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revision 1.261 by jahn, Thu Aug 22 16:04:18 2013 UTC revision 1.277 by jmc, Tue Jan 12 20:43:00 2016 UTC
# Line 19  Usage: "$0" [OPTIONS] Line 19  Usage: "$0" [OPTIONS]
19      -help | --help | -h | --h      -help | --help | -h | --h
20            Print this help message and exit.            Print this help message and exit.
21    
22        -oad | --oad
23              Generate a Makefile for an OpenAD built
24    
25        -nocat4ad | -dog4ad | -ncad | -dad
26              do not concatenate (cat) source code sent to TAF
27              resulting in compilation of multiple files
28    
29      -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME      -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
30        -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME        -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
31            Use "NAME" as the adoptfile.  By default, the file at            Use "NAME" as the adoptfile.  By default, the file at
32              "tools/adjoint_options/adjoint_oad" (for OpenAD built) or
33            "tools/adjoint_options/adjoint_default" will be used.            "tools/adjoint_options/adjoint_default" will be used.
34    
35      -nooptfile | --nooptfile      -nooptfile | --nooptfile
# Line 1079  EOF Line 1087  EOF
1087  }  }
1088    
1089  check_lapack_libs()  {  check_lapack_libs()  {
1090      if test ! "x$SKIP_LAPACK_CHECK" = x ; then      if test "x$CHECK_FOR_LAPACK" = xf ; then return ; fi
         return  
     fi  
1091      echo >> $LOGFILE      echo >> $LOGFILE
1092      echo "running: check_lapack_libs()" >> $LOGFILE      echo "running: check_lapack_libs()" >> $LOGFILE
1093      cat <<EOF > genmake_tla.F      cat <<EOF > genmake_tla.F
# Line 1277  GSL= Line 1283  GSL=
1283  DEVEL=  DEVEL=
1284  HAVE_TEST_L=  HAVE_TEST_L=
1285    
1286  # comment this line out to enable lapack test  # set this to "t" to enable lapack test
1287  SKIP_LAPACK_CHECK=t  CHECK_FOR_LAPACK=f
1288    
1289  # DEFINES checked by test compilation or command-line  # DEFINES checked by test compilation or command-line
1290  HAVE_SYSTEM=  HAVE_SYSTEM=
# Line 1325  FS= Line 1331  FS=
1331  FS90=  FS90=
1332    
1333  AUTODIFF_PKG_USED=f  AUTODIFF_PKG_USED=f
1334    OPENAD=
1335  AD_OPTFILE=  AD_OPTFILE=
1336    CAT_SRC_FOR_TAF=1
1337  TAF=  TAF=
1338  AD_TAF_FLAGS=  AD_TAF_FLAGS=
1339  FTL_TAF_FLAGS=  FTL_TAF_FLAGS=
# Line 1355  gm_s7="TMP THISHOST THISUSER THISDATE TH Line 1363  gm_s7="TMP THISHOST THISUSER THISDATE TH
1363  gm_s8="HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME HAVE_LAPACK HAVE_FLUSH"  gm_s8="HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME HAVE_LAPACK HAVE_FLUSH"
1364    
1365  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1366  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE OPENAD TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"
1367  gm_s11="FTL_TAMC_FLAGS FTL_TAF_FLAGS SVD_TAMC_FLAGS SVD_TAF_FLAGS"  gm_s11="FTL_TAMC_FLAGS FTL_TAF_FLAGS SVD_TAMC_FLAGS SVD_TAF_FLAGS"
1368  gm_s12="TAF_EXTRA TAMC_EXTRA DIVA MPIINCLUDEDIR MPI_HEADER_FILES"  gm_s12="TAF_EXTRA TAMC_EXTRA DIVA MPIINCLUDEDIR MPI_HEADER_FILES"
1369    
# Line 1407  for ac_option in "$@" ; do Line 1415  for ac_option in "$@" ; do
1415          -optfile=* | --optfile=* | -of=* | --of=*)          -optfile=* | --optfile=* | -of=* | --of=*)
1416              OPTFILE=$ac_optarg ;;              OPTFILE=$ac_optarg ;;
1417    
1418            -oad | --oad)
1419                OPENAD="true" ; ALWAYS_USE_F90=1 ;;
1420            -nocat4ad | -dog4ad | -ncad | -dad)
1421                CAT_SRC_FOR_TAF=0 ;;
1422          -adoptfile | --adoptfile | -adof | --adof)          -adoptfile | --adoptfile | -adof | --adof)
1423              ac_prev=AD_OPTFILE ;;              ac_prev=AD_OPTFILE ;;
1424          -adoptfile=* | --adoptfile=* | -adof=* | --adof=*)          -adoptfile=* | --adoptfile=* | -adof=* | --adof=*)
# Line 1576  for ac_option in "$@" ; do Line 1588  for ac_option in "$@" ; do
1588    
1589  done  done
1590    
1591  TMP=./genmk_$$  #TMP=./genmk_$$
1592  #- try to put temporary files in system-local /tmp dir  #- try to put temporary files in system-local /tmp dir
1593  #TMP=/tmp/genmk_$$  TMP=/tmp/genmk_${USER}_$$
1594  #touch $TMP ; retVal=$?  touch $TMP ; retVal=$?
