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revision 1.181 by jmc, Fri Jan 2 20:32:21 2009 UTC revision 1.272 by heimbach, Fri Jul 3 21:33:55 2015 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        -oad | --oad
23              Generate a Makefile for an OpenAD built
24    
25        -nocat4ad | -dog4ad | -ncad | -dad
26              do not concatenate (cat) source code sent to TAF
27              resulting in compilation of multiple files
28    
29        -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
30          -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
31              Use "NAME" as the adoptfile.  By default, the file at
32              "tools/adjoint_options/adjoint_oad" (for OpenAD built) or
33              "tools/adjoint_options/adjoint_default" will be used.
34    
35        -nooptfile | --nooptfile
36          -optfile NAME | --optfile NAME | -of NAME | --of NAME
37          -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
38              Use "NAME" as the optfile.  By default, an attempt will be
39              made to find an appropriate "standard" optfile in the
40              tools/build_options/ directory.
41    
42        -pdepend NAME | --pdepend NAME
43          -pdepend=NAME | --pdepend=NAME
44              Get package dependency information from "NAME".
45    
46        -pgroups NAME | --pgroups NAME
47          -pgroups=NAME | --pgroups=NAME
48              Get the package groups information from "NAME".
49    
50        -bash NAME
51              Explicitly specify the Bourne or BASH shell to use
52    
53        -make NAME | -m NAME
54          --make=NAME | -m=NAME
55              Use "NAME" for the MAKE program. The default is "make" but
56              many platforms, "gmake" is the preferred choice.
57    
58        -makefile NAME | -mf NAME
59          --makefile=NAME | -mf=NAME
60              Call the makefile "NAME".  The default is "Makefile".
61    
62        -makedepend NAME | -md NAME
63          --makedepend=NAME | -md=NAME
64              Use "NAME" for the MAKEDEPEND program.
65    
66        -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
67          -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
68              Specify the location of the MITgcm ROOTDIR as "NAME".
69              By default, genamke will try to find the location by
70              looking in parent directories (up to the 5th parent).
71    
72        -mods NAME | --mods NAME | -mo NAME | --mo NAME
73          -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
74              Here, "NAME" specifies a list of directories that are
75              used for additional source code.  Files found in the
76              "mods list" are given preference over files of the same
77              name found elsewhere.
78    
79        -disable NAME | --disable NAME
80          -disable=NAME | --disable=NAME
81              Here "NAME" specifies a list of packages that we don't
82              want to use.  If this violates package dependencies,
83              genamke will exit with an error message.
84    
85        -enable NAME | --enable NAME
86          -enable=NAME | --enable=NAME
87              Here "NAME" specifies a list of packages that we wish
88              to specifically enable.  If this violates package
89              dependencies, genamke will exit with an error message.
90    
91        -standarddirs NAME | --standarddirs NAME
92          -standarddirs=NAME | --standarddirs=NAME
93              Here, "NAME" specifies a list of directories to be
94              used as the "standard" code.
95    
96        -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
97          -fc=NAME | --fc=NAME
98              Use "NAME" as the fortran compiler.  By default, genmake
99              will search for a working compiler by trying a list of
100              "usual suspects" such as g77, f77, etc.
101    
102        -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
103              Use "NAME" as the C compiler.  By default, genmake
104              will search for a working compiler by trying a list of
105              "usual suspects" such as gcc, c89, cc, etc.
106    
107        -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
108              Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
109              *only* works if CPP_EEOPTIONS.h allows this.
110    
111        -ignoretime | -ignore_time | --ignoretime | --ignore_time
112              Ignore all the "wall clock" routines entirely.  This will
113              not in any way hurt the model results -- it simply means
114              that the code that checks how long the model spends in
115              various routines will give junk values.
