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revision 1.75 by edhill, Wed Apr 7 20:28:09 2004 UTC revision 1.147 by ce107, Fri May 5 19:00:28 2006 UTC
# Line 13  Line 13 
13  test_for_package_in_cpp_options() {  test_for_package_in_cpp_options() {
14      cpp_options=$1      cpp_options=$1
15      pkg=$2      pkg=$2
16      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg[ ]"
17      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg[ ]"
18      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg[ ]"
19      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg[ ]"
20        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg$"
21        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg$"
22        test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg$"
23        test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg$"
24  }  }
25    
26  # Search for particular CPP #cmds associated with MPI  # Search for particular CPP #cmds associated with MPI
27  # usage: test_for_mpi_in_cpp_eeoptions CPP_file  # usage: test_for_mpi_in_cpp_eeoptions CPP_file
28  test_for_mpi_in_cpp_eeoptions() {  test_for_mpi_in_cpp_eeoptions() {
29      cpp_options=$1      cpp_options=$1
30      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI[ ]"
31      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI[ ]"
32      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI[ ]"
33      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI[ ]"
34        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI$"
35        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI$"
36        test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI$"
37        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI$"
38  }  }
39    
40  # Search for particular string in a file. Return 1 if detected, 0 if not  # Search for particular string in a file. Return 1 if detected, 0 if not
# Line 39  test_for_string_in_file() { Line 47  test_for_string_in_file() {
47      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
48          printf "Error: In $file there is an illegal line: "          printf "Error: In $file there is an illegal line: "
49          grep -i "$strng" $file          grep -i "$strng" $file
50          return 1          exit 99
51      fi      fi
52      return 0      return 0
53  }  }
# Line 76  expand_pkg_groups() { Line 84  expand_pkg_groups() {
84  #  Check for broken environments (eg. cygwin, MacOSX w/HFS+) that  #  Check for broken environments (eg. cygwin, MacOSX w/HFS+) that
85  #  cannot distinguish [*.F/*.F90] from [*.f/*.f90] files.  #  cannot distinguish [*.F/*.F90] from [*.f/*.f90] files.
86  check_for_broken_Ff()  {  check_for_broken_Ff()  {
87        #  Do we have defaults for $FS and/or $FS90 ?
88        tfs=f
89        tfs9=f90
90        if test "x$FS" != x ; then
91            tfs="$FS"
92        fi
93        if test "x$FS90" != x ; then
94            tfs9="$FS90"
95        fi
96    
97      #  First check the ability to create a *.F/.f pair.      #  First check the ability to create a *.F/.f pair.
98      cat <<EOF >> ./hello.F      cat <<EOF >> genmake_hello.F
99        program hello        program hello
100        write(*,*) 'hi'        write(*,*) 'hi'
101        stop        stop
102        end        end
103  EOF  EOF
104      cp ./hello.F ./hello.f      cp genmake_hello.F "genmake_hello."$tfs > /dev/null 2>&1
105      RETVAL=$?      RETVAL=$?
106      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
107          FEXT='fp'          if test "x$FS" = x ; then
108          F90EXT='fp90'              FS='for'
109                FS90='fr9'
110                check_for_broken_Ff
111            else
112                cat <<EOF 2>&1
113    ERROR: Your file system cannot distinguish between *.F and *.f files
114      (fails the "cp" test) and this program cannot find a suitable
115      replacement extension.  Please try a different build environment or
116      contact the <MITgcm-support@mitgcm.org> list for help.
117    
118    EOF
119                exit -1
120            fi
121          return          return
122      fi      fi
123      rm -f ./hello.f      rm -f genmake_hello.*
124    
125      #  Then check the ability of ${MAKE} to use the two.      #  Check the ability of ${MAKE} and ${LN} to use the current set
126      test -e Makefile  &&  mv -f Makefile Makefile.bak      #  of extensions.
127      cat <<EOF >> Makefile      cat <<EOF >> genmake_hello.F
128          program hello
129          write(*,*) 'hi'
130          stop
131          end
132    EOF
133        test -f $MAKEFILE  &&  mv -f $MAKEFILE $MAKEFILE".tst"
134        cat <<EOF >> $MAKEFILE
135  .SUFFIXES:  .SUFFIXES:
136  hello.f: hello.F  .SUFFIXES: .$tfs .F
137          cp -f hello.F hello.f  .F.$tfs:
138            $LN \$< \$@
139  EOF  EOF
140      ( $MAKE hello.f ) > /dev/null 2>&1      $MAKE "genmake_hello."$tfs > /dev/null 2>&1
141      RETVAL=$?      RETVAL=$?
142      if test "x$RETVAL" != x0 -o ! -f ./hello.f ; then      if test "x$RETVAL" != x0 -o ! -f "genmake_hello."$tfs ; then
143          FEXT='fp'          if test "x$FS" = x ; then
144          F90EXT='fp90'              FS='for'
145          return              FS90='fr9'
146                check_for_broken_Ff
147            else
148                cat <<EOF 2>&1
149    ERROR: Your file system cannot distinguish between *.F and *.f files
150      (fails the "make/ln" test) and this program cannot find a suitable
151      replacement extension.  Please try a different build environment or
152      contact the <MITgcm-support@mitgcm.org> list for help.
153    
154    EOF
155                exit -1
156                return
157            fi
158      fi      fi
159      rm -f ./hello.f ./hello.F Makefile      rm -f genmake_hello.* $MAKEFILE
160      test -e Makefile  &&  mv -f Makefile.bak Makefile      test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
161    
162      #  Both tests passed, so use the default.      #  If we make it here, use the extensions
163      FEXT='F'      FS=$tfs
164      F90EXT='F90'      FS90=$tfs9
165        return
166    }
167    
168    
169    look_for_makedepend()  {
170    
171        #  The "original" makedepend is part of the Imake system that is
172        #  most often distributed with XFree86 or with an XFree86 source
173        #  package.  As a result, many machines (eg. generic Linux) do not
174        #  have a system-default "makedepend" available.  For those
175        #  systems, we have two fall-back options:
176        #
177        #    1) a makedepend implementation shipped with the cyrus-imapd
178        #       package:  ftp://ftp.andrew.cmu.edu/pub/cyrus-mail/
179        #
180        #    2) a known-buggy xmakedpend shell script
181        #
182        #  So the choices are, in order:
183        #
184        #    1) use the user-specified program
185        #    2) use a system-wide default
186        #    3) locally build and use the cyrus implementation
187        #    4) fall back to the buggy local xmakedpend script
188        #
189        if test "x${MAKEDEPEND}" = x ; then
190            which makedepend > /dev/null 2>&1
191            RV0=$?
192            test -f $MAKEFILE  &&  mv -f $MAKEFILE $MAKEFILE".tst"
193            #  echo 'MAKEFILE="'$MAKEFILE'"'
194            cat <<EOF >> $MAKEFILE
195    #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"
196    #
197    #   Some "makedepend" implementations will die if they cannot
198    #   find a Makefile -- so this file is here to gives them an
199    #   empty one to find and parse.
200    EOF
201            cat <<EOF >> genmake_tc.f
202          program test
203          write(*,*) 'test'
204          stop
205          end
206    EOF
207            makedepend genmake_tc.f > /dev/null 2>&1
208            RV1=$?
209            test -f $MAKEFILE  &&  rm -f $MAKEFILE
210            test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
211            if test "x${RV0}${RV1}" = x00 ; then
212                MAKEDEPEND=makedepend
213            else
214                echo "    a system-default makedepend was not found."
215                
216                #  Try to build the cyrus implementation
217                build_cyrus_makedepend
218                RETVAL=$?
219                if test "x$RETVAL" != x0 ; then
220                    MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
221                fi
222                rm -f ./genmake_cy_md
223            fi
224        else
225            #  echo "MAKEDEPEND=${MAKEDEPEND}"
226            echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1
227            RETVAL=$?
228            if test x"$RETVAL" = x0 ; then
229                build_cyrus_makedepend
230            fi
231        fi
232    }
233    
234    
235    build_cyrus_makedepend()  {
236        rm -f ./genmake_cy_md
237        (
238            cd $ROOTDIR/tools/cyrus-imapd-makedepend  \
239                &&  ./configure > /dev/null 2>&1  \
240                &&  make > /dev/null 2>&1
241            if test -x ./makedepend.exe ; then
242                $LN ./makedepend.exe ./makedepend
243            fi
244            ./makedepend ifparser.c > /dev/null 2>&1  \
245                &&  echo "true"
246        ) > ./genmake_cy_md
247        grep true ./genmake_cy_md > /dev/null 2>&1
248        RETVAL=$?
249        rm -f ./genmake_cy_md
250        if test "x$RETVAL" = x0 ; then
251            MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'
252            return 0
253        else
254            echo "WARNING: unable to build cyrus-imapd-makedepend"
255            return 1
256        fi
257    }
258    
259    
260    build_embed_encode()
261    {
262        printf "  building the embed-encode utility...  "
263        if test ! -e "$ROOTDIR/tools/embed_encode/encode_files" ; then
264            if test ! -d "$ROOTDIR/tools/embed_encode" ; then
265                echo
266                echo "    Error: can't locate \"$ROOTDIR/tools/embed_encode\""
267                echo
268                EMBED_SRC=f
269                return 1
270            fi
271            clist="cc gcc c89 $CC"
272            for ic in $clist ; do
273                comm="$ic -o encode_files encode_files.c"
274                ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1
275                RETVAL=$?
276                if test "x$RETVAL" = x0 ; then
277                    echo "OK"
278                    DEFINES="$DEFINES -DHAVE_EMBED_SRC"
279                    return 0
280                fi
281            done
282            echo
283            echo "    Error: unable to build $ROOTDIR/embed_encode/encode_files"
284            echo "      so it has been disabled"
285            echo
286            EMBED_SRC=f
287            return 1
288        fi
289        echo "OK"
290        DEFINES="$DEFINES -DHAVE_EMBED_SRC"
291  }  }
292    
293    
# Line 125  find_possible_configs()  { Line 301  find_possible_configs()  {
301      tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`      tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`
302      tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`      tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`
303      PLATFORM=$tmp3      PLATFORM=$tmp3
304        echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
305      OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`      OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
306      echo "  The platform appears to be:  $PLATFORM"      echo "  The platform appears to be:  $PLATFORM"
307            
# Line 144  find_possible_configs()  { Line 321  find_possible_configs()  {
321          CPP="cpp -traditional -P"          CPP="cpp -traditional -P"
322      fi      fi
323    
324      #  The "original" makedepend is part of the Imake system that is      look_for_makedepend
325      #  most often distributed with XFree86 or with an XFree86 source  
326      #  package.  As a result, many machines (eg. generic Linux) do not      #================================================================
327      #  have a system-default "makedepend" available.  For those      #  look for possible C compilers
328      #  systems, we have two fall-back options:      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc"
329      #      p_CC=
330      #    1) a makedepend implementation shipped with the cyrus-imapd      for c in $tmp ; do
331      #       package:  ftp://ftp.andrew.cmu.edu/pub/cyrus-mail/          rm -f ./genmake_hello.c  ./genmake_hello
332      #          cat >> genmake_hello.c << EOF
333      #    2) a known-buggy xmakedpend shell script  #include <stdio.h>
334      #  int main(int argc, char **argv) {
335      #  So the choices are, in order:    printf("Hello!\n");
336      #    return 0;
337      #    1) use the user-specified program  }
338      #    2) use a system-wide default  EOF
339      #    3) locally build and use the cyrus implementation          $c -o genmake_hello genmake_hello.c > /dev/null 2>&1
340      #    4) fall back to the buggy local xmakedpend script          RETVAL=$?
