/[MITgcm]/MITgcm/tools/genmake2

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-revision 1.212 by jmc,
Thu Nov  4 18:01:22 2010 UTC
+revision 1.221 by jmc,
Fri Jun 24 22:03:39 2011 UTC
 Line 1
  #! /usr/bin/env bash
  #
  # $Header$
+ # $Name$
  #
  # Makefile generator for MITgcm UV codes
  #   created  by cnh 03/98
-Line 8
+Line 9
  #   modified by aja 01/00
  #   rewritten in bash by eh3 08/03
+ #  Explain usage
+ usage()  {
+ cat <<EOF
+ Usage: "$0" [OPTIONS]
+   where [OPTIONS] can be:
+     -help | --help | -h | --h
+           Print this help message and exit.
+     -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
+       -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
+           Use "NAME" as the adoptfile.  By default, the file at
+           "tools/adjoint_options/adjoint_default" will be used.
+     -nooptfile | --nooptfile
+       -optfile NAME | --optfile NAME | -of NAME | --of NAME
+       -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
+           Use "NAME" as the optfile.  By default, an attempt will be
+           made to find an appropriate "standard" optfile in the
+           tools/build_options/ directory.
+     -pdepend NAME | --pdepend NAME
+       -pdepend=NAME | --pdepend=NAME
+           Get package dependency information from "NAME".
+     -pgroups NAME | --pgroups NAME
+       -pgroups=NAME | --pgroups=NAME
+           Get the package groups information from "NAME".
+     -bash NAME
+           Explicitly specify the Bourne or BASH shell to use
+     -make NAME | -m NAME
+       --make=NAME | -m=NAME
+           Use "NAME" for the MAKE program. The default is "make" but
+           many platforms, "gmake" is the preferred choice.
+     -makefile NAME | -mf NAME
+       --makefile=NAME | -mf=NAME
+           Call the makefile "NAME".  The default is "Makefile".
+     -makedepend NAME | -md NAME
+       --makedepend=NAME | -md=NAME
+           Use "NAME" for the MAKEDEPEND program.
+     -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
+       -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
+           Specify the location of the MITgcm ROOTDIR as "NAME".
+           By default, genamke will try to find the location by
+           looking in parent directories (up to the 5th parent).
+     -mods NAME | --mods NAME | -mo NAME | --mo NAME
+       -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
+           Here, "NAME" specifies a list of directories that are
+           used for additional source code.  Files found in the
+           "mods list" are given preference over files of the same
+           name found elsewhere.
+     -disable NAME | --disable NAME
+       -disable=NAME | --disable=NAME
+           Here "NAME" specifies a list of packages that we don't
+           want to use.  If this violates package dependencies,
+           genamke will exit with an error message.
+     -enable NAME | --enable NAME
+       -enable=NAME | --enable=NAME
+           Here "NAME" specifies a list of packages that we wish
+           to specifically enable.  If this violates package
+           dependencies, genamke will exit with an error message.
+     -standarddirs NAME | --standarddirs NAME
+       -standarddirs=NAME | --standarddirs=NAME
+           Here, "NAME" specifies a list of directories to be
+           used as the "standard" code.
+     -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
+       -fc=NAME | --fc=NAME
+           Use "NAME" as the fortran compiler.  By default, genmake
+           will search for a working compiler by trying a list of
+           "usual suspects" such as g77, f77, etc.
+     -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
+           Use "NAME" as the C compiler.  By default, genmake
+           will search for a working compiler by trying a list of
+           "usual suspects" such as gcc, c89, cc, etc.
+     -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
+           Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
+           *only* works if CPP_EEOPTIONS.h allows this.
+     -ignoretime | -ignore_time | --ignoretime | --ignore_time
+           Ignore all the "wall clock" routines entirely.  This will
+           not in any way hurt the model results -- it simply means
+           that the code that checks how long the model spends in
+           various routines will give junk values.