116    
117        -ts | --ts
118              Produce timing information per timestep
119        -papis | --papis
120              Produce summary MFlop/s (and IPC) with PAPI per timestep
121        -pcls | --pcls
122              Produce summary MFlop/s etc. with PCL per timestep
123        -foolad | --foolad
124              Fool the AD code generator
125        -papi | --papi
126              Performance analysis with PAPI
127        -pcl | --pcl
128              Performance analysis with PCL
129        -hpmt | --hpmt
130              Performance analysis with the HPM Toolkit
131    
132        -ieee | --ieee
133              use IEEE numerics.  Note that this option *only* works
134              if it is supported by the OPTFILE that is being used.
135        -devel | --devel
136              Add additional warning and debugging flags for development
137              (if supported by the OPTFILE); also switch to IEEE numerics.
138        -gsl | --gsl
139              Use GSL to control floating point rounding and precision
140    
141        -mpi | --mpi
142              Include MPI header files and link to MPI libraries
143        -mpi=PATH | --mpi=PATH
144              Include MPI header files and link to MPI libraries using MPI_ROOT
145              set to PATH. i.e. Include files from \$PATH/include, link to libraries
146              from \$PATH/lib and use binaries from \$PATH/bin.
147    
148        -omp | --omp
149              Activate OpenMP code + use Compiler option OMPFLAG
150        -omp=OMPFLAG | --omp=OMPFLAG
151              Activate OpenMP code + use Compiler option OMPFLAG
152    
153        -es | --es | -embed-source | --embed-source
154              Embed a tarball containing the full source code
155              (including the Makefile, etc.) used to build the
156              executable [off by default]
157    
158        -ds | --ds
159              Report genmake internal variables status (DUMPSTATE)
160              to file "genmake_state" (for debug purpose)
161    
162      While it is most often a single word, the "NAME" variables specified
163      above can in many cases be a space-delimited string such as:
164    
165        --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
166        -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
167        -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
168    
169      which, depending upon your shell, may need to be single-quoted.
170    
171      For more detailed genmake documentation, please see:
172    
173        http://mitgcm.org/public/devel_HOWTO/
174    
175    EOF
176    
177        exit 1
178    }
179    
180  # Search for particular CPP #cmds associated with packages  # Search for particular CPP #cmds associated with packages
181  # usage: test_for_package_in_cpp_options CPP_file package_name  # usage: test_for_package_in_cpp_options CPP_file package_name
182  test_for_package_in_cpp_options() {  test_for_package_in_cpp_options() {
183      cpp_options=$1      cpp_options=$1
184      pkg=$2      pkg=$2
185      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg[ ]"      test_for_string_in_file $cpp_options "^ *# *define *\<ALLOW_$pkg\>"
186      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg[ ]"      test_for_string_in_file $cpp_options "^ *# *undef *\<ALLOW_$pkg\>"
187      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg[ ]"      test_for_string_in_file $cpp_options "^ *# *define *\<DISABLE_$pkg\>"
188      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg[ ]"      test_for_string_in_file $cpp_options "^ *# *undef *\<DISABLE_$pkg\>"
     test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg$"  
     test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg$"  
     test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg$"  
     test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg$"  
189  }  }
190    
191  # Search for particular CPP #cmds associated with MPI  # Search for particular CPP #cmds associated with MPI
192  # usage: test_for_mpi_in_cpp_eeoptions CPP_file  # usage: test_for_mpi_in_cpp_eeoptions CPP_file
193  test_for_mpi_in_cpp_eeoptions() {  test_for_mpi_in_cpp_eeoptions() {
194      cpp_options=$1      cpp_options=$1
195      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI[ ]"      test_for_string_in_file $cpp_options "^ *# *define *\<ALLOW_USE_MPI\>"
196      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI[ ]"      test_for_string_in_file $cpp_options "^ *# *undef *\<ALLOW_USE_MPI\>"
     test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI[ ]"  
     test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI[ ]"  
     test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI$"  
     test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI$"  
     test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI$"  
     test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI$"  
197  }  }
198    
199  # 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 42  test_for_mpi_in_cpp_eeoptions() { Line 201  test_for_mpi_in_cpp_eeoptions() {
201  test_for_string_in_file() {  test_for_string_in_file() {
202      file=$1      file=$1
203      strng=$2      strng=$2
204      grep -i "$strng" $file > /dev/null 2>&1      grep "$strng" $file > /dev/null 2>&1