341      #          if test "x${RETVAL}" = x0 ; then
342      if test "x${MAKEDEPEND}" = x ; then              p_CC="$p_CC $c"
343        which makedepend > /dev/null 2>&1          fi
344        RETVAL=$?      done
345        if test ! "x${RETVAL}" = x0 ; then      rm -f ./genmake_hello.c ./genmake_hello
346           echo "    a system-default makedepend was not found."      if test "x${p_CC}" = x ; then
347            cat 1>&2 <<EOF
348           #  Try to build the cyrus impl  
349           rm -f ./genmake_cy_md  Error: No C compilers were found in your path.  Please specify one using:
350           (  
351               cd $ROOTDIR/tools/cyrus-imapd-makedepend  \      1) an "optfile" on (eg. "-optfile=path/to/OPTFILE"),
352                   &&  ./configure > /dev/null 2>&1  \      2) the CC or MITGCM_CC environment variables.
353                   &&  make > /dev/null 2>&1  \  
354                   &&  ./makedepend ifparser.c > /dev/null 2>&1  \  EOF
355                   &&  echo "true"          exit 1
356           ) > ./genmake_cy_md      else
357           grep true ./genmake_cy_md > /dev/null 2>&1          echo "  The possible C compilers found in your path are:"
358           RETVAL=$?          echo "   "$p_CC
359           if test "x$RETVAL" = x0 ; then          if test "x$CC" = x ; then
360               MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'              CC=`echo $p_CC | $AWK '{print $1}'`
361           else              echo "  Setting C compiler to: "$CC
362               MAKEDEPEND='$(TOOLSDIR)/xmakedepend'          fi
          fi  
          rm -f ./genmake_cy_md  
       fi  
363      fi      fi
364    
365      # look for possible fortran compilers      #================================================================
366      tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc f90 f95 mpif77 mpf77 mpxlf95"      #  look for possible FORTRAN compilers
367        tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc f90 f95 mpif77 mpf77 mpxlf95 gfortran"
368      p_FC=      p_FC=
369      for c in $tmp ; do      for c in $tmp ; do
370          rm -f ./hello.f ./hello          rm -f ./hello.f ./hello
# Line 214  Error: No Fortran compilers were found i Line 389  Error: No Fortran compilers were found i
389    
390      1) an "optfile" on (eg. "-optfile=path/to/OPTFILE"),      1) an "optfile" on (eg. "-optfile=path/to/OPTFILE"),
391      2) a command-line option (eg. "-fc NAME"), or      2) a command-line option (eg. "-fc NAME"), or
392      3) the MITGCM_FC environment variable.      3) the FC or MITGCM_FC environment variables.
393    
394  EOF  EOF
395          exit 1          exit 1
396      else      else
397          echo "  The possible FORTRAN compilers found in your path are:"          echo "  The possible FORTRAN compilers found in your path are:"
398          echo "   "$p_FC          echo "   "$p_FC
399          if test "x$FC" = x ; then      fi
400              FC=`echo $p_FC | $AWK '{print $1}'`  
401              echo "  Setting FORTRAN compiler to: "$FC      #  Use the first of the compilers found in the current PATH
402          fi      #  that has a correctly-named optfile
403        if test "x$OPTFILE" = x  -a  "x$FC" = x ; then
404            for i in $p_FC ; do
405                OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
406                if test -r $OPTFILE ; then
407                    echo "  Setting OPTFILE to: "$OPTFILE
408                    break
409                fi
410            done
411      fi      fi
412    
413      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
# Line 316  Usage: "$0" [OPTIONS] Line 499  Usage: "$0" [OPTIONS]
499      -help | --help | -h | --h      -help | --help | -h | --h
500            Print this help message and exit.            Print this help message and exit.
501    
502        -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
503          -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
504              Use "NAME" as the adoptfile.  By default, the file at
505              "tools/adjoint_options/adjoint_default" will be used.
506    
507      -nooptfile | --nooptfile      -nooptfile | --nooptfile
508        -optfile NAME | --optfile NAME | -of NAME | --of NAME        -optfile NAME | --optfile NAME | -of NAME | --of NAME
509        -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME        -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
# Line 380  Usage: "$0" [OPTIONS] Line 568  Usage: "$0" [OPTIONS]
568            will search for a working compiler by trying a list of            will search for a working compiler by trying a list of
569            "usual suspects" such as g77, f77, etc.            "usual suspects" such as g77, f77, etc.
570    
571        -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
572              Use "NAME" as the C compiler.  By default, genmake
573              will search for a working compiler by trying a list of
574              "usual suspects" such as gcc, c89, cc, etc.
575    
576      -[no]ieee | --[no]ieee      -[no]ieee | --[no]ieee
577            Do or don't use IEEE numerics.  Note that this option            Do or don't use IEEE numerics.  Note that this option
578            *only* works if it is supported by the OPTFILE that            *only* works if it is supported by the OPTFILE that
579            is being used.            is being used.
580    
581        -ignoretime | -ignore_time | --ignoretime | --ignore_time
582              Ignore all the "wall clock" routines entirely.  This will
583              not in any way hurt the model results -- it simply means
584              that the code that checks how long the model spends in
585              various routines will give junk values.
586    
587        -ts | --ts
588              Produce timing information per timestep
589        -papis | --papis
590              Produce summary MFlop/s (and IPC) with PAPI per timestep
591        -pcls | --pcls
592              Produce summary MFlop/s etc. with PCL per timestep
593        -foolad | --foolad
594              Fool the AD code generator
595        -papi | --papi
596              Performance analysis with PAPI
597        -pcl | --pcl
598              Performance analysis with PCL
599        -hpmt | --hpmt
600              Performance analysis with the HPM Toolkit
601    
602        -gsl | --gsl
603              Use GSL to control floating point rounding and precision
604    
605      -mpi | --mpi      -mpi | --mpi
606            Include MPI header files and link to MPI libraries            Include MPI header files and link to MPI libraries
607      -mpi=PATH | --mpi=PATH      -mpi=PATH | --mpi=PATH
608            Include MPI header files and link to MPI libraries using MPI_ROOT            Include MPI header files and link to MPI libraries using MPI_ROOT
609            set to PATH. i.e. Include files from $PATH/include, link to libraries            set to PATH. i.e. Include files from \$PATH/include, link to libraries
610            from $PATH/lib and use binaries from $PATH/bin.            from \$PATH/lib and use binaries from \$PATH/bin.
611    
612        -es | --es | -embed-source | --embed-source
613              Embed a tarball containing the full source code
614              (including the Makefile, etc.) used to build the
615              executable [off by default]
616    
617      -bash NAME      -bash NAME
618            Explicitly specify the Bourne or BASH shell to use            Explicitly specify the Bourne or BASH shell to use
# Line 415  EOF Line 637  EOF
637    
638  #  Build a CPP macro to automate calling C routines from FORTRAN  #  Build a CPP macro to automate calling C routines from FORTRAN
639  get_fortran_c_namemangling()  {  get_fortran_c_namemangling()  {
640    
641        #echo "FC_NAMEMANGLE = \"$FC_NAMEMANGLE\""
642        if test ! "x$FC_NAMEMANGLE" = x ; then
643            return 0
644        fi
645    
646      default_nm="#define FC_NAMEMANGLE(X) X ## _"      default_nm="#define FC_NAMEMANGLE(X) X ## _"
647            
648      cat > genmake_test.c <<EOF      cat > genmake_test.c <<EOF
# Line 432  WARNING: Please contact <MITgcm-support@ Line 660  WARNING: Please contact <MITgcm-support@
660  EOF  EOF
661          return 1          return 1
662      fi      fi
663      c_tcall=`nm genmake_test.o | grep 'T ' | grep tcall | cut -d ' ' -f 3`      c_tcall=`nm genmake_test.o 2>/dev/null | grep 'T ' | grep tcall | cut -d ' ' -f 3`
664      RETVAL=$?      RETVAL=$?
665      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
666          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
# Line 444  WARNING: Please contact <MITgcm-support@ Line 672  WARNING: Please contact <MITgcm-support@
672  EOF  EOF
673          return 1          return 1
674      fi      fi
675      cat > genmake_tcomp.f <<EOF      cat > genmake_tcomp.$FS <<EOF
676        subroutine tcall( string )        subroutine tcall( string )
677        character*(*) string        character*(*) string
678        call tsub( string )        call tsub( string )
679        end        end
680  EOF  EOF
681      $FC $FFLAGS $DEFINES -c genmake_tcomp.f >> genmake_warnings 2>&1      $FC $FFLAGS -c genmake_tcomp.$FS >> genmake_warnings 2>&1
682      RETVAL=$?      RETVAL=$?
683      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
684          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
# Line 462  WARNING: Please contact <MITgcm-support@ Line 690  WARNING: Please contact <MITgcm-support@
690  EOF  EOF
691          return 1          return 1
692      fi      fi
693      f_tcall=`nm genmake_tcomp.o | grep 'T ' | grep tcall | cut -d ' ' -f 3`      f_tcall=`nm genmake_tcomp.o 2>/dev/null | grep 'T ' | grep tcall | cut -d ' ' -f 3`
694      RETVAL=$?      RETVAL=$?
695      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
696          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
# Line 516  void FC_NAMEMANGLE(cloc) ( double *curti Line 744  void FC_NAMEMANGLE(cloc) ( double *curti
744   *curtim = *curtim/1.E6;   *curtim = *curtim/1.E6;
745  }  }
746  EOF  EOF
747      make genmake_tc_1.o >> genmake_tc.log 2>&1      make genmake_tc_1.o >> genmake_warnings 2>&1