1595  #if [ $retVal -eq 0 ] ; then  if [ $retVal -eq 0 ] ; then
1596  #  if test ! -r $TMP ; then TMP=./genmk_$$ ; fi    if test ! -r $TMP ; then TMP=./genmk_$$ ; fi
1597  #else  else
1598  #  TMP=./genmk_$$    TMP=./genmk_$$
1599  #fi  fi
1600  #rm -f $TMP  rm -f $TMP
1601  ##echo "  temp files: $TMP.*"  #echo "  temp files: $TMP.*"
1602    
1603  printf "  getting local config information:  "  printf "  getting local config information:  "
1604  if test -f $gm_local ; then  if test -f $gm_local ; then
# Line 1680  fi Line 1692  fi
1692    
1693  echo "  getting AD_OPTFILE information:"  echo "  getting AD_OPTFILE information:"
1694  if test "x${AD_OPTFILE}" = x ; then  if test "x${AD_OPTFILE}" = x ; then
1695      if test "x$MITGCM_AD_OF" = x ; then      if test "x$MITGCM_AD_OF" != x ; then
1696            AD_OPTFILE=$MITGCM_AD_OF
1697        elif test "x$OPENAD" = x ; then
1698          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_default          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_default
1699      else      else
1700          AD_OPTFILE=$MITGCM_AD_OF          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_oad
1701      fi      fi
1702  fi  fi
1703  if test "x${AD_OPTFILE}" != xNONE ; then  if test "x${AD_OPTFILE}" != xNONE ; then
# Line 1950  else Line 1964  else
1964  fi  fi
1965  rm -f genmake_tcomp*  rm -f genmake_tcomp*
1966    
1967  printf "  Do we have the etime() command using $FC...  "  printf "  Do we have the etime() command using $FC... "
1968  cat > genmake_tcomp.$FS <<EOF  cat > genmake_tcomp_1.$FS <<EOF
1969        program hello        program hello
1970        REAL*4 ACTUAL, TARRAY(2)        REAL*4 actual, tarray(2)
1971        EXTERNAL ETIME        EXTERNAL ETIME
1972        REAL*4 ETIME        REAL*4 ETIME
1973        actual = etime( tarray )        actual = ETIME( tarray )
1974        print *, tarray        print *, tarray
1975        end        end
1976  EOF  EOF
1977  $FC $FFLAGS -o genmake_tcomp genmake_tcomp.$FS > genmake_tcomp.log 2>&1  $FC $FFLAGS -o genmake_tcomp_1 genmake_tcomp_1.$FS > genmake_tcomp.log 2>&1
1978  RETVAL=$?  RETVAL=$?
1979  if test "x$RETVAL" = x0 ; then  if test "x$RETVAL" = x0 ; then
1980      HAVE_ETIME=t      HAVE_ETIME='Fct'
1981      DEFINES="$DEFINES -DHAVE_ETIME"      DEFINES="$DEFINES -DHAVE_ETIME_FCT"
1982      echo "yes"      echo " yes (${HAVE_ETIME})"
1983  else  else
1984      cat > genmake_tcomp_2.$FS <<EOF
1985          program hello
1986          REAL*4 actual, tarray(2)
1987          actual = -999.