205      RETVAL=$?      RETVAL=$?
206      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
207          printf "Error: In $file there is an illegal line: "          printf "Error: In $file there is an illegal line: "
208          grep -i "$strng" $file          grep -i "$strng" $file
209          exit 99          exit 99
210      fi      fi
211      return 0      return 0
# Line 56  test_for_string_in_file() { Line 215  test_for_string_in_file() {
215  # the package list.  # the package list.
216  expand_pkg_groups() {  expand_pkg_groups() {
217      new_packages=      new_packages=
     PKG_GROUPS=$ROOTDIR"/pkg/pkg_groups"  
218      if test -r $PKG_GROUPS ; then      if test -r $PKG_GROUPS ; then
219          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > $TMP.p1
220          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp          cat $TMP.p1 | $AWK '(NF>2 && $2==":"){ print $0 }' > $TMP.p2
221          matched=0          matched=0
222          for i in $PACKAGES ; do          for i in $PACKAGES ; do
223              line=`grep "^ *$i" ./p2.tmp`              line=`grep "^ *$i" $TMP.p2`
224              RETVAL=$?              RETVAL=$?
225              if test "x$RETVAL" = x0 ; then              if test "x$RETVAL" = x0 ; then
226                  matched=1                  matched=1
227                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`
228                  echo "    replacing \"$i\" with: $replace"                  echo "    replacing \"$i\" with:$replace"
229                  new_packages="$new_packages $replace"                  new_packages="$new_packages $replace"
230              else              else
231                  new_packages="$new_packages $i"                  new_packages="$new_packages $i"
232              fi              fi
233          done          done
234          PACKAGES=$new_packages          PACKAGES=$new_packages
235          rm -f ./p[1,2].tmp          rm -f $TMP.p[1,2]
236          return $matched          return $matched
237      else      else
238          echo "Warning: can't read package groups definition file: $PKG_GROUPS"          echo "Warning: can't read package groups definition file: $PKG_GROUPS"
# Line 110  EOF Line 268  EOF
268              check_for_broken_Ff              check_for_broken_Ff
269          else          else
270              cat <<EOF 2>&1              cat <<EOF 2>&1
271  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
272    (fails the "cp" test) and this program cannot find a suitable    (fails the "cp" test) and this program cannot find a suitable
273    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
274    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
275    
276  EOF  EOF
# Line 137  EOF Line 295  EOF
295  .F.$tfs:  .F.$tfs:
296          $LN \$< \$@          $LN \$< \$@
297  EOF  EOF
298      $MAKE "genmake_hello."$tfs > /dev/null 2>&1      $MAKE -f $MAKEFILE "genmake_hello."$tfs > /dev/null 2>&1
299      RETVAL=$?      RETVAL=$?
300      if test "x$RETVAL" != x0 -o ! -f "genmake_hello."$tfs ; then      if test "x$RETVAL" != x0 -o ! -f "genmake_hello."$tfs ; then
301          if test "x$FS" = x ; then          if test "x$FS" = x ; then
# Line 145  EOF Line 303  EOF
303              FS90='fr9'              FS90='fr9'
304              check_for_broken_Ff              check_for_broken_Ff
305          else          else
306              cat <<EOF 2>&1              echo "ERROR: test: '$MAKE -f $MAKEFILE genmake_hello.$tfs' Failed"
307  ERROR: Your file system cannot distinguish between *.F and *.f files              echo "       see simple makefile: '$MAKEFILE' (left here)"
308    (fails the "make/ln" test) and this program cannot find a suitable              echo "  Please check (1) your '$MAKE' command, (2) your '$LN' command"
309    replacement extension.  Please try a different build environment or              echo "           and (3) the allowed sufix '.F' and '.$tfs' in makefile"
310    contact the <MITgcm-support@mitgcm.org> list for help.              echo "  or contact the <MITgcm-support@mitgcm.org> list for help."