748      RET_C=$?      RET_C=$?
749      cat <<EOF > genmake_tc_2.f      cat <<EOF > genmake_tc_2.$FS
750        program hello        program hello
751        Real*8 wtime        REAL*8 wtime
752        external cloc        external cloc
753        call cloc(wtime)        call cloc(wtime)
754        print *," HELLO WORLD", wtime        print *," HELLO WORLD", wtime
755        end program hello        end
756  EOF  EOF
757      $FC $FFLAGS -o genmake_tc genmake_tc_2.f genmake_tc_1.o >> genmake_tc.log 2>&1      $FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o >> genmake_warnings 2>&1
758      RET_F=$?      RET_F=$?
759      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_tc.log 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1
760      RETVAL=$?      RETVAL=$?
761      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
762          HAVE_CLOC=t          HAVE_CLOC=t
# Line 538  EOF Line 766  EOF
766  }  }
767    
768    
769    check_HAVE_SIGREG()  {
770        get_fortran_c_namemangling
771        cat <<EOF > genmake_tc_1.c
772    $FC_NAMEMANGLE
773    #include <stdlib.h>
774    #include <stdio.h>
775    #include <signal.h>
776    #include <errno.h>
777    #include <ucontext.h>
778    
779    int * ip;
780    
781    static void killhandler(
782        unsigned int sn, siginfo_t  si, struct ucontext *sc )
783    {
784        *ip = *ip + 1;
785        return;
786    }
787    
788    void FC_NAMEMANGLE(sigreg) (int * aip)
789    {
790        struct sigaction s;
791        ip = aip;
792        s.sa_flags = SA_SIGINFO;
793        s.sa_sigaction = (void *)killhandler;
794        if(sigaction (SIGTERM,&s,(struct sigaction *)NULL)) {
795            printf("Sigaction returned error = %d\n", errno);
796            exit(0);
797        }
798        return;
799    }
800    EOF
801        make genmake_tc_1.o >> genmake_warnings 2>&1
802        RET_C=$?
803        cat <<EOF > genmake_tc_2.$FS
804          program hello
805          integer anint
806          common /iv/ anint
807          external sigreg
808          call sigreg(anint)
809          end
810    EOF
811        echo >> genmake_warnings
812        echo "running: check_HAVE_SIGREG()" >> genmake_warnings
813        cat genmake_tc_2.$FS >> genmake_warnings
814        COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
815        echo $COMM >> genmake_warnings
816        $COMM >> genmake_warnings 2>&1
817        RETVAL=$?
818        if test "x$RETVAL" = x0 ; then
819            HAVE_SIGREG=t
820            DEFINES="$DEFINES -DHAVE_SIGREG"
821        fi
822        rm -f genmake_tc*
823    }
824    
825    
826    check_HAVE_SETRLSTK()  {
827        get_fortran_c_namemangling
828        cat <<EOF > genmake_tc_1.c
829    $FC_NAMEMANGLE
830    #include <sys/time.h>
831    #include <sys/resource.h>
832    #include <unistd.h>
833    void FC_NAMEMANGLE(setrlstk) ()
834    {
835        struct rlimit rls;
836        rls.rlim_cur = RLIM_INFINITY;
837        rls.rlim_max = RLIM_INFINITY;
838        setrlimit(RLIMIT_STACK, &rls);
839        return;
840    }
841    EOF
842        make genmake_tc_1.o >> genmake_warnings 2>&1
843        RET_C=$?
844        cat <<EOF > genmake_tc_2.$FS
845          program hello
846          external setrlstk
847          call setrlstk()
848          end
849    EOF
850        echo >> genmake_warnings
851        echo "running: check_HAVE_SETRLSTK()" >> genmake_warnings
852        cat genmake_tc_2.$FS >> genmake_warnings
853        COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
854        echo $COMM >> genmake_warnings
855        $COMM >> genmake_warnings 2>&1
856        RETVAL=$?
857        if test "x$RETVAL" = x0 ; then
858            HAVE_SETRLSTK=t
859            DEFINES="$DEFINES -DHAVE_SETRLSTK"
860        fi
861        rm -f genmake_tc*
862    }
863    
864    
865    check_HAVE_STAT()  {
866        get_fortran_c_namemangling
867        cat <<EOF > genmake_tc_1.c
868    $FC_NAMEMANGLE
869    #include <stdio.h>
870    #include <stdlib.h>
871    #include <unistd.h>
872    #include <sys/stat.h>
873    #include <sys/types.h>
874    void FC_NAMEMANGLE(tfsize) ( int *nbyte )
875    {
876        char name[512];
877        struct stat astat;
878    
879        name[0] = 'a'; name[1] = '\0';
880        if (! stat(name, &astat))
881            *nbyte = (int)(astat.st_size);
882        else
883            *nbyte = -1;
884    }
885    EOF
886        make genmake_tc_1.o >> genmake_tc.log 2>&1
887        RET_C=$?
888        cat <<EOF > genmake_tc_2.$FS
889          program hello
890          integer nbyte
891          call tfsize(nbyte)
892          print *," HELLO WORLD", nbyte
893          end
894    EOF
895        echo >> genmake_warnings
896        echo "running: check_HAVE_STAT()" >> genmake_warnings
897        cat genmake_tc_2.$FS >> genmake_warnings
898        COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
899        echo $COMM >> genmake_warnings
900        $COMM >> genmake_tc.log 2>&1
901        RETVAL=$?
902        if test "x$RETVAL" = x0 ; then
903            HAVE_STAT=t
904            DEFINES="$DEFINES -DHAVE_STAT"
905        fi
906        rm -f genmake_tc*
907    }
908    
909    
910  check_netcdf_libs()  {  check_netcdf_libs()  {
911      cat <<EOF > genmake_tnc.for      if test ! "x$SKIP_NETCDF_CHECK" = x ; then
912            return
913        fi
914        echo >> genmake_warnings
915        echo "running: check_netcdf_libs()" >> genmake_warnings
916        cat <<EOF > genmake_tnc.F
917        program fgennc        program fgennc
918  #include "netcdf.inc"  #include "netcdf.inc"
919    EOF
920        if test ! "x$MPI" = x ; then
921            echo '#include "mpif.h"' >> genmake_tnc.F
922        fi
923        cat <<EOF >> genmake_tnc.F
924        integer iret, ncid, xid        integer iret, ncid, xid
925        iret = nf_create('genmake_tnc.nc', NF_CLOBBER, ncid)        iret = nf_create('genmake_tnc.nc', NF_CLOBBER, ncid)
926        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
# Line 551  check_netcdf_libs()  { Line 930  check_netcdf_libs()  {
930        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
931        end        end
932  EOF  EOF
933      $CPP genmake_tnc.for > genmake_tnc.f  \      echo "===  genmake_tnc.F  ===" > genmake_tnc.log
934          &&  $FC $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.f $LIBS >> genmake_tnc.log 2>&1      cat genmake_tnc.F >> genmake_tnc.log
935        echo "===  genmake_tnc.F  ===" >> genmake_tnc.log
936        RET_CPP=f
937        COMM="$CPP $DEFINES $INCLUDES genmake_tnc.F"
938        echo "$COMM" >> genmake_tnc.log
939        $COMM > genmake_tnc.$FS 2>/dev/null  &&  RET_CPP=t
940        if test "x$RET_CPP" = xf ; then
941            echo "  WARNING: CPP failed to pre-process the netcdf test." \
942                >> genmake_tnc.log
943            echo "    Please check that \$INCLUDES is properly set." \
944                >> genmake_tnc.log
945        fi
946        echo "$FC $FFLAGS $FOPTIM -c genmake_tnc.$FS  \ " >> genmake_tnc.log
947        echo "  &&  $LINK -o genmake_tnc.o $LIBS" >> genmake_tnc.log
948        $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
949            &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1
950      RET_COMPILE=$?      RET_COMPILE=$?
951      test -x ./genmake_tnc  &&  ./genmake_tnc >> genmake_tnc.log 2>&1      cat genmake_tnc.log >> genmake_warnings
952      RETVAL=$?  
953      if test "x$RET_COMPILE" = x0 -a "x$RETVAL" = x0 ; then      #EH3  Remove test program execution for machines that either disallow
954        #EH3  execution or cannot support it (eg. cross-compilers)
955        #EH3
956        #EH3 test -x ./genmake_tnc  &&  ./genmake_tnc >> genmake_tnc.log 2>&1
957        #EH3 RETVAL=$?
958        #EH3 if test "x$RET_COMPILE" = x0 -a "x$RETVAL" = x0 ; then
959    
960        if test "x$RET_COMPILE" = x0 ; then
961          HAVE_NETCDF=t          HAVE_NETCDF=t
962      else      else
963          # try again with "-lnetcdf" added to the libs          # try again with "-lnetcdf" added to the libs
964          $CPP genmake_tnc.for > genmake_tnc.f  \          echo "try again with added '-lnetcdf'" > genmake_tnc.log
965              &&  $FC $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.f \          echo "$CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS \ " >> genmake_tnc.log
966              $LIBS -lnetcdf >> genmake_tnc_2.log 2>&1          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
967            echo " &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
968            $CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS 2>/dev/null  \