+     -ts | --ts
+           Produce timing information per timestep
+     -papis | --papis
+           Produce summary MFlop/s (and IPC) with PAPI per timestep
+     -pcls | --pcls
+           Produce summary MFlop/s etc. with PCL per timestep
+     -foolad | --foolad
+           Fool the AD code generator
+     -papi | --papi
+           Performance analysis with PAPI
+     -pcl | --pcl
+           Performance analysis with PCL
+     -hpmt | --hpmt
+           Performance analysis with the HPM Toolkit
+     -ieee | --ieee
+           use IEEE numerics.  Note that this option *only* works
+           if it is supported by the OPTFILE that is being used.
+     -devel | --devel
+           Add additional warning and debugging flags for development
+           (if supported by the OPTFILE); also switch to IEEE numerics.
+     -gsl | --gsl
+           Use GSL to control floating point rounding and precision
+     -mpi | --mpi
+           Include MPI header files and link to MPI libraries
+     -mpi=PATH | --mpi=PATH
+           Include MPI header files and link to MPI libraries using MPI_ROOT
+           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
+           executable [off by default]
+     -ds | --ds
+           Report genmake internal variables status (DUMPSTATE)
+           to file "genmake_state" (for debug purpose)
+   While it is most often a single word, the "NAME" variables specified
+   above can in many cases be a space-delimited string such as:
+     --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
+     -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
+     -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
+   which, depending upon your shell, may need to be single-quoted.
+   For more detailed genmake documentation, please see:
+     http://mitgcm.org/public/devel_HOWTO/
+ EOF
+     exit 1
+ }
  # Search for particular CPP #cmds associated with packages
  # usage: test_for_package_in_cpp_options CPP_file package_name
  test_for_package_in_cpp_options() {
-Line 164 
 EOF
+Line 325 
 EOF
      return
  }
  look_for_makedepend()  {
      #  The "original" makedepend is part of the Imake system that is
-Line 185 
 look_for_makedepend()  {
+Line 345 
 look_for_makedepend()  {
      #    3) locally build and use the cyrus implementation
      #    4) fall back to the buggy local xmakedpend script
      #
+     echo >> $LOGFILE
+     echo "running: look_for_makedepend()" >> $LOGFILE
+     if test "x${MAKEDEPEND}" != x ; then
+         echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1
+         RETVAL=$?
+         if test x"$RETVAL" = x0 ; then
+             build_cyrus_makedepend
+             RETVAL=$?
+             if test "x$RETVAL" != x0 ; then
+                 echo "WARNING: unable to build cyrus-makedepend. Try 'makedepend'"
+                 MAKEDEPEND=
+             fi
+         else
+             echo "${MAKEDEPEND}" | grep 'tools.xmakedepend' > /dev/null 2>&1
+             RETVAL=$?
+             if test "x$RETVAL" = x0 ; then
+                 MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
+             fi
+             echo " -->     MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
+         fi
+     fi
      if test "x${MAKEDEPEND}" = x ; then
          which makedepend > /dev/null 2>&1
          RV0=$?
-Line 209 
 EOF
+Line 390 
 EOF
          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
          if test "x${RV0}${RV1}" = x00 ; then
              MAKEDEPEND=makedepend
+             echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
          else
-             echo "    a system-default makedepend was not found."
+             echo "    system-default makedepend not found. Try to build cyrus-makedepend"
              #  Try to build the cyrus implementation
              build_cyrus_makedepend
              RETVAL=$?
              if test "x$RETVAL" != x0 ; then
+                 echo "WARNING: unable to build cyrus-makedepend. Use local xmakedepend"
                  MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
+                 echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
              fi
-             rm -f ./genmake_cy_md
-         fi
-     else
-         #  echo "MAKEDEPEND=${MAKEDEPEND}"
-         echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1
-         RETVAL=$?
