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revision 1.71 by edhill, Wed Mar 10 23:34:04 2004 UTC revision 1.221 by jmc, Fri Jun 24 22:03:39 2011 UTC
# Line 1  Line 1 
1  #! /usr/bin/env bash  #! /usr/bin/env bash
2  #  #
3  # $Header$  # $Header$
4    # $Name$
5  #  #
6  # Makefile generator for MITgcm UV codes  # Makefile generator for MITgcm UV codes
7  #   created  by cnh 03/98  #   created  by cnh 03/98
# Line 8  Line 9 
9  #   modified by aja 01/00  #   modified by aja 01/00
10  #   rewritten in bash by eh3 08/03  #   rewritten in bash by eh3 08/03
11    
12    #  Explain usage
13    usage()  {
14    cat <<EOF
15    
16    Usage: "$0" [OPTIONS]
17      where [OPTIONS] can be:
18    
19        -help | --help | -h | --h
20              Print this help message and exit.
21    
22        -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
23          -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
24              Use "NAME" as the adoptfile.  By default, the file at
25              "tools/adjoint_options/adjoint_default" will be used.
26    
27        -nooptfile | --nooptfile
28          -optfile NAME | --optfile NAME | -of NAME | --of NAME
29          -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
30              Use "NAME" as the optfile.  By default, an attempt will be
31              made to find an appropriate "standard" optfile in the
32              tools/build_options/ directory.
33    
34        -pdepend NAME | --pdepend NAME
35          -pdepend=NAME | --pdepend=NAME
36              Get package dependency information from "NAME".
37    
38        -pgroups NAME | --pgroups NAME
39          -pgroups=NAME | --pgroups=NAME
40              Get the package groups information from "NAME".
41    
42        -bash NAME
43              Explicitly specify the Bourne or BASH shell to use
44    
45        -make NAME | -m NAME
46          --make=NAME | -m=NAME
47              Use "NAME" for the MAKE program. The default is "make" but
48              many platforms, "gmake" is the preferred choice.
49    
50        -makefile NAME | -mf NAME
51          --makefile=NAME | -mf=NAME
52              Call the makefile "NAME".  The default is "Makefile".
53    
54        -makedepend NAME | -md NAME
55          --makedepend=NAME | -md=NAME
56              Use "NAME" for the MAKEDEPEND program.
57    
58        -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
59          -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
60              Specify the location of the MITgcm ROOTDIR as "NAME".
61              By default, genamke will try to find the location by
62              looking in parent directories (up to the 5th parent).
63    
64        -mods NAME | --mods NAME | -mo NAME | --mo NAME
65          -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
66              Here, "NAME" specifies a list of directories that are
67              used for additional source code.  Files found in the
68              "mods list" are given preference over files of the same
69              name found elsewhere.
70    
71        -disable NAME | --disable NAME
72          -disable=NAME | --disable=NAME
73              Here "NAME" specifies a list of packages that we don't
74              want to use.  If this violates package dependencies,
75              genamke will exit with an error message.
76    
77        -enable NAME | --enable NAME
78          -enable=NAME | --enable=NAME
79              Here "NAME" specifies a list of packages that we wish
80              to specifically enable.  If this violates package
81              dependencies, genamke will exit with an error message.
82    
83        -standarddirs NAME | --standarddirs NAME
84          -standarddirs=NAME | --standarddirs=NAME
85              Here, "NAME" specifies a list of directories to be
86              used as the "standard" code.
87    
88        -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
89          -fc=NAME | --fc=NAME
90              Use "NAME" as the fortran compiler.  By default, genmake
91              will search for a working compiler by trying a list of
92              "usual suspects" such as g77, f77, etc.
93    
94        -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
95              Use "NAME" as the C compiler.  By default, genmake
96              will search for a working compiler by trying a list of
97              "usual suspects" such as gcc, c89, cc, etc.
98    
99        -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
100              Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
101              *only* works if CPP_EEOPTIONS.h allows this.
102    
103        -ignoretime | -ignore_time | --ignoretime | --ignore_time
104              Ignore all the "wall clock" routines entirely.  This will
105              not in any way hurt the model results -- it simply means
106              that the code that checks how long the model spends in
107              various routines will give junk values.
108    
109        -ts | --ts
110              Produce timing information per timestep
111        -papis | --papis
112              Produce summary MFlop/s (and IPC) with PAPI per timestep
113        -pcls | --pcls
114              Produce summary MFlop/s etc. with PCL per timestep
115        -foolad | --foolad
116              Fool the AD code generator
117        -papi | --papi
118              Performance analysis with PAPI
119        -pcl | --pcl
120              Performance analysis with PCL
121        -hpmt | --hpmt
122              Performance analysis with the HPM Toolkit
123    
124        -ieee | --ieee
125              use IEEE numerics.  Note that this option *only* works
126              if it is supported by the OPTFILE that is being used.
127        -devel | --devel
128              Add additional warning and debugging flags for development
129              (if supported by the OPTFILE); also switch to IEEE numerics.
130        -gsl | --gsl
131              Use GSL to control floating point rounding and precision
132    
133        -mpi | --mpi
134              Include MPI header files and link to MPI libraries
135        -mpi=PATH | --mpi=PATH
136              Include MPI header files and link to MPI libraries using MPI_ROOT
137              set to PATH. i.e. Include files from \$PATH/include, link to libraries
138              from \$PATH/lib and use binaries from \$PATH/bin.
139    
140        -omp | --omp
141              Activate OpenMP code + use Compiler option OMPFLAG
142        -omp=OMPFLAG | --omp=OMPFLAG
143              Activate OpenMP code + use Compiler option OMPFLAG
144    
145        -es | --es | -embed-source | --embed-source
146              Embed a tarball containing the full source code
147              (including the Makefile, etc.) used to build the
148              executable [off by default]
149    
150        -ds | --ds
151              Report genmake internal variables status (DUMPSTATE)
152              to file "genmake_state" (for debug purpose)
153    
154      While it is most often a single word, the "NAME" variables specified
155      above can in many cases be a space-delimited string such as:
156    
157        --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
158        -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
159        -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
160    
161      which, depending upon your shell, may need to be single-quoted.
162    
163      For more detailed genmake documentation, please see:
164    
165        http://mitgcm.org/public/devel_HOWTO/
166    
167    EOF
168    
169        exit 1
170    }
171    
172  # Search for particular CPP #cmds associated with packages  # Search for particular CPP #cmds associated with packages
173  # usage: test_for_package_in_cpp_options CPP_file package_name  # usage: test_for_package_in_cpp_options CPP_file package_name
174  test_for_package_in_cpp_options() {  test_for_package_in_cpp_options() {
175      cpp_options=$1      cpp_options=$1
176      pkg=$2      pkg=$2
177      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg[ ]"
178      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg[ ]"
179      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg[ ]"
180      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg[ ]"
181        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg$"
182        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg$"
183        test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg$"
184        test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg$"
185  }  }
186    
187  # Search for particular CPP #cmds associated with MPI  # Search for particular CPP #cmds associated with MPI
188  # usage: test_for_mpi_in_cpp_eeoptions CPP_file  # usage: test_for_mpi_in_cpp_eeoptions CPP_file
189  test_for_mpi_in_cpp_eeoptions() {  test_for_mpi_in_cpp_eeoptions() {
190      cpp_options=$1      cpp_options=$1
191      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI[ ]"
192      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI[ ]"
193      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI[ ]"
194      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI[ ]"
195        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI$"
196        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI$"
197        test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI$"
198        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI$"
199  }  }
200    
201  # 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 208  test_for_string_in_file() {
208      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
209          printf "Error: In $file there is an illegal line: "          printf "Error: In $file there is an illegal line: "
210          grep -i "$strng" $file          grep -i "$strng" $file
211          return 1          exit 99
212      fi      fi
213      return 0      return 0
214  }  }
# Line 48  test_for_string_in_file() { Line 217  test_for_string_in_file() {
217  # the package list.  # the package list.
218  expand_pkg_groups() {  expand_pkg_groups() {
219      new_packages=      new_packages=
     PKG_GROUPS=$ROOTDIR"/pkg/pkg_groups"  
220      if test -r $PKG_GROUPS ; then      if test -r $PKG_GROUPS ; then
221          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp
222          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp
# Line 59  expand_pkg_groups() { Line 227  expand_pkg_groups() {
227              if test "x$RETVAL" = x0 ; then              if test "x$RETVAL" = x0 ; then
228                  matched=1                  matched=1
229                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`
230                  echo "    replacing \"$i\" with: $replace"                  echo "    replacing \"$i\" with:$replace"
231                  new_packages="$new_packages $replace"                  new_packages="$new_packages $replace"
232              else              else
233                  new_packages="$new_packages $i"                  new_packages="$new_packages $i"
# Line 67  expand_pkg_groups() { Line 235  expand_pkg_groups() {
235          done          done
236          PACKAGES=$new_packages          PACKAGES=$new_packages
237          rm -f ./p[1,2].tmp          rm -f ./p[1,2].tmp
238            return $matched
239      else      else
240          echo "Warning: can't read package groups definition file: $PKG_GROUPS"          echo "Warning: can't read package groups definition file: $PKG_GROUPS"
241      fi      fi
242  }  }
243    
244  # Guess possible config options for this host  #  Check for broken environments (eg. cygwin, MacOSX w/HFS+) that
245  find_possible_configs()  {  #  cannot distinguish [*.F/*.F90] from [*.f/*.f90] files.
246    check_for_broken_Ff()  {
247        #  Do we have defaults for $FS and/or $FS90 ?
248        tfs=f
249        tfs9=f90
250        if test "x$FS" != x ; then
251            tfs="$FS"
252        fi
253        if test "x$FS90" != x ; then
254            tfs9="$FS90"
255        fi
256    
257      tmp1=`uname`"_"`uname -m`      #  First check the ability to create a *.F/.f pair.
258      tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`      cat <<EOF >> genmake_hello.F
259      tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`        program hello
260      tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`        write(*,*) 'hi'
261      tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`        stop
262      PLATFORM=$tmp2        end
263      OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`  EOF
264      echo "  The platform appears to be:  $PLATFORM"      cp genmake_hello.F "genmake_hello."$tfs > /dev/null 2>&1
       
     echo "test" > test  
     ln -s ./test link  
265      RETVAL=$?      RETVAL=$?
266      if test "x${RETVAL}" = x0 ; then      if test "x$RETVAL" != x0 ; then
267          LN="ln -s"          if test "x$FS" = x ; then
268      else              FS='for'
269          echo "Error: \"ln -s\" does not appear to work on this system!"              FS90='fr9'
270          echo "  For help, please contact <MITgcm-support@mitgcm.org>."              check_for_broken_Ff
271          exit 1          else
272                cat <<EOF 2>&1
273    ERROR: Your file system cannot distinguish between *.F and *.f files
274      (fails the "cp" test) and this program cannot find a suitable
275      replacement extension.  Please try a different build environment or
276      contact the <MITgcm-support@mitgcm.org> list for help.
277    
278    EOF
279                exit -1
280            fi
281            return
282      fi      fi
283      rm -f test link      rm -f genmake_hello.*
284    
285      if test "x$CPP" = x ; then      #  Check the ability of ${MAKE} and ${LN} to use the current set
286          CPP="cpp -traditional -P"      #  of extensions.
287        cat <<EOF >> genmake_hello.F
288          program hello
289          write(*,*) 'hi'
290          stop
291          end
292    EOF
293        test -f $MAKEFILE  &&  mv -f $MAKEFILE $MAKEFILE".tst"
294        cat <<EOF >> $MAKEFILE
295    .SUFFIXES:
296    .SUFFIXES: .$tfs .F
297    .F.$tfs:
298            $LN \$< \$@
299    EOF
300        $MAKE "genmake_hello."$tfs > /dev/null 2>&1
301        RETVAL=$?
302        if test "x$RETVAL" != x0 -o ! -f "genmake_hello."$tfs ; then
303            if test "x$FS" = x ; then
304                FS='for'
305                FS90='fr9'
306                check_for_broken_Ff
307            else
308                cat <<EOF 2>&1
309    ERROR: Your file system cannot distinguish between *.F and *.f files
310      (fails the "make/ln" test) and this program cannot find a suitable
311      replacement extension.  Please try a different build environment or
312      contact the <MITgcm-support@mitgcm.org> list for help.
313    
314    EOF
315                exit -1
316                return
317            fi
318      fi      fi
319        rm -f genmake_hello.* $MAKEFILE
320        test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
321    
322        #  If we make it here, use the extensions
323        FS=$tfs
324        FS90=$tfs9
325        return
326    }
327    
328    look_for_makedepend()  {
329    
330      #  The "original" makedepend is part of the Imake system that is      #  The "original" makedepend is part of the Imake system that is
331      #  most often distributed with XFree86 or with an XFree86 source      #  most often distributed with XFree86 or with an XFree86 source
# Line 118  find_possible_configs()  { Line 345  find_possible_configs()  {
345      #    3) locally build and use the cyrus implementation      #    3) locally build and use the cyrus implementation
346      #    4) fall back to the buggy local xmakedpend script      #    4) fall back to the buggy local xmakedpend script
347      #      #
348        echo >> $LOGFILE
349        echo "running: look_for_makedepend()" >> $LOGFILE
350        if test "x${MAKEDEPEND}" != x ; then
351            echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1
352            RETVAL=$?
353            if test x"$RETVAL" = x0 ; then
354                build_cyrus_makedepend
355                RETVAL=$?
356                if test "x$RETVAL" != x0 ; then
357                    echo "WARNING: unable to build cyrus-makedepend. Try 'makedepend'"
358                    MAKEDEPEND=
359                fi
360            else
361                echo "${MAKEDEPEND}" | grep 'tools.xmakedepend' > /dev/null 2>&1
362                RETVAL=$?
363                if test "x$RETVAL" = x0 ; then
364                    MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
365                fi
366                echo " -->     MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
367            fi
368        fi
369      if test "x${MAKEDEPEND}" = x ; then      if test "x${MAKEDEPEND}" = x ; then
370        which makedepend >& /dev/null          which makedepend > /dev/null 2>&1
371        RETVAL=$?          RV0=$?
372        if test ! "x${RETVAL}" = x0 ; then          test -f $MAKEFILE  &&  mv -f $MAKEFILE $MAKEFILE".tst"
373           echo "    a system-default makedepend was not found."          #  echo 'MAKEFILE="'$MAKEFILE'"'
374            cat <<EOF >> $MAKEFILE
375           #  Try to build the cyrus impl  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"
376           rm -f ./genmake_cy_md  #
377           (  #   Some "makedepend" implementations will die if they cannot
378               cd $ROOTDIR/tools/cyrus-imapd-makedepend  \  #   find a Makefile -- so this file is here to gives them an
379                   &&  ./configure > /dev/null 2>&1  \  #   empty one to find and parse.
380                   &&  make > /dev/null 2>&1  \  EOF
381                   &&  ./makedepend ifparser.c > /dev/null 2>&1  \          cat <<EOF >> genmake_tc.f
382                   &&  echo "true"        program test
383           ) > ./genmake_cy_md        write(*,*) 'test'
384           grep true ./genmake_cy_md > /dev/null 2>&1        stop
385           RETVAL=$?        end
386           if test "x$RETVAL" = x0 ; then  EOF
387               MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'          makedepend genmake_tc.f > /dev/null 2>&1
388           else          RV1=$?
389               MAKEDEPEND='$(TOOLSDIR)/xmakedepend'          test -f $MAKEFILE  &&  rm -f $MAKEFILE
390           fi          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
391           rm -f ./genmake_cy_md          if test "x${RV0}${RV1}" = x00 ; then
392        fi              MAKEDEPEND=makedepend
393                echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
394            else
395                echo "    system-default makedepend not found. Try to build cyrus-makedepend"
396                #  Try to build the cyrus implementation
397                build_cyrus_makedepend
398                RETVAL=$?
399                if test "x$RETVAL" != x0 ; then
400                    echo "WARNING: unable to build cyrus-makedepend. Use local xmakedepend"
401                    MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
402                    echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
403                fi
404            fi
405        fi
406    }
407    
408    build_cyrus_makedepend()  {
409        echo >> $LOGFILE
410        echo "running: build_cyrus_makedepend()" >> $LOGFILE
411        rm -f ./genmake_cy_md
412        (
413            cd $ROOTDIR/tools/cyrus-imapd-makedepend  \
414                &&  ./configure > /dev/null 2>&1  \
415                &&  make > /dev/null 2>&1
416            if test -x ./makedepend.exe ; then
417                $LN ./makedepend.exe ./makedepend
418            fi
419            ./makedepend ifparser.c > /dev/null 2>&1  \
420                &&  echo "true"
421        ) > ./genmake_cy_md
422        grep true ./genmake_cy_md > /dev/null 2>&1
423        RETVAL=$?
424        rm -f ./genmake_cy_md
425        if test "x$RETVAL" = x0 ; then
426            MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'
427            echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
428            return 0
429        else
430            echo "WARNING: fail to build cyrus-imapd-makedepend" >> $LOGFILE
431            return 1
432      fi      fi
433    }
434    
435      # look for possible fortran compilers  build_embed_encode()
436      tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc f90 f95 mpif77 mpf77 mpxlf95"  {
437      p_FC=      printf "  building the embed-encode utility...  "
438        if test ! -e "$ROOTDIR/tools/embed_encode/encode_files" ; then
439            if test ! -d "$ROOTDIR/tools/embed_encode" ; then
440                echo
441                echo "    Error: can't locate \"$ROOTDIR/tools/embed_encode\""
442                echo
443                EMBED_SRC=f
444                return 1
445            fi
446            clist="cc gcc c89 $CC"
447            for ic in $clist ; do
448                comm="$ic -o encode_files encode_files.c"
449                ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1
450                RETVAL=$?
451                if test "x$RETVAL" = x0 ; then
452                    echo "OK"
453                    DEFINES="$DEFINES -DHAVE_EMBED_SRC"
454                    return 0
455                fi
456            done
457            echo
458            echo "    Error: unable to build $ROOTDIR/embed_encode/encode_files"
459            echo "      so it has been disabled"
460            echo
461            EMBED_SRC=f
462            return 1
463        fi
464        echo "OK"
465        DEFINES="$DEFINES -DHAVE_EMBED_SRC"
466    }
467    
468    #  look for possible C compilers
469    look_for_C_compilers() {
470        echo >> $LOGFILE
471        echo "running: look_for_C_compilers()" >> $LOGFILE
472        rm -f ./genmake_hello.c  ./genmake_hello
473        cat >> genmake_hello.c << EOF
474    #include <stdio.h>
475    int main(int argc, char **argv) {
476      printf("Hello!\n");
477      return 0;
478    }
479    EOF
480        tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
481        p_CC=
482      for c in $tmp ; do      for c in $tmp ; do
483          rm -f ./hello.f ./hello          COMM="$c $CFLAGS -o genmake_hello genmake_hello.c"
484          cat >> hello.f <<EOF          echo $COMM >> $LOGFILE
485            $COMM >> $LOGFILE 2>&1
486            RETVAL=$?
487            if test "x${RETVAL}" = x0 ; then
488                echo " $c test successful" >> $LOGFILE
489                p_CC="$p_CC $c"
490            fi
491        done
492        rm -f ./genmake_hello.c ./genmake_hello
493        if test "x${p_CC}" = x ; then
494            cat 1>&2 <<EOF
495    
496    Error: No C compilers were found in your path.  Please specify one using:
497    
498        1) an "optfile" on (eg. "-optfile=path/to/OPTFILE"),
499        2) the CC or MITGCM_CC environment variables.
500    
501    EOF
502            exit 1
503        else
504            echo "  The possible C compilers found in your path are: $p_CC" | tee -a $LOGFILE
505            if test "x$CC" = x ; then
506                CC=`echo $p_CC | $AWK '{print $1}'`
507                echo "  Setting C compiler to: "$CC
508            fi
509        fi
510        echo " --> set CC='$CC'" >> $LOGFILE
511    }
512    
513    # Guess possible config options for this host
514    find_possible_optfile()  {
515    
516        echo >> $LOGFILE
517        echo "running: find_possible_optfile()" >> $LOGFILE
518        tmp1=`uname`"_"`uname -m`
519        tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`
520        tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`
521        tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`
522        tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`
523        tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`
524        PLATFORM=$tmp3
525        echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
526        OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
527        echo "  The platform appears to be:  $PLATFORM" | tee -a $LOGFILE
528    
529        #================================================================
530        #  look for possible FORTRAN compilers
531        echo "  look for possible FORTRAN compilers" >> $LOGFILE
532        tmp="$MITGCM_FC $FC efc gfortran g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 g95"
533        p_FC=
534        rm -f ./genmake_hello.f
535        cat >> genmake_hello.f <<EOF
536        program hello        program hello
537        do i=1,3        do i=1,3
538          print *, 'hello world : ', i          print *, 'hello world : ', i
539        enddo        enddo
540        end        end
541  EOF  EOF
542          $c -o hello hello.f > /dev/null 2>&1      for f in $tmp ; do
543            COMM="$f -o genmake_hello genmake_hello.f"
544            echo $COMM >> $LOGFILE
545            $COMM >> $LOGFILE 2>&1
546          RETVAL=$?          RETVAL=$?
547          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
548              p_FC="$p_FC $c"              echo " $f test successful" >> $LOGFILE
549                p_FC="$p_FC $f"
550          fi          fi
551      done      done
552      rm -f ./hello.f ./hello      rm -f ./genmake_hello.f ./genmake_hello
553      if test "x${p_FC}" = x ; then      if test "x${p_FC}" = x ; then
554          cat 1>&2 <<EOF          cat 1>&2 <<EOF
555    
# Line 170  Error: No Fortran compilers were found i Line 557  Error: No Fortran compilers were found i
557    
558      1) an "optfile" on (eg. "-optfile=path/to/OPTFILE"),      1) an "optfile" on (eg. "-optfile=path/to/OPTFILE"),
559      2) a command-line option (eg. "-fc NAME"), or      2) a command-line option (eg. "-fc NAME"), or
560      3) the MITGCM_FC environment variable.      3) the FC or MITGCM_FC environment variables.
561    
562  EOF  EOF
563          exit 1          exit 1
564      else      else
565          echo "  The possible FORTRAN compilers found in your path are:"          echo "  The possible FORTRAN compilers found in your path are: $p_FC" | tee -a $LOGFILE
566          echo "   "$p_FC      fi
567          if test "x$FC" = x ; then  
568              FC=`echo $p_FC | $AWK '{print $1}'`      #  Use the first of the compilers found in the current PATH
569              echo "  Setting FORTRAN compiler to: "$FC      #  that has a correctly-named optfile
570          fi      if test "x$OPTFILE" = x  -a  "x$FC" = x ; then
571            for i in $p_FC ; do
572                OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
573                if test -r $OPTFILE ; then
574                    echo "  Setting OPTFILE to: "$OPTFILE | tee -a $LOGFILE
575                    break
576                fi
577            done
578      fi      fi
579    
580      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
# Line 189  EOF Line 583  EOF
583               echo "  I looked for the file "$OPTFILE" but did not find it"               echo "  I looked for the file "$OPTFILE" but did not find it"
584          fi          fi
585      fi      fi
586  #    echo "  The options file:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #   for i in $p_FC ; do  
 #p_OF=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i  
 #if test -r $p_OF ; then  
 #    OPTFILE=$p_OF  
 #    echo "  The options file:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #    break  
 #fi  
 #   done  
587      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
588          cat 1>&2 <<EOF          cat 1>&2 <<EOF
589    
# Line 215  Error: No options file was found in:  $R Line 599  Error: No options file was found in:  $R
599  EOF  EOF
600          exit 1          exit 1
601      fi      fi
602        
603  #     # look for possible MPI libraries  #     # look for possible MPI libraries
604  #     mpi_libs=  #     mpi_libs=
605  #     mpi_fort=`which mpif77 2>/dev/null`  #     mpi_fort=`which mpif77 2>/dev/null`
# Line 234  EOF Line 618  EOF
618  #       if test "x${RETVAL}" = x0 ; then  #       if test "x${RETVAL}" = x0 ; then
619  #           a=`cat out`  #           a=`cat out`
620  #           for i in $a ; do  #           for i in $a ; do
621  #               case $i in  #               case $i in
622  #                   -*)  #                   -*)
623  #                       mpi_libs="$mpi_libs $i" ;;  #                       mpi_libs="$mpi_libs $i" ;;
624  #               esac  #               esac
# Line 244  EOF Line 628  EOF
628  #       fi  #       fi
629  #       rm -f test.f out  #       rm -f test.f out
630  #     fi  #     fi
   