969                &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
970                &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1
971          RET_COMPILE=$?          RET_COMPILE=$?
972          test -x ./genmake_tnc  &&  ./genmake_tnc >> genmake_tnc.log 2>&1          cat genmake_tnc.log >> genmake_warnings
973          RETVAL=$?          if test "x$RET_COMPILE" = x0 ; then
         if test "x$RET_COMPILE" = x0 -a "x$RETVAL" = x0 ; then  
974              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
975              HAVE_NETCDF=t              HAVE_NETCDF=t
         else  
             cat genmake_tnc.log >> genmake_warnings  
976          fi          fi
977      fi      fi
978      rm -f genmake_tnc*      rm -f genmake_tnc*
# Line 589  PLATFORM= Line 991  PLATFORM=
991  LN=  LN=
992  S64=  S64=
993  KPP=  KPP=
994  FC=  #FC=
995  CPP=  #CC=gcc
996    #CPP=
997  LINK=  LINK=
998  DEFINES=  DEFINES=
999  PACKAGES=  PACKAGES=
1000  ENABLE=  ENABLE=
1001  DISABLE=  DISABLE=
1002  MAKEFILE=  # MAKEFILE=
1003  MAKEDEPEND=  # MAKEDEPEND=
1004  PDEPEND=  PDEPEND=
1005  DUMPSTATE=t  DUMPSTATE=t
1006  PDEFAULT=  PDEFAULT=
1007  OPTFILE=  OPTFILE=
1008  INCLUDES="-I."  INCLUDES="-I. $INCLUDES"
1009  FFLAGS=  FFLAGS=
1010  FOPTIM=  FOPTIM=
1011  CFLAGS=  CFLAGS=
# Line 615  NOOPTFILES= Line 1018  NOOPTFILES=
1018  NOOPTFLAGS=  NOOPTFLAGS=
1019  MPI=  MPI=
1020  MPIPATH=  MPIPATH=
1021    TS=
1022    PAPIS=
1023    PCLS=
1024    FOOLAD=
1025    PAPI=
1026    PCL=
1027    HPMT=
1028    GSL=
1029    HAVE_TEST_L=
1030    
1031  # DEFINES checked by test compilation  # DEFINES checked by test compilation or command-line
1032  HAVE_SYSTEM=  HAVE_SYSTEM=
1033  HAVE_FDATE=  HAVE_FDATE=
1034  FC_NAMEMANGLE=  FC_NAMEMANGLE=
1035  HAVE_CLOC=  HAVE_CLOC=
1036    HAVE_SETRLSTK=
1037    HAVE_STAT=
1038  HAVE_NETCDF=  HAVE_NETCDF=
1039    HAVE_ETIME=
1040    IGNORE_TIME=
1041    
1042  MODS=  MODS=
1043  TOOLSDIR=  TOOLSDIR=
# Line 632  STANDARDDIRS="USE_THE_DEFAULT" Line 1048  STANDARDDIRS="USE_THE_DEFAULT"
1048  G2ARGS=  G2ARGS=
1049  BASH=  BASH=
1050  PWD=`pwd`  PWD=`pwd`
1051  MAKE=make  test "x$MAKE" = x  &&  MAKE=make
1052  AWK=awk  test "x$AWK" = x   &&  AWK=awk
1053  THISHOSTNAME=`hostname`  EMBED_SRC=
1054    THISHOST=`hostname`
1055  THISCWD=`pwd`  THISCWD=`pwd`
1056  THISDATE=`date`  THISDATE=`date`
1057    THISUSER=`echo $USER`
1058    THISVER=
1059  MACHINE=`uname -a`  MACHINE=`uname -a`
1060  EXECUTABLE=  EXECUTABLE=
1061  EXEHOOK=  EXEHOOK=
# Line 646  IEEE= Line 1065  IEEE=
1065  if test "x$MITGCM_IEEE" != x ; then  if test "x$MITGCM_IEEE" != x ; then
1066      IEEE=$MITGCM_IEEE      IEEE=$MITGCM_IEEE
1067  fi  fi
1068  FEXT=  FS=
1069  F90EXT=  FS90=
1070    
1071  AUTODIFF_PKG_USED=f  AUTODIFF_PKG_USED=f
1072  AD_OPTFILE=  AD_OPTFILE=
# Line 665  TAMC_EXTRA= Line 1084  TAMC_EXTRA=
1084    
1085  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1086  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"
1087  gm_s2="FC CPP IEEE MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="FC CPP IEEE TS PAPIS PCLS PAPI PCL HPMT GSL MPI JAM DUMPSTATE STANDARDDIRS"
1088    
1089  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1090  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 "
1091  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"
1092  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOSTNAME THISDATE MACHINE"  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"
1093  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"
1094  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE"  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE HAVE_ETIME"
1095    
1096  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1097  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"
# Line 702  for i in . $MODS ; do Line 1121  for i in . $MODS ; do
1121      fi      fi
1122  done  done
1123  printf "  getting local config information:  "  printf "  getting local config information:  "
1124  if test -e $gm_local ; then  if test -f $gm_local ; then
1125      echo "using $gm_local"      echo "using $gm_local"
1126      . $gm_local      . $gm_local
1127      # echo "DISABLE=$DISABLE"      # echo "DISABLE=$DISABLE"
# Line 711  else Line 1130  else
1130      echo "none found"      echo "none found"
1131  fi  fi
1132    
1133  #  echo "$0::$1:$2:$3:$4:$5:$6:$7:"  #echo "$0::$1:$2:$3:$4:$5:$6:$7:"
1134  #OPTIONS=  #OPTIONS=
1135  #n=0  #n=0
1136  #for i ; do  #for i ; do
# Line 723  fi Line 1142  fi
1142  #done  #done
1143  #parse_options  #parse_options
1144  ac_prev=  ac_prev=
1145  for ac_option ; do  for ac_option in "$@" ; do
1146    
1147      G2ARGS="$G2ARGS \"$ac_option\""      G2ARGS="$G2ARGS \"$ac_option\""
1148    
# Line 819  for ac_option ; do Line 1238  for ac_option ; do
1238  #               ac_prev=cpp ;;  #               ac_prev=cpp ;;
1239  #           -cpp=* | --cpp=*)  #           -cpp=* | --cpp=*)
1240  #               CPP=$ac_optarg ;;  #               CPP=$ac_optarg ;;
1241                        
1242            -cc | --cc)
1243                ac_prev=CC ;;
1244            -cc=* | --cc=*)
1245                CC=$ac_optarg ;;
1246            
1247          -fortran | --fortran | -fc | --fc)          -fortran | --fortran | -fc | --fc)
1248              ac_prev=FC ;;              ac_prev=FC ;;
1249          -fc=* | --fc=*)          -fc=* | --fc=*)
1250              FC=$ac_optarg ;;              FC=$ac_optarg ;;
1251                    
1252            -fs | --fs)
1253                ac_prev=FS ;;
1254            -fs=* | --fs=*)
1255                FS=$ac_optarg ;;
1256            
1257            -fs90 | --fs90)
1258                ac_prev=FS90 ;;
1259            -fs90=* | --fs90=*)
1260                FS90=$ac_optarg ;;
1261            
1262          -ieee | --ieee)          -ieee | --ieee)
1263              IEEE=true ;;              IEEE=true ;;
1264          -noieee | --noieee)          -noieee | --noieee)
1265              IEEE= ;;              IEEE= ;;
1266    
1267            -ts | --ts)
1268                TS=true ;;
1269            -papis | --papis)
1270                PAPIS=true ;;
1271            -pcls | --pcls)
1272                PCLS=true ;;
1273            -foolad | --foolad)
1274                FOOLAD=true ;;
1275            -papi | --papi)
1276                PAPI=true ;;
1277            -pcl | --pcl)
1278                PCL=true ;;
1279            -hpmt | --hpmt)
1280                HPMT=true ;;
1281    
1282            -gsl | --gsl)
1283                GSL=true ;;
1284    
1285          -mpi | --mpi)          -mpi | --mpi)
1286              MPI=true ;;              MPI=true ;;
1287          -mpi=* | --mpi=*)          -mpi=* | --mpi=*)
# Line 853  for ac_option ; do Line 1305  for ac_option ; do
1305              ac_prev=TAMC_EXTRA ;;              ac_prev=TAMC_EXTRA ;;
1306          -tamc_extra=* | --tamc_extra=*)          -tamc_extra=* | --tamc_extra=*)
1307              TAMC_EXTRA=$ac_optarg ;;              TAMC_EXTRA=$ac_optarg ;;
1308            
1309            -ignoretime | -ignore_time | --ignoretime | --ignore_time)
1310                IGNORE_TIME="-DIGNORE_TIME" ;;
1311    
1312            -es | --es | -embed-source | --embed-source)
1313                EMBED_SRC=t ;;
1314    
1315          -*)          -*)
1316              echo "Error: unrecognized option: "$ac_option              echo "Error: unrecognized option: "$ac_option
# Line 868  for ac_option ; do Line 1326  for ac_option ; do
1326            
1327  done  done
1328    
1329    
1330  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1331      echo      echo
1332      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
# Line 880  if test -f ./.genmakerc ; then Line 1339  if test -f ./.genmakerc ; then
1339      echo      echo
1340  fi  fi
1341    
1342    #  Find the MITgcm ${ROOTDIR}
1343  if test "x${ROOTDIR}" = x ; then  if test "x${ROOTDIR}" = x ; then
1344      if test "${PWD##/*/}" = "bin" -a -d ../model -a -d ../eesup -a -d ../pkg ; then      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
1345        if test "x$tmp" = "xbin" -a -d ../model -a -d ../eesup -a -d ../pkg ; then
1346          ROOTDIR=".."          ROOTDIR=".."
1347      else      else
1348          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do
# Line 905  if test ! -d ${ROOTDIR} ; then Line 1366  if test ! -d ${ROOTDIR} ; then
1366      exit 1      exit 1
1367  fi  fi
1368    
1369    #  Find the MITgcm ${THISVER}
1370    if test -f "${ROOTDIR}/doc/tag-index" ; then
1371        THISVER=`grep '^checkpoint' ${ROOTDIR}/doc/tag-index | head -1`
1372    fi
1373    
1374    if test "x$MAKEFILE" = x ; then
1375        MAKEFILE="Makefile"
1376    fi
1377    
1378  echo "  getting OPTFILE information:  "  echo "  getting OPTFILE information:  "
1379  if test "x${OPTFILE}" = x ; then  if test "x${OPTFILE}" = x ; then
1380      if test "x$MITGCM_OF" = x ; then      if test "x$MITGCM_OF" = x ; then
# Line 934  if test "x$OPTFILE" != xNONE ; then Line 1404  if test "x$OPTFILE" != xNONE ; then
1404      fi      fi
1405  fi  fi
1406    
 #  Check for broken systems that cannot correctly distinguish *.F and *.f files  
 if test "x$FEXT" = x -a "x$F90EXT" = x ; then  
     check_for_broken_Ff  
 fi  
   
1407  echo "  getting AD_OPTFILE information:  "  echo "  getting AD_OPTFILE information:  "
1408  if test "x${AD_OPTFILE}" = x ; then  if test "x${AD_OPTFILE}" = x ; then
1409      if test "x$MITGCM_AD_OF" = x ; then      if test "x$MITGCM_AD_OF" = x ; then
# Line 966  if test "x${AD_OPTFILE}" != xNONE ; then Line 1431  if test "x${AD_OPTFILE}" != xNONE ; then
1431      fi      fi
1432  fi  fi
1433    
1434  #  Check that FC, LINK, CPP, S64, LN, and MAKE are defined.  If not,  #====================================================================
1435    #  Set default values if not set by the optfile
1436    #
1437    #  Check that FC, CC, LINK, CPP, S64, LN, and MAKE are defined.  If not,
1438  #  either set defaults or complain and abort!  #  either set defaults or complain and abort!