-         if test x"$RETVAL" = x0 ; then
-             build_cyrus_makedepend
          fi
      fi
  }
  build_cyrus_makedepend()  {
+     echo >> $LOGFILE
+     echo "running: build_cyrus_makedepend()" >> $LOGFILE
      rm -f ./genmake_cy_md
      (
          cd $ROOTDIR/tools/cyrus-imapd-makedepend  \
-Line 248 
 build_cyrus_makedepend()  {
+Line 424 
 build_cyrus_makedepend()  {
      rm -f ./genmake_cy_md
      if test "x$RETVAL" = x0 ; then
          MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'
+         echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
          return 0
      else
-         echo "WARNING: unable to build cyrus-imapd-makedepend"
+         echo "WARNING: fail to build cyrus-imapd-makedepend" >> $LOGFILE
          return 1
      fi
  }
  build_embed_encode()
  {
      printf "  building the embed-encode utility...  "
-Line 289 
 build_embed_encode()
+Line 465 
 build_embed_encode()
      DEFINES="$DEFINES -DHAVE_EMBED_SRC"
  }
  #  look for possible C compilers
  look_for_C_compilers() {
-     tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
+     echo >> $LOGFILE
-     p_CC=
+     echo "running: look_for_C_compilers()" >> $LOGFILE
-     for c in $tmp ; do
+     rm -f ./genmake_hello.c  ./genmake_hello
-         rm -f ./genmake_hello.c  ./genmake_hello
+     cat >> genmake_hello.c << EOF
-         cat >> genmake_hello.c << EOF
  #include <stdio.h>
  int main(int argc, char **argv) {
    printf("Hello!\n");
    return 0;
  }
  EOF
-         $c -o genmake_hello genmake_hello.c > /dev/null 2>&1
+     tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
+     p_CC=
+     for c in $tmp ; do
+         COMM="$c $CFLAGS -o genmake_hello genmake_hello.c"
+         echo $COMM >> $LOGFILE
+         $COMM >> $LOGFILE 2>&1
          RETVAL=$?
          if test "x${RETVAL}" = x0 ; then
+             echo " $c test successful" >> $LOGFILE
              p_CC="$p_CC $c"
          fi
      done
-Line 321 
 Error: No C compilers were found in your
+Line 501 
 Error: No C compilers were found in your
  EOF
          exit 1
      else
-         echo "  The possible C compilers found in your path are:"
+         echo "  The possible C compilers found in your path are: $p_CC" | tee -a $LOGFILE
-         echo "   "$p_CC
          if test "x$CC" = x ; then
              CC=`echo $p_CC | $AWK '{print $1}'`
              echo "  Setting C compiler to: "$CC
          fi
      fi
+     echo " --> set CC='$CC'" >> $LOGFILE
  }
  # Guess possible config options for this host
  find_possible_optfile()  {
+     echo >> $LOGFILE
+     echo "running: find_possible_optfile()" >> $LOGFILE
      tmp1=`uname`"_"`uname -m`
      tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`
      tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`
-Line 342 
 find_possible_optfile()  {
+Line 524 
 find_possible_optfile()  {
      PLATFORM=$tmp3
      echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
      OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
-     echo "  The platform appears to be:  $PLATFORM"
+     echo "  The platform appears to be:  $PLATFORM" | tee -a $LOGFILE
- #    echo "test" > test
- #    ln -s ./test link
- #    RETVAL=$?
- #    if test "x${RETVAL}" = x0 ; then
- #       LN="ln -s"
- #    else
- #       echo "Error: \"ln -s\" does not appear to work on this system!"
- #       echo "  For help, please contact <MITgcm-support@mitgcm.org>."