311                echo ""
 EOF  
312              exit -1              exit -1
313              return              return
314          fi          fi
# Line 165  EOF Line 322  EOF
322      return      return
323  }  }
324    
   
325  look_for_makedepend()  {  look_for_makedepend()  {
326    
327      #  The "original" makedepend is part of the Imake system that is      #  The "original" makedepend is part of the Imake system that is
# Line 176  look_for_makedepend()  { Line 332  look_for_makedepend()  {
332      #      #
333      #    1) a makedepend implementation shipped with the cyrus-imapd      #    1) a makedepend implementation shipped with the cyrus-imapd
334      #       package:  ftp://ftp.andrew.cmu.edu/pub/cyrus-mail/      #       package:  ftp://ftp.andrew.cmu.edu/pub/cyrus-mail/
335      #      #    2) a local tools/xmakedepend shell script
     #    2) a known-buggy xmakedpend shell script  
336      #      #
337      #  So the choices are, in order:      #  So the choices are, in order:
     #  
338      #    1) use the user-specified program      #    1) use the user-specified program
339      #    2) use a system-wide default      #    2) use the local xmakedepend script (get all dependencies, but slower)
340      #    3) locally build and use the cyrus implementation      #    3) use a system-wide default
341      #    4) fall back to the buggy local xmakedpend script      #    4) locally build and use the cyrus makedepend
342        #             (faster, but can miss some dependencies)
343      #      #
344        echo >> $LOGFILE
345        echo "running: look_for_makedepend()" >> $LOGFILE
346        if test "x${MAKEDEPEND}" != x ; then
347            echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1
348            RETVAL=$?
349            if test x"$RETVAL" = x0 ; then
350                build_cyrus_makedepend
351                RETVAL=$?
352                if test "x$RETVAL" != x0 ; then
353                    echo "WARNING: unable to build cyrus-makedepend. Try other 'makedepend'"
354                    MAKEDEPEND=
355                fi
356            else
357                echo "${MAKEDEPEND}" | grep 'tools.xmakedepend' > /dev/null 2>&1
358                RETVAL=$?
359                if test "x$RETVAL" = x0 ; then
360                    MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
361                fi
362                echo " -->     MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
363            fi
364        fi
365      if test "x${MAKEDEPEND}" = x ; then      if test "x${MAKEDEPEND}" = x ; then
         which makedepend > /dev/null 2>&1  
         RV0=$?  
366          test -f $MAKEFILE  &&  mv -f $MAKEFILE $MAKEFILE".tst"          test -f $MAKEFILE  &&  mv -f $MAKEFILE $MAKEFILE".tst"
367          #  echo 'MAKEFILE="'$MAKEFILE'"'          #  echo 'MAKEFILE="'$MAKEFILE'"'
368          cat <<EOF >> $MAKEFILE          cat <<EOF >> $MAKEFILE
369  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"
370  #  #
371  #   Some "makedepend" implementations will die if they cannot  #   Some "makedepend" implementations will die if they cannot
372  #   find a Makefile -- so this file is here to gives them an  #   find a Makefile -- so this file is here to gives them an
373  #   empty one to find and parse.  #   empty one to find and parse.
374  EOF  EOF
375          cat <<EOF >> genmake_tc.f          cat <<EOF >> genmake_tc.f
# Line 204  EOF Line 378  EOF
378        stop        stop
379        end        end
380  EOF  EOF
381          makedepend genmake_tc.f > /dev/null 2>&1          $ROOTDIR/tools/xmakedepend -f $MAKEFILE genmake_tc.f > /dev/null 2>&1
382          RV1=$?          RV1=$?
383            which makedepend > /dev/null 2>&1
384            RV2=$?
385            if test "x${RV2}" = x0 ; then
386                makedepend -f $MAKEFILE genmake_tc.f > /dev/null 2>&1
387                RV3=$? ; loc_msg='not working.'
388            else RV3=$RV2 ; loc_msg='not found.'