1439  if test ! "x$BASH" = x ; then  if test ! "x$BASH" = x ; then
1440      # add a trailing space so that it works within the Makefile syntax (see below)      # add a trailing space so that it works within the Makefile syntax (see below)
# Line 982  Error: no Fortran compiler: please speci Line 1450  Error: no Fortran compiler: please speci
1450  EOF  EOF
1451      exit 1      exit 1
1452  fi  fi
1453    if test "x$CC" = x ; then
1454        CC=cc
1455    #     cat <<EOF 1>&2
1456    # Error: no C compiler: please specify using one of the following:
1457    #   1) within the options file ("CC=...") as specified by "-of=OPTFILE"
1458    #   2) the "-cc=XXX" command-line option
1459    #   3) the "./genmake_local" file
1460    # EOF
1461    #     exit 1
1462    fi
1463  if test "x$LINK" = x ; then  if test "x$LINK" = x ; then
1464      LINK=$FC      LINK=$FC
1465  fi  fi
# Line 992  if test "x$CPP" = x ; then Line 1470  if test "x$CPP" = x ; then
1470      CPP=cpp      CPP=cpp
1471  fi  fi
1472  #EH3 === UGLY ===  #EH3 === UGLY ===
1473  #  The following an ugly little hack to check for $CPP in /lib/ and it  #  The following is an ugly little hack to check for $CPP in /lib/ and
1474  #  should eventually be replaced with a more general function that  #  it should eventually be replaced with a more general function that
1475  #  searches a combo of the user's path and a list of "usual suspects"  #  searches a combo of the user's path and a list of "usual suspects"
1476  #  to find the correct location for binaries such as $CPP.  #  to find the correct location for binaries such as $CPP.
1477  for i in " " "/lib/" ; do  for i in " " "/lib/" ; do
# Line 1016  EOF Line 1494  EOF
1494  else  else
1495      rm -f test_cpp      rm -f test_cpp
1496  fi  fi
1497  if test "x$MAKEDEPEND" = x ; then  look_for_makedepend
     MAKEDEPEND=makedepend  
 fi  
1498  if test "x$LN" = x ; then  if test "x$LN" = x ; then
1499      LN="ln -s"      LN="ln -s"
1500  fi  fi
# Line 1034  Error: The command "ln -s" failed -- ple Line 1510  Error: The command "ln -s" failed -- ple
1510  EOF  EOF
1511      exit 1      exit 1
1512  fi  fi
1513    test -L genmake_tlink > /dev/null 2>&1
1514    RETVAL=$?
1515    if test "x$RETVAL" = x0 ; then
1516        HAVE_TEST_L=t
1517    fi
1518  rm -f genmake_test_ln genmake_tlink  rm -f genmake_test_ln genmake_tlink
1519    
1520    #  Check for broken *.F/*.f handling and fix if possible
1521    check_for_broken_Ff
1522    
1523  if test ! "x$MPI" = x ; then  if test ! "x$MPI" = x ; then
1524        echo "  Turning on MPI cpp macros"        echo "  Turning on MPI cpp macros"
1525        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"
1526  fi  fi
1527    
1528    if test ! "x$TS" = x ; then
1529          echo "  Turning on timing per timestep"
1530          if test ! "x$FOOLAD" = x ; then
1531                DEFINES="$DEFINES -DTIME_PER_TIMESTEP_SFP"
1532          else
1533                DEFINES="$DEFINES -DTIME_PER_TIMESTEP"
1534          fi
1535    fi
1536    if test ! "x$PAPIS" = x ; then
1537          echo "  Turning on PAPI flop summary per timestep"
1538          echo "  Please make sure PAPIINC, PAPILIB are defined"
1539          if test ! "x$FOOLAD" = x ; then
1540                DEFINES="$DEFINES -DUSE_PAPI_FLOPS_SFP"
1541          else
1542                DEFINES="$DEFINES -DUSE_PAPI_FLOPS"
1543          fi
1544          INCLUDES="$INCLUDES $PAPIINC"
1545          LIBS="$LIBS $PAPILIB"
1546    fi
1547    if test ! "x$PCLS" = x ; then
1548          echo "  Turning on PCL counter summary per timestep"
1549          echo "  Please make sure PCLINC, PCLLIB are defined"
1550          if test ! "x$FOOLAD" = x ; then
1551                DEFINES="$DEFINES -DUSE_PCL_FLOPS_SFP"
1552          else
1553                DEFINES="$DEFINES -DUSE_PCL_FLOPS"
1554          fi
1555          INCLUDES="$INCLUDES $PCLINC"
1556          LIBS="$LIBS $PCLLIB"
1557    fi
1558    if test ! "x$PAPI" = x ; then
1559          if test ! "x$PAPIS" = x ; then
1560              echo "  PAPI performance analysis and flop summary per timestep cannot co-exist!"
1561              echo "  Sticking with PAPI flop summary per timestep!"
1562          else
1563              echo "  Turning on performance analysis with PAPI"
1564              echo "  Please make sure PAPIINC, PAPILIB are defined"
1565              DEFINES="$DEFINES -DUSE_PAPI"
1566              INCLUDES="$INCLUDES $PAPIINC"
1567              LIBS="$LIBS $PAPILIB"
1568          fi
1569    fi
1570    if test ! "x$PCL" = x ; then
1571          if test ! "x$PCLS" = x ; then
1572              echo "  PCL performance analysis and flop summary per timestep cannot co-exist!"
1573              echo "  Sticking with PCL flop summary per timestep!"
1574          else
1575              echo "  Turning on performance analysis with PCL"
1576              echo "  Please make sure PCLINC, PCLLIB are defined"
1577              DEFINES="$DEFINES -DUSE_PCL"
1578              INCLUDES="$INCLUDES $PCLINC"
1579              LIBS="$LIBS $PCLLIB"
1580          fi
1581    fi
1582    if test ! "x$HPMT" = x ; then
1583          if test ! "x$PAPI" = x ; then
1584              echo "  PAPI and the HPM Toolkit cannot co-exist!"
1585              echo "  Sticking with PAPI!"
1586          else if test ! "x$PCL" = x ; then
1587              echo "  PCL and the HPM Toolkit cannot co-exist!"
1588              echo "  Sticking with PCL!"
1589          else
1590              echo "  Turning on performance analysis with the HPM Toolkit"
1591              echo "  Please make sure HPMTINC, HPMTLIB are defined"
1592              DEFINES="$DEFINES -DUSE_LIBHPM"
1593              INCLUDES="$INCLUDES $HPMTINC"
1594              LIBS="$LIBS $HPMTLIB"
1595          fi
1596    fi
1597    if test ! "x$GSL" = x ; then
1598          echo "  Turning on use of GSL to control floating point calculations"
1599          echo "  Please make sure GSLINC, GSLLIB are defined"
1600          DEFINES="$DEFINES -DUSE_GSL_IEEE"
1601          INCLUDES="$INCLUDES $GSLINC"
1602          LIBS="$LIBS $GSLLIB"
1603    fi
1604    
1605  printf "\n===  Checking system libraries  ===\n"  printf "\n===  Checking system libraries  ===\n"
1606  printf "  Do we have the system() command using $FC...  "  printf "  Do we have the system() command using $FC...  "
1607  cat > genmake_tcomp.f <<EOF  cat > genmake_tcomp.$FS <<EOF
1608        program hello        program hello
1609        call system('echo hi')        call system('echo hi')
1610        end        end
1611  EOF  EOF
1612  $FC $FFLAGS $DEFINES -o genmake_tcomp genmake_tcomp.f > genmake_tcomp.log 2>&1  $FC $FFLAGS -o genmake_tcomp genmake_tcomp.$FS > genmake_tcomp.log 2>&1
1613  RETVAL=$?  RETVAL=$?
1614  if test "x$RETVAL" = x0 ; then  if test "x$RETVAL" = x0 ; then
1615      HAVE_SYSTEM=t      HAVE_SYSTEM=t
# Line 1061  fi Line 1622  fi
1622  rm -f genmake_tcomp*  rm -f genmake_tcomp*
1623    
1624  printf "  Do we have the fdate() command using $FC...  "  printf "  Do we have the fdate() command using $FC...  "
1625  cat > genmake_tcomp.f <<EOF  cat > genmake_tcomp.$FS <<EOF
1626        program hello        program hello
1627        CHARACTER(128) string        CHARACTER*(128) string
1628        string = ' '        string = ' '
1629        call fdate( string )        call fdate( string )
1630        print *, string        print *, string
1631        end        end
1632  EOF  EOF
1633  $FC $FFLAGS $DEFINES -o genmake_tcomp genmake_tcomp.f > genmake_tcomp.log 2>&1  $FC $FFLAGS -o genmake_tcomp genmake_tcomp.$FS > genmake_tcomp.log 2>&1
1634  RETVAL=$?  RETVAL=$?
1635  if test "x$RETVAL" = x0 ; then  if test "x$RETVAL" = x0 ; then
1636      HAVE_FDATE=t      HAVE_FDATE=t
# Line 1081  else Line 1642  else
1642  fi  fi
1643  rm -f genmake_tcomp*  rm -f genmake_tcomp*
1644    
1645    printf "  Do we have the etime() command using $FC...  "
1646    cat > genmake_tcomp.$FS <<EOF
1647          program hello
1648          REAL*4 ACTUAL, TARRAY(2)
1649          EXTERNAL ETIME
1650          REAL*4 ETIME
1651          actual = etime( tarray )