631  }  }
632    
633  #  Parse the package dependency information  #  Parse the package dependency information
# Line 253  get_pdepend_list()  { Line 636  get_pdepend_list()  {
636      #  strip the comments and then convert the dependency file into      #  strip the comments and then convert the dependency file into
637      #  two arrays: PNAME, DNAME      #  two arrays: PNAME, DNAME
638      cat $1 | sed -e 's/#.*$//g' \      cat $1 | sed -e 's/#.*$//g' \
639          | $AWK 'BEGIN{nn=0;} (NF>0){ for(i=2;i<=NF;i++){nn++; print "PNAME["nn"]="$1"\nDNAME["nn"]="$i} }' \          | $AWK 'BEGIN{nn=-1;} (NF>0){ for(i=2;i<=NF;i++){nn++; print "PNAME_"nn"="$1"\nDNAME_"nn"="$i}} END{print "nname="nn}' \
640          > ./.pd_tmp          > ./.pd_tmp
641        RETVAL=$?
642        if test ! "x${RETVAL}" = x0 ; then
643          echo "Error: unable to parse package dependencies -- please check PKG_DEPEND=\"$1\""
644          exit 1
645        fi
646      . ./.pd_tmp      . ./.pd_tmp
647      rm -f ./.pd_tmp      rm -f ./.pd_tmp
   
     printf "PNAME = "${}  
 }  
   
   
 #  Explain usage  
 usage()  {  
 cat <<EOF  
   
 Usage: "$0" [OPTIONS]  
   where [OPTIONS] can be:  
   
     -help | --help | -h | --h  
           Print this help message and exit.  
   
     -nooptfile | --nooptfile  
       -optfile NAME | --optfile NAME | -of NAME | --of NAME  
       -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME  
           Use "NAME" as the optfile.  By default, an attempt will be  
           made to find an appropriate "standard" optfile in the  
           tools/build_options/ directory.  
   
     -pdepend NAME | --pdepend NAME  
       -pdepend=NAME | --pdepend=NAME  
           Get package dependency information from "NAME".  
   
     -pdefault NAME | --pdefault NAME  
       -pdefault=NAME | --pdefault=NAME  
           Get the default package list from "NAME".  
   
     -make NAME | -m NAME  
       --make=NAME | -m=NAME  
           Use "NAME" for the MAKE program. The default is "make" but  
           many platforms, "gmake" is the preferred choice.  
   
     -makefile NAME | -mf NAME  
       --makefile=NAME | -mf=NAME  
           Call the makefile "NAME".  The default is "Makefile".  
   
     -makedepend NAME | -md NAME  
       --makedepend=NAME | -md=NAME  
           Use "NAME" for the MAKEDEPEND program.  
   
     -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME  
       -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME  
           Specify the location of the MITgcm ROOTDIR as "NAME".  
           By default, genamke will try to find the location by  
           looking in parent directories (up to the 5th parent).  
   
     -mods NAME | --mods NAME | -mo NAME | --mo NAME  
       -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME  
           Here, "NAME" specifies a list of directories that are  
           used for additional source code.  Files found in the  
           "mods list" are given preference over files of the same  
           name found elsewhere.  
   
     -disable NAME | --disable NAME  
       -disable=NAME | --disable=NAME  
           Here "NAME" specifies a list of packages that we don't  
           want to use.  If this violates package dependencies,  
           genamke will exit with an error message.  
   
     -enable NAME | --enable NAME  
       -enable=NAME | --enable=NAME  
           Here "NAME" specifies a list of packages that we wish  
           to specifically enable.  If this violates package  
           dependencies, genamke will exit with an error message.  
   
     -standarddirs NAME | --standarddirs NAME  
       -standarddirs=NAME | --standarddirs=NAME  
           Here, "NAME" specifies a list of directories to be  
           used as the "standard" code.  
   
     -fortran NAME | --fortran NAME | -fc NAME | --fc NAME  
       -fc=NAME | --fc=NAME  
           Use "NAME" as the fortran compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as g77, f77, etc.  
   
     -[no]ieee | --[no]ieee  
           Do or don't use IEEE numerics.  Note that this option  
           *only* works if it is supported by the OPTFILE that  
           is being used.  
   
     -mpi | --mpi  
           Include MPI header files and link to MPI libraries  
     -mpi=PATH | --mpi=PATH  
           Include MPI header files and link to MPI libraries using MPI_ROOT  
           set to PATH. i.e. Include files from $PATH/include, link to libraries  
           from $PATH/lib and use binaries from $PATH/bin.  
   
     -bash NAME  
           Explicitly specify the Bourne or BASH shell to use  
   
   While it is most often a single word, the "NAME" variables specified  
   above can in many cases be a space-delimited string such as:  
   
     --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'  
     -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'  
     -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'  
   
   which, depending upon your shell, may need to be single-quoted.  
   
   For more detailed genmake documentation, please see:  
   