1988          call ETIME( tarray, actual )
1989          if ( actual.ge.0. ) then
1990            print *, 0, tarray, actual
1991          else
1992            print *, 1, tarray, actual
1993          endif
1994          end
1995    EOF
1996      $FC $FFLAGS -o genmake_tcomp_2 genmake_tcomp_2.$FS >> genmake_tcomp.log 2>&1
1997      RETVAL=$?
1998      if test "x$RETVAL" = x0 ; then
1999        echo -n 'c,'
2000        ./genmake_tcomp_2 > genmake_tcomp_2.out 2>&1
2001        RETVAL=$?
2002      fi
2003      if test "x$RETVAL" = x0 ; then
2004        echo -n 'r:'
2005        RETVAL=`cat genmake_tcomp_2.out | $AWK '{print $1}'`
2006      fi
2007      if test "x$RETVAL" = x0 ; then
2008        HAVE_ETIME='SbR'
2009        DEFINES="$DEFINES -DHAVE_ETIME_SBR"
2010        echo " yes (${HAVE_ETIME})"
2011      else
2012      HAVE_ETIME=      HAVE_ETIME=
2013      echo "no"      echo " no"
2014      fi
2015  fi  fi
2016    #mkdir chk_etime ; cp -p -f genmake_tcomp* chk_etime
2017  rm -f genmake_tcomp*  rm -f genmake_tcomp*
2018    
2019  printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "  printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "
# Line 2356  EOF Line 2400  EOF
2400      fi      fi
2401  fi  fi
2402    
 #  Check for package RADTRANS: if LAPACK is not available,  
 #  then issue a warning that the direct radtrans solver is not available.  
 if test "x$HAVE_LAPACK" != xt ; then  
     echo " $PACKAGES " | grep ' radtrans ' > /dev/null 2>&1  
     RETVAL=$?  
     if test "x$RETVAL" = x0 ; then  
         cat <<EOF  
 *********************************************************************  
 WARNING: the "radtrans" package was enabled but tests failed to  
   compile LAPACK applications.  This means that the direct radtrans  
   solver is not available and compilation will fail if it is enabled.  
   If you want to use the direct solver, please check that:  
   
   1) LAPACK is correctly installed for this compiler and  
   2) the LIBS variable (within the "optfile") specifies the correct  
      LAPACK library to link against.  
 *********************************************************************  
 EOF  
     fi  
 fi  
   
2403  #  Make sure the openad package is enabled if using OpenAD  #  Make sure the openad package is enabled if using OpenAD
2404  if test "x$OPENAD" != x ; then  if test "x$OPENAD" != x ; then
2405      echo " $PACKAGES " | grep ' openad ' > /dev/null 2>&1      echo " $PACKAGES " | grep ' openad ' > /dev/null 2>&1
# Line 2645  if test "x$OPENAD" != x ; then Line 2668  if test "x$OPENAD" != x ; then
2668      OAD_CB2M_FILES="/dev/null"      OAD_CB2M_FILES="/dev/null"
2669      OADTOOLS="$TOOLSDIR/OAD_support"      OADTOOLS="$TOOLSDIR/OAD_support"
2670      echo "  looking for dontCompile file:  "      echo "  looking for dontCompile file:  "
2671      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2672          if test -r $i"/dontCompile" ; then          if test -r $i"/dontCompile" ; then
2673              OAD_DONT_COMPILE=$i"/dontCompile"              OAD_DONT_COMPILE=$i"/dontCompile"
2674              echo "     found $OAD_DONT_COMPILE"              echo "     found $OAD_DONT_COMPILE"
# Line 2653  if test "x$OPENAD" != x ; then Line 2676  if test "x$OPENAD" != x ; then
2676          fi          fi
2677      done      done
2678      echo "  looking for dontTransform file:  "      echo "  looking for dontTransform file:  "
2679      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2680          if test -r $i"/dontTransform" ; then          if test -r $i"/dontTransform" ; then
2681              OAD_DONT_TRANSFORM=$i"/dontTransform"              OAD_DONT_TRANSFORM=$i"/dontTransform"
2682              echo "     found $OAD_DONT_TRANSFORM"              echo "     found $OAD_DONT_TRANSFORM"
# Line 2661  if test "x$OPENAD" != x ; then Line 2684  if test "x$OPENAD" != x ; then
2684          fi          fi
