE
+ rm -f F77srclist.tmp nonADF77srclist.tmp csrclist.tmp F90srclist.tmp hsrclist.tmp ad_flow_files.tmp
  echo >> $MAKEFILE
- echo 'F77FILES =  $(SRCFILES:.F=.'$FS')'      >> $MAKEFILE
- echo 'F90FILES =  $(F90SRCFILES:.F90=.'$FS90')' >> $MAKEFILE
+ # add definitions for preprocessed sources
- echo 'OBJFILES =  $(SRCFILES:.F=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.F90=.o)' >> $MAKEFILE
+ # and note that not all systems allow case sensitive extensions
+ # hence the $FS and $FS90 here.
+ # for fixed format f90 files we use ff90 or FF90 resp
+ # but these are not expected to be the original source files
+ echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
+ echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE
+ echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE
+ echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE
  echo >> $MAKEFILE
  echo '.SUFFIXES:' >> $MAKEFILE
- echo '.SUFFIXES: .o .'$FS' .p .F .c .'$FS90' .F90' >> $MAKEFILE
+ echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE
- rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc
- rm -f ad_flow_files.inc
  cat >>$MAKEFILE <<EOF
  all: \$(EXECUTABLE)
- \$(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)
          @echo Creating \$@ ...
          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
  depend:
          @make links
-         \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(SRCFILES)
+         \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
          -rm -f makedepend.out
-Line 2458 
 lib: libmitgcmuv.a
+Line 2624 
 lib: libmitgcmuv.a
  libmitgcmuv.a: \$(OBJFILES)
          ar rcv libmitgcmuv.a \$(OBJFILES)
+         ar d   libmitgcmuv.a main.o
- links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)
+ links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)
- small_f: \$(F77FILES) \$(F90FILES)
+ small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
  output.txt: \$(EXECUTABLE)
          @printf 'running ... '
          @\$(EXECUTABLE) > \$@
  clean:
-         -rm -rf *.o *.$FS *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
+         -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
+         -rm -rf *.o
+         -rm -rf *.$FS *.flowdir
+         -rm -rf *.f$FS90 *_mod.h *_mod.F90 *.FF90 *.mod-whirl ad_input*
+         -rm -rf temp.sed
  Clean:
          @make clean
          @make cleanlinks
          -rm -f \$(SPECIAL_FILES)
-         -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
+         -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log
  CLEAN:
          @make Clean
          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
          -rm -f \$(EXECUTABLE) \$(EXE_AD) *.txt STD* *diagnostics.log datetime
+         -rm -f *_MIT_CE_000.opt0000 costfunction*0000
          -rm -rf mnc_test_*
  #eh3 Makefile: makefile
-Line 2488 
 makefile:
+Line 2661 
 makefile:
  cleanlinks:
          -find . -type l -exec rm {} \;
- # Special targets (SPECIAL_FILES) which are create by make
+ # Special targets (SPECIAL_FILES) which are created by make
  ${PACKAGES_DOT_H}:
          @echo Creating \$@ ...
          @$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 2513 
 if test "x$EMBED_SRC" = xt ; then
+Line 2686 
 if test "x$EMBED_SRC" = xt ; then
  decode_files.o : EMBEDDED_FILES.h
- ##  \$(F77FILES)
+ ##  \$(F77_PP_SRC_FILES)
- 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
          @echo Creating \$@ ...