     http://mitgcm.org/devel_HOWTO/  
   
 EOF  
   
     exit 1  
648  }  }
649    
650  #  Build a CPP macro to automate calling C routines from FORTRAN  #  Build a CPP macro to automate calling C routines from FORTRAN
651  get_fortran_c_namemangling()  {  get_fortran_c_namemangling()  {
652    
653        #echo "FC_NAMEMANGLE = \"$FC_NAMEMANGLE\""
654        if test ! "x$FC_NAMEMANGLE" = x ; then
655            return 0
656        fi
657        echo " running: get_fortran_c_namemangling()" >> $LOGFILE
658    
659      default_nm="#define FC_NAMEMANGLE(X) X ## _"      default_nm="#define FC_NAMEMANGLE(X) X ## _"
660        
661      cat > genmake_test.c <<EOF      cat > genmake_test.c <<EOF
662  void tcall( char * string ) { tsub( string ); }  void tcall( char * string ) { tsub( string ); }
663  EOF  EOF
664      $MAKE genmake_test.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_test.c"
665        echo ' '$COMM >> $LOGFILE
666        $COMM >> $LOGFILE 2>&1
667      RETVAL=$?      RETVAL=$?
668      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
669          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
670          cat <<EOF>> genmake_errors          cat <<EOF>> $LOGFILE
671    
672  WARNING: C test compile fails   WARNING: C test compile fails
673  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
674  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
675  EOF  EOF
676          return 1          return 1
677      fi      fi
678      c_tcall=`nm genmake_test.o | grep 'T ' | grep tcall | cut -d ' ' -f 3`      c_tcall=`nm genmake_test.o 2>/dev/null | grep 'T ' | grep tcall | cut -d ' ' -f 3`
679      RETVAL=$?      RETVAL=$?
680      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
681          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
682          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
683    
684  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
685  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
686  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
687  EOF  EOF
688          return 1          return 1
689      fi      fi
690      cat > genmake_tcomp.f <<EOF      cat > genmake_tcomp.$FS <<EOF
691        subroutine tcall( string )        subroutine tcall( string )
692        character*(*) string        character*(*) string
693        call tsub( string )        call tsub( string )
694        end        end
695  EOF  EOF
696      $FC $FFLAGS $DEFINES -c genmake_tcomp.f >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -c genmake_tcomp.$FS"
697        echo ' '$COMM >> $LOGFILE
698        $COMM >> $LOGFILE 2>&1
699      RETVAL=$?      RETVAL=$?
700      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
701          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
702          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
703    
704  WARNING: FORTRAN test compile fails -- please see "genmake_errors"   WARNING: FORTRAN test compile fails -- please see '$LOGFILE'
705  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
706  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
707  EOF  EOF
708          return 1          return 1
709      fi      fi
710      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`
711      RETVAL=$?      RETVAL=$?
712      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
713          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
714          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
715    
716  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
717  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
718  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
719  EOF  EOF
720          return 1          return 1
721      fi      fi
# Line 452  EOF Line 741  EOF
741    
742      #  cleanup the testing files      #  cleanup the testing files
743      rm -f genmake_tcomp.* genmake_test.*      rm -f genmake_tcomp.* genmake_test.*
 }  
744    
745        echo " --> set FC_NAMEMANGLE='$FC_NAMEMANGLE'" >> $LOGFILE
746    }
747    
748  check_HAVE_CLOC()  {  check_HAVE_CLOC()  {
749        echo >> $LOGFILE
750        echo "running: check_HAVE_CLOC()" >> $LOGFILE
751      get_fortran_c_namemangling      get_fortran_c_namemangling
752      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
753  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 472  void FC_NAMEMANGLE(cloc) ( double *curti Line 764  void FC_NAMEMANGLE(cloc) ( double *curti
764   *curtim = *curtim/1.E6;   *curtim = *curtim/1.E6;
765  }  }
766  EOF  EOF
767      make genmake_tc_1.o >> genmake_tc.log 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
768        echo $COMM >> $LOGFILE
769        $COMM >> $LOGFILE 2>&1
770      RET_C=$?      RET_C=$?
771      cat <<EOF > genmake_tc_2.f      cat <<EOF > genmake_tc_2.$FS
772        program hello        program hello
773        Real*8 wtime        REAL*8 wtime
774        external cloc        external cloc
775        call cloc(wtime)        call cloc(wtime)
776        print *," HELLO WORLD", wtime        print *," HELLO WORLD", wtime
777        end program hello        end
778  EOF  EOF
779      $FC $FFLAGS -o genmake_tc genmake_tc_2.f genmake_tc_1.o >> genmake_tc.log 2>&1      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
780        echo $COMM >> $LOGFILE
781        $COMM >> $LOGFILE 2>&1
782      RET_F=$?      RET_F=$?
783      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_tc.log 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> $LOGFILE 2>&1
784      RETVAL=$?      RETVAL=$?
785      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
786          HAVE_CLOC=t          HAVE_CLOC=t
787          DEFINES="$DEFINES -DHAVE_CLOC"          DEFINES="$DEFINES -DHAVE_CLOC"
788      fi      fi
789      rm -f genmake_tc*      rm -f genmake_tc*
790        echo " --> set HAVE_CLOC='$HAVE_CLOC'" >> $LOGFILE
791    }
792    
793    check_HAVE_SIGREG()  {
794        if test ! "x$HAVE_SIGREG" = x ; then
795            return
796        fi
797        echo >> $LOGFILE
798        echo "running: check_HAVE_SIGREG()" >> $LOGFILE
799        get_fortran_c_namemangling
800        cat <<EOF > genmake_tc_1.c
801    $FC_NAMEMANGLE
802    #include <stdlib.h>
803    #include <stdio.h>
804    #include <signal.h>
805    #include <errno.h>
806    #include <ucontext.h>
807    
808    int * ip;
809    
810    static void killhandler(
811        unsigned int sn, siginfo_t  si, struct ucontext *sc )
812    {
813        *ip = *ip + 1;
814        return;
815    }
816    
817    void FC_NAMEMANGLE(sigreg) (int * aip)
818    {
819        struct sigaction s;
820        ip = aip;
821        s.sa_flags = SA_SIGINFO;
822        s.sa_sigaction = (void *)killhandler;
823        if(sigaction (SIGTERM,&s,(struct sigaction *)NULL)) {
824            printf("Sigaction returned error = %d\n", errno);
825            exit(0);
826        }
827        return;
828    }
829    EOF
830        COMM="$CC $CFLAGS -c genmake_tc_1.c"
831        echo $COMM >> $LOGFILE
832        $COMM >> $LOGFILE 2>&1
833        RET_C=$?
834        cat <<EOF > genmake_tc_2.$FS
835          program hello
836          integer anint
837          common /iv/ anint
838          external sigreg
839          call sigreg(anint)
840          end
841    EOF
842        cat genmake_tc_2.$FS >> $LOGFILE
843        COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
844        echo $COMM >> $LOGFILE
845        $COMM >> $LOGFILE 2>&1
846        RETVAL=$?
847        if test "x$RETVAL" = x0 ; then
848            HAVE_SIGREG=t
849            DEFINES="$DEFINES -DHAVE_SIGREG"
850        fi
851        rm -f genmake_tc*
852        echo " --> set HAVE_SIGREG='$HAVE_SIGREG'" >> $LOGFILE
853    }
854    
855    check_HAVE_SETRLSTK()  {
856        if test "x$HAVE_SETRLSTK" = xt ; then
857            DEFINES="$DEFINES -DHAVE_SETRLSTK"
858            return
859        fi  
860        if test ! "x$HAVE_SETRLSTK" = x ; then
861            return
862        fi
863        echo >> $LOGFILE
864        echo "running: check_HAVE_SETRLSTK()" >> $LOGFILE
865        get_fortran_c_namemangling
866        cat <<EOF > genmake_tc_1.c
867    $FC_NAMEMANGLE
868    #include <sys/time.h>
869    #include <sys/resource.h>
870    #include <unistd.h>
871    void FC_NAMEMANGLE(setrlstk) ()
872    {
873        struct rlimit rls;
874        rls.rlim_cur = RLIM_INFINITY;
875        rls.rlim_max = RLIM_INFINITY;
876        setrlimit(RLIMIT_STACK, &rls);
877        return;
878    }
879    EOF
880        COMM="$CC $CFLAGS -c genmake_tc_1.c"
881        echo $COMM >> $LOGFILE
882        $COMM >> $LOGFILE 2>&1
883        RET_C=$?
884        cat <<EOF > genmake_tc_2.$FS
885          program hello
886          external setrlstk
887          call setrlstk()
888          end
889    EOF
890        cat genmake_tc_2.$FS >> $LOGFILE
891        COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
892        echo $COMM >> $LOGFILE
893        $COMM >> $LOGFILE 2>&1
894        RETVAL=$?
895        if test "x$RETVAL" = x0 ; then
896            HAVE_SETRLSTK=t
897            DEFINES="$DEFINES -DHAVE_SETRLSTK"
898        fi
899        rm -f genmake_tc*
900        echo " --> set HAVE_SETRLSTK='$HAVE_SETRLSTK'" >> $LOGFILE
901  }  }
902    
903    check_HAVE_STAT()  {
904        echo >> $LOGFILE
905        echo "running: check_HAVE_STAT()" >> $LOGFILE
906        get_fortran_c_namemangling
907        cat <<EOF > genmake_tc_1.c
908    $FC_NAMEMANGLE
909    #include <stdio.h>
910    #include <stdlib.h>
911    #include <unistd.h>
912    #include <sys/stat.h>
913    #include <sys/types.h>
914    void FC_NAMEMANGLE(tfsize) ( int *nbyte )
915    {
916        char name[512];
917        struct stat astat;
918    
919        name[0] = 'a'; name[1] = '\0';
920        if (! stat(name, &astat))
921            *nbyte = (int)(astat.st_size);
922        else
923            *nbyte = -1;
924    }
925    EOF
926        COMM="$CC $CFLAGS -c genmake_tc_1.c"
927        echo $COMM >> $LOGFILE
928        $COMM >> genmake_tc.log 2>&1
929        RET_C=$?
930        cat <<EOF > genmake_tc_2.$FS
931          program hello
932          integer nbyte
933          call tfsize(nbyte)
934          print *," HELLO WORLD", nbyte
935          end
936    EOF
937        cat genmake_tc_2.$FS >> $LOGFILE
938        COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
939        echo $COMM >> $LOGFILE
940        $COMM >> genmake_tc.log 2>&1
941        RETVAL=$?
942        if test "x$RETVAL" = x0 ; then
943            HAVE_STAT=t
944            DEFINES="$DEFINES -DHAVE_STAT"
945        fi
946        rm -f genmake_tc*
947        echo " --> set HAVE_STAT='$HAVE_STAT'" >> $LOGFILE
948    }
949    
950  check_netcdf_libs()  {  check_netcdf_libs()  {
951        if test ! "x$SKIP_NETCDF_CHECK" = x ; then
952            return
953        fi
954        echo >> $LOGFILE
955        echo "running: check_netcdf_libs()" >> $LOGFILE
956      cat <<EOF > genmake_tnc.F      cat <<EOF > genmake_tnc.F
957        program fgennc        program fgennc
958  #include "netcdf.inc"  #include "netcdf.inc"
959    EOF
960        if test ! "x$MPI" = x ; then
961            echo '#include "mpif.h"' >> genmake_tnc.F
962        fi
963        cat <<EOF >> genmake_tnc.F
964        integer iret, ncid, xid        integer iret, ncid, xid
965        iret = nf_create('genmake_tnc.nc', NF_CLOBBER, ncid)        iret = nf_create('genmake_tnc.nc', NF_CLOBBER, ncid)
966        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
# Line 507  check_netcdf_libs()  { Line 970  check_netcdf_libs()  {
970        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
971        end        end
972  EOF  EOF
973      $CPP genmake_tnc.F > genmake_tnc.f  \      echo "===  genmake_tnc.F  >>>" > genmake_tnc.log
974          &&  $FC $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.f $LIBS >> genmake_tnc.log 2>&1      cat genmake_tnc.F >> genmake_tnc.log
975        echo "<<<  genmake_tnc.F  ===" >> genmake_tnc.log
976        RET_CPP=f
977        COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"
978        echo "$COMM" >> genmake_tnc.log
979        eval $COMM > genmake_tnc.$FS 2>/dev/null  &&  RET_CPP=t
980        if test "x$RET_CPP" = xf ; then
981            echo "  WARNING: CPP failed to pre-process the netcdf test." \
982                >> genmake_tnc.log
983            echo "    Please check that \$INCLUDES is properly set." \
984                >> genmake_tnc.log
985        fi
986        echo "$FC $FFLAGS $FOPTIM -c genmake_tnc.$FS  \ " >> genmake_tnc.log
987        echo "  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc.o $LIBS" >> genmake_tnc.log
988        $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
989            &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1
990      RET_COMPILE=$?      RET_COMPILE=$?
991      test -x ./genmake_tnc  &&  ./genmake_tnc >> genmake_tnc.log 2>&1      cat genmake_tnc.log >> $LOGFILE
992      RETVAL=$?  
993      if test "x$RET_COMPILE" = x0 -a "x$RETVAL" = x0 ; then      #EH3  Remove test program execution for machines that either disallow
994        #EH3  execution or cannot support it (eg. cross-compilers)
995        #EH3
996        #EH3 test -x ./genmake_tnc  &&  ./genmake_tnc >> genmake_tnc.log 2>&1
997        #EH3 RETVAL=$?
998        #EH3 if test "x$RET_COMPILE" = x0 -a "x$RETVAL" = x0 ; then
999    
1000        if test "x$RET_COMPILE" = x0 ; then
1001          HAVE_NETCDF=t          HAVE_NETCDF=t
1002            echo "check_netcdf: successful" >> $LOGFILE
1003      else      else
1004          # try again with "-lnetcdf" added to the libs          # try again with "-lnetcdf" added to the libs
1005          $CPP genmake_tnc.F > genmake_tnc.f  \          echo "==> try again with added '-lnetcdf'" > genmake_tnc.log
1006              &&  $FC $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.f \          echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1007              $LIBS -lnetcdf >> genmake_tnc_2.log 2>&1          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1008            echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
1009            cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
1010                &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1011                &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1
1012          RET_COMPILE=$?          RET_COMPILE=$?
1013          test -x ./genmake_tnc  &&  ./genmake_tnc >> genmake_tnc.log 2>&1          echo >> $LOGFILE
1014          RETVAL=$?          cat genmake_tnc.log >> $LOGFILE
1015          if test "x$RET_COMPILE" = x0 -a "x$RETVAL" = x0 ; then          if test "x$RET_COMPILE" = x0 ; then
1016              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
1017              HAVE_NETCDF=t              HAVE_NETCDF=t
1018                echo "check_netcdf: successful" >> $LOGFILE
1019          else          else
1020              cat genmake_tnc.log >> genmake_warnings          # try again with "-lnetcdff" added to the libs
1021                echo "==> try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
1022                echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1023                echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1024                echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
1025                cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
1026                    &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1027                    &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
1028                RET_COMPILE=$?
1029                echo >> $LOGFILE
1030                cat genmake_tnc.log >> $LOGFILE
1031                if test "x$RET_COMPILE" = x0 ; then
1032                    LIBS="$LIBS -lnetcdff -lnetcdf"
1033                    HAVE_NETCDF=t
1034                    echo "check_netcdf: successful" >> $LOGFILE
1035                fi
1036          fi          fi
1037      fi      fi
1038      rm -f genmake_tnc*      rm -f genmake_tnc*
1039        echo " --> set HAVE_NETCDF='$HAVE_NETCDF'" >> $LOGFILE
1040  }  }
1041    
1042    
   
1043  ###############################################################################  ###############################################################################
1044  #   Sequential part of script starts here  #   Sequential part of script starts here
1045  ###############################################################################  ###############################################################################
# Line 545  PLATFORM= Line 1051  PLATFORM=
1051  LN=  LN=
1052  S64=  S64=
1053  KPP=  KPP=
1054  FC=  #FC=
1055  CPP=  #CC=gcc
1056    #CPP=
1057  LINK=  LINK=
1058  DEFINES=  DEFINES=
1059  PACKAGES=  PACKAGES=
1060  ENABLE=  ENABLE=
1061  DISABLE=  DISABLE=
1062  MAKEFILE=  # MAKEFILE=
1063  MAKEDEPEND=  # MAKEDEPEND=
1064  PDEPEND=  PKG_DEPEND=
1065  DUMPSTATE=t  PKG_GROUPS=
1066  PDEFAULT=  DUMPSTATE=f
1067  OPTFILE=  OPTFILE=
1068  INCLUDES="-I."  INCLUDES="-I. $INCLUDES"
1069  FFLAGS=  FFLAGS=
1070  FOPTIM=  FOPTIM=
1071    FEXTRAFLAGS=
1072    USE_EXTENDED_SRC=
1073    EXTENDED_SRC_FLAG=
1074    GET_FC_VERSION=
1075  CFLAGS=  CFLAGS=
1076  KFLAGS1=  KFLAGS1=
1077  KFLAGS2=  KFLAGS2=
# Line 571  NOOPTFILES= Line 1082  NOOPTFILES=
1082  NOOPTFLAGS=  NOOPTFLAGS=
1083  MPI=  MPI=
1084  MPIPATH=  MPIPATH=
1085    OMP=
1086    OMPFLAG=
1087    USE_R4=
1088    TS=
1089    PAPIS=
1090    PCLS=
1091    FOOLAD=
1092    PAPI=
1093    PCL=
1094    HPMT=
1095    GSL=
1096    DEVEL=
1097    HAVE_TEST_L=
1098    
1099  # DEFINES checked by test compilation  # DEFINES checked by test compilation or command-line
1100  HAVE_SYSTEM=  HAVE_SYSTEM=
1101  HAVE_FDATE=  HAVE_FDATE=
1102  FC_NAMEMANGLE=  FC_NAMEMANGLE=
1103  HAVE_CLOC=  HAVE_CLOC=
1104    # HAVE_SETRLSTK=
1105    HAVE_STAT=
1106  HAVE_NETCDF=  HAVE_NETCDF=
1107    HAVE_ETIME=
1108    IGNORE_TIME=
1109    
1110  MODS=  MODS=
1111  TOOLSDIR=  TOOLSDIR=
# Line 585  SOURCEDIRS= Line 1113  SOURCEDIRS=
1113  INCLUDEDIRS=  INCLUDEDIRS=
1114  STANDARDDIRS="USE_THE_DEFAULT"  STANDARDDIRS="USE_THE_DEFAULT"
1115    
1116    G2ARGS=
1117  BASH=  BASH=
1118  PWD=`pwd`  PWD=`pwd`
1119  MAKE=make  test "x$MAKE" = x  &&  MAKE=make
1120  AWK=awk  test "x$AWK" = x   &&  AWK=awk
1121  THISHOSTNAME=`hostname`  EMBED_SRC=
1122    THISHOST=`hostname`
1123  THISCWD=`pwd`  THISCWD=`pwd`
1124  THISDATE=`date`  THISDATE=`date`
1125    THISUSER=`echo $USER`
1126    THISVER=
1127  MACHINE=`uname -a`  MACHINE=`uname -a`
1128  EXECUTABLE=  EXECUTABLE=
1129  EXEHOOK=  EXEHOOK=
# Line 601  IEEE= Line 1133  IEEE=
1133  if test "x$MITGCM_IEEE" != x ; then  if test "x$MITGCM_IEEE" != x ; then
1134      IEEE=$MITGCM_IEEE      IEEE=$MITGCM_IEEE
1135  fi  fi
1136    FS=
1137    FS90=
1138    
1139  AUTODIFF_PKG_USED=f  AUTODIFF_PKG_USED=f
1140  AD_OPTFILE=  AD_OPTFILE=
# Line 615  FTL_TAF_FLAGS= Line 1149  FTL_TAF_FLAGS=
1149  SVD_TAMC_FLAGS=  SVD_TAMC_FLAGS=
1150  TAMC_EXTRA=  TAMC_EXTRA=
1151    
   