2685      done      done
2686      echo "  looking for keepOriginal file:  "      echo "  looking for keepOriginal file:  "
2687      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2688          if test -r $i"/keepOriginal" ; then          if test -r $i"/keepOriginal" ; then
2689              OAD_KEEP_ORIGINAL=$i"/keepOriginal"              OAD_KEEP_ORIGINAL=$i"/keepOriginal"
2690              echo "     found $OAD_KEEP_ORIGINAL"              echo "     found $OAD_KEEP_ORIGINAL"
# Line 2669  if test "x$OPENAD" != x ; then Line 2692  if test "x$OPENAD" != x ; then
2692          fi          fi
2693      done      done
2694      echo "  looking for cb2mFiles:  "      echo "  looking for cb2mFiles:  "
2695      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2696          if test -r $i"/cb2mFiles" ; then          if test -r $i"/cb2mFiles" ; then
2697              OAD_CB2M_FILES=$i"/cb2mFiles"              OAD_CB2M_FILES=$i"/cb2mFiles"
2698              echo "     found $OAD_CB2M_FILES"              echo "     found $OAD_CB2M_FILES"
# Line 2908  CPPINCLUDES = ${CPPINCLUDES} Line 2931  CPPINCLUDES = ${CPPINCLUDES}
2931  KFLAGS1 = ${KFLAGS1}  KFLAGS1 = ${KFLAGS1}
2932  KFLAGS2 = ${KFLAGS2}  KFLAGS2 = ${KFLAGS2}
2933  # Optim./debug for FC  # Optim./debug for FC
2934  FFLAGS = ${FFLAGS} ${FEXTRAFLAGS}  FFLAGS = ${FFLAGS}
2935  FOPTIM = ${FOPTIM}  FOPTIM = ${FOPTIM} ${FEXTRAFLAGS}
2936  # Optim./debug for FC  # Optim./debug for FC
2937  F90FLAGS = ${F90FLAGS}  F90FLAGS = ${F90FLAGS}
2938  F90OPTIM = ${F90OPTIM}  F90OPTIM = ${F90OPTIM}
# Line 2985  links: \$(F77_SRC_FILES) \$(C_SRC_FILES) Line 3008  links: \$(F77_SRC_FILES) \$(C_SRC_FILES)
3008    
3009  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
3010    
 output.txt: \$(EXECUTABLE)  
         @printf 'running ... '  
         @\$(EXECUTABLE) > \$@  
   
3011  # remove most of the files that "make" generates  # remove most of the files that "make" generates
3012  clean:  clean:
3013          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
# Line 3140  done Line 3159  done
3159  echo >> $MAKEFILE  echo >> $MAKEFILE
3160  rm -f $TMP.adSrcFiles  rm -f $TMP.adSrcFiles
3161    
3162    if test $CAT_SRC_FOR_TAF = 0 ; then
3163    cat >>$MAKEFILE <<EOF
3164    
3165    # ... Utilities ...
3166    remove_comments:
3167            sed -i.bak -f \$(TOOLSDIR)/remove_comments_sed \$(AD_FILES)
3168            @-rm -f \$(AD_FILES:.$FS=.$FS.bak)
3169    adj_sed:
3170            sed -i.bak -f \$(TOOLSDIR)/adjoint_sed \$(AD_FILES:.$FS=_ad.$FS)
3171            @-rm -f \$(AD_FILES:.$FS=_ad.$FS.bak)
3172    ftl_sed:
3173            sed -i.bak -f \$(TOOLSDIR)/adjoint_sed \$(AD_FILES:.$FS=_tl.$FS)
3174            @-rm -f \$(AD_FILES:.$FS=_tl.$FS.bak)
3175    adobjfiles: \$(AD_FILES:.$FS=_ad.o)
3176    ftlobjfiles: \$(AD_FILES:.$FS=_tl.o)
3177    EOF
3178    fi
3179    
3180  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
3181    
3182  # ... AD ...  # ... AD ...
# Line 3162  ad_input_code.$FS: \$(AD_FILES) \$(AD_FL Line 3199  ad_input_code.$FS: \$(AD_FILES) \$(AD_FL
3199          @\$(MAKE) -f \$(MAKEFILE) \$(FLOWFILES)          @\$(MAKE) -f \$(MAKEFILE) \$(FLOWFILES)
3200          cat \$(FLOWFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS          cat \$(FLOWFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS
3201    
3202  ad_taf_output.$FS: ad_input_code.$FS  adtafonly:
         @-rm -f ad_input_code_ad.$FS ; echo ''  
3203          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
3204          ls -l ad_input_code_ad.$FS          ls -l ad_input_code_ad.$FS
3205          cat ad_input_code_ad.$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
3206    
3207  adtafonly:  EOF
3208    
3209    if test $CAT_SRC_FOR_TAF = 1 ; then
3210    cat >>$MAKEFILE <<EOF
3211    # ... send 1 file to TAF ...