-         -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
          -rm -f all_fF.tar.gz
          -gzip all_fF.tar
-Line 2540 
 cat >>$MAKEFILE <<EOF
+Line 2713 
 cat >>$MAKEFILE <<EOF
          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
  .F90.$FS90:
          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
+ .FF90.f$FS90:
+         \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
  .$FS90.o:
          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
+ .f$FS90.o:
+         cp \$< \$(basename  \$<).f90
+         \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$(F90FIXEDFORMAT) \$(basename  \$<).f90
  .c.o:
          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
+ .flow.flowdir:
+         \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain
  .F.p:
-Line 2551 
 cat >>$MAKEFILE <<EOF
+Line 2731 
 cat >>$MAKEFILE <<EOF
  .p.$FS:
          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
+ EOF
  #=========================================
  #===  Automatic Differentiation Rules  ===
+ #===  for TAMC/TAF  ======================
+ if test "x$OPENAD" = x ; then
+ cat >>$MAKEFILE <<EOF
  TAMC           = ${TAMC}
  TAF            = ${TAF}
-Line 2576 
 done
+Line 2763 
 done
  echo "  Add the source list for AD code generation"
  echo >> $MAKEFILE
  printf "AD_FILES = " >> $MAKEFILE
- AD_FILES=`cat ad_files`
+ AD_FILES=`cat adSrcFiles.tmp`
  for i in $AD_FILES ; do
      echo    " \\" >> $MAKEFILE
      printf " $i" >> $MAKEFILE
  done
  echo >> $MAKEFILE
- rm -f ad_files
+ rm -f adSrcFiles.tmp
  cat >>$MAKEFILE <<EOF
-Line 2591 
 adall: \$(EXE_AD)
+Line 2778 
 adall: \$(EXE_AD)
  adtaf: ad_taf_output.$FS
  adtamc: ad_tamc_output.$FS
- ad_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)
+ ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES) \$(AD_FLOW_FILES)
          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template
          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
          -rm -f ad_config.template
-         @make \$(F77FILES)
+         @make \$(F77_PP_SRC_FILES)
-         @make \$(AD_FLOW_FILES)
+         @make \$(FLOFILES)
-         cat \$(AD_FLOW_FILES) \$(AD_FILES) > ad_input_code.$FS
+         cat \$(FLOFILES) \$(AD_FILES) > ad_input_code.$FS
  ad_taf_output.$FS: ad_input_code.$FS
          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
+         ls -l ad_input_code_ad.$FS
          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
  adtafonly:
          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
+         ls -l ad_input_code_ad.$FS
          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)
-Line 2628 
 ftlall: ftl_taf
+Line 2817 
 ftlall: ftl_taf
  ftltaf: ftl_taf_output.$FS
  ftltamc: ftl_tamc_output.$FS
- ftl_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)
+ ftl_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)
          @$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
          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
          -rm -f ftl_config.template
-         @make \$(F77FILES)
+         @make \$(F77_PP_SRC_FILES)
          @make \$(AD_FLOW_FILES)
          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS
  ftl_taf_output.$FS: ftl_input_code.$FS
          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
+         ls -l ftl_input_code_ftl.$FS
          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
  ftltafonly:
          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
+         ls -l ftl_input_code_ftl.$FS
          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
  ftl_taf: ftl_taf_output.o \$(OBJFILES)
-Line 2679 
 svd_touch:
+Line 2870 
 svd_touch:
          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
          -rm -f ftl_config.template
- #=========================================
+ EOF
+ fi
+ #===  for OpenAD  ========================
+ if test "x$OPENAD" != x ; then
+ # ============ begin OpenAD specific section ==============
+ cat >>$MAKEFILE <<EOF
+ # all the source files linked from the various locations:
+ ALL_LINKED_FILES= \
+ \$(F77_SRC_FILES) \
+ \$(C_SRC_FILES) \
+ \$(H_SRC_FILES) \
+ \$(F90_SRC_FILES) \
+ \$(SPECIAL_FILES)
+ ifndef OPENADROOT
+   \$(error "Error:  environment variable OPENADROOT not defined!")
+ endif
+ ifndef XAIFSCHEMAROOT
+   \$(error "Error:  environment variable XAIFSCHEMAROOT not defined!")
+ endif
+ ifndef XAIFBOOSTERROOT
+   \$(error "Error:  environment variable XAIFBOOSTERROOT not defined!")
+ endif
+ EOF
+ echo "  Add the source list for common block to module conversion "
+ echo >> $MAKEFILE
+ printf "CB2M_F90_SRC_NAMES = " >> $MAKEFILE
+ for i in `cat ${OAD_CB2M_FILES}` ; do
+   echo    " \\" >> $MAKEFILE
+   printf " $i" >> $MAKEFILE
+ done
+ echo >> $MAKEFILE
+ echo "  Add the source list for AD code generation"
+ echo >> $MAKEFILE
+ printf "AD_FILES = " >> $MAKEFILE
+ for i in `cat ${OAD_CB2M_FILES}` ; do
+   echo    " \\" >> $MAKEFILE
+   printf " ${i}_mod.f$FS90" >> $MAKEFILE
+ done
+ AD_FILES=`cat adSrcFiles.tmp`
+ for i in $AD_FILES ; do
+   basename=${i%%.f}
+   toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`
+   if test -z "$toBeIgnored" ; then
+     echo    " \\" >> $MAKEFILE
+     printf " $i" >> $MAKEFILE
+   fi
+ done
+ echo >> $MAKEFILE
+ rm -f adSrcFiles.tmp
+ cat >>$MAKEFILE <<EOF
+ adAll: \$(EXE_AD)
+ .PHONY: adAll
+ CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
+ .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
+ .PHONY: adDepend
+ adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)
+         \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
+         \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
+         -rm -f makedepend.out
+ OPENAD_SUPPORT_F90_SRC_FILES = \
+ w2f__types.F90 \
+ OAD_active.F90 \
+ OAD_cp.F90 \
+ OAD_rev.F90 \
+ OAD_tape.F90
+ OPENAD_SUPPORT_C_SRC_FILES = \
+ iaddr.c \
+ timeRatio.c
+ f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
+         cat \$^ > \$@
+ 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$FS90
+         cat \$^ > \$@
+ f95_test.out: f95_test_mods.f90 f95_test.f90
+         f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
+         f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
+ AD_OBJ_FILES=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) all_mods.xb.x2w.w2f.pp.o  ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.o \$(NON_AD_F77_SRC_FILES:.F=_cb2m.o) \$(C_SRC_FILES:.c=.o) \$(F90_SRC_FILES:.F90=.o)
+ \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(AD_OBJ_FILES)
+         @echo Creating \$@ ...