389            fi
390          test -f $MAKEFILE  &&  rm -f $MAKEFILE          test -f $MAKEFILE  &&  rm -f $MAKEFILE
391          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
392          if test "x${RV0}${RV1}" = x00 ; then          echo "  check makedepend (local: $RV1, system: $RV2, $RV3)"
393            if test "x${RV1}" = x0 ; then
394                MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
395                echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
396            elif test "x${RV3}" = x0 ; then
397                echo "    local tools/xmakedepend not working. Use system-default makedepend"
398              MAKEDEPEND=makedepend              MAKEDEPEND=makedepend
399                echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
400          else          else
401              echo "    a system-default makedepend was not found."              echo "    local tools/xmakedepend not working; system-default makedepend $loc_msg"
402                            echo -n "    Try to build cyrus-makedepend ..."
403              #  Try to build the cyrus implementation              #  Try to build the cyrus implementation
404              build_cyrus_makedepend              build_cyrus_makedepend
405              RETVAL=$?              RETVAL=$?
406              if test "x$RETVAL" != x0 ; then              if test "x$RETVAL" = x0 ; then
407                  MAKEDEPEND='$(TOOLSDIR)/xmakedepend'                  echo "  Works"
408                else
409                    echo "  Fails" ; echo "" >> $LOGFILE
410                    echo "ERROR: no working makedepend found ; look_for_makedepend FAILED" | tee -a $LOGFILE
411                    echo ""
412                    exit -1
413                    return
414              fi              fi
             rm -f ./genmake_cy_md  
         fi  
     else  
         #  echo "MAKEDEPEND=${MAKEDEPEND}"  
         echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1  
         RETVAL=$?  
         if test x"$RETVAL" = x0 ; then  
             build_cyrus_makedepend  
415          fi          fi
416      fi      fi
417  }  }
418    
   
419  build_cyrus_makedepend()  {  build_cyrus_makedepend()  {
420        echo >> $LOGFILE
421        echo "running: build_cyrus_makedepend()" >> $LOGFILE
422      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
423      (      (
424          cd $ROOTDIR/tools/cyrus-imapd-makedepend  \          cd $ROOTDIR/tools/cyrus-imapd-makedepend  \
425              &&  ./configure > /dev/null 2>&1  \              &&  ./configure > /dev/null 2>&1  \
426              &&  make > /dev/null 2>&1              &&  $MAKE > /dev/null 2>&1
427          if test -x ./makedepend.exe ; then          if test -x ./makedepend.exe ; then
428              $LN ./makedepend.exe ./makedepend              $LN ./makedepend.exe ./makedepend
429          fi          fi
# Line 249  build_cyrus_makedepend()  { Line 435  build_cyrus_makedepend()  {
435      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
436      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
437          MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'          MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'
438            echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
439          return 0          return 0
440      else      else
441          echo "WARNING: unable to build cyrus-imapd-makedepend"          echo "WARNING: fail to build cyrus-imapd-makedepend" >> $LOGFILE
442          return 1          return 1
443      fi      fi
444  }  }
445    
   
446  build_embed_encode()  build_embed_encode()
447  {  {
448      printf "  building the embed-encode utility...  "      printf "  building the embed-encode utility...  "
449      if test ! -e "$ROOTDIR/tools/embed_encode/encode_files" ; then      if test ! -e "$ROOTDIR/tools/embed_encode/encode_files" ; then
450          if test ! -d "$ROOTDIR/tools/embed_encode" ; then          if test ! -d "$ROOTDIR/tools/embed_encode" ; then
451              echo              echo
452              echo "    Error: can't locate \"$ROOTDIR/tools/embed_encode\""              echo "    Error: can't locate \"$ROOTDIR/tools/embed_encode\""
453              echo              echo
454              EMBED_SRC=f              EMBED_SRC=f
455              return 1              return 1
456          fi          fi
457          clist="cc gcc c89 $CC"          clist="cc gcc c89 $CC"
458          for ic in $clist ; do          for ic in $clist ; do
459              comm="$ic -o encode_files encode_files.c"              comm="$ic -o encode_files encode_files.c"