3212    ad_taf_output.$FS: ad_input_code.$FS
3213            @-rm -f ad_input_code_ad.$FS ; echo ''
3214          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
3215          ls -l ad_input_code_ad.$FS          ls -l ad_input_code_ad.$FS
3216          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
# Line 3176  adtafonly: Line 3218  adtafonly:
3218  \$(EXE_AD): \$(SPECIAL_FILES) \$(H_SRC_FILES) ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)  \$(EXE_AD): \$(SPECIAL_FILES) \$(H_SRC_FILES) ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3219          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3220    
3221  ad_tamc_output.$FS: ad_input_code.$FS  adobj: ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o)
         \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS  
         cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS  
3222    
3223  ad_tamc: ad_tamc_output.o \$(OBJFILES)  EOF
3224          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)  
3225    else
3226    cat >>$MAKEFILE <<EOF
3227    # ... send multiple files to TAF ...
3228    ad_taf_output.$FS: \$(AD_FLOW_FILES) \$(AD_FILES)
3229            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Adjoint version" -bAD_CONFIG_H -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > ad_config.template
3230            cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3231            @-rm -f ad_config.template
3232            @\$(MAKE) -f \$(MAKEFILE) \$(F77_PP_SRC_FILES)
3233            @\$(MAKE) -f \$(MAKEFILE) \$(FLOWFILES)
3234            @-rm -f \$(AD_FILES:.$FS=_ad.$FS) \$(AD_FILES:.$FS=_ad.o); echo ''
3235            \$(MAKE) -f \$(MAKEFILE) remove_comments
3236            \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) \$(FLOWFILES) \$(AD_FILES)
3237            \$(MAKE) -f \$(MAKEFILE) adj_sed
3238            cat \$(AD_FILES:.$FS=_ad.$FS) > ad_taf_output.$FS
3239    
3240    \$(EXE_AD): \$(SPECIAL_FILES) \$(H_SRC_FILES) ad_taf_output.$FS \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3241            \$(MAKE) -f \$(MAKEFILE) adobjfiles
3242            \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(AD_FILES:.$FS=_ad.o) \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3243    
3244    adobj: ad_taf_output.$FS \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o)
3245            \$(MAKE) -f \$(MAKEFILE) adobjfiles
3246    
3247    EOF
3248    fi
3249    
3250    cat >>$MAKEFILE <<EOF
3251  adonlyfwd:  adonlyfwd:
3252          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
3253    
3254  adtrick:  adtrick:
3255          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
3256    
3257  adobj: ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o)  ad_tamc_output.$FS: ad_input_code.$FS
3258            \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
3259            cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS
3260    
3261    ad_tamc: ad_tamc_output.o \$(OBJFILES)
3262            \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
3263    
3264  # ... FTL ...  # ... FTL ...
3265  ftlall: ftl_exe_target  ftlall: ftl_exe_target
# Line 3211  ftl_input_code.$FS: \$(AD_FILES) Line 3281  ftl_input_code.$FS: \$(AD_FILES)
3281          @\$(MAKE) -f \$(MAKEFILE) \$(AD_FLOW_FILES)          @\$(MAKE) -f \$(MAKEFILE) \$(AD_FLOW_FILES)
3282          cat \$(AD_FLOW_FILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ftl_input_code.$FS          cat \$(AD_FLOW_FILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ftl_input_code.$FS
3283    
3284  ftl_taf_output.$FS: ftl_input_code.$FS  ftltafonly:
         @-rm -f ftl_input_code_tl.$FS ; echo ''  
3285          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
3286          ls -l ftl_input_code_tl.$FS          ls -l ftl_input_code_tl.$FS
3287          cat ftl_input_code_tl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          cat ftl_input_code_tl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
3288    
3289  ftltafonly:  EOF
3290    
3291    if test $CAT_SRC_FOR_TAF = 1 ; then
3292    cat >>$MAKEFILE <<EOF
3293    # ... send 1 file to TAF ...