+         \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES) \$(LIBS)
+ # makefile debug rule
+ openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
+ .PHONY: openad
+ # create the module files
+ %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk
+         ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk
+ # create the header files
+ %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk
+         ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
+ # change everybody else to use the new module files:
+ %_cb2m.FF90 : %.F ../OAD_support/cb2mUseModules.bash
+         ../OAD_support/cb2mUseModules.bash $< ${MPI}
+ # makefile debug rule
+ small_f: \$(CB2M_F90_PP_SRC_FILES)
+ .PHONY: small_f
+ ad_output.txt: \$(EXE_AD)
+         @printf 'linking data files ... '
+         \$(LN) -f ../input_ad/data* ../input_ad/eedata .
+         \$(LN) -f ../../global_ocean.90x40x15/input/*.bin .
+         @printf 'running ... '
+         @./\$(EXE_AD) > \$@
+ CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
+ ad_input_code.f$FS90: ../OAD_support/maxMinDefs.f \$(CB2M_AD_FILES)
+         cat \$^ > \$@
+ # strip all comments and blanks to reduce
+ # the file size in order to reduce perl's memory requirements
+ ad_input_code_sf.f$FS90 : ad_input_code.f$FS90
+         cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@
+ # mfef90 preprocessing
+ # expand statement functions
+ # expose mfef90 specific substring handling
+ # add the w2f__types module
+ ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90
+         ./mfef90 -r8 -z -F -N132 \$<
+         mv \$<.B \$(basename \$<).B
+         ./whirl2f -openad \$(basename \$<).B
+         cat w2f__types.f90 \$(basename \$<).w2f.f > \$@
+ # canonicalizer
+ ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py
+         ./preProcess.py -H -S \$< -o \$@
+ # F -> WHIRL
+ # note that the canonicalized version cuts off at col 72
+ # doing this also for string constants which is ok as long
+ # as we are in fixed mode and cut of exactly there.
+ # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)
+ # characters respectively.
+ ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90
+         ./mfef90 -r8 -z -F \$<
+         mv \$<.B \$@
+ # WHIRL -> XAIF
+ ad_input_code_sf.w2f.pre.xaif : ad_input_code_sf.w2f.pre.B whirl2xaif
+         ./whirl2xaif -s -n --debug 1 -o \$@ \$<
+ # XAIF -> XAIF'
+ 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
+         ./oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
+ # XAIF' -> WHIRL'
+ ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl
+         ./xaif2whirl --debug 1 --structured ad_input_code_sf.w2f.pre.B \$<
+ # WHIRL' -> F'
+ ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be
+         ./whirl2f -FLIST:ftn_file=\$@ -openad \$<
+ # insert template directives
+ ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash
+         ../OAD_support/insertTemplateDir.bash \$< \$@
+ PPEXTRAS=\$(wildcard ../OAD_support/ad_template.*.F) ../OAD_support/ad_inline.F
+ # postprocess F'
+ ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 postProcess.py \$(PPEXTRAS:.F=.f)
+         ./postProcess.py -m r -i ../OAD_support/ad_inline.f -o \$@ \$<
+ # extract all transformed modules
+ all_mods.xb.x2w.w2f.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
+         cat \$< | sed -n '/MODULE /,/END MODULE/p' > \$@
+ # remove the transformed globals module from the
+ # transformed ad_input_code file
+ # and remove for now the duplicate variables
+ # and fix 2 data statements
+ ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
+         cat \$< | sed '/MODULE /,/END MODULE/d' | sed '/^      INTEGER(w2f__i4) DOLOOP_UB/d' > \$@
+ # setup some links
+ %.xsd:
+         \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
+ mfef90:
+         \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .
+ # link the support files:
+ \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):
+         \$(LN) ../OAD_support/\$@ .
+ whirl2xaif xaif2whirl:
+         \$(LN) \${OPENADFORTTK}/bin/\$@ .
+ preProcess.py postProcess.py:
+         \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .
+ whirl2f whirl2f_be:
+         \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .
+ oadDriver:
+         \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver \$@
+ # ============ end OpenAD specific section ==============
  EOF
+ fi
+ #=========================================
  if test "x$EXEHOOK" != x ; then
      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE
  fi

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