1652          print *, tarray
1653          end
1654    EOF
1655    $FC $FFLAGS -o genmake_tcomp genmake_tcomp.$FS > genmake_tcomp.log 2>&1
1656    RETVAL=$?
1657    if test "x$RETVAL" = x0 ; then
1658        HAVE_ETIME=t
1659        DEFINES="$DEFINES -DHAVE_ETIME"
1660        echo "yes"
1661    else
1662        HAVE_ETIME=
1663        echo "no"
1664    fi
1665    rm -f genmake_tcomp*
1666    
1667  printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "  printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "
1668  check_HAVE_CLOC  check_HAVE_CLOC
1669  if test "x$HAVE_CLOC" != x ; then  if test "x$HAVE_CLOC" != x ; then
1670      echo "yes"      echo "yes"
1671  else  else
1672      echo "no"      echo "no"
1673        if test "x$EMBED_SRC" = xt ; then
1674            echo "    WARNING: you requested file embedding but it has"
1675            echo "      been disabled since C code cannot be called"
1676            EMBED_SRC=
1677        fi
1678    fi
1679    rm -f genmake_t*
1680    
1681    printf "  Can we unlimit the stack size using $FC...  "
1682    check_HAVE_SETRLSTK
1683    if test "x$HAVE_SETRLSTK" != x ; then
1684        echo "yes"
1685    else
1686        echo "no"
1687    fi
1688    rm -f genmake_t*
1689    
1690    printf "  Can we register a signal handler using $FC...  "
1691    check_HAVE_SIGREG
1692    if test "x$HAVE_SIGREG" != x ; then
1693        echo "yes"
1694    else
1695        echo "no"
1696    fi
1697    rm -f genmake_t*
1698    
1699    printf "  Can we use stat() through C calls...  "
1700    check_HAVE_STAT
1701    if test "x$HAVE_STAT" != x ; then
1702        echo "yes"
1703    else
1704        echo "no"
1705  fi  fi
1706  rm -f genmake_t*  rm -f genmake_t*
1707    
# Line 1097  if test "x$HAVE_NETCDF" != x ; then Line 1712  if test "x$HAVE_NETCDF" != x ; then
1712  else  else
1713      echo "no"      echo "no"
1714  fi  fi
1715    DEFINES="$DEFINES $IGNORE_TIME"
1716    
1717    if test "x$EMBED_SRC" = xt ; then
1718        build_embed_encode
1719    fi
1720    if test "x$EMBED_SRC" = xt ; then
1721        ENABLE="$ENABLE embed_files"
1722    fi
1723    
1724    
1725  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
# Line 1114  for d in $MODS ; do Line 1737  for d in $MODS ; do
1737  done  done
1738  echo  echo
1739    
 if test "x$MAKEFILE" = x ; then  
     MAKEFILE="Makefile"  
 fi  
1740  if test "x${PLATFORM}" = x ; then  if test "x${PLATFORM}" = x ; then
1741      PLATFORM=$p_PLATFORM      PLATFORM=$p_PLATFORM
1742  fi  fi
1743    
1744  if test "x${EXEDIR}" = x ; then  if test "x${EXEDIR}" = x ; then
1745      if test "${PWD##/*/}" = "bin" -a -d ../exe -a $ROOTDIR = .. ; then      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
1746        if test "x$tmp" = "xbin" -a -d ../exe -a $ROOTDIR = .. ; then
1747          EXEDIR=../exe          EXEDIR=../exe
1748      else      else
1749          EXEDIR=.          EXEDIR=.
# Line 1141  if test ! -d ${TOOLSDIR} ; then Line 1762  if test ! -d ${TOOLSDIR} ; then
1762      exit 1      exit 1
1763  fi  fi
1764  if test "x$S64" = x ; then  if test "x$S64" = x ; then
1765      S64='$(TOOLSDIR)/set64bitConst.sh'      echo "3.0 _d 3" | ${TOOLSDIR}/set64bitConst.sh > /dev/null 2>&1
1766        RETVAL=$?
1767        if test "x${RETVAL}" = x0 ; then
1768            S64='$(TOOLSDIR)/set64bitConst.sh'
1769        else
1770            echo "3.0 _d 3" | ${TOOLSDIR}/set64bitConst.csh > /dev/null 2>&1
1771            RETVAL=$?
1772            if test "x${RETVAL}" = x0 ; then
1773                S64='$(TOOLSDIR)/set64bitConst.csh'
1774            else
1775                cat <<EOF
1776    
1777    ERROR: neither of the two default scripts:
1778    
1779        ${TOOLSDIR}/set64bitConst.sh
1780        ${TOOLSDIR}/set64bitConst.csh
1781    
1782      are working so please check paths or specify (with \$S64) a
1783      working version of this script.
1784    
1785    EOF
1786                exit 1
1787            fi
1788        fi
1789  fi  fi
1790  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSDIR':\$(TOOLSDIR):'`  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSDIR':\$(TOOLSDIR):'`
1791    
# Line 1240  else Line 1884  else
1884              PACKAGES="$PACKAGES $i"              PACKAGES="$PACKAGES $i"
1885          done          done
1886          echo "    before group expansion packages are: $PACKAGES"          echo "    before group expansion packages are: $PACKAGES"
1887          while ! expand_pkg_groups; do echo > /dev/null; done          RET=1
1888            while test $RET = 1 ; do expand_pkg_groups; RET=$?; done
1889          echo "    after group expansion packages are:  $PACKAGES"          echo "    after group expansion packages are:  $PACKAGES"
1890      fi      fi
1891  fi  fi
# Line 1285  done Line 1930  done
1930  rm -f ./.tmp_pack  rm -f ./.tmp_pack
1931  echo "    packages are:  $PACKAGES"  echo "    packages are:  $PACKAGES"
1932    
1933    #  Check availability of NetCDF and then either build the MNC template
1934    #  files or delete mnc from the list of available packages.
1935    echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1
1936    RETVAL=$?
1937    if test "x$RETVAL" = x0 ; then
1938        if test "x$HAVE_NETCDF" != xt ; then
1939            cat <<EOF
1940    
1941    *********************************************************************
1942    WARNING: the "mnc" package was enabled but tests failed to compile
1943      NetCDF applications.  Please check that:
1944    
1945      1) NetCDF is correctly installed for this compiler and
1946      2) the LIBS variable (within the "optfile") specifies the correct
1947           NetCDF library to link against.
1948    
1949      Due to this failure, the "mnc" package is now DISABLED.
1950    *********************************************************************
1951    
1952    EOF
1953            PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`
1954            DISABLE="$DISABLE mnc"
1955        else
1956            ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1
1957            RETVAL=$?
1958            if test "x${RETVAL}" = x0 ; then
1959                rm -f make_mnc.errors
1960            else
1961                echo "Error: problem encountered while building source files in pkg/mnc:"
1962                cat make_mnc.errors 1>&2
1963                exit 1
1964            fi
1965        fi
1966    fi
1967    
1968  echo "  applying package dependency rules"  echo "  applying package dependency rules"
1969  ck=  ck=
1970  while test "x$ck" != xtt ; do  while test "x$ck" != xtt ; do
# Line 1349  while test "x$ck" != xtt ; do Line 2029  while test "x$ck" != xtt ; do
2029              echo "  the dependency rules for \"$dname\""              echo "  the dependency rules for \"$dname\""
2030              exit 1              exit 1
2031          fi          fi
2032          i=$(( $i + 1 ))          i=`echo "$i + 1" | bc -l`
2033            #i=$(( $i + 1 ))
2034      done      done
2035      ck=$ck"t"      ck=$ck"t"
2036  done  done
# Line 1368  for i in $PACKAGES ; do Line 2049  for i in $PACKAGES ; do
2049      fi      fi
2050  done  done
2051    
 #  Build MNC templates and check for ability to build and use NetCDF  
 echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1  
 RETVAL=$?  
 if test "x$RETVAL" = x0 ; then  
     ( cd $ROOTDIR"/pkg/mnc" && $MAKE templates ) > make_mnc.errors 2>&1  
     RETVAL=$?  
     if test "x${RETVAL}" = x0 ; then  
         rm -f make_mnc.errors  
     else  
         echo "Error: problem encountered while building source files in pkg/mnc:"  
         cat make_mnc.errors 1>&2  
         exit 1  
     fi  
     if test "x$HAVE_NETCDF" != xt ; then  
         cat <<EOF  
   
 WARNING: the "mnc" package has been enabled but tests failed to  
   compile and/or execute NetCDF applications.  Please check that:  
   
   1) NetCDF is installed for your compiler and  
   2) the LIBS variable (within the 'optfile") specifies the correct  
        NetCDF library to link against.  
     
 EOF  
     fi  
 fi  
   
2052  # Create a list of #define and #undef to enable/disable packages  # Create a list of #define and #undef to enable/disable packages
2053  PACKAGES_DOT_H=PACKAGES_CONFIG.h  PACKAGES_DOT_H=PACKAGES_CONFIG.h
2054  #  The following UGLY HACK sets multiple "#undef"s and it needs to go  #  The following UGLY HACK sets multiple "#undef"s and it needs to go
# Line 1414  for n in $names ; do Line 2068  for n in $names ; do
2068              fi              fi
2069          done          done
2070          if test "x$has_pack" = xf ; then          if test "x$has_pack" = xf ; then
2071              undef=`echo "ALLOW_$n" | $AWK '{print toupper($0)}'`              undef=`echo "ALLOW_$n" | sed -e 'y/abcdefghijklmnopqrstuvwxyz/ABCDEFGHIJKLMNOPQRSTUVWXYZ/'`
2072              DISABLED_PACKAGES="$DISABLED_PACKAGES -U$undef"              DISABLED_PACKAGES="$DISABLED_PACKAGES -U$undef"
2073          fi          fi
2074      fi      fi
2075  done  done
2076  ENABLED_PACKAGES=  ENABLED_PACKAGES=
2077  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2078      def=`echo "ALLOW_$i" | $AWK '{print toupper($0)}'`      def=`echo "ALLOW_$i" | sed -e 'y/abcdefghijklmnopqrstuvwxyz/ABCDEFGHIJKLMNOPQRSTUVWXYZ/'`
2079      ENABLED_PACKAGES="$ENABLED_PACKAGES -D$def"      ENABLED_PACKAGES="$ENABLED_PACKAGES -D$def"
2080  #eh3 DEFINES="$DEFINES -D$def"  #eh3 DEFINES="$DEFINES -D$def"
2081    
# Line 1505  for i in $SOURCEDIRS ; do Line 2159  for i in $SOURCEDIRS ; do
2159          cat $i/$j >> ad_files          cat $i/$j >> ad_files
2160      done      done
2161  done  done
2162    if test ! "x"$FS = "x.f" ; then
2163        cat ad_files | sed -e "s/\.f/.$FS/g" > ad_files_f
2164        mv -f ad_files_f ad_files
2165    fi
2166    
2167  echo  echo
2168  echo "===  Creating the Makefile  ==="  echo "===  Creating the Makefile  ==="
2169  echo "  setting INCLUDES"  echo "  setting INCLUDES"
2170  for i in $INCLUDEDIRS ; do  for i in $INCLUDEDIRS ; do
2171      if ! test -d $i ; then      if test ! -d $i ; then
 #       INCLUDES="$INCLUDES -I$i"  
 #   else  
2172          echo "Warning: can't find INCLUDEDIRS=\"$i\""          echo "Warning: can't find INCLUDEDIRS=\"$i\""
2173      fi      fi
2174  done  done
2175    
2176    if test ! "x$DIVA" = x ; then
2177        echo "  Creating the pseudo-MPI include directory"
2178        INCLUDES="-I./mpi_headers $INCLUDES"
2179        rm -rf ./mpi_headers
2180        mkdir -p ./mpi_headers
2181    
2182        if test "x$MPIINCLUDEDIR" = x ; then
2183            if test "x$MPIHOME" = x ; then
2184                MPIHOME='/usr'
2185            fi
2186            MPIINCLUDEDIR='$MPIHOME/include'
2187        fi
2188        
2189        if test -r $MPIINCLUDEDIR/mpif.h ; then
2190            for i in $MPI_HEADER_FILES; do
2191                cp -p $MPIINCLUDEDIR/$i ./mpi_headers
2192            done
2193    
2194            perl -i -pe 's/MPI_DISPLACEMENT_CURRENT=-1_8/MPI_DISPLACEMENT_CURRENT=-1/g' mpi_headers/mpif.h
2195        else
2196            echo " We cannot create a copy of mpif.h!"