1152  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1153  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"  gm_s1="OPTFILE PKG_DEPEND PKG_GROUPS MAKEFILE MAKEDEPEND PLATFORM ROOTDIR MODS DISABLE ENABLE"
1154  gm_s2="FC CPP IEEE MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="FC CC USE_R4 TS PAPIS PCLS PAPI PCL HPMT IEEE DEVEL GSL MPI OMP DUMPSTATE STANDARDDIRS"
1155    
1156  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1157  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM "  gm_s3="LN S64 LINK MAKE PACKAGES INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"
1158  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s4="CFLAGS LIBS KPP KFLAGS1 KFLAGS2 KPPFILES NOOPTFILES NOOPTFLAGS"
1159  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOSTNAME THISDATE MACHINE"  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD THISHOST THISUSER THISDATE THISVER MACHINE"
1160  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"
1161  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE"  gm_s7="FC_NAMEMANGLE HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME"
1162    
1163  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1164  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 639  cat <<EOF Line 1172  cat <<EOF
1172    
1173  GENMAKE :  GENMAKE :
1174    
1175  A program for GENerating MAKEfiles for the MITgcm project.  For a  A program for GENerating MAKEfiles for the MITgcm project.
1176  quick list of options, use "genmake -h" or for more detail see:     For a quick list of options, use "genmake2 -h"
1177    or for more detail see the Developer's HOWTO manual at:
1178    http://mitgcm.org/devel_HOWTO/     http://mitgcm.org/public/docs.html
1179    
1180  EOF  EOF
1181    
1182    LOGFILE="genmake.log"
1183    #- clean-up previous genmake logfiles:
1184    rm -f genmake_state genmake_*optfile $LOGFILE
1185    
1186  echo "===  Processing options files and arguments  ==="  echo "===  Processing options files and arguments  ==="
1187  gm_local="genmake_local"  gm_local="genmake_local"
 for i in . $MODS ; do  
     if test -r $i/$gm_local ; then  
         . $i/$gm_local  
         break  
     fi  
 done  
1188  printf "  getting local config information:  "  printf "  getting local config information:  "
1189  if test -e $gm_local ; then  if test -f $gm_local ; then
1190      echo "using $gm_local"      echo "using $gm_local"
1191      . $gm_local      . $gm_local
1192      # echo "DISABLE=$DISABLE"      # echo "DISABLE=$DISABLE"
# Line 664  else Line 1195  else
1195      echo "none found"      echo "none found"
1196  fi  fi
1197    
1198  #  echo "$0::$1:$2:$3:$4:$5:$6:$7:"  #echo "$0::$1:$2:$3:$4:$5:$6:$7:"
 #OPTIONS=  
 #n=0  
 #for i ; do  
 #   echo "$i  $n"  
 #   setvar="OPTIONS[$n]='$i'"  
 #   #  echo "  $setvar"  
 #   eval "$setvar"  
 #   n=$(( $n + 1 ))  
 #done  
1199  #parse_options  #parse_options
1200  ac_prev=  ac_prev=
1201  for ac_option ; do  for ac_option in "$@" ; do
1202    
1203        G2ARGS="$G2ARGS \"$ac_option\""
1204    
1205      # If the previous option needs an argument, assign it.      # If the previous option needs an argument, assign it.
1206      if test -n "$ac_prev"; then      if test -n "$ac_prev"; then
# Line 684  for ac_option ; do Line 1208  for ac_option ; do
1208          ac_prev=          ac_prev=
1209          continue          continue
1210      fi      fi
1211        
1212      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`
1213        
1214      case $ac_option in      case $ac_option in
1215                    
1216          -help | --help | -h | --h)          -help | --help | -h | --h)
# Line 705  for ac_option ; do Line 1229  for ac_option ; do
1229              AD_OPTFILE=$ac_optarg ;;              AD_OPTFILE=$ac_optarg ;;
1230                    
1231          -pdepend | --pdepend)          -pdepend | --pdepend)
1232              ac_prev=PDEPEND ;;              ac_prev=PKG_DEPEND ;;
1233          -pdepend=* | --pdepend=*)          -pdepend=* | --pdepend=*)
1234              PDEPEND=$ac_optarg ;;              PKG_DEPEND=$ac_optarg ;;
1235                    
1236          -pdefault | --pdefault)          -pgroups | --pgroups)
1237              ac_prev=PDEFAULT ;;              ac_prev=PKG_GROUPS ;;
1238          -pdefault=* | --pdefault=*)          -pgroups=* | --pgroups=*)
1239              PDEFAULT=$ac_optarg ;;              PKG_GROUPS=$ac_optarg ;;
1240                    
1241          -make | --make | -m | --m)          -make | --make | -m | --m)
1242              ac_prev=MAKE ;;              ac_prev=MAKE ;;
# Line 770  for ac_option ; do Line 1294  for ac_option ; do
1294  #               ac_prev=cpp ;;  #               ac_prev=cpp ;;
1295  #           -cpp=* | --cpp=*)  #           -cpp=* | --cpp=*)
1296  #               CPP=$ac_optarg ;;  #               CPP=$ac_optarg ;;
1297                        
1298            -cc | --cc)
1299                ac_prev=CC ;;
1300            -cc=* | --cc=*)
1301                CC=$ac_optarg ;;
1302            
1303          -fortran | --fortran | -fc | --fc)          -fortran | --fortran | -fc | --fc)
1304              ac_prev=FC ;;              ac_prev=FC ;;
1305          -fc=* | --fc=*)          -fc=* | --fc=*)
1306              FC=$ac_optarg ;;              FC=$ac_optarg ;;
1307                    
1308            -fs | --fs)
1309                ac_prev=FS ;;
1310            -fs=* | --fs=*)
1311                FS=$ac_optarg ;;
1312            
1313            -fs90 | --fs90)
1314                ac_prev=FS90 ;;
1315            -fs90=* | --fs90=*)
1316                FS90=$ac_optarg ;;
1317            
1318            -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
1319                USE_R4=true ;;
1320    
1321          -ieee | --ieee)          -ieee | --ieee)
1322              IEEE=true ;;              IEEE=true ;;
1323          -noieee | --noieee)          -noieee | --noieee)
1324              IEEE= ;;              echo "Warning: ignore option '$ac_option' (default is already without '-ieee')" ;;
1325            -devel | --devel)
1326                IEEE=true ; DEVEL=true ;;
1327            -gsl | --gsl)
1328                GSL=true ;;
1329    
1330            -ts | --ts)
1331                TS=true ;;
1332            -papis | --papis)
1333                PAPIS=true ;;
1334            -pcls | --pcls)
1335                PCLS=true ;;
1336            -foolad | --foolad)
1337                FOOLAD=true ;;
1338            -papi | --papi)
1339                PAPI=true ;;
1340            -pcl | --pcl)
1341                PCL=true ;;
1342            -hpmt | --hpmt)
1343                HPMT=true ;;
1344    
1345          -mpi | --mpi)          -mpi | --mpi)
1346              MPI=true ;;              MPI=true ;;
# Line 787  for ac_option ; do Line 1348  for ac_option ; do
1348              MPIPATH=$ac_optarg              MPIPATH=$ac_optarg
1349              MPI=true ;;              MPI=true ;;
1350                    
1351  #       -jam | --jam)          -omp | --omp)
1352  #           JAM=1 ;;              OMP=true ;;
1353  #       -nojam | --nojam)          -omp=* | --omp=*)
1354  #           JAM=0 ;;              OMPFLAG=$ac_optarg
1355                OMP=true ;;
1356                    
1357          -ds | --ds)          -ds | --ds)
1358              DUMPSTATE=t ;;              DUMPSTATE=t ;;
# Line 804  for ac_option ; do Line 1366  for ac_option ; do
1366              ac_prev=TAMC_EXTRA ;;              ac_prev=TAMC_EXTRA ;;
1367          -tamc_extra=* | --tamc_extra=*)          -tamc_extra=* | --tamc_extra=*)
1368              TAMC_EXTRA=$ac_optarg ;;              TAMC_EXTRA=$ac_optarg ;;
1369            
1370            -ignoretime | -ignore_time | --ignoretime | --ignore_time)
1371                IGNORE_TIME="-DIGNORE_TIME" ;;
1372    
1373            -es | --es | -embed-source | --embed-source)
1374                EMBED_SRC=t ;;
1375    
1376          -*)          -*)
1377              echo "Error: unrecognized option: "$ac_option              echo "Error: unrecognized option: "$ac_option
# Line 816  for ac_option ; do Line 1384  for ac_option ; do
1384              ;;              ;;
1385                    
1386      esac      esac
1387        
1388  done  done
1389    
1390  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1391      echo      echo
1392      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
1393      echo "  file.  This file format is no longer supported.  Please see:"      echo "  file.  This file format is no longer supported.  For directions on"
1394      echo      echo "  how to setup and use the new \"genmake2\" script, please see:"
1395      echo "    http://mitgcm.org/devel_HOWTO/"      echo "    http://mitgcm.org/public/devel_HOWTO/"
1396        echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
1397        echo "WARNING: ignore \"./.genmakerc\" and continue."
1398      echo      echo
     echo "  for directions on how to setup and use the new \"genmake2\" input"  
     echo "  files and send an email to MITgcm-support@mitgcm.org if you want help."  
     echo  
1399  fi  fi
1400    
1401    #  Find the MITgcm ${ROOTDIR}
1402  if test "x${ROOTDIR}" = x ; then  if test "x${ROOTDIR}" = x ; then
1403      if test "${PWD##/*/}" = "bin" -a -d ../model -a -d ../eesup -a -d ../pkg ; then      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
1404        if test "x$tmp" = "xbin" -a -d ../model -a -d ../eesupp -a -d ../pkg ; then
1405          ROOTDIR=".."          ROOTDIR=".."
1406      else      else
1407          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do
1408              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then
1409                  ROOTDIR=$d                  ROOTDIR=$d
1410                  printf "Warning:  ROOTDIR was not specified but there appears to be"                  printf "Warning: ROOTDIR was not specified ;"
1411                  echo " a copy of MITgcm at \"$ROOTDIR\" so we'll try it."                  echo " try using a local copy of MITgcm found at \"$ROOTDIR\""
1412                  break                  break
1413              fi              fi
1414          done          done
# Line 856  if test ! -d ${ROOTDIR} ; then Line 1425  if test ! -d ${ROOTDIR} ; then
1425      exit 1      exit 1
1426  fi  fi
1427    
1428    #  Find the MITgcm ${THISVER}
1429    version_file="${ROOTDIR}/doc/tag-index"
1430    if test -f $version_file ; then
1431        THISVER=`$AWK '/^checkpoint/{print $1; exit}' $version_file`
1432    #-  remove ./BUILD_INFO.h file if older than version_file
1433        if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
1434            echo "  remove ./BUILD_INFO.h (older than ${version_file})"
1435            rm -f ./BUILD_INFO.h
1436        fi
1437    fi
1438    
1439    if test "x$MAKEFILE" = x ; then
1440        MAKEFILE="Makefile"
1441    fi
1442    
1443  echo "  getting OPTFILE information:  "  echo "  getting OPTFILE information:  "
1444  if test "x${OPTFILE}" = x ; then  if test "x${OPTFILE}" = x ; then
1445      if test "x$MITGCM_OF" = x ; then      if test "x$MITGCM_OF" = x ; then
1446          echo "Warning: no OPTFILE specified so we'll look for possible settings"          echo "Warning: no OPTFILE specified so we'll look for possible settings"
1447          printf "\n===  Searching for possible settings for OPTFILE  ===\n"          printf "\n===  Searching for possible settings for OPTFILE  ===\n"
1448          find_possible_configs          find_possible_optfile
1449      else      else
1450          OPTFILE=$MITGCM_OF          OPTFILE=$MITGCM_OF
1451      fi      fi
# Line 876  if test "x$OPTFILE" != xNONE ; then Line 1460  if test "x$OPTFILE" != xNONE ; then
1460              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1461              exit 1              exit 1
1462          fi          fi
1463          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1464              cp -f $OPTFILE "genmake_optfile"              cp -f $OPTFILE "genmake_optfile"
1465          fi          fi
1466      else      else
# Line 903  if test "x${AD_OPTFILE}" != xNONE ; then Line 1487  if test "x${AD_OPTFILE}" != xNONE ; then
1487              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1488              exit 1              exit 1
1489          fi          fi
1490          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1491              cp -f $AD_OPTFILE "genmake_ad_optfile"              cp -f $AD_OPTFILE "genmake_ad_optfile"
1492          fi          fi
1493      else      else
# Line 912  if test "x${AD_OPTFILE}" != xNONE ; then Line 1496  if test "x${AD_OPTFILE}" != xNONE ; then
1496      fi      fi
1497  fi  fi
1498    
1499  #  Check that FC, LINK, CPP, S64, LN, and MAKE are defined.  If not,  #====================================================================
1500    #  Set default values if not set by the optfile
1501    #
1502    #  Check that FC, CC, LINK, CPP, S64, LN, and MAKE are defined.  If not,
1503  #  either set defaults or complain and abort!  #  either set defaults or complain and abort!
1504  if test ! "x$BASH" = x ; then  if test ! "x$BASH" = x ; then
1505      # add a trailing space so that it works within the Makefile syntax (see below)      # add a trailing space so that it works within the Makefile syntax (see below)
# Line 928  Error: no Fortran compiler: please speci Line 1515  Error: no Fortran compiler: please speci
1515  EOF  EOF
1516      exit 1      exit 1
1517  fi  fi
1518    if test "x$GET_FC_VERSION" != x ; then
1519      echo "Get compiler version using: $FC $GET_FC_VERSION" >> $LOGFILE
1520      $FC $GET_FC_VERSION >> $LOGFILE 2>&1
1521      echo "<-- compiler version ----" >> $LOGFILE
1522    fi
1523    
1524    if test "x$CC" = x ; then
1525        look_for_C_compilers
1526    fi
1527    
1528  if test "x$LINK" = x ; then  if test "x$LINK" = x ; then
1529      LINK=$FC      LINK=$FC
1530  fi  fi
# Line 935  if test "x$MAKE" = x ; then Line 1532  if test "x$MAKE" = x ; then
1532      MAKE="make"      MAKE="make"
1533  fi  fi
1534  if test "x$CPP" = x ; then  if test "x$CPP" = x ; then
1535      CPP=cpp      CPP="cpp -traditional -P"
1536  fi  fi
1537  #EH3 === UGLY ===  #EH3 === UGLY ===
1538  #  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
1539  #  should eventually be replaced with a more general function that  #  it should eventually be replaced with a more general function that
1540  #  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"
1541  #  to find the correct location for binaries such as $CPP.  #  to find the correct location for binaries such as $CPP.
1542  for i in " " "/lib/" ; do  for i in " " "/lib/" ; do
# Line 962  EOF Line 1559  EOF
1559  else  else
1560      rm -f test_cpp      rm -f test_cpp
1561  fi  fi
1562  if test "x$MAKEDEPEND" = x ; then  
1563      MAKEDEPEND=makedepend  look_for_makedepend
1564  fi  
1565    #  Check that soft-link command is set and usable
1566  if test "x$LN" = x ; then  if test "x$LN" = x ; then
1567      LN="ln -s"      LN="ln -s"
1568  fi  fi
# Line 974  RETVAL=$? Line 1572  RETVAL=$?
1572  if test "x$RETVAL" != x0 ; then  if test "x$RETVAL" != x0 ; then
1573      cat <<EOF 1>&2      cat <<EOF 1>&2
1574    
1575  Error: The command "ln -s" failed -- please specify a working soft-link  Error: The command "$LN" failed -- please specify a working soft-link
1576    command in the optfile.    command in the optfile.
1577    
1578  EOF  EOF
1579      exit 1      exit 1
1580  fi  fi
1581    test -L genmake_tlink > /dev/null 2>&1
1582    RETVAL=$?
1583    if test "x$RETVAL" = x0 ; then
1584        HAVE_TEST_L=t
1585    fi
1586  rm -f genmake_test_ln genmake_tlink  rm -f genmake_test_ln genmake_tlink
1587    
1588    #  Check for broken *.F/*.f handling and fix if possible
1589    check_for_broken_Ff
1590    
1591  if test ! "x$MPI" = x ; then  if test ! "x$MPI" = x ; then
1592        echo "  Turning on MPI cpp macros"        echo "  Turning on MPI cpp macros"
1593        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"
1594  fi  fi
1595    if test ! "x$OMP" = x ; then
1596          echo "  Add OMPFLAG and turn on OpenMP cpp macros"
1597          FFLAGS="$FFLAGS $OMPFLAG"
1598          F90FLAGS="$F90FLAGS $OMPFLAG"
1599          DEFINES="$DEFINES -DUSE_OMP_THREADING"
1600    fi
1601    
1602    if test ! "x$USE_R4" = x ; then
1603          echo "  Turning on LET_RS_BE_REAL4 cpp flag"
1604          DEFINES="$DEFINES -DLET_RS_BE_REAL4"
1605    fi
1606    
1607    if test ! "x$TS" = x ; then
1608          echo "  Turning on timing per timestep"
1609          if test ! "x$FOOLAD" = x ; then
1610                DEFINES="$DEFINES -DTIME_PER_TIMESTEP_SFP"
1611          else
1612                DEFINES="$DEFINES -DTIME_PER_TIMESTEP"
1613          fi
1614          PACKAGES="$PACKAGES showflops"
1615    fi
1616    if test ! "x$PAPIS" = x ; then
1617          echo "  Turning on PAPI flop summary per timestep"
1618          echo "  Please make sure PAPIINC, PAPILIB are defined"
1619          if test ! "x$FOOLAD" = x ; then
1620                DEFINES="$DEFINES -DUSE_PAPI_FLOPS_SFP"
1621          else
1622                DEFINES="$DEFINES -DUSE_PAPI_FLOPS"
1623          fi
1624          INCLUDES="$INCLUDES $PAPIINC"
1625          LIBS="$LIBS $PAPILIB"
1626          PACKAGES="$PACKAGES showflops"
1627    fi
1628    if test ! "x$PCLS" = x ; then
1629          echo "  Turning on PCL counter summary per timestep"
1630          echo "  Please make sure PCLINC, PCLLIB are defined"
1631          if test ! "x$FOOLAD" = x ; then
1632                DEFINES="$DEFINES -DUSE_PCL_FLOPS_SFP"
1633          else
1634                DEFINES="$DEFINES -DUSE_PCL_FLOPS"
1635          fi
1636          INCLUDES="$INCLUDES $PCLINC"
1637          LIBS="$LIBS $PCLLIB"
1638          PACKAGES="$PACKAGES showflops"
1639    fi
1640    if test ! "x$PAPI" = x ; then
1641          if test ! "x$PAPIS" = x ; then
1642              echo "  PAPI performance analysis and flop summary per timestep cannot co-exist!"
1643              echo "  Sticking with PAPI flop summary per timestep!"
1644          else
1645              echo "  Turning on performance analysis with PAPI"
1646              echo "  Please make sure PAPIINC, PAPILIB are defined"
1647              DEFINES="$DEFINES -DUSE_PAPI"
1648              INCLUDES="$INCLUDES $PAPIINC"
1649              LIBS="$LIBS $PAPILIB"
1650          fi
1651    fi
1652    if test ! "x$PCL" = x ; then
1653          if test ! "x$PCLS" = x ; then
1654              echo "  PCL performance analysis and flop summary per timestep cannot co-exist!"
1655              echo "  Sticking with PCL flop summary per timestep!"
1656          else
1657              echo "  Turning on performance analysis with PCL"
1658              echo "  Please make sure PCLINC, PCLLIB are defined"
1659              DEFINES="$DEFINES -DUSE_PCL"
1660              INCLUDES="$INCLUDES $PCLINC"
1661              LIBS="$LIBS $PCLLIB"
1662          fi
1663    fi
1664    if test ! "x$HPMT" = x ; then
1665          if test ! "x$PAPI" = x ; then
1666              echo "  PAPI and the HPM Toolkit cannot co-exist!"
1667              echo "  Sticking with PAPI!"
1668          else if test ! "x$PCL" = x ; then
1669              echo "  PCL and the HPM Toolkit cannot co-exist!"
1670              echo "  Sticking with PCL!"
1671          else
1672              echo "  Turning on performance analysis with the HPM Toolkit"
1673              echo "  Please make sure HPMTINC, HPMTLIB are defined"
1674              DEFINES="$DEFINES -DUSE_LIBHPM"
1675              INCLUDES="$INCLUDES $HPMTINC"
1676              LIBS="$LIBS $HPMTLIB"
1677          fi
1678          fi
1679    fi
1680    if test ! "x$GSL" = x ; then
1681          echo "  Turning on use of GSL to control floating point calculations"
1682          echo "  Please make sure GSLINC, GSLLIB are defined"
1683          DEFINES="$DEFINES -DUSE_GSL_IEEE"
1684          INCLUDES="$INCLUDES $GSLINC"
1685          LIBS="$LIBS $GSLLIB"
1686    fi
1687    #- if USE_EXTENDED_SRC is set, add EXTENDED_SRC_FLAG to FFLAGS :
1688    if test ! "x$USE_EXTENDED_SRC" = x ; then
1689          FFLAGS="$FFLAGS $EXTENDED_SRC_FLAG"
1690          F90FIXEDFORMAT="$F90FIXEDFORMAT $EXTENDED_SRC_FLAG"
1691    fi
1692    
1693  printf "\n===  Checking system libraries  ===\n"  printf "\n===  Checking system libraries  ===\n"
1694  printf "  Do we have the system() command using $FC...  "  printf "  Do we have the system() command using $FC...  "
1695  cat > genmake_tcomp.f <<EOF  cat > genmake_tcomp.$FS <<EOF
1696        program hello        program hello
1697        call system('echo hi')        call system('echo hi')
1698        end        end
1699  EOF  EOF
1700  $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
1701  RETVAL=$?  RETVAL=$?
1702  if test "x$RETVAL" = x0 ; then  if test "x$RETVAL" = x0 ; then
1703      HAVE_SYSTEM=t      HAVE_SYSTEM=t
# Line 1007  fi Line 1710  fi
1710  rm -f genmake_tcomp*  rm -f genmake_tcomp*
1711    
1712  printf "  Do we have the fdate() command using $FC...  "  printf "  Do we have the fdate() command using $FC...  "
1713  cat > genmake_tcomp.f <<EOF  cat > genmake_tcomp.$FS <<EOF
1714        program hello        program hello
1715        CHARACTER(128) string        CHARACTER*(128) string
1716        string = ' '        string = ' '
1717        call fdate( string )        call fdate( string )
1718        print *, string        print *, string