3294    ftl_taf_output.$FS: ftl_input_code.$FS
3295            @-rm -f ftl_input_code_tl.$FS ; echo ''
3296          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
3297          ls -l ftl_input_code_tl.$FS          ls -l ftl_input_code_tl.$FS
3298          cat ftl_input_code_tl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          cat ftl_input_code_tl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
# Line 3225  ftltafonly: Line 3300  ftltafonly:
3300  \$(EXE_FTL): \$(SPECIAL_FILES) \$(H_SRC_FILES) ftl_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)  \$(EXE_FTL): \$(SPECIAL_FILES) \$(H_SRC_FILES) ftl_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3301          \$(LINK) -o \${EXE_FTL} \$(FFLAGS) \$(FOPTIM) ftl_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)          \$(LINK) -o \${EXE_FTL} \$(FFLAGS) \$(FOPTIM) ftl_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3302    
3303    EOF
3304    
3305    else
3306    cat >>$MAKEFILE <<EOF
3307    # ... send multiple files to TAF ...
3308    ftl_taf_output.$FS: \$(AD_FLOW_FILES) \$(AD_FILES)
3309            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "TangLin version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN > ad_config.template
3310            cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3311            @-rm -f ad_config.template
3312            @\$(MAKE) -f \$(MAKEFILE) \$(F77_PP_SRC_FILES)
3313            @\$(MAKE) -f \$(MAKEFILE) \$(AD_FLOW_FILES)
3314            @-rm -f \$(AD_FILES:.$FS=_tl.$FS) \$(AD_FILES:.$FS=_tl.o); echo ''
3315            \$(MAKE) -f \$(MAKEFILE) remove_comments
3316            \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) \$(AD_FLOW_FILES) \$(AD_FILES)
3317            \$(MAKE) -f \$(MAKEFILE) ftl_sed
3318            cat \$(AD_FILES:.$FS=_tl.$FS) > ftl_taf_output.$FS
3319    
3320    \$(EXE_FTL): \$(SPECIAL_FILES) \$(H_SRC_FILES) ftl_taf_output.$FS \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3321            \$(MAKE) -f \$(MAKEFILE) ftlobjfiles
3322            \$(LINK) -o \${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(AD_FILES:.$FS=_tl.o) \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3323    
3324    EOF
3325    fi
3326    
3327    cat >>$MAKEFILE <<EOF
3328  ftl_tamc_output.$FS: ftl_input_code.$FS  ftl_tamc_output.$FS: ftl_input_code.$FS
3329          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
3330          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_tamc_output.$FS          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_tamc_output.$FS
# Line 3267  if test "x$OPENAD" != x ; then Line 3367  if test "x$OPENAD" != x ; then
3367  # ============ begin OpenAD specific section ==============  # ============ begin OpenAD specific section ==============
3368    
3369  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
3370    # ... OpenAD ...
3371    
3372  # all the source files linked from the various locations:  # all the source files linked from the various locations:
3373  ALL_LINKED_FILES= \  ALL_LINKED_FILES= \
# Line 3320  rm -f $TMP.adSrcFiles Line 3421  rm -f $TMP.adSrcFiles
3421    
3422  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
3423    
3424  adAll: \$(EXE_AD)  adAll: ad_exe_target
3425  .PHONY: adAll  .PHONY: adAll
3426    
3427    ad_exe_target:
3428            @echo Update AD_CONFIG.h and make \$(EXE_AD)
3429            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Adjoint version" -bAD_CONFIG_H -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > ad_config.template
3430            @cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3431            @-rm -f ad_config.template
3432            \$(MAKE) -f \$(MAKEFILE) \$(EXE_AD)
3433    
3434  CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))  CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
3435    
3436  .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)  .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
# Line 3339  OAD_active.F90 \ Line 3447  OAD_active.F90 \
3447  OAD_cp.F90 \  OAD_cp.F90 \
3448  OAD_rev.F90 \  OAD_rev.F90 \
3449  OAD_tape.F90 \  OAD_tape.F90 \
3450    OAD_regular_cp.F90 \
3451  revolve.F90  revolve.F90
3452    
3453  OPENAD_SUPPORT_C_SRC_FILES = \  OPENAD_SUPPORT_C_SRC_FILES = \
# Line 3380  AD_OBJ_FILES_S2=\$(AD_OBJ_FILES_S1) \$(N Line 3489  AD_OBJ_FILES_S2=\$(AD_OBJ_FILES_S1) \$(N
3489  small_f: \$(CB2M_F90_PP_SRC_FILES)  small_f: \$(CB2M_F90_PP_SRC_FILES)
3490  .PHONY: small_f  .PHONY: small_f
3491    
 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) > \$@  
   
3492  ad_input_code.f$FS90:  \$(CB2M_AD_FILES)  ad_input_code.f$FS90:  \$(CB2M_AD_FILES)
3493          cat \$^ > \$@          cat \$^ > \$@
3494    

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