2197            exit -1
2198        fi
2199    fi
2200    
2201  echo "  Determining the list of source and include files"  echo "  Determining the list of source and include files"
2202  rm -rf .links.tmp  rm -rf .links.tmp
2203  mkdir .links.tmp  mkdir .links.tmp
2204    touch .links.tmp/foo
2205    if test ! -r ".links.tmp/foo" ; then
2206        echo
2207        echo "ERROR : something is wrong with your directory permissions or"
2208        echo "   your user file-creation mask (\"umask\") since creating a"
2209        echo "   sub-dir, touch-ing a file within it, and then reading it is"
2210        echo "   not working.  Please try setting your umask to something"
2211        echo "   sane such as:"
2212        echo
2213        echo "      umask 0002"
2214        echo
2215        echo "   and please verify that you have the proper permissions for"
2216        echo "   creating sub-directories and then reading files created"
2217        echo "   within them."
2218        echo
2219        exit 1
2220    fi
2221    rm -f .links.tmp/foo
2222  echo "# This section creates symbolic links" > srclinks.tmp  echo "# This section creates symbolic links" > srclinks.tmp
2223  echo "" >> srclinks.tmp  echo "" >> srclinks.tmp
2224  printf 'SRCFILES = '    > srclist.inc  printf 'SRCFILES = '    > srclist.inc
# Line 1536  for d in $alldirs ; do Line 2234  for d in $alldirs ; do
2234      for sf in $sfiles ; do      for sf in $sfiles ; do
2235          if test ! -r ".links.tmp/$sf" ; then          if test ! -r ".links.tmp/$sf" ; then
2236              if test -f "$d/$sf" ; then              if test -f "$d/$sf" ; then
2237                    ignore_f=f
2238                  case $d/$sf in                  case $d/$sf in
2239                    ./$PACKAGES_DOT_H)                    ./$PACKAGES_DOT_H)
2240                            ignore_f=t
2241                          ;;                          ;;
2242                    ./AD_CONFIG.h)                    ./AD_CONFIG.h)
2243                            ignore_f=t
2244                          ;;                          ;;
2245                    ./FC_NAMEMANGLE.h)                    ./FC_NAMEMANGLE.h)
2246                            ignore_f=t
2247                          ;;                          ;;
2248                    *)                    ./BUILD_INFO.h)
2249                          touch .links.tmp/$sf                          ignore_f=t
                         deplist="$deplist $sf"  
                         ;;  
                 esac  
                 extn=`echo $sf | $AWK -F '.' '{print $NF}'`  
                 case $extn in  
                     F)  
                         echo    " \\"  >> srclist.inc  
                         printf " $sf" >> srclist.inc  
                         ;;  
                     F90)  
                         echo    " \\"  >> f90srclist.inc  
                         printf " $sf" >> f90srclist.inc  
2250                          ;;                          ;;
2251                      c)                    ./EMBEDDED_FILES.h)
2252                          echo    " \\"  >> csrclist.inc                          ignore_f=t
                         printf " $sf" >> csrclist.inc  
2253                          ;;                          ;;
2254                      h)                    *)
2255                          echo    " \\"  >> hlist.inc                          #  For the local directory *ONLY*,
2256                          printf " $sf" >> hlist.inc                          #  ignore all soft-links
2257                          ;;                          if test "x$HAVE_TEST_L" = xt -a "x$d" = x. -a -L $sf ; then
2258                      flow)                              ignore_f=t
2259                          echo    " \\"  >> ad_flow_files.inc                          else
2260                          printf " $sf" >> ad_flow_files.inc                              touch .links.tmp/$sf
2261                                deplist="$deplist $sf"
2262                            fi
2263                          ;;                          ;;
2264                  esac                  esac
2265                    if test "x$ignore_f" = xf ; then
2266                        extn=`echo $sf | $AWK -F. '{print $NF}'`
2267                        case $extn in
2268                            F)
2269                                echo    " \\"  >> srclist.inc
2270                                printf " $sf" >> srclist.inc
2271                                ;;
2272                            F90)
2273                                echo    " \\"  >> f90srclist.inc
2274                                printf " $sf" >> f90srclist.inc
2275                                ;;
2276                            c)
2277                                echo    " \\"  >> csrclist.inc
2278                                printf " $sf" >> csrclist.inc
2279                                ;;
2280                            h)
2281                                echo    " \\"  >> hlist.inc
2282                                printf " $sf" >> hlist.inc
2283                                ;;
2284                            flow)
2285                                echo    " \\"  >> ad_flow_files.inc
2286                                printf " $sf" >> ad_flow_files.inc
2287                                ;;
2288                        esac
2289                    fi
2290              fi              fi
2291          fi          fi
2292      done      done
# Line 1588  echo "" >> f90srclist.inc Line 2304  echo "" >> f90srclist.inc
2304  echo "" >> hlist.inc  echo "" >> hlist.inc
2305  echo "" >> ad_flow_files.inc  echo "" >> ad_flow_files.inc
2306    
2307  if test -e $MAKEFILE ; then  if test -f $MAKEFILE ; then
2308      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.bak"
2309  fi  fi
2310  echo "  Writing makefile: $MAKEFILE"  echo "  Writing makefile: $MAKEFILE"
# Line 1599  echo "#    $THISDATE" >> $MAKEFILE Line 2315  echo "#    $THISDATE" >> $MAKEFILE
2315  echo "# by the command:" >> $MAKEFILE  echo "# by the command:" >> $MAKEFILE
2316  echo "#    $0 $G2ARGS" >> $MAKEFILE  echo "#    $0 $G2ARGS" >> $MAKEFILE
2317  echo "# executed by:" >> $MAKEFILE  echo "# executed by:" >> $MAKEFILE
2318  echo "#    $USER@${THISHOSTNAME}:${THISCWD}" >> $MAKEFILE  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
2319    
2320  EXE_AD=$EXECUTABLE"_ad"  EXE_AD=$EXECUTABLE"_ad"
2321  EXE_FTL=$EXECUTABLE"_ftl"  EXE_FTL=$EXECUTABLE"_ftl"
# Line 1645  ENABLED_PACKAGES = ${ENABLED_PACKAGES} Line 2361  ENABLED_PACKAGES = ${ENABLED_PACKAGES}
2361  DISABLED_PACKAGES = ${DISABLED_PACKAGES}  DISABLED_PACKAGES = ${DISABLED_PACKAGES}
2362    
2363  # These files are created by Makefile  # These files are created by Makefile
2364  SPECIAL_FILES = ${PACKAGES_DOT_H} AD_CONFIG.h FC_NAMEMANGLE.h  SPECIAL_FILES = ${PACKAGES_DOT_H} AD_CONFIG.h FC_NAMEMANGLE.h BUILD_INFO.h
   
2365  EOF  EOF
2366    
2367  #  Note: figure out some way to add Hyades JAM libraries here  if test "x$EMBED_SRC" = xt ; then
2368        echo "EMBEDDED_FILES = EMBEDDED_FILES.h" >>$MAKEFILE
2369    else
2370        echo "EMBEDDED_FILES = " >>$MAKEFILE
2371    fi
2372    
2373    #  Note: figure out some way to add Hyades JAM libraries here
2374  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2375  # Unix ln (link)  # Unix ln (link)
2376  LN = ${LN}  LN = ${LN}
# Line 1664  KPP = ${KPP} Line 2384  KPP = ${KPP}
2384  FC = ${FC}  FC = ${FC}
2385  # Fortran compiler  # Fortran compiler
2386  F90C = ${F90C}  F90C = ${F90C}
2387    # C compiler
2388    CC = ${CC}
2389  # Link editor  # Link editor
2390  LINK = ${LINK} ${LDADD}  LINK = ${LINK} ${LDADD}
2391    
# Line 1686  CFLAGS = ${CFLAGS} Line 2408  CFLAGS = ${CFLAGS}
2408  NOOPTFILES = ${NOOPTFILES}  NOOPTFILES = ${NOOPTFILES}
2409  NOOPTFLAGS = ${NOOPTFLAGS}  NOOPTFLAGS = ${NOOPTFLAGS}
2410  # Flags and libraries needed for linking  # Flags and libraries needed for linking
2411  LIBS = ${LIBS} \$(XLIBS)  LIBS = ${LIBS}
2412  # Name of the Mekfile  # Name of the Mekfile
2413  MAKEFILE=${MAKEFILE}  MAKEFILE=${MAKEFILE}
2414    
# Line 1698  cat f90srclist.inc    >> $MAKEFILE Line 2420  cat f90srclist.inc    >> $MAKEFILE
2420  cat hlist.inc         >> $MAKEFILE  cat hlist.inc         >> $MAKEFILE
2421  cat ad_flow_files.inc >> $MAKEFILE  cat ad_flow_files.inc >> $MAKEFILE
2422  echo >> $MAKEFILE  echo >> $MAKEFILE
2423  echo 'F77FILES =  $(SRCFILES:.'$FEXT'=.f)'        >> $MAKEFILE  echo 'F77FILES =  $(SRCFILES:.F=.'$FS')'      >> $MAKEFILE
2424  echo 'F90FILES =  $(F90SRCFILES:.'$F90EXT'=.f90)' >> $MAKEFILE  echo 'F90FILES =  $(F90SRCFILES:.F90=.'$FS90')' >> $MAKEFILE
2425  echo 'OBJFILES =  $(SRCFILES:.'$FEXT'=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.'$F90EXT'=.o)' >> $MAKEFILE  echo 'OBJFILES =  $(SRCFILES:.F=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.F90=.o)' >> $MAKEFILE
2426  echo >> $MAKEFILE  echo >> $MAKEFILE
2427  echo '.SUFFIXES:' >> $MAKEFILE  echo '.SUFFIXES:' >> $MAKEFILE
2428  echo '.SUFFIXES: .o .f .p .'$FEXT' .c .'$F90EXT' .f90' >> $MAKEFILE  echo '.SUFFIXES: .o .'$FS' .p .F .c .'$FS90' .F90' >> $MAKEFILE
   
2429  rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc  rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc
2430  rm -f ad_flow_files.inc  rm -f ad_flow_files.inc
2431    
2432  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2433    
2434  all: \$(EXECUTABLE)  all: \$(EXECUTABLE)
2435  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(OBJFILES)  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(OBJFILES) \$(EMBEDDED_FILES)
2436          @echo Creating \$@ ...          @echo Creating \$@ ...