1719        end        end
1720  EOF  EOF
1721  $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
1722  RETVAL=$?  RETVAL=$?
1723  if test "x$RETVAL" = x0 ; then  if test "x$RETVAL" = x0 ; then
1724      HAVE_FDATE=t      HAVE_FDATE=t
# Line 1027  else Line 1730  else
1730  fi  fi
1731  rm -f genmake_tcomp*  rm -f genmake_tcomp*
1732    
1733  printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "  printf "  Do we have the etime() command using $FC...  "
1734  check_HAVE_CLOC  cat > genmake_tcomp.$FS <<EOF
1735  if test "x$HAVE_CLOC" != x ; then        program hello
1736          REAL*4 ACTUAL, TARRAY(2)
1737          EXTERNAL ETIME
1738          REAL*4 ETIME
1739          actual = etime( tarray )
1740          print *, tarray
1741          end
1742    EOF
1743    $FC $FFLAGS -o genmake_tcomp genmake_tcomp.$FS > genmake_tcomp.log 2>&1
1744    RETVAL=$?
1745    if test "x$RETVAL" = x0 ; then
1746        HAVE_ETIME=t
1747        DEFINES="$DEFINES -DHAVE_ETIME"
1748        echo "yes"
1749    else
1750        HAVE_ETIME=
1751        echo "no"
1752    fi
1753    rm -f genmake_tcomp*
1754    
1755    printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "
1756    check_HAVE_CLOC
1757    if test "x$HAVE_CLOC" != x ; then
1758        echo "yes"
1759    else
1760        echo "no"
1761        if test "x$EMBED_SRC" = xt ; then
1762            echo "    WARNING: you requested file embedding but it has"
1763            echo "      been disabled since C code cannot be called"
1764            EMBED_SRC=
1765        fi
1766    fi
1767    rm -f genmake_t*
1768    
1769    printf "  Can we unlimit the stack size using $FC...  "
1770    check_HAVE_SETRLSTK
1771    if test "x$HAVE_SETRLSTK" = xt ; then
1772        echo "yes"
1773    else
1774        echo "no"
1775    fi
1776    rm -f genmake_t*
1777    
1778    printf "  Can we register a signal handler using $FC...  "
1779    check_HAVE_SIGREG
1780    if test "x$HAVE_SIGREG" = xt ; then
1781        echo "yes"
1782    else
1783        echo "no"
1784    fi
1785    rm -f genmake_t*
1786    
1787    printf "  Can we use stat() through C calls...  "
1788    check_HAVE_STAT
1789    if test "x$HAVE_STAT" != x ; then
1790      echo "yes"      echo "yes"
1791  else  else
1792      echo "no"      echo "no"
# Line 1043  if test "x$HAVE_NETCDF" != x ; then Line 1800  if test "x$HAVE_NETCDF" != x ; then
1800  else  else
1801      echo "no"      echo "no"
1802  fi  fi
1803    DEFINES="$DEFINES $IGNORE_TIME"
1804    
1805    if test "x$EMBED_SRC" = xt ; then
1806        build_embed_encode
1807    fi
1808    if test "x$EMBED_SRC" = xt ; then
1809        ENABLE="$ENABLE embed_files"
1810    fi
1811    
1812  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
1813  printf "  Adding MODS directories:  "  printf "  Adding MODS directories: "
1814  for d in $MODS ; do  for d in $MODS ; do
1815      if test ! -d $d ; then      if test ! -d $d ; then
1816          echo          echo
1817          echo "Error: MODS directory \"$d\" not found!"          echo "Error: MODS directory \"$d\" not found!"
1818          exit 1          exit 1
1819      else      else
1820          printf " $d"          printf "$d "
1821          SOURCEDIRS="$SOURCEDIRS $d"          SOURCEDIRS="$SOURCEDIRS $d"
1822          INCLUDEDIRS="$INCLUDEDIRS $d"          INCLUDEDIRS="$INCLUDEDIRS $d"
1823      fi      fi
1824  done  done
1825  echo  echo
1826    
1827  if test "x$MAKEFILE" = x ; then  #if test "x${PLATFORM}" = x ; then
1828      MAKEFILE="Makefile"  #    PLATFORM=$p_PLATFORM
1829  fi  #fi
 if test "x${PLATFORM}" = x ; then  
     PLATFORM=$p_PLATFORM  
 fi  
1830    
1831  if test "x${EXEDIR}" = x ; then  if test "x${EXEDIR}" = x ; then
1832      if test "${PWD##/*/}" = "bin" -a -d ../exe -a $ROOTDIR = .. ; then      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
1833        if test "x$tmp" = "xbin" -a -d ../exe -a $ROOTDIR = .. ; then
1834          EXEDIR=../exe          EXEDIR=../exe
1835      else      else
1836          EXEDIR=.          EXEDIR=.
# Line 1087  if test ! -d ${TOOLSDIR} ; then Line 1849  if test ! -d ${TOOLSDIR} ; then
1849      exit 1      exit 1
1850  fi  fi
1851  if test "x$S64" = x ; then  if test "x$S64" = x ; then
1852      S64='$(TOOLSDIR)/set64bitConst.sh'      echo "3.0 _d 3" | ${TOOLSDIR}/set64bitConst.sh > /dev/null 2>&1
1853        RETVAL=$?
1854        if test "x${RETVAL}" = x0 ; then
1855            S64='$(TOOLSDIR)/set64bitConst.sh'
1856        else
1857            echo "3.0 _d 3" | ${TOOLSDIR}/set64bitConst.csh > /dev/null 2>&1
1858            RETVAL=$?
1859            if test "x${RETVAL}" = x0 ; then
1860                S64='$(TOOLSDIR)/set64bitConst.csh'
1861            else
1862                cat <<EOF
1863    
1864    ERROR: neither of the two default scripts:
1865    
1866        ${TOOLSDIR}/set64bitConst.sh
1867        ${TOOLSDIR}/set64bitConst.csh
1868    
1869      are working so please check paths or specify (with \$S64) a
1870      working version of this script.
1871    
1872    EOF
1873                exit 1
1874            fi
1875        fi
1876  fi  fi
1877  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSDIR':\$(TOOLSDIR):'`  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSDIR':\$(TOOLSDIR):'`
1878    
1879  EXECUTABLE=${EXECUTABLE:-mitgcmuv}  EXECUTABLE=${EXECUTABLE:-mitgcmuv}
1880    
1881    #  Set Standard Code Directories:
1882    if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then
1883        STANDARDDIRS="eesupp model"
1884    fi
1885    #  if model in Standard-Code-Dir, add eesupp (needed to compile model)
1886    echo " $STANDARDDIRS " | grep ' model ' > /dev/null 2>&1
1887    ckM=$?
1888    echo " $STANDARDDIRS " | grep ' eesupp ' > /dev/null 2>&1
1889    ckE=$?
1890    if test $ckM = 0 -a $ckE = 1 ; then
1891        STANDARDDIRS="$STANDARDDIRS eesupp"
1892    fi
1893    
1894  #  We have a special set of source files in eesupp/src which are  #  We have a special set of source files in eesupp/src which are
1895  #  generated from some template source files. We'll make them first so  #  generated from some template source files. We'll make them first so
1896  #  they appear as regular source code  #  they appear as regular source code
1897  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then
1898      echo "  Making source files in eesupp from templates"      echo "  Making source files in eesupp from templates"
1899      ( cd $ROOTDIR"/eesupp/src/" && $MAKE ) > make_eesupp.errors 2>&1      ( cd $ROOTDIR"/eesupp/src/" && $MAKE clean_old && $MAKE \
1900        ) > make_eesupp.errors 2>&1
1901      RETVAL=$?      RETVAL=$?
1902      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
1903          rm -f make_eesupp.errors          rm -f make_eesupp.errors
# Line 1109  if test -r $ROOTDIR"/eesupp/src/Makefile Line 1908  if test -r $ROOTDIR"/eesupp/src/Makefile
1908      fi      fi
1909  fi  fi
1910    
1911  #same for exch2  #same for pkg/exch2 and pkg/regrid
1912  if test -r $ROOTDIR"/pkg/exch2/Makefile" ; then  for pdir in exch2 regrid ; do
1913      echo "  Making source files in exch2 from  templates"      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then
1914      ( cd $ROOTDIR"/pkg/exch2/" && $MAKE ) > make_exch2.errors 2>&1          echo "  Making source files in pkg/${pdir} from templates"
1915      RETVAL=$?          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE clean_old && $MAKE \
1916      if test "x${RETVAL}" = x0 ; then          ) > make_${pdir}.errors 2>&1
1917          rm -f make_exch2.errors          RETVAL=$?
1918      else          if test "x${RETVAL}" = x0 ; then
1919          echo "Error: problem encountered while building source files in exch2:"              rm -f make_${pdir}.errors
1920          cat make_exch2.errors 1>&2          else
1921          exit 1              echo "Error: problem encountered while building source files in pkg/${pdir}:"
1922                cat make_${pdir}.errors 1>&2
1923                exit 1
1924            fi
1925      fi      fi
1926  fi  done
1927    
1928  printf "\n===  Determining package settings  ===\n"  printf "\n===  Determining package settings  ===\n"
1929  if  test "x${PDEPEND}" = x ; then  if  test "x${PKG_DEPEND}" = x ; then
1930      tmp=$ROOTDIR"/pkg/pkg_depend"      tmp=$ROOTDIR"/pkg/pkg_depend"
1931      if test -r $tmp ; then      if test -r $tmp ; then PKG_DEPEND=$tmp ; fi
1932          PDEPEND=$tmp  fi
1933      else  if  test "x${PKG_DEPEND}" = x ; then
1934          echo "Warning:  No package dependency information was specified."          echo "Warning:  No package dependency information was specified."
1935          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."
     fi  
1936  else  else
1937      if test ! -r ${PDEPEND} ; then      if test ! -r ${PKG_DEPEND} ; then
1938          echo "Error:  can't read package dependency info from PDEPEND=\"$PDEPEND\""          echo "Error:  can't read package dependency info from PKG_DEPEND=\"$PKG_DEPEND\""
1939          exit 1          exit 1
1940      fi      fi
1941        echo "  getting package dependency info from  $PKG_DEPEND"
1942    #  Strip the comments and then convert the dependency file into arrays: PNAME, DNAME
1943        get_pdepend_list $PKG_DEPEND
1944  fi  fi
1945  echo "  getting package dependency info from  $PDEPEND"  
1946  #  Strip the comments and then convert the dependency file into  # A default package groups file "$ROOTDIR/pkg/pkg_groups" is provided
1947  #  two arrays: PNAME, DNAME  #  to define the "default_pkg_list" and package groups (for convenience, one
1948  cat $PDEPEND | sed -e 's/#.*$//g' \  #  can specify a group of packages using names like "ocean" and "atmosphere").
1949      | $AWK 'BEGIN{nn=-1;} (NF>0){ for(i=2;i<=NF;i++){nn++; print "PNAME_"nn"="$1"\nDNAME_"nn"="$i}} END{print "nname="nn}' \  if test "x${PKG_GROUPS}" = x ; then
1950      > ./.pd_tmp      tmp=$ROOTDIR"/pkg/pkg_groups"
1951  RETVAL=$?      if test -r $tmp ; then PKG_GROUPS=$tmp ; fi
1952  if test ! "x${RETVAL}" = x0 ; then  fi
1953      echo "Error: unable to parse package dependencies -- please check PDEPEND=\"$PDEPEND\""  if test "x${PKG_GROUPS}" = x ; then
1954      exit 1          echo "Warning:  No package groups information was specified."
1955            echo "  Please check that ROOTDIR/pkg/pkg_groups exists."
1956    else
1957        if test ! -r ${PKG_GROUPS} ; then
1958            echo "Error:  can't read package groups info from PKG_GROUPS=\"$PKG_GROUPS\""
1959            exit 1
1960        fi
1961        echo "  getting package groups info from      $PKG_GROUPS"
1962  fi  fi
 . ./.pd_tmp  
 rm -f ./.pd_tmp  
1963    
1964  #  Search for default packages.  Note that a "$ROOTDIR/pkg/pkg_groups"  #  Search for packages to compile.
1965  #  file should eventually be added so that, for convenience, one can  echo "  checking list of packages to compile:"
1966  #  specify groups of packages using names like "ocean" and "atmosphere".  PKG_LIST=
1967  echo "  checking default package list:  "  if test "x${PKG_LIST}" = x ; then
 if test "x${PDEFAULT}" = x ; then  
1968      for i in "." $MODS ; do      for i in "." $MODS ; do
1969          if test -r $i"/packages.conf" ; then          if test -r $i"/packages.conf" ; then
1970                  PDEFAULT=$i"/packages.conf"                  PKG_LIST=$i"/packages.conf"
1971                  break                  break
1972          fi          fi
1973      done      done
1974  fi  fi
1975  if test "x${PDEFAULT}" = x ; then  if test "x${PKG_LIST}" = x ; then
1976      PDEFAULT="$ROOTDIR/pkg/pkg_default"      pkg_list='default_pkg_list'
1977  fi      if test "x${PKG_GROUPS}" = x ; then
1978  if test "x${PDEFAULT}" = xNONE ; then          echo "Error:  need package groups info to expand pkg_list=\"$pkg_list\""
1979      echo "    default packages file disabled"          exit 1
1980        fi
1981  else  else
1982      if test ! -r $PDEFAULT ; then      if test ! -r $PKG_LIST ; then
1983          echo "Warning:  can't read default packages from PDEFAULT=\"$PDEFAULT\""          echo "Error:  can't read package list from PKG_LIST=\"$PKG_LIST\""
1984            exit 1
1985      else      else
1986          echo "    using PDEFAULT=\"$PDEFAULT\""          echo "    using PKG_LIST=\"$PKG_LIST\""
1987          #  Strip the comments and add all the names          #  Strip the comments and add all the names
1988          def=`cat $PDEFAULT | sed -e 's/#.*$//g' | $AWK '(NF>0){print $0}'`          pkg_list=`cat $PKG_LIST | sed -e 's/#.*$//g' | $AWK '(NF>0){print $0}'`
1989          RETVAL=$?          RETVAL=$?
1990          if test "x${RETVAL}" != x0 ; then          if test "x${RETVAL}" != x0 ; then
1991              printf "Error: can't parse default package list "              printf "Error: can't parse package list "
1992              echo "-- please check PDEFAULT=\"$PDEFAULT\""              echo "-- please check PKG_LIST=\"$PKG_LIST\""
1993              exit 1              exit 1
1994          fi          fi
         for i in $def ; do  
             PACKAGES="$PACKAGES $i"  
         done  
         echo "    before group expansion packages are: $PACKAGES"  
         expand_pkg_groups  
         echo "    after group expansion packages are:  $PACKAGES"  
1995      fi      fi
1996  fi  fi
1997    for i in $pkg_list ; do
1998        PACKAGES="$PACKAGES $i"
1999    done
2000    echo     "    before group expansion packages are:$PACKAGES"
2001    if test "x${PKG_GROUPS}" != x ; then
2002        RET=1
2003        while test $RET = 1 ; do expand_pkg_groups; RET=$?; done
2004        echo "    after group expansion packages are: $PACKAGES"
2005    fi
2006    
2007  echo "  applying DISABLE settings"  echo "  applying DISABLE settings"
2008    echo "" > ./.tmp_pack
2009    for i in $PACKAGES ; do
2010        echo $i >> ./.tmp_pack
2011    done
2012    for i in `grep  "-" ./.tmp_pack` ; do
2013        j=`echo $i | sed 's/[-]//'`
2014        DISABLE="$DISABLE $j"
2015    done
2016  pack=  pack=
2017  for p in $PACKAGES ; do  for p in $PACKAGES ; do
2018      addit="t"      addit="t"
# Line 1208  PACKAGES="$pack" Line 2029  PACKAGES="$pack"
2029  echo "  applying ENABLE settings"  echo "  applying ENABLE settings"
2030  echo "" > ./.tmp_pack  echo "" > ./.tmp_pack
2031  PACKAGES="$PACKAGES $ENABLE"  PACKAGES="$PACKAGES $ENABLE"
2032    # Test if each explicitly referenced package exists
2033  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2034      if test ! -d "$ROOTDIR/pkg/$i" ; then      j=`echo $i | sed 's/[-+]//'`
2035          echo "Error: can't find package $i at \"$ROOTDIR/pkg/$i\""      if test ! -d "$ROOTDIR/pkg/$j" ; then
2036          exit 1          echo "Error: dir '$ROOTDIR/pkg/$i' missing for package '$i'"
2037            exit 1
2038      fi      fi
2039      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
2040  done  done
 pack=`cat ./.tmp_pack | sort | uniq`  
 rm -f ./.tmp_pack  
2041  PACKAGES=  PACKAGES=
2042  for i in $pack ; do  for i in `grep -v "-" ./.tmp_pack | sort | uniq` ; do
2043      PACKAGES="$PACKAGES $i"      PACKAGES="$PACKAGES $i"
2044  done  done
2045  echo "    packages are:  $PACKAGES"  rm -f ./.tmp_pack
2046    echo "    packages are: $PACKAGES"
2047    
2048    #  Check for package MNC: if NetCDF is available, then build the MNC
2049    #  template files ; otherwise, delete mnc from the list of packages.
2050    echo " $PACKAGES " | grep ' mnc ' > /dev/null 2>&1
2051    mnc_in=$?
2052    if test "x$HAVE_NETCDF" != xt ; then
2053        if test "x$mnc_in" = x0 ; then
2054            cat <<EOF
2055    *********************************************************************
2056    WARNING: the "mnc" package was enabled but tests failed to compile
2057      NetCDF applications.  Please check that:
2058    
2059      1) NetCDF is correctly installed for this compiler and
2060      2) the LIBS variable (within the "optfile") specifies the correct
2061           NetCDF library to link against.
2062    
2063      Due to this failure, the "mnc" package is now DISABLED.
2064    *********************************************************************
2065    EOF
2066            PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`
2067            DISABLE="$DISABLE mnc"
2068        else
2069        #  this prevent to add mnc (due to pdepend rules) if not available
2070            DISABLE="$DISABLE mnc"
2071        fi
2072    else
2073        # we have NetCDF, we try to build MNC template files
2074        ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1
2075        RETVAL=$?
2076        if test "x${RETVAL}" = x0 ; then
2077            rm -f make_mnc.errors
2078        else
2079            echo "Error: problem encountered while building source files in pkg/mnc:"
2080            cat make_mnc.errors 1>&2
2081            if test "x$mnc_in" = x0 ; then
2082                exit 1
2083            else
2084                DISABLE="$DISABLE mnc"
2085            fi
2086        fi
2087    fi
2088    
2089    #  Check for package PROFILES: if NetCDF is not available,
2090    #  then delete profiles from the list of available packages.
2091    if test "x$HAVE_NETCDF" != xt ; then
2092        echo " $PACKAGES " | grep ' profiles ' > /dev/null 2>&1
2093        RETVAL=$?
2094        if test "x$RETVAL" = x0 ; then
2095            cat <<EOF
2096    *********************************************************************
2097    WARNING: the "profiles" package was enabled but tests failed to
2098      compile NetCDF applications.  Please check that:
2099    
2100  echo "  applying package dependency rules"    1) NetCDF is correctly installed for this compiler and
2101  ck=    2) the LIBS variable (within the "optfile") specifies the correct
2102  while test "x$ck" != xtt ; do         NetCDF library to link against.
2103    
2104      Due to this failure, the "profiles" package is now DISABLED.
2105    *********************************************************************
2106    EOF
2107            PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
2108            DISABLE="$DISABLE profiles"
2109        else
2110        #  this prevent to add profiles (due to pdepend rules) if not available
2111            DISABLE="$DISABLE profiles"
2112        fi
2113    fi
2114    
2115    if  test "x${PKG_DEPEND}" != x ; then
2116      echo "  applying package dependency rules"
2117      ck=
2118      while test "x$ck" != xtt ; do
2119      i=0      i=0
2120      # rtot=${#PNAME[@]}      # rtot=${#PNAME[@]}
2121      rtot=$nname      rtot=$nname
2122      while test $i -lt $rtot ; do      while test $i -le $rtot ; do
2123    
2124          #  Is $pname in the current $PACKAGES list?          #  Is $pname in the current $PACKAGES list?
2125          #  pname=${PNAME[$i]}          #  pname=${PNAME[$i]}
# Line 1241  while test "x$ck" != xtt ; do Line 2131  while test "x$ck" != xtt ; do
2131                  pin="t"                  pin="t"
2132              fi              fi
2133          done          done
2134            #  or in the current $STANDARDDIRS list?
2135            for p in $STANDARDDIRS ; do
2136                if test "x$p" = "x$pname" ; then pin="t" ; fi
2137            done
2138    
2139          #  Is the DNAME entry a (+) or (-) rule ?          #  Is the DNAME entry a (+) or (-) rule ?
2140          tmp="dname=\"\$DNAME_$i\""          tmp="dname=\"\$DNAME_$i\""
# Line 1263  while test "x$ck" != xtt ; do Line 2157  while test "x$ck" != xtt ; do
2157    
2158          #  Do we need to add $dname according to the dependency rules?          #  Do we need to add $dname according to the dependency rules?
2159          if test "x$pin" = xt -a "x$plus" = "x+" -a "x$din" = xf ; then          if test "x$pin" = xt -a "x$plus" = "x+" -a "x$din" = xf ; then
2160                #echo "   " $pname ": need to add :" $dname
2161              in_dis="f"              in_dis="f"
2162              for dis in $DISABLE ; do              for dis in $DISABLE ; do
2163                  if test "x$dis" = "x$dname" ; then                  if test "x$dis" = "x$dname" ; then
# Line 1283  while test "x$ck" != xtt ; do Line 2178  while test "x$ck" != xtt ; do
2178          #  Do we need to get rid of $dname according to the dependency rules?          #  Do we need to get rid of $dname according to the dependency rules?
2179          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then
2180              echo "Error: can't satisfy package dependencies:"              echo "Error: can't satisfy package dependencies:"
2181              echo "  \"$pname\" was requested but is disallowed by"              echo "  \"$pname\" was requested but is disallowed by"
2182              echo "  the dependency rules for \"$dname\""              echo "  the dependency rules for \"$dname\""
2183              exit 1              exit 1
2184          fi          fi
2185          i=$(( $i + 1 ))          i=`echo "$i + 1" | bc -l`
2186            #i=$(( $i + 1 ))
2187      done      done
2188      ck=$ck"t"      ck=$ck"t"
2189  done    done
2190  echo "    packages are:  $PACKAGES"    echo "    packages are: $PACKAGES"
2191    fi
2192  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2193      adr="$ROOTDIR/pkg/$i"      adr="$ROOTDIR/pkg/$i"
2194      if test -d $adr ; then      if test -d $adr ; then
# Line 1306  for i in $PACKAGES ; do Line 2203  for i in $PACKAGES ; do
2203      fi      fi
2204  done  done
2205    
 #  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  
   