- #       exit 1
- #    fi
- #    rm -f test link
- #
- #    if test "x$CPP" = x ; then
- #       CPP="cpp -traditional -P"
- #    fi
- #
- #    look_for_makedepend
- #
- #    look_for_C_compilers
      #================================================================
      #  look for possible FORTRAN compilers
-     tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 gfortran g95"
+     echo "  look for possible FORTRAN compilers" >> $LOGFILE
+     tmp="$MITGCM_FC $FC efc gfortran g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 g95"
      p_FC=
-     for c in $tmp ; do
+     rm -f ./genmake_hello.f
-         rm -f ./hello.f ./hello
+     cat >> genmake_hello.f <<EOF
-         cat >> hello.f <<EOF
        program hello
        do i=1,3
          print *, 'hello world : ', i
        enddo
        end
  EOF
-         $c -o hello hello.f > /dev/null 2>&1
+     for f in $tmp ; do
+         COMM="$f -o genmake_hello genmake_hello.f"
+         echo $COMM >> $LOGFILE
+         $COMM >> $LOGFILE 2>&1
          RETVAL=$?
          if test "x${RETVAL}" = x0 ; then
-             p_FC="$p_FC $c"
+             echo " $f test successful" >> $LOGFILE
+             p_FC="$p_FC $f"
          fi
      done
-     rm -f ./hello.f ./hello
+     rm -f ./genmake_hello.f ./genmake_hello
      if test "x${p_FC}" = x ; then
          cat 1>&2 <<EOF
-Line 396 
 Error: No Fortran compilers were found i
+Line 562 
 Error: No Fortran compilers were found i
  EOF
          exit 1
      else
-         echo "  The possible FORTRAN compilers found in your path are:"
+         echo "  The possible FORTRAN compilers found in your path are: $p_FC" | tee -a $LOGFILE
-         echo "   "$p_FC
      fi
      #  Use the first of the compilers found in the current PATH
-Line 406 
 EOF
+Line 571 
 EOF
          for i in $p_FC ; do
              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
              if test -r $OPTFILE ; then
-                 echo "  Setting OPTFILE to: "$OPTFILE
+                 echo "  Setting OPTFILE to: "$OPTFILE | tee -a $LOGFILE
                  break
              fi
          done
-Line 463 
 EOF
+Line 628 
 EOF
  #       fi
  #       rm -f test.f out
  #     fi
  }
  #  Parse the package dependency information
-Line 481 
 get_pdepend_list()  {
+Line 645 
 get_pdepend_list()  {
      fi
      . ./.pd_tmp
      rm -f ./.pd_tmp
- }
- #  Explain usage
- usage()  {
- cat <<EOF
- Usage: "$0" [OPTIONS]
-   where [OPTIONS] can be:
-     -help | --help | -h | --h
-           Print this help message and exit.
-     -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
-       -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
-           Use "NAME" as the adoptfile.  By default, the file at
-           "tools/adjoint_options/adjoint_default" will be used.
-     -nooptfile | --nooptfile
-       -optfile NAME | --optfile NAME | -of NAME | --of NAME
-       -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
-           Use "NAME" as the optfile.  By default, an attempt will be
-           made to find an appropriate "standard" optfile in the
-           tools/build_options/ directory.
-     -pdepend NAME | --pdepend NAME
-       -pdepend=NAME | --pdepend=NAME
-           Get package dependency information from "NAME".
-     -pgroups NAME | --pgroups NAME
-       -pgroups=NAME | --pgroups=NAME
-           Get the package groups information from "NAME".
-     -bash NAME
-           Explicitly specify the Bourne or BASH shell to use
-     -make NAME | -m NAME
-       --make=NAME | -m=NAME
-           Use "NAME" for the MAKE program. The default is "make" but
-           many platforms, "gmake" is the preferred choice.
-     -makefile NAME | -mf NAME
-       --makefile=NAME | -mf=NAME
-           Call the makefile "NAME".  The default is "Makefile".
-     -makedepend NAME | -md NAME
-       --makedepend=NAME | -md=NAME
-           Use "NAME" for the MAKEDEPEND program.