2437          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
2438  depend:  depend:
2439          @make links          @make links
2440          \$(MAKEDEPEND) -o .f \$(DEFINES) \$(INCLUDES) \$(SRCFILES)          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(SRCFILES)
2441          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2442          -rm -f makedepend.out          -rm -f makedepend.out
2443    
2444    lib: libmitgcmuv.a
2445    
2446    libmitgcmuv.a: \$(OBJFILES)
2447            ar rcv libmitgcmuv.a \$(OBJFILES)
2448    
2449  links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)  links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)
2450    
2451  small_f: \$(F77FILES) \$(F90FILES)  small_f: \$(F77FILES) \$(F90FILES)
# Line 1729  output.txt: \$(EXECUTABLE) Line 2455  output.txt: \$(EXECUTABLE)
2455          @\$(EXECUTABLE) > \$@          @\$(EXECUTABLE) > \$@
2456    
2457  clean:  clean:
2458          -rm -rf *.o *.f *.p *.f90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.o *.$FS *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2459  Clean:  Clean:
2460          @make clean          @make clean
2461          @make cleanlinks          @make cleanlinks
# Line 1740  CLEAN: Line 2466  CLEAN:
2466          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
2467          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
2468          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
2469          -rm -f \$(EXECUTABLE) output.txt          -rm -f \$(EXECUTABLE) *.txt STD* *diagnostics.log datetime
2470            -rm -rf mnc_test_*
2471    
2472  #eh3 Makefile: makefile  #eh3 Makefile: makefile
2473  makefile:  makefile:
# Line 1748  makefile: Line 2475  makefile:
2475  cleanlinks:  cleanlinks:
2476          -find . -type l -exec rm {} \;          -find . -type l -exec rm {} \;
2477    
2478  # Special targets ($SPECIAL_FILES) which are create by make  # Special targets (SPECIAL_FILES) which are create by make
2479  ${PACKAGES_DOT_H}:  ${PACKAGES_DOT_H}:
2480          @echo Creating \$@ ...          @echo Creating \$@ ...
2481          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@
# Line 1759  FC_NAMEMANGLE.h: Line 2486  FC_NAMEMANGLE.h:
2486          @echo Creating \$@ ...          @echo Creating \$@ ...
2487          echo "$FC_NAMEMANGLE" > \$@          echo "$FC_NAMEMANGLE" > \$@
2488    
2489  # The normal chain of rules is (  .$FEXT - .f - .o  )  BUILD_INFO.h:
2490  .$FEXT.f:          @echo Creating \$@ ...
2491    EOF
2492    
2493    test ! "x$THISVER" = x  && echo "       -echo \"#define THISVER '$THISVER'\" > \$@"   >> $MAKEFILE
2494    test ! "x$THISUSER" = x && echo "       -echo \"#define THISUSER '$THISUSER'\" >> \$@" >> $MAKEFILE
2495    test ! "x$THISDATE" = x && echo "       -echo \"#define THISDATE '$THISDATE'\" >> \$@" >> $MAKEFILE
2496    test ! "x$THISHOST" = x && echo "       -echo \"#define THISHOST '$THISHOST'\" >> \$@" >> $MAKEFILE
2497    
2498    if test "x$EMBED_SRC" = xt ; then
2499        cat >>$MAKEFILE <<EOF
2500    
2501    decode_files.o : EMBEDDED_FILES.h
2502    
2503    ##  \$(F77FILES)
2504    all_fF.tar.gz : \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(F77FILES) Makefile
2505            @echo Creating \$@ ...
2506            -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(F77FILES) Makefile
2507            -rm -f all_fF.tar.gz
2508            -gzip all_fF.tar
2509    
2510    EMBEDDED_FILES.h : all_fF.tar.gz
2511            @echo Creating \$@ ...
2512            -\${ROOTDIR}/tools/embed_encode/encode_files EMBEDDED_FILES.h all_fF.tar.gz
2513    
2514    EOF
2515    fi
2516    
2517    cat >>$MAKEFILE <<EOF
2518    
2519    # The normal chain of rules is (  .F - .$FS - .o  )
2520    
2521    ## This nullifies any default implicit rules concerning these two file types:
2522    ## %.o : %.F
2523    
2524    .F.$FS:
2525          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2526  .f.o:  .$FS.o:
2527          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2528  .$F90EXT.f90:  .F90.$FS90:
2529          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2530  .f90.o:  .$FS90.o:
2531          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
2532  .c.o:  .c.o:
2533          \$(CC) \$(CFLAGS) -c \$<          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
2534    
2535  # Special exceptions that use the ( .$FEXT - .p - .f - .o ) rule-chain  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain
2536  .$FEXT.p:  .F.p:
2537          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2538  .p.f:  .p.$FS:
2539          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
2540    
2541  #=========================================  #=========================================
# Line 1814  cat >>$MAKEFILE <<EOF Line 2575  cat >>$MAKEFILE <<EOF
2575    
2576  # ... AD ...  # ... AD ...
2577  adall: ad_taf  adall: ad_taf
2578  adtaf: ad_taf_output.f  adtaf: ad_taf_output.$FS
2579  adtamc: ad_tamc_output.f  adtamc: ad_tamc_output.$FS
2580    
2581  ad_input_code.f: \$(AD_FILES) \$(HEADERFILES)  ad_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)
2582          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template
2583          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
2584          -rm -f ad_config.template          -rm -f ad_config.template
2585          @make \$(F77FILES)          @make \$(F77FILES)
2586          @make \$(AD_FLOW_FILES)          @make \$(AD_FLOW_FILES)
2587          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ad_input_code.f          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ad_input_code.$FS
2588    
2589  ad_taf_output.f: ad_input_code.f  ad_taf_output.$FS: ad_input_code.$FS
2590          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.f          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2591          cat ad_input_code_ad.f | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.f          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2592    
2593  adtafonly:  adtafonly:
2594          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.f          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2595          cat ad_input_code_ad.f | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.f          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2596    
2597  ad_taf: ad_taf_output.o \$(OBJFILES)  ad_taf: ad_taf_output.o \$(OBJFILES)
2598          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)
2599    
2600  ad_tamc_output.f: ad_input_code.f  ad_tamc_output.$FS: ad_input_code.$FS
2601          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.f          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
2602          cat ad_input_code_ad.f | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.f          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS
2603    
2604  ad_tamc: ad_tamc_output.o \$(OBJFILES)  ad_tamc: ad_tamc_output.o \$(OBJFILES)
2605          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
2606    
2607    adonlyfwd:
2608            patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
2609    
2610    adtrick:
2611            patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
2612    
2613  # ... FTL ...  # ... FTL ...
2614  ftlall: ftl_taf  ftlall: ftl_taf
2615  ftltaf: ftl_taf_output.f  ftltaf: ftl_taf_output.$FS
2616  ftltamc: ftl_tamc_output.f  ftltamc: ftl_tamc_output.$FS
2617    
2618  ftl_input_code.f: \$(AD_FILES) \$(HEADERFILES)  ftl_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)
2619          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template
2620          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2621          -rm -f ftl_config.template          -rm -f ftl_config.template
2622          @make \$(F77FILES)          @make \$(F77FILES)
2623          @make \$(AD_FLOW_FILES)          @make \$(AD_FLOW_FILES)
2624          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.f          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS
2625    
2626  ftl_taf_output.f: ftl_input_code.f  ftl_taf_output.$FS: ftl_input_code.$FS
2627          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.f          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2628          cat ftl_input_code_ftl.f | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.f          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2629    
2630  ftltafonly:  ftltafonly:
2631          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.f          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2632          cat ftl_input_code_ftl.f | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.f          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2633    
2634  ftl_taf: ftl_taf_output.o \$(OBJFILES)  ftl_taf: ftl_taf_output.o \$(OBJFILES)
2635          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)
2636    
2637  ftl_tamc_output.f: ftl_input_code.f  ftl_tamc_output.$FS: ftl_input_code.$FS
2638          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.f          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
2639          cat ftl_input_code_ftl.f | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_tamc_output.f          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_tamc_output.$FS
2640    
2641  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
2642          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
2643    
2644    
2645  # ... SVD ...  # ... SVD ...
2646  svdtaf: ad_taf_output.f ftl_taf_output.f  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
2647  svdall: svd_taf          @echo "--->>> Only ran TAF to generate SVD code!    <<<---"
2648            @echo "--->>> Do make svdall afterwards to compile. <<<---"
2649    svdall: svd_touch svd_taf
2650    
2651  svd_taf: ad_taf_output.o ftl_taf_output.o \$(OBJFILES)  svd_taf: \$(OBJFILES)
2652          \$(LINK) -o mitgcmuv_svd \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o ftl_taf_output.o \$(LIBS)          \$(LINK) -o mitgcmuv_svd \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o ftl_taf_output.o \$(LIBS)
2653    
2654            @echo "--->>> Only COMPILE svd code! <<<---"
2655            @echo "--->>> Assumes you previously <<<---"
2656            @echo "--->>> did make svdtaf        <<<---"
2657    
2658    svd_touch:
2659            @echo "--->>> Only COMPILE svd code! <<<---"
2660            @echo "--->>> Assumes you previously <<<---"
2661            @echo "--->>> did make svdtaf        <<<---"
2662            touch ad_taf_output.$FS ftl_taf_output.$FS
2663            \$(FC) \$(FFLAGS) \$(FOPTIM) -c ad_taf_output.$FS
2664            \$(FC) \$(FFLAGS) \$(FOPTIM) -c ftl_taf_output.$FS
2665            @$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
2666            cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2667            -rm -f ftl_config.template
2668    
2669  #=========================================  #=========================================
2670    
# Line 1899  for i in $KPPFILES ; do Line 2681  for i in $KPPFILES ; do
2681      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
2682          echo "Error: unable to add file \"$i\" to the exceptions list"          echo "Error: unable to add file \"$i\" to the exceptions list"
2683      fi      fi
2684      echo "$base.f: $base.p" >> $MAKEFILE      echo "$base.$FS: $base.p" >> $MAKEFILE
2685  done  done
2686    
2687  echo "  Making list of NOOPTFILES"  echo "  Making list of NOOPTFILES"
# Line 1909  for i in $NOOPTFILES ; do Line 2691  for i in $NOOPTFILES ; do
2691      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
2692          echo "Error: unable to add file \"$i\" to the exceptions list"          echo "Error: unable to add file \"$i\" to the exceptions list"
2693      fi      fi
2694      echo "$base.o: $base.f" >> $MAKEFILE      echo "$base.o: $base.$FS" >> $MAKEFILE
2695      printf "\t\$(FC) \$(FFLAGS) \$(NOOPTFLAGS) -c \$<\n" >> $MAKEFILE      printf "\t\$(FC) \$(FFLAGS) \$(NOOPTFLAGS) -c \$<\n" >> $MAKEFILE
2696  done  done
2697    

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