2206  # Create a list of #define and #undef to enable/disable packages  # Create a list of #define and #undef to enable/disable packages
2207  PACKAGES_DOT_H=PACKAGES_CONFIG.h  PACKAGES_DOT_H=PACKAGES_CONFIG.h
2208  #  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
2209  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h
2210  #  file would eventually be split up so that all package-related #define  #  file would eventually be split up so that all package-related #define
2211  #  statements could be separated and handled only by genmake.  #  statements could be separated and handled only by genmake.
2212  names=`ls -1 "$ROOTDIR/pkg"`  names=`ls -1 "$ROOTDIR/pkg"`
# Line 1352  for n in $names ; do Line 2222  for n in $names ; do
2222              fi              fi
2223          done          done
2224          if test "x$has_pack" = xf ; then          if test "x$has_pack" = xf ; then
2225              undef=`echo "ALLOW_$n" | $AWK '{print toupper($0)}'`              undef=`echo "ALLOW_$n" | sed -e 'y/abcdefghijklmnopqrstuvwxyz/ABCDEFGHIJKLMNOPQRSTUVWXYZ/'`
2226              DISABLED_PACKAGES="$DISABLED_PACKAGES -U$undef"              DISABLED_PACKAGES="$DISABLED_PACKAGES -U$undef"
2227          fi          fi
2228      fi      fi
2229  done  done
2230  ENABLED_PACKAGES=  ENABLED_PACKAGES=
2231  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2232      def=`echo "ALLOW_$i" | $AWK '{print toupper($0)}'`      def=`echo "ALLOW_$i" | sed -e 'y/abcdefghijklmnopqrstuvwxyz/ABCDEFGHIJKLMNOPQRSTUVWXYZ/'`
2233      ENABLED_PACKAGES="$ENABLED_PACKAGES -D$def"      ENABLED_PACKAGES="$ENABLED_PACKAGES -D$def"
2234  #eh3 DEFINES="$DEFINES -D$def"  #eh3 DEFINES="$DEFINES -D$def"
2235    
2236  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!
2237      case $i in      case $i in
2238          aim_v23)          aim_v23)
2239              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"
2240              echo "Warning: ALLOW_AIM is set to enable aim_v23."              echo "Warning: ALLOW_AIM is set to enable aim_v23."
# Line 1374  for i in $PACKAGES ; do Line 2244  for i in $PACKAGES ; do
2244    
2245  done  done
2246    
2247  echo "  Adding STANDARDDIRS"  echo "  Adding STANDARDDIRS='$STANDARDDIRS'"
2248  BUILDDIR=${BUILDDIR:-.}  BUILDDIR=${BUILDDIR:-.}
 if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then  
     STANDARDDIRS="eesupp model"  
 fi  
2249  if test "x$STANDARDDIRS" != x ; then  if test "x$STANDARDDIRS" != x ; then
2250      for d in $STANDARDDIRS ; do      for d in $STANDARDDIRS ; do
2251          adr="$ROOTDIR/$d/src"          adr="$ROOTDIR/$d/src"
# Line 1433  fi Line 2300  fi
2300    
2301  #  Here, we build the list of files to be "run through" the adjoint  #  Here, we build the list of files to be "run through" the adjoint
2302  #  compiler.  #  compiler.
2303  if test -f ./ad_files ; then  if test -f ./adSrcFiles.tmp ; then
2304      rm -f ./ad_files      rm -f ./adSrcFiles.tmp
2305  fi  fi
2306  echo "  Creating the list of files for the adjoint compiler."  echo "  Creating the list of files for the adjoint compiler."
2307    touch adSrcFiles.tmp
2308  for i in $SOURCEDIRS ; do  for i in $SOURCEDIRS ; do
2309      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
2310      for j in $list_files ; do      for j in $list_files ; do
2311          cat $i/$j >> ad_files          cat $i/$j >> adSrcFiles.tmp
2312      done      done
2313  done  done
2314    if test ! "x"$FS = "x.f" ; then
2315        cat adSrcFiles.tmp | sed -e "s/\.f/.$FS/g" > adSrcFiles.tmp_f
2316        mv -f adSrcFiles.tmp_f adSrcFiles.tmp
2317    fi
2318    
2319  echo  echo
2320  echo "===  Creating the Makefile  ==="  echo "===  Creating the Makefile  ==="
2321  echo "  setting INCLUDES"  echo "  setting INCLUDES"
2322  for i in $INCLUDEDIRS ; do  for i in $INCLUDEDIRS ; do
2323      if ! test -d $i ; then      if test ! -d $i ; then
 #       INCLUDES="$INCLUDES -I$i"  
 #   else  
2324          echo "Warning: can't find INCLUDEDIRS=\"$i\""          echo "Warning: can't find INCLUDEDIRS=\"$i\""
2325      fi      fi
2326  done  done
2327    
2328    if test ! "x$DIVA" = x ; then
2329        echo "  Creating the pseudo-MPI include directory"
2330        INCLUDES="-I./mpi_headers $INCLUDES"
2331        rm -rf ./mpi_headers
2332        mkdir -p ./mpi_headers
2333    
2334        if test "x$MPIINCLUDEDIR" = x ; then
2335            if test "x$MPIHOME" = x ; then
2336                MPIHOME='/usr'
2337            fi
2338            MPIINCLUDEDIR='$MPIHOME/include'
2339        fi
2340    
2341        if test -r $MPIINCLUDEDIR/mpif.h ; then
2342            for i in $MPI_HEADER_FILES; do
2343                cp -p $MPIINCLUDEDIR/$i ./mpi_headers
2344            done
2345    
2346            perl -i -pe 's/MPI_DISPLACEMENT_CURRENT=-1_8/MPI_DISPLACEMENT_CURRENT=-1/g' mpi_headers/mpif.h
2347        else
2348            echo " We cannot create a copy of mpif.h!"
2349    #       exit -1
2350        fi
2351    fi
2352    
2353  echo "  Determining the list of source and include files"  echo "  Determining the list of source and include files"
2354  rm -rf .links.tmp  rm -rf .links.tmp
2355  mkdir .links.tmp  mkdir .links.tmp
2356    touch .links.tmp/foo
2357    if test ! -r ".links.tmp/foo" ; then
2358        echo
2359        echo "ERROR : something is wrong with your directory permissions or"
2360        echo "   your user file-creation mask (\"umask\") since creating a"
2361        echo "   sub-dir, touch-ing a file within it, and then reading it is"
2362        echo "   not working.  Please try setting your umask to something"
2363        echo "   sane such as:"
2364        echo
2365        echo "      umask 0002"
2366        echo
2367        echo "   and please verify that you have the proper permissions for"
2368        echo "   creating sub-directories and then reading files created"
2369        echo "   within them."
2370        echo
2371        exit 1
2372    fi
2373    rm -f .links.tmp/foo
2374    
2375    if test "x$OPENAD" != x ; then
2376        OAD_DONT_COMPILE="/dev/null"
2377        OAD_DONT_TRANSFORM="/dev/null"
2378        OAD_KEEP_ORIGINAL="/dev/null"
2379        OAD_CB2M_FILES="/dev/null"
2380        echo "  looking for dontCompile file:  "
2381        for i in "." $MODS ; do
2382            if test -r $i"/dontCompile" ; then
2383                OAD_DONT_COMPILE=$i"/dontCompile"
2384                echo "     found $OAD_DONT_COMPILE"
2385                break
2386            fi
2387        done
2388        echo "  looking for dontTransform file:  "
2389        for i in "." $MODS ; do
2390            if test -r $i"/dontTransform" ; then
2391                OAD_DONT_TRANSFORM=$i"/dontTransform"
2392                echo "     found $OAD_DONT_TRANSFORM"
2393                break
2394            fi
2395        done
2396        echo "  looking for keepOriginal file:  "
2397        for i in "." $MODS ; do
2398            if test -r $i"/keepOriginal" ; then
2399                OAD_KEEP_ORIGINAL=$i"/keepOriginal"
2400                echo "     found $OAD_KEEP_ORIGINAL"
2401                break
2402            fi
2403        done
2404        echo "  looking for cb2mFiles:  "
2405        for i in "." $MODS ; do
2406            if test -r $i"/cb2mFiles" ; then
2407                OAD_CB2M_FILES=$i"/cb2mFiles"
2408                echo "     found $OAD_CB2M_FILES"
2409                break
2410            fi
2411        done
2412        echo "   OpenAD exceptions:  "
2413    fi
2414    
2415  echo "# This section creates symbolic links" > srclinks.tmp  echo "# This section creates symbolic links" > srclinks.tmp
2416  echo "" >> srclinks.tmp  echo "" >> srclinks.tmp
2417  printf 'SRCFILES = '    > srclist.inc  printf 'F77_SRC_FILES = ' > F77srclist.tmp
2418  printf 'CSRCFILES = '   > csrclist.inc  printf 'NON_AD_F77_SRC_FILES = ' > nonADF77srclist.tmp
2419  printf 'F90SRCFILES = ' > f90srclist.inc  printf 'C_SRC_FILES = '   > csrclist.tmp
2420  printf 'HEADERFILES = ' > hlist.inc  printf 'F90_SRC_FILES = ' > F90srclist.tmp
2421  printf 'AD_FLOW_FILES = ' > ad_flow_files.inc  printf 'H_SRC_FILES = '   > hsrclist.tmp
2422    printf 'AD_FLOW_FILES = ' > ad_flow_files.tmp
2423  alldirs="$SOURCEDIRS $INCLUDEDIRS ."  alldirs="$SOURCEDIRS $INCLUDEDIRS ."
2424  for d in $alldirs ; do  for d in $alldirs ; do
2425      deplist=      deplist=
2426      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
2427      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
2428        if test "x$OPENAD" != x ; then
2429            sfiles=`( echo $sfiles | grep -v _cb2m\. )`
2430        fi
2431      for sf in $sfiles ; do      for sf in $sfiles ; do
2432          if test ! -r ".links.tmp/$sf" ; then          if test ! -r ".links.tmp/$sf" ; then
2433              if test -f "$d/$sf" ; then              if test -f "$d/$sf" ; then
2434                    ignore_f=f
2435                  case $d/$sf in                  case $d/$sf in
2436                    ./$PACKAGES_DOT_H)                    ./$PACKAGES_DOT_H)
2437                            ignore_f=t
2438                          ;;                          ;;
2439                    ./AD_CONFIG.h)                    ./AD_CONFIG.h)
2440                            ignore_f=t
2441                          ;;                          ;;
2442                    ./FC_NAMEMANGLE.h)                    ./FC_NAMEMANGLE.h)
2443                            ignore_f=t
2444                            ;;
2445                      ./BUILD_INFO.h)
2446                            ignore_f=t
2447                            ;;
2448                      ./EMBEDDED_FILES.h)
2449                            ignore_f=t
2450                          ;;                          ;;
2451                    *)                    *)
2452                          touch .links.tmp/$sf                          #  For the local directory *ONLY*,
2453                          deplist="$deplist $sf"                          #  ignore all soft-links
2454                            if test "x$HAVE_TEST_L" = xt -a "x$d" = x. -a -L $sf ; then
2455                                ignore_f=t
2456                            else
2457                                touch .links.tmp/$sf
2458                                deplist="$deplist $sf"
2459                            fi
2460                          ;;                          ;;
2461                  esac                  esac
2462                  extn=`echo $sf | $AWK -F '.' '{print $NF}'`                  if test "x$ignore_f" = xf ; then
2463                  case $extn in                      extn=`echo $sf | $AWK -F. '{print $NF}'`
2464                      F)                      case $extn in
2465                          echo    " \\"  >> srclist.inc                        F)
2466                          printf " $sf" >> srclist.inc                          echo    " \\"  >> F77srclist.tmp
2467                            printf " $sf" >> F77srclist.tmp
2468                            if test "x$OPENAD" != x ; then
2469                                basename=${sf%%.F}
2470                                isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`
2471                                if test -z "$isAD" ; then
2472                                    toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
2473                                    if test -z "$toBeIgnored" ; then
2474                                        echo    " \\"  >> nonADF77srclist.tmp
2475                                        printf " $sf" >> nonADF77srclist.tmp
2476                                    else
2477                                        echo "    not to be compiled   :  $sf"
2478                                    fi
2479                                else # file is initially listed as an AD file we want to exclude it
2480                                     # or we want to retain the untransformed version
2481                                    notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
2482                                    untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
2483                                    if test -n "$notToBeTransformed"; then
2484                                        echo "    not to be transformed:  $sf"
2485                                    fi
2486                                    if test -n "$untransformedVersionToBeKept" ; then
2487                                        echo "    original to be kept  :  $sf"
2488                                    fi
2489                                    if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
2490                                        echo    " \\"  >> nonADF77srclist.tmp
2491                                        printf " $sf" >> nonADF77srclist.tmp
2492                                    fi
2493                                fi
2494                            fi
2495                          ;;                          ;;
2496                      F90)                      F90)
2497                          echo    " \\"  >> f90srclist.inc                          echo    " \\"  >> F90srclist.tmp
2498                          printf " $sf" >> f90srclist.inc                          printf " $sf" >> F90srclist.tmp
2499                          ;;                          ;;
2500                      c)                      c)
2501                          echo    " \\"  >> csrclist.inc                          echo    " \\"  >> csrclist.tmp
2502                          printf " $sf" >> csrclist.inc                          printf " $sf" >> csrclist.tmp
2503                          ;;                          ;;
2504                      h)                      h)
2505                          echo    " \\"  >> hlist.inc                          echo    " \\"  >> hsrclist.tmp
2506                          printf " $sf" >> hlist.inc                          printf " $sf" >> hsrclist.tmp
2507                          ;;                          ;;
2508                      flow)                      flow)
2509                          echo    " \\"  >> ad_flow_files.inc                          echo    " \\"  >> ad_flow_files.tmp
2510                          printf " $sf" >> ad_flow_files.inc                          printf " $sf" >> ad_flow_files.tmp
2511                          ;;                          ;;
2512                  esac                     esac
2513                    fi
2514              fi              fi
2515          fi          fi
2516      done      done
2517      if test "x$deplist" != x ; then      if test "x$deplist" != x ; then
2518          echo "" >> srclinks.tmp        if test "$d" != "." ; then
2519            echo "" >> srclinks.tmp
2520          echo "#  These files are linked from $d" >> srclinks.tmp          echo "#  These files are linked from $d" >> srclinks.tmp
2521          echo "$deplist :" >> srclinks.tmp          echo "$deplist :" >> srclinks.tmp
2522          printf "\t\$(LN) %s/\$@ \$@\n" $d >> srclinks.tmp  # We need to make sure that the link isn't already there.
2523    # This may happen when make thinks that a header file has to be "remade"
2524    # because a module it depends on has changed.  In this case we do nothing.
2525            printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp
2526          fi
2527      fi      fi
2528  done  done
2529  rm -rf .links.tmp  rm -rf .links.tmp
2530  echo "" >> srclist.inc  echo "" >> F77srclist.tmp
2531  echo "" >> csrclist.inc  echo "" >> nonADF77srclist.tmp
2532  echo "" >> f90srclist.inc  echo "" >> csrclist.tmp
2533  echo "" >> hlist.inc  echo "" >> F90srclist.tmp
2534  echo "" >> ad_flow_files.inc  echo "" >> hsrclist.tmp
2535    echo "" >> ad_flow_files.tmp
2536    
2537    CMDLINE=$0
2538    for xx in "$@" ; do nw=`echo $xx | wc -w`
2539        if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
2540                            else CMDLINE="$CMDLINE '$xx'" ; fi
2541    done
2542    
2543  if test -e $MAKEFILE ; then  if test -f $MAKEFILE ; then
2544      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.old"
2545  fi  fi
2546  echo "  Writing makefile: $MAKEFILE"  echo "  Writing makefile: $MAKEFILE"
2547  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE
# Line 1535  echo "#    $MACHINE" >> $MAKEFILE Line 2549  echo "#    $MACHINE" >> $MAKEFILE
2549  echo "# This makefile was generated automatically on" >> $MAKEFILE  echo "# This makefile was generated automatically on" >> $MAKEFILE
2550  echo "#    $THISDATE" >> $MAKEFILE  echo "#    $THISDATE" >> $MAKEFILE
2551  echo "# by the command:" >> $MAKEFILE  echo "# by the command:" >> $MAKEFILE
2552  echo "#    $0 $@" >> $MAKEFILE  echo "#    $CMDLINE"  >> $MAKEFILE
2553  echo "# executed by:" >> $MAKEFILE  echo "# executed by:" >> $MAKEFILE
2554  echo "#    $USER@${THISHOSTNAME}:${THISCWD}" >> $MAKEFILE  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
2555    
2556  EXE_AD=$EXECUTABLE"_ad"  EXE_AD=$EXECUTABLE"_ad"
2557  EXE_FTL=$EXECUTABLE"_ftl"  EXE_FTL=$EXECUTABLE"_ftl"
# Line 1546  EXE_SVD=$EXECUTABLE"_svd" Line 2560  EXE_SVD=$EXECUTABLE"_svd"
2560  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2561  #  #
2562  # OPTFILE="$OPTFILE"  # OPTFILE="$OPTFILE"
2563  #  #
2564  # BUILDDIR     : Directory where object files are written  # BUILDDIR     : Directory where object files are written
2565  # SOURCEDIRS   : Directories containing the source (.F) files  # SOURCEDIRS   : Directories containing the source (.F) files
2566  # INCLUDEDIRS  : Directories containing the header-source (.h) files  # INCLUDEDIRS  : Directories containing the header-source (.h) files
# Line 1566  cat >>$MAKEFILE <<EOF Line 2580  cat >>$MAKEFILE <<EOF
2580  # LIBS         : Library flags /or/ additional optimization/debugging flags  # LIBS         : Library flags /or/ additional optimization/debugging flags
2581    
2582  ROOTDIR     = ${ROOTDIR}  ROOTDIR     = ${ROOTDIR}
2583  BUILDDIR    = ${BUILDDIR}    BUILDDIR    = ${BUILDDIR}
2584  SOURCEDIRS  = ${SOURCEDIRS}  SOURCEDIRS  = ${SOURCEDIRS}
2585  INCLUDEDIRS = ${INCLUDEDIRS}  INCLUDEDIRS = ${INCLUDEDIRS}
2586  EXEDIR      = ${EXEDIR}  EXEDIR      = ${EXEDIR}
# Line 1583  ENABLED_PACKAGES = ${ENABLED_PACKAGES} Line 2597  ENABLED_PACKAGES = ${ENABLED_PACKAGES}
2597  DISABLED_PACKAGES = ${DISABLED_PACKAGES}  DISABLED_PACKAGES = ${DISABLED_PACKAGES}
2598    
2599  # These files are created by Makefile  # These files are created by Makefile
2600  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
   