460              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1
461              RETVAL=$?              RETVAL=$?
462              if test "x$RETVAL" = x0 ; then              if test "x$RETVAL" = x0 ; then
463                  echo "OK"                  echo "OK"
                 DEFINES="$DEFINES -DHAVE_EMBED_SRC"  
464                  return 0                  return 0
465              fi              fi
466          done          done
# Line 287  build_embed_encode() Line 472  build_embed_encode()
472          return 1          return 1
473      fi      fi
474      echo "OK"      echo "OK"
     DEFINES="$DEFINES -DHAVE_EMBED_SRC"  
475  }  }
476    
477    #  look for possible C compilers
478  # Guess possible config options for this host  look_for_C_compilers() {
479  find_possible_configs()  {      echo >> $LOGFILE
480        echo "running: look_for_C_compilers()" >> $LOGFILE
481      tmp1=`uname`"_"`uname -m`      rm -f ./genmake_hello.c  ./genmake_hello
482      tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`      cat >> genmake_hello.c << EOF
     tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`  
     tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`  
     tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`  
     tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`  
     PLATFORM=$tmp3  
     echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32  
     OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`  
     echo "  The platform appears to be:  $PLATFORM"  
       
     echo "test" > test  
     ln -s ./test link  
     RETVAL=$?  
     if test "x${RETVAL}" = x0 ; then  
         LN="ln -s"  
     else  
         echo "Error: \"ln -s\" does not appear to work on this system!"  
         echo "  For help, please contact <MITgcm-support@mitgcm.org>."  
         exit 1  
     fi  
     rm -f test link  
   
     if test "x$CPP" = x ; then  
         CPP="cpp -traditional -P"  
     fi  
   
     look_for_makedepend  
   
     #================================================================  
     #  look for possible C compilers  
     tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"  
     p_CC=  
     for c in $tmp ; do  
         rm -f ./genmake_hello.c  ./genmake_hello  
         cat >> genmake_hello.c << EOF  
483  #include <stdio.h>  #include <stdio.h>
484  int main(int argc, char **argv) {  int main(int argc, char **argv) {
485    printf("Hello!\n");    printf("Hello!\n");
486    return 0;    return 0;
487  }  }
488  EOF  EOF
489          $c -o genmake_hello genmake_hello.c > /dev/null 2>&1      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