-     -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
-       -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
-           Specify the location of the MITgcm ROOTDIR as "NAME".
-           By default, genamke will try to find the location by
-           looking in parent directories (up to the 5th parent).
-     -mods NAME | --mods NAME | -mo NAME | --mo NAME
-       -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
-           Here, "NAME" specifies a list of directories that are
-           used for additional source code.  Files found in the
-           "mods list" are given preference over files of the same
-           name found elsewhere.
-     -disable NAME | --disable NAME
-       -disable=NAME | --disable=NAME
-           Here "NAME" specifies a list of packages that we don't
-           want to use.  If this violates package dependencies,
-           genamke will exit with an error message.
-     -enable NAME | --enable NAME
-       -enable=NAME | --enable=NAME
-           Here "NAME" specifies a list of packages that we wish
-           to specifically enable.  If this violates package
-           dependencies, genamke will exit with an error message.
-     -standarddirs NAME | --standarddirs NAME
-       -standarddirs=NAME | --standarddirs=NAME
-           Here, "NAME" specifies a list of directories to be
-           used as the "standard" code.
-     -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
-       -fc=NAME | --fc=NAME
-           Use "NAME" as the fortran compiler.  By default, genmake
-           will search for a working compiler by trying a list of
-           "usual suspects" such as g77, f77, etc.
-     -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
-           Use "NAME" as the C compiler.  By default, genmake
-           will search for a working compiler by trying a list of
-           "usual suspects" such as gcc, c89, cc, etc.
-     -[no]ieee | --[no]ieee
-           Do or don't use IEEE numerics.  Note that this option
-           *only* works if it is supported by the OPTFILE that
-           is being used.
-     -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
-           Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
-           *only* works if CPP_EEOPTIONS.h allows this.
-     -ignoretime | -ignore_time | --ignoretime | --ignore_time
-           Ignore all the "wall clock" routines entirely.  This will
-           not in any way hurt the model results -- it simply means
-           that the code that checks how long the model spends in
-           various routines will give junk values.
-     -ts | --ts
-           Produce timing information per timestep
-     -papis | --papis
-           Produce summary MFlop/s (and IPC) with PAPI per timestep
-     -pcls | --pcls
-           Produce summary MFlop/s etc. with PCL per timestep
-     -foolad | --foolad
-           Fool the AD code generator
-     -papi | --papi
-           Performance analysis with PAPI
-     -pcl | --pcl
-           Performance analysis with PCL
-     -hpmt | --hpmt
-           Performance analysis with the HPM Toolkit
-     -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
-     -mpi=PATH | --mpi=PATH
-           Include MPI header files and link to MPI libraries using MPI_ROOT
-           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
-           executable [off by default]
-   While it is most often a single word, the "NAME" variables specified
-   above can in many cases be a space-delimited string such as:
-     --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
-     -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
-     -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
-   which, depending upon your shell, may need to be single-quoted.