2601  EOF  EOF
2602    
2603  #  Note: figure out some way to add Hyades JAM libraries here  if test "x$EMBED_SRC" = xt ; then
2604        echo "EMBEDDED_FILES = EMBEDDED_FILES.h" >>$MAKEFILE
2605    else
2606        echo "EMBEDDED_FILES = " >>$MAKEFILE
2607    fi
2608    
2609  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2610  # Unix ln (link)  # Unix ln (link)
2611  LN = ${LN}  LN = ${LN}
# Line 1602  KPP = ${KPP} Line 2619  KPP = ${KPP}
2619  FC = ${FC}  FC = ${FC}
2620  # Fortran compiler  # Fortran compiler
2621  F90C = ${F90C}  F90C = ${F90C}
2622    # C compiler
2623    CC = ${CC}
2624  # Link editor  # Link editor
2625  LINK = ${LINK} ${LDADD}  LINK = ${LINK} ${LDADD}
2626    
# Line 1613  INCLUDES = ${INCLUDES} Line 2632  INCLUDES = ${INCLUDES}
2632  KFLAGS1 = ${KFLAGS1}  KFLAGS1 = ${KFLAGS1}
2633  KFLAGS2 = ${KFLAGS2}  KFLAGS2 = ${KFLAGS2}
2634  # Optim./debug for FC  # Optim./debug for FC
2635  FFLAGS = ${FFLAGS}  FFLAGS = ${FFLAGS} ${FEXTRAFLAGS}
2636  FOPTIM = ${FOPTIM}  FOPTIM = ${FOPTIM}
2637  # Optim./debug for FC  # Optim./debug for FC
2638  F90FLAGS = ${F90FLAGS}  F90FLAGS = ${F90FLAGS}
2639  F90OPTIM = ${F90OPTIM}  F90OPTIM = ${F90OPTIM}
2640    F90FIXEDFORMAT = ${F90FIXEDFORMAT}
2641  # Flags for CC  # Flags for CC
2642  CFLAGS = ${CFLAGS}  CFLAGS = ${CFLAGS}
2643  # Files that should not be optimized  # Files that should not be optimized
2644  NOOPTFILES = ${NOOPTFILES}  NOOPTFILES = ${NOOPTFILES}
2645  NOOPTFLAGS = ${NOOPTFLAGS}  NOOPTFLAGS = ${NOOPTFLAGS}
2646  # Flags and libraries needed for linking  # Flags and libraries needed for linking
2647  LIBS = ${LIBS} \$(XLIBS)  LIBS = ${LIBS}
2648  # Name of the Mekfile  # Name of the Mekfile
2649  MAKEFILE=${MAKEFILE}  MAKEFILE=${MAKEFILE}
2650    
2651  EOF  EOF
2652    
2653  cat srclist.inc       >> $MAKEFILE  cat F77srclist.tmp      >> $MAKEFILE
2654  cat csrclist.inc      >> $MAKEFILE  cat nonADF77srclist.tmp >> $MAKEFILE
2655  cat f90srclist.inc    >> $MAKEFILE  cat csrclist.tmp        >> $MAKEFILE
2656  cat hlist.inc         >> $MAKEFILE  cat F90srclist.tmp      >> $MAKEFILE
2657  cat ad_flow_files.inc >> $MAKEFILE  cat hsrclist.tmp        >> $MAKEFILE
2658  echo               >> $MAKEFILE  cat ad_flow_files.tmp   >> $MAKEFILE
 echo 'F77FILES =  $(SRCFILES:.F=.f)'                                           >> $MAKEFILE  
 echo 'F90FILES =  $(F90SRCFILES:.F90=.f90)'                                    >> $MAKEFILE  
 echo 'OBJFILES =  $(SRCFILES:.F=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.F90=.o)' >> $MAKEFILE  
2659    
2660  rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc  rm -f F77srclist.tmp nonADF77srclist.tmp csrclist.tmp F90srclist.tmp hsrclist.tmp ad_flow_files.tmp
 rm -f ad_flow_files.inc  
2661    
2662  cat >>$MAKEFILE <<EOF  echo >> $MAKEFILE
2663    
2664  .SUFFIXES:  # add definitions for preprocessed sources
2665  .SUFFIXES: .o .f .p .F .c .F90 .f90  # and note that not all systems allow case sensitive extensions
2666    # hence the $FS and $FS90 here.
2667    # for fixed format f90 files we use ff90 or FF90 resp
2668    # but these are not expected to be the original source files
2669    
2670    echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
2671    echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE
2672    echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE
2673    echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE
2674    echo >> $MAKEFILE
2675    echo '.SUFFIXES:' >> $MAKEFILE
2676    echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE
2677    
2678    cat >>$MAKEFILE <<EOF
2679    
2680  all: \$(EXECUTABLE)  all: \$(EXECUTABLE)
2681  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(OBJFILES)  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(OBJFILES) \$(EMBEDDED_FILES)
2682          @echo Creating \$@ ...          @echo Creating \$@ ...
2683          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
2684  depend:  depend:
2685          @make links          @make links
2686          \$(MAKEDEPEND) -o .f \$(DEFINES) \$(INCLUDES) \$(SRCFILES)          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
2687          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2688            -rm -f makedepend.out
2689    
2690    lib: libmitgcmuv.a
2691    
2692  links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)  libmitgcmuv.a: \$(OBJFILES)
2693            ar rcv libmitgcmuv.a \$(OBJFILES)
2694            ar d   libmitgcmuv.a main.o
2695    
2696  small_f: \$(F77FILES) \$(F90FILES)  links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)
2697    
2698    small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
2699    
2700  output.txt: \$(EXECUTABLE)  output.txt: \$(EXECUTABLE)
2701          @printf 'running ... '          @printf 'running ... '
2702          @\$(EXECUTABLE) > \$@          @\$(EXECUTABLE) > \$@
2703    
2704    # remove most of the files that "make" generates
2705  clean:  clean:
2706          -rm -rf *.o *.f *.p *.f90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2707            -rm -rf *.o
2708            -rm -rf *.$FS *.flowdir
2709            -rm -rf *.f$FS90 \$(AD_CLEAN) ad_input*
2710    
2711    # remove most of the files that "make" and "make depend" generate
2712  Clean:  Clean:
2713          @make clean          @make clean
2714          @make cleanlinks          @make cleanlinks
2715          -rm -f \$(SPECIAL_FILES)          -rm -f \$(SPECIAL_FILES) f90mkdepend.log $MAKEFILE.old
2716          -rm -f genmake_state genmake_*optfile genmake_warnings make.log run.log *.bak          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log
2717            -rm -f genmake_warnings genmake_errors make.log
2718    
2719    # remove also the executable, files that "genmake2" generates (except Makefile)
2720    #         and output from a run (plus log files from testreport)
2721  CLEAN:  CLEAN:
2722          @make Clean          @make Clean
2723            -rm -f \$(EXECUTABLE) \$(EXE_AD) *.bak
2724            -rm -f $LOGFILE genmake_state genmake_*optfile
2725            -rm -f SIZE.h.mpi genmake.tr_log make.tr_log
2726          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
2727          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
2728          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
2729          -rm -f \$(EXECUTABLE) output.txt          -rm -f *.txt STD* *diagnostics.log datetime
2730            -rm -f *_MIT_CE_000.opt0000 costfunction*0000
2731            -rm -rf mnc_test_*
2732    
 #eh3 Makefile: makefile  
2733  makefile:  makefile:
2734          $THIS_SCRIPT $@          $THIS_SCRIPT $G2ARGS
2735  cleanlinks:  cleanlinks:
2736          -find . -type l -exec rm {} \;          -find . -type l -exec rm {} \;
2737    
2738  # Special targets ($SPECIAL_FILES) which are create by make  # Special targets (SPECIAL_FILES) which are created by make
2739  ${PACKAGES_DOT_H}:  ${PACKAGES_DOT_H}:
2740          @echo Creating \$@ ...          @echo Creating \$@ ...
2741          @$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) > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@
# Line 1696  FC_NAMEMANGLE.h: Line 2746  FC_NAMEMANGLE.h:
2746          @echo Creating \$@ ...          @echo Creating \$@ ...
2747          echo "$FC_NAMEMANGLE" > \$@          echo "$FC_NAMEMANGLE" > \$@
2748    
2749  # The normal chain of rules is (  .F - .f - .o  )  BUILD_INFO.h:
2750  .F.f:          @echo Creating \$@ ...
2751    EOF
2752    
2753    test ! "x$THISVER" = x  && echo "       -echo \"#define THISVER '$THISVER'\" > \$@"   >> $MAKEFILE
2754    test ! "x$THISUSER" = x && echo "       -echo \"#define THISUSER '$THISUSER'\" >> \$@" >> $MAKEFILE
2755    test ! "x$THISDATE" = x && echo "       -echo \"#define THISDATE '$THISDATE'\" >> \$@" >> $MAKEFILE
2756    test ! "x$THISHOST" = x && echo "       -echo \"#define THISHOST '$THISHOST'\" >> \$@" >> $MAKEFILE
2757    
2758    if test "x$EMBED_SRC" = xt ; then
2759        cat >>$MAKEFILE <<EOF
2760    
2761    decode_files.o : EMBEDDED_FILES.h
2762    
2763    ##  \$(F77_PP_SRC_FILES)
2764    all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2765            @echo Creating \$@ ...
2766            -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2767            -rm -f all_fF.tar.gz
2768            -gzip all_fF.tar
2769    
2770    EMBEDDED_FILES.h : all_fF.tar.gz
2771            @echo Creating \$@ ...
2772            -\${ROOTDIR}/tools/embed_encode/encode_files EMBEDDED_FILES.h all_fF.tar.gz
2773    
2774    EOF
2775    fi
2776    
2777    cat >>$MAKEFILE <<EOF
2778    
2779    # The normal chain of rules is (  .F - .$FS - .o  )
2780    
2781    ## This nullifies any default implicit rules concerning these two file types:
2782    ## %.o : %.F
2783    
2784    .F.$FS:
2785          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2786  .f.o:  .$FS.o:
2787          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2788  .F90.f90:  .F.o:
2789            \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2790    .F90.$FS90:
2791            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2792    .FF90.f$FS90:
2793          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2794  .f90.o:  .$FS90.o:
2795          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
2796    .f$FS90.o:
2797            cp \$< \$(basename  \$<).f90
2798            \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$(F90FIXEDFORMAT) \$(basename  \$<).f90
2799  .c.o:  .c.o:
2800          \$(CC) \$(CFLAGS) -c \$<          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
2801    .flow.flowdir:
2802            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2803    
2804  # Special exceptions that use the ( .F - .p - .f - .o ) rule-chain  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain
2805  .F.p:  .F.p:
2806          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2807  .p.f:  .p.$FS:
2808          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
2809    
2810    EOF
2811    
2812  #=========================================  #=========================================
2813  #===  Automatic Differentiation Rules  ===  #===  Automatic Differentiation Rules  ===
2814    #===  for TAMC/TAF  ======================
2815    
2816    if test "x$OPENAD" = x ; then
2817    
2818    cat >>$MAKEFILE <<EOF
2819    
2820  TAMC           = ${TAMC}  TAMC           = ${TAMC}
2821  TAF            = ${TAF}  TAF            = ${TAF}
# Line 1730  ad_vars="$ad_vars FTL_TAMC_FLAGS FTL_TAF Line 2830  ad_vars="$ad_vars FTL_TAMC_FLAGS FTL_TAF
2830  ad_vars="$ad_vars SVD_TAMC_FLAGS SVD_TAF_FLAGS"  ad_vars="$ad_vars SVD_TAMC_FLAGS SVD_TAF_FLAGS"
2831  for i in $ad_vars ; do  for i in $ad_vars ; do
2832      name=$i      name=$i
2833      t1="t2=\$"`echo $i`      t1="t2=\$"`echo "$i"`
2834      eval $t1      eval $t1
2835      printf "%-20s = " $name >> $MAKEFILE      printf "%-20s = " $name >> $MAKEFILE
2836      echo $t2 >> $MAKEFILE      echo "$t2" | sed -e 's| \+| |g' >> $MAKEFILE
2837  done  done
2838    
2839  echo "  Add the source list for AD code generation"  echo "  Add the source list for AD code generation"
2840  echo >> $MAKEFILE  echo >> $MAKEFILE
2841  printf "AD_FILES = " >> $MAKEFILE  printf "AD_FILES = " >> $MAKEFILE
2842  AD_FILES=`cat ad_files`  AD_FILES=`cat adSrcFiles.tmp`
2843  for i in $AD_FILES ; do  for i in $AD_FILES ; do
2844      echo    " \\" >> $MAKEFILE      echo    " \\" >> $MAKEFILE
2845      printf " $i" >> $MAKEFILE      printf " $i" >> $MAKEFILE
2846  done  done
2847  echo >> $MAKEFILE  echo >> $MAKEFILE
2848  rm -f ad_files  rm -f adSrcFiles.tmp
2849    
2850  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2851    
2852  # ... AD ...  # ... AD ...
2853  adall: ad_taf  adall: \$(EXE_AD)
2854  adtaf: ad_taf_output.f  adtaf: ad_taf_output.$FS
2855  adtamc: ad_tamc_output.f  adtamc: ad_tamc_output.$FS
2856    
2857  ad_input_code.f: \$(AD_FILES) \$(HEADERFILES)  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES) \$(AD_FLOW_FILES)
2858          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template          @$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
2859          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
2860          -rm -f ad_config.template          -rm -f ad_config.template
2861          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2862          @make \$(AD_FLOW_FILES)          @make \$(FLOFILES)
2863          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ad_input_code.f          cat \$(FLOFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS
2864    
2865  ad_taf_output.f: ad_input_code.f  ad_taf_output.$FS: ad_input_code.$FS
2866          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.f          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2867          cat ad_input_code_ad.f | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.f          ls -l ad_input_code_ad.$FS
2868            cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2869    
2870  adtafonly:  adtafonly:
2871          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.f          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2872          cat ad_input_code_ad.f | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.f          ls -l ad_input_code_ad.$FS
2873            cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2874  ad_taf: ad_taf_output.o \$(OBJFILES)  
2875          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)
2876            \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)
2877  ad_tamc_output.f: ad_input_code.f  
2878          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.f  ad_tamc_output.$FS: ad_input_code.$FS
2879          cat ad_input_code_ad.f | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.f          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
2880            cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS
2881    
2882  ad_tamc: ad_tamc_output.o \$(OBJFILES)  ad_tamc: ad_tamc_output.o \$(OBJFILES)
2883          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
2884    
2885    adonlyfwd:
2886            patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
2887    
2888    adtrick:
2889            patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
2890    
2891  # ... FTL ...  # ... FTL ...
2892  ftlall: ftl_taf  ftlall: ftl_taf
2893  ftltaf: ftl_taf_output.f  ftltaf: ftl_taf_output.$FS
2894  ftltamc: ftl_tamc_output.f  ftltamc: ftl_tamc_output.$FS
2895    
2896  ftl_input_code.f: \$(AD_FILES) \$(HEADERFILES)  ftl_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)
2897          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template          @$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
2898          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
2899          -rm -f ftl_config.template          -rm -f ftl_config.template
2900          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2901          @make \$(AD_FLOW_FILES)          @make \$(AD_FLOW_FILES)
2902          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.f          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS
2903    
2904  ftl_taf_output.f: ftl_input_code.f  ftl_taf_output.$FS: ftl_input_code.$FS
2905          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.f          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2906          cat ftl_input_code_ftl.f | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.f          ls -l ftl_input_code_ftl.$FS
2907            cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2908    
2909  ftltafonly:  ftltafonly:
2910          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.f          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2911          cat ftl_input_code_ftl.f | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.f          ls -l ftl_input_code_ftl.$FS
2912            cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2913    
2914  ftl_taf: ftl_taf_output.o \$(OBJFILES)  ftl_taf: ftl_taf_output.o \$(OBJFILES)
2915          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)
2916    
2917  ftl_tamc_output.f: ftl_input_code.f  ftl_tamc_output.$FS: ftl_input_code.$FS
2918          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.f          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
2919          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
2920    
2921  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
2922          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
   