-   For more detailed genmake documentation, please see:
-     http://mitgcm.org/public/devel_HOWTO/
- EOF
-     exit 1
  }
  #  Build a CPP macro to automate calling C routines from FORTRAN
-Line 656 
 get_fortran_c_namemangling()  {
+Line 661 
 get_fortran_c_namemangling()  {
      cat > genmake_test.c <<EOF
  void tcall( char * string ) { tsub( string ); }
  EOF
- #   $MAKE genmake_test.o >> $LOGFILE 2>&1
      COMM="$CC $CFLAGS -c genmake_test.c"
      echo ' '$COMM >> $LOGFILE
      $COMM >> $LOGFILE 2>&1
-Line 741 
 EOF
+Line 745 
 EOF
      echo " --> set FC_NAMEMANGLE='$FC_NAMEMANGLE'" >> $LOGFILE
  }
  check_HAVE_CLOC()  {
      echo >> $LOGFILE
      echo "running: check_HAVE_CLOC()" >> $LOGFILE
-Line 787 
 EOF
+Line 790 
 EOF
      echo " --> set HAVE_CLOC='$HAVE_CLOC'" >> $LOGFILE
  }
  check_HAVE_SIGREG()  {
      if test ! "x$HAVE_SIGREG" = x ; then
          return
-Line 850 
 EOF
+Line 852 
 EOF
      echo " --> set HAVE_SIGREG='$HAVE_SIGREG'" >> $LOGFILE
  }
  check_HAVE_SETRLSTK()  {
      if test "x$HAVE_SETRLSTK" = xt ; then
          DEFINES="$DEFINES -DHAVE_SETRLSTK"
-Line 899 
 EOF
+Line 900 
 EOF
      echo " --> set HAVE_SETRLSTK='$HAVE_SETRLSTK'" >> $LOGFILE
  }
  check_HAVE_STAT()  {
      echo >> $LOGFILE
      echo "running: check_HAVE_STAT()" >> $LOGFILE
 Line 947 
 EOF
      echo " --> set HAVE_STAT='$HAVE_STAT'" >> $LOGFILE
  }
  check_netcdf_libs()  {
      if test ! "x$SKIP_NETCDF_CHECK" = x ; then
          return
-Line 1041 
 EOF
+Line 1040 
 EOF
  }
  ###############################################################################
  #   Sequential part of script starts here
  ###############################################################################
-Line 1073 
 FOPTIM=
+Line 1071 
 FOPTIM=
  FEXTRAFLAGS=
  USE_EXTENDED_SRC=
  EXTENDED_SRC_FLAG=
+ GET_FC_VERSION=
  CFLAGS=
  KFLAGS1=
  KFLAGS2=
-Line 1152 
 TAMC_EXTRA=
+Line 1151 
 TAMC_EXTRA=
  #  The following state can be set directly by command-line switches
  gm_s1="OPTFILE PKG_DEPEND PKG_GROUPS MAKEFILE MAKEDEPEND PLATFORM ROOTDIR MODS DISABLE ENABLE"
- gm_s2="FC IEEE USE_R4 TS PAPIS PCLS PAPI PCL HPMT GSL DEVEL MPI OMP DUMPSTATE STANDARDDIRS"
+ gm_s2="FC CC USE_R4 TS PAPIS PCLS PAPI PCL HPMT IEEE DEVEL GSL MPI OMP DUMPSTATE STANDARDDIRS"
  #  The following state is not directly set by command-line switches
  gm_s3="LN S64 LINK MAKE PACKAGES INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"
-Line 1316 
 for ac_option in "$@" ; do
+Line 1315 
 for ac_option in "$@" ; do
          -fs90=* | --fs90=*)
              FS90=$ac_optarg ;;
+         -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
+             USE_R4=true ;;
          -ieee | --ieee)
              IEEE=true ;;
          -noieee | --noieee)
-             IEEE= ;;
+             echo "Warning: ignore option '$ac_option' (default is already without '-ieee')" ;;
+         -devel | --devel)
-         -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
+             IEEE=true ; DEVEL=true ;;
-             USE_R4=true ;;
+         -gsl | --gsl)
+             GSL=true ;;
          -ts | --ts)
              TS=true ;;
-Line 1339 
 for ac_option in "$@" ; do
+Line 1342 
 for ac_option in "$@" ; do
          -hpmt | --hpmt)
              HPMT=true ;;
-         -gsl | --gsl)
-             GSL=true ;;
-         -devel | --devel)
-             DEVEL=true ;;
          -mpi | --mpi)
              MPI=true ;;
          -mpi=* | --mpi=*)
-Line 1390 
 for ac_option in "$@" ; do
+Line 1387 
 for ac_option in "$@" ; do
  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.  For directions on"
      echo "  how to setup and use the new \"genmake2\" script, please see:"
-     echo "    http://mitgcm.org/devel_HOWTO/"
+     echo "    http://mitgcm.org/public/devel_HOWTO/"
      echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
      echo "WARNING: ignore \"./.genmakerc\" and continue."
      echo
-Line 1411 
 if test "x${ROOTDIR}" = x ; then
+Line 1407 
 if test "x${ROOTDIR}" = x ; then
          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do
              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then
                  ROOTDIR=$d
-                 printf "Warning:  ROOTDIR was not specified but there appears to be"
+                 printf "Warning: ROOTDIR was not specified ;"
-                 echo " a copy of MITgcm at \"$ROOTDIR\" so we'll try it."
+                 echo " try using a local copy of MITgcm found at \"$ROOTDIR\""
                  break
              fi
          done
-Line 1519 
 Error: no Fortran compiler: please speci
+Line 1515 
 Error: no Fortran compiler: please speci
  EOF
      exit 1
  fi
+ if test "x$GET_FC_VERSION" != x ; then
+   echo "Get compiler version using: $FC $GET_FC_VERSION" >> $LOGFILE
+   $FC $GET_FC_VERSION >> $LOGFILE 2>&1
+   echo "<-- compiler version ----" >> $LOGFILE
+ fi
  if test "x$CC" = x ; then
      look_for_C_compilers
- #   CC=cc
- #     cat <<EOF 1>&2
- # Error: no C compiler: please specify using one of the following:
- #   1) within the options file ("CC=...") as specified by "-of=OPTFILE"
- #   2) the "-cc=XXX" command-line option
- #   3) the "./genmake_local" file
- # EOF
- #     exit 1
  fi
  if test "x$LINK" = x ; then
-Line 1816 
 if test "x$EMBED_SRC" = xt ; then
+Line 1809 
 if test "x$EMBED_SRC" = xt ; then
      ENABLE="$ENABLE embed_files"
  fi
  printf "\n===  Setting defaults  ===\n"
  printf "  Adding MODS directories: "
  for d in $MODS ; do
-Line 2720 
 clean:
+Line 2712 
 clean:
  Clean:
          @make clean
          @make cleanlinks
-         -rm -f \$(SPECIAL_FILES) f90mkdepend.log
+         -rm -f \$(SPECIAL_FILES) f90mkdepend.log $MAKEFILE.old
          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log
          -rm -f genmake_warnings genmake_errors make.log
-Line 2728 
 Clean:
+Line 2720 
 Clean:
  #         and output from a run (plus log files from testreport)
  CLEAN:
          @make Clean
-         -rm -f \$(EXECUTABLE) \$(EXE_AD) *.bak $MAKEFILE.old
+         -rm -f \$(EXECUTABLE) \$(EXE_AD) *.bak
-         -rm -f $LOGFILE genmake_state genmake_*optfile genmake.tr_log make.tr_log
+         -rm -f $LOGFILE genmake_state genmake_*optfile
+         -rm -f SIZE.h.mpi genmake.tr_log make.tr_log
          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
-Line 2792 
 cat >>$MAKEFILE <<EOF
+Line 2785 
 cat >>$MAKEFILE <<EOF
          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
  .$FS.o:
          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
+ .F.o:
+         \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
  .F90.$FS90:
          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
  .FF90.f$FS90:
-Line 2926 
 ftl_tamc_output.$FS: ftl_input_code.$FS
+Line 2921 
 ftl_tamc_output.$FS: ftl_input_code.$FS
  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
  # ... SVD ...
  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
          @echo "--->>> Only ran TAF to generate SVD code!    <<<---"
-Line 3250 
 if test ! -f AD_CONFIG.h ; then
+Line 3244 
 if test ! -f AD_CONFIG.h ; then
      $BASH $TOOLSDIR/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > AD_CONFIG.h
  fi
  #  Write the "state" for future records
  if test "x$DUMPSTATE" = xt ; then
      printf "" > genmake_state

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