2923    
2924  # ... SVD ...  # ... SVD ...
2925  svdtaf: ad_taf_output.f ftl_taf_output.f  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
2926  svdall: svd_taf          @echo "--->>> Only ran TAF to generate SVD code!    <<<---"
2927            @echo "--->>> Do make svdall afterwards to compile. <<<---"
2928    svdall: svd_touch svd_taf
2929    
2930  svd_taf: ad_taf_output.o ftl_taf_output.o \$(OBJFILES)  svd_taf: \$(OBJFILES)
2931          \$(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)
2932    
2933            @echo "--->>> Only COMPILE svd code! <<<---"
2934            @echo "--->>> Assumes you previously <<<---"
2935            @echo "--->>> did make svdtaf        <<<---"
2936    
2937    svd_touch:
2938            @echo "--->>> Only COMPILE svd code! <<<---"
2939            @echo "--->>> Assumes you previously <<<---"
2940            @echo "--->>> did make svdtaf        <<<---"
2941            touch ad_taf_output.$FS ftl_taf_output.$FS
2942            \$(FC) \$(FFLAGS) \$(FOPTIM) -c ad_taf_output.$FS
2943            \$(FC) \$(FFLAGS) \$(FOPTIM) -c ftl_taf_output.$FS
2944            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template
2945            cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2946            -rm -f ftl_config.template
2947    
2948    EOF
2949    
2950  #=========================================  fi
2951    
2952    #===  for OpenAD  ========================
2953    
2954    if test "x$OPENAD" != x ; then
2955    
2956    # ============ begin OpenAD specific section ==============
2957    
2958    cat >>$MAKEFILE <<EOF
2959    
2960    # all the source files linked from the various locations:
2961    ALL_LINKED_FILES= \
2962    \$(F77_SRC_FILES) \
2963    \$(C_SRC_FILES) \
2964    \$(H_SRC_FILES) \
2965    \$(F90_SRC_FILES) \
2966    \$(SPECIAL_FILES)
2967    
2968    ifndef OPENADROOT
2969      \$(error "Error:  environment variable OPENADROOT not defined!")
2970    endif
2971    
2972    ifndef XAIFSCHEMAROOT
2973      \$(error "Error:  environment variable XAIFSCHEMAROOT not defined!")
2974    endif
2975    
2976    ifndef XAIFBOOSTERROOT
2977      \$(error "Error:  environment variable XAIFBOOSTERROOT not defined!")
2978    endif
2979    
2980    EOF
2981    
2982    echo "  Add the source list for common block to module conversion "
2983    echo >> $MAKEFILE
2984    printf "CB2M_F90_SRC_NAMES = " >> $MAKEFILE
2985    for i in `cat ${OAD_CB2M_FILES}` ; do
2986      echo    " \\" >> $MAKEFILE
2987      printf " $i" >> $MAKEFILE
2988    done
2989    echo >> $MAKEFILE
2990    
2991    echo "  Add the source list for AD code generation"
2992    echo >> $MAKEFILE
2993    printf "AD_FILES = " >> $MAKEFILE
2994    for i in `cat ${OAD_CB2M_FILES}` ; do
2995      echo    " \\" >> $MAKEFILE
2996      printf " ${i}_mod.f$FS90" >> $MAKEFILE
2997    done
2998    AD_FILES=`cat adSrcFiles.tmp`
2999    for i in $AD_FILES ; do
3000      basename=${i%%.f}
3001      toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`
3002      if test -z "$toBeIgnored" ; then
3003        echo    " \\" >> $MAKEFILE
3004        printf " $i" >> $MAKEFILE
3005      fi
3006    done
3007    echo >> $MAKEFILE
3008    rm -f adSrcFiles.tmp
3009    
3010    cat >>$MAKEFILE <<EOF
3011    
3012    adAll: \$(EXE_AD)
3013    .PHONY: adAll
3014    
3015    CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
3016    
3017    .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
3018    
3019    .PHONY: adDepend
3020    adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)
3021            \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
3022            \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
3023            -rm -f makedepend.out
3024    
3025    OPENAD_SUPPORT_F90_SRC_FILES = \
3026    w2f__types.F90 \
3027    OAD_active.F90 \
3028    OAD_cp.F90 \
3029    OAD_rev.F90 \
3030    OAD_tape.F90
3031    
3032    OPENAD_SUPPORT_C_SRC_FILES = \
3033    iaddr.c \
3034    timeRatio.c
3035    
3036    f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
3037            cat \$^ > \$@
3038    
3039    f95_test.f90: all_mods.xb.x2w.w2f.pp.f$FS90 \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90) ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3040            cat \$^ > \$@
3041    
3042    f95_test.out: f95_test_mods.f90 f95_test.f90
3043            f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
3044            f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
3045    
3046    # the file included below is created by the
3047    # postProcessor and its inclusion sets the
3048    # variable POSTPROCESSEDFILES
3049    # used below. Because the file is made during
3050    # make it won't be read until the second (recursive)
3051    # invocation in the rule below
3052    -include postProcess.make
3053    
3054    AD_OBJ_FILES_S1=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) \$(POSTPROCESSEDFILES:.f$FS90=.o)
3055    
3056    AD_OBJ_FILES_S2=\$(AD_OBJ_FILES_S1) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.o) \$(C_SRC_FILES:.c=.o) \$(F90_SRC_FILES:.F90=.o)
3057    
3058    postProcess.comp: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.tag \$(AD_OBJ_FILES_S1)
3059    ifeq (\$(MAKELEVEL),0)
3060            \$(MAKE) adAll
3061    else
3062            touch \$@
3063    endif
3064    
3065    \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.comp \$(AD_OBJ_FILES_S2)
3066    ifeq (\$(MAKELEVEL),1)
3067            \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES_S2) \$(LIBS)
3068    else
3069            touch \$@
3070    endif
3071    
3072    # makefile debug rule
3073    openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3074    .PHONY: openad
3075    
3076    # create the module files
3077    %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk
3078            ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk
3079    
3080    # create the header files
3081    %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk
3082            ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
3083    
3084    # change everybody else to use the new module files:
3085    %_cb2m.FF90 : %.F ../OAD_support/cb2mUseModules.bash
3086            ../OAD_support/cb2mUseModules.bash $< ${MPI}
3087    
3088    # makefile debug rule
3089    small_f: \$(CB2M_F90_PP_SRC_FILES)
3090    .PHONY: small_f
3091    
3092    ad_output.txt: \$(EXE_AD)
3093            @printf 'linking data files ... '
3094            \$(LN) -f ../input_ad/data* ../input_ad/eedata .
3095            \$(LN) -f ../../global_ocean.90x40x15/input/*.bin .
3096            @printf 'running ... '
3097            @./\$(EXE_AD) > \$@
3098    
3099    CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
3100    ad_input_code.f$FS90:  \$(CB2M_AD_FILES)
3101            cat \$^ > \$@
3102    
3103    # strip all comments and blanks to reduce
3104    # the file size in order to reduce perl's memory requirements
3105    ad_input_code_sf.f$FS90 : ad_input_code.f$FS90
3106            cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@
3107    
3108    # mfef90 preprocessing
3109    # expand statement functions
3110    # expose mfef90 specific substring handling
3111    # add the w2f__types module
3112    ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90
3113            ./mfef90 -r8 -z -F -N132 \$<
3114            mv \$<.B \$(basename \$<).B
3115            ./whirl2f -openad \$(basename \$<).B
3116            cat w2f__types.f90 \$(basename \$<).w2f.f > \$@
3117    
3118    # canonicalizer
3119    ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py
3120            ./preProcess.py --timing --r8 -H -S \$< -o \$@
3121    
3122    # F -> WHIRL
3123    # note that the canonicalized version cuts off at col 72
3124    # doing this also for string constants which is ok as long
3125    # as we are in fixed mode and cut of exactly there.
3126    # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)
3127    # characters respectively.
3128    ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90
3129            ./mfef90 -r8 -z -F \$<
3130            mv \$<.B \$@
3131    
3132    # WHIRL -> XAIF
3133    ad_input_code_sf.w2f.pre.xaif : ad_input_code_sf.w2f.pre.B whirl2xaif
3134            ./whirl2xaif -s -n --debug 1 -o \$@ \$<
3135    
3136    # XAIF -> XAIF'
3137    ad_input_code_sf.w2f.pre.xb.xaif : ad_input_code_sf.w2f.pre.xaif xaif.xsd xaif_base.xsd xaif_inlinable_intrinsics.xsd xaif_derivative_propagator.xsd xaif_output.xsd oadDriver
3138            ./oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
3139    
3140    # XAIF' -> WHIRL'
3141    ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl
3142            ./xaif2whirl --debug 1 ad_input_code_sf.w2f.pre.B \$<
3143    
3144    # WHIRL' -> F'
3145    ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be
3146            ./whirl2f -FLIST:ftn_file=\$@ -openad \$<
3147    
3148    # insert template directives
3149    ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash
3150            ../OAD_support/insertTemplateDir.bash \$< \$@
3151    
3152    PPEXTRAS=\$(wildcard ../OAD_support/ad_template.*.F) ../OAD_support/ad_inline.F
3153    # postprocess F'
3154    postProcess.tag: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 postProcess.py \$(PPEXTRAS:.F=.f)
3155            # the target is a placeholder to signal execution of the rule
3156            touch \$@
3157            # this step also creates the file postProcess.make but we cannot
3158            # name it as the target or else make will try to remake it for
3159            # the include directive above for any rule, e.g. make clean
3160            ./postProcess.py --progress --timing --outputFormat=fixed -m r -i ../OAD_support/ad_inline.f --width 4 \$<
3161    
3162    # setup some links
3163    %.xsd:
3164            \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
3165    
3166    mfef90:
3167            \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .
3168    
3169    # link the support files:
3170    \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):
3171            \$(LN) ../OAD_support/\$@ .
3172    
3173    whirl2xaif xaif2whirl:
3174            \$(LN) \${OPENADFORTTK}/bin/\$@ .
3175    
3176    preProcess.py postProcess.py:
3177            \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .
3178    
3179    whirl2f whirl2f_be:
3180            \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .
3181    
3182    oadDriver:
3183            \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver \$@
3184    
3185    AD_CLEAN += *_mod.h *_mod.F90 *.FF90 *.mod-whirl temp.sed oad_cp.* postProcess.make postProcess.tag postProcess.comp \$(PPEXTRAS:.F=.f)
3186    
3187    # ============ end OpenAD specific section ==============
3188    
3189  EOF  EOF
3190    
3191    fi
3192    
3193    #=========================================
3194    
3195  if test "x$EXEHOOK" != x ; then  if test "x$EXEHOOK" != x ; then
3196      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE
3197  fi  fi
# Line 1836  for i in $KPPFILES ; do Line 3203  for i in $KPPFILES ; do
3203      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
3204          echo "Error: unable to add file \"$i\" to the exceptions list"          echo "Error: unable to add file \"$i\" to the exceptions list"
3205      fi      fi
3206      echo "$base.f: $base.p" >> $MAKEFILE      echo "$base.$FS: $base.p" >> $MAKEFILE
3207  done  done
3208    
3209  echo "  Making list of NOOPTFILES"  echo "  Making list of NOOPTFILES"
# Line 1846  for i in $NOOPTFILES ; do Line 3213  for i in $NOOPTFILES ; do
3213      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
3214          echo "Error: unable to add file \"$i\" to the exceptions list"          echo "Error: unable to add file \"$i\" to the exceptions list"
3215      fi      fi
3216      echo "$base.o: $base.f" >> $MAKEFILE      echo "$base.o: $base.$FS" >> $MAKEFILE
3217      printf "\t\$(FC) \$(FFLAGS) \$(NOOPTFLAGS) -c \$<\n" >> $MAKEFILE      printf "\t\$(FC) \$(FFLAGS) \$(NOOPTFLAGS) -c \$<\n" >> $MAKEFILE
3218  done  done
3219    
# Line 1860  printf "\n\n# DO NOT DELETE\n" >> $MAKEF Line 3227  printf "\n\n# DO NOT DELETE\n" >> $MAKEF
3227  printf "\n===  Done  ===\n"  printf "\n===  Done  ===\n"
3228    
3229  # Create special header files  # Create special header files
3230  $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 > $PACKAGES_DOT_H".tmp"  $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 > $PACKAGES_DOT_H".tmp"
3231  if test ! -f $PACKAGES_DOT_H ; then  if test ! -f $PACKAGES_DOT_H ; then
3232      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H
3233  else  else
# Line 1877  if test ! -f AD_CONFIG.h ; then Line 3244  if test ! -f AD_CONFIG.h ; then
3244      $BASH $TOOLSDIR/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > AD_CONFIG.h      $BASH $TOOLSDIR/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > AD_CONFIG.h
3245  fi  fi
3246    
   
3247  #  Write the "state" for future records  #  Write the "state" for future records
3248  if test "x$DUMPSTATE" != xf ; then  if test "x$DUMPSTATE" = xt ; then
3249      printf "" > genmake_state      printf "" > genmake_state
3250      for i in $gm_state ; do      for i in $gm_state ; do
3251          t1="t2=\$$i"          t1="t2=\$$i"

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