490        p_CC=
491        for c in $tmp ; do
492            COMM="$c $CFLAGS -o genmake_hello genmake_hello.c"
493            echo $COMM >> $LOGFILE
494            $COMM >> $LOGFILE 2>&1
495          RETVAL=$?          RETVAL=$?
496          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
497                echo " $c test successful" >> $LOGFILE
498              p_CC="$p_CC $c"              p_CC="$p_CC $c"
499          fi          fi
500      done      done
# Line 354  Error: No C compilers were found in your Line 510  Error: No C compilers were found in your
510  EOF  EOF
511          exit 1          exit 1
512      else      else
513          echo "  The possible C compilers found in your path are:"          echo "  The possible C compilers found in your path are: $p_CC" | tee -a $LOGFILE
         echo "   "$p_CC  
514          if test "x$CC" = x ; then          if test "x$CC" = x ; then
515              CC=`echo $p_CC | $AWK '{print $1}'`              CC=`echo $p_CC | $AWK '{print $1}'`
516              echo "  Setting C compiler to: "$CC              echo "  Setting C compiler to: "$CC
517          fi          fi
518      fi      fi
519        echo " --> set CC='$CC'" >> $LOGFILE
520    }
521    
522    # Guess possible config options for this host
523    find_possible_optfile()  {
524    
525        echo >> $LOGFILE
526        echo "running: find_possible_optfile()" >> $LOGFILE
527        tmp1=`uname`"_"`uname -m`
528        tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`
529        tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`
530        tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`
531        tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`
532        tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`
533        PLATFORM=$tmp3
534        echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
535        OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
536        echo "  The platform appears to be:  $PLATFORM" | tee -a $LOGFILE
537    
538      #================================================================      #================================================================
539      #  look for possible FORTRAN compilers      #  look for possible FORTRAN compilers
540      tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 gfortran g95"      echo "  look for possible FORTRAN compilers" >> $LOGFILE
541        tmp="$MITGCM_FC $FC efc gfortran g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 g95"
542      p_FC=      p_FC=
543      for c in $tmp ; do      rm -f ./genmake_hello.f
544          rm -f ./hello.f ./hello      cat >> genmake_hello.f <<EOF
         cat >> hello.f <<EOF  
545        program hello        program hello
546        do i=1,3        do i=1,3
547          print *, 'hello world : ', i          print *, 'hello world : ', i
548        enddo        enddo
549        end        end
550  EOF  EOF
551          $c -o hello hello.f > /dev/null 2>&1      for f in $tmp ; do
552            COMM="$f -o genmake_hello genmake_hello.f"
553            echo $COMM >> $LOGFILE
554            $COMM >> $LOGFILE 2>&1
555          RETVAL=$?          RETVAL=$?
556          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
557              p_FC="$p_FC $c"              echo " $f test successful" >> $LOGFILE
558                p_FC="$p_FC $f"
559          fi          fi
560      done      done
561      rm -f ./hello.f ./hello      rm -f ./genmake_hello.f ./genmake_hello
562      if test "x${p_FC}" = x ; then      if test "x${p_FC}" = x ; then
563          cat 1>&2 <<EOF          cat 1>&2 <<EOF
564    
# Line 394  Error: No Fortran compilers were found i Line 571  Error: No Fortran compilers were found i
571  EOF  EOF
572          exit 1          exit 1
573      else      else
574          echo "  The possible FORTRAN compilers found in your path are:"          echo "  The possible FORTRAN compilers found in your path are: $p_FC" | tee -a $LOGFILE
         echo "   "$p_FC  
575      fi      fi
576    
577      #  Use the first of the compilers found in the current PATH      #  Use the first of the compilers found in the current PATH
# Line 404  EOF Line 580  EOF
580          for i in $p_FC ; do          for i in $p_FC ; do
581              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
582              if test -r $OPTFILE ; then              if test -r $OPTFILE ; then
583                  echo "  Setting OPTFILE to: "$OPTFILE                  echo "  Setting OPTFILE to: "$OPTFILE | tee -a $LOGFILE
584                  break                  break
585              fi              fi
586          done          done
# Line 413  EOF Line 589  EOF
589      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
590          OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$FC          OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$FC
591          if test ! -r $OPTFILE ; then          if test ! -r $OPTFILE ; then
592               echo "  I looked for the file "$OPTFILE" but did not find it"               echo "  I looked for the file "$OPTFILE" but did not find it"
593          fi          fi
594      fi      fi
595  #    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:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #    break  
 #fi  
 #   done  
596      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
597          cat 1>&2 <<EOF          cat 1>&2 <<EOF
598    
# Line 442  Error: No options file was found in:  $R Line 608  Error: No options file was found in:  $R
608  EOF  EOF
609          exit 1          exit 1
610      fi      fi
611        }
 #     # look for possible MPI libraries  
 #     mpi_libs=  
 #     mpi_fort=`which mpif77 2>/dev/null`  
 #     RETVAL=$?  
 #     if test "x${RETVAL}" = x0 ; then  
 #       cat >>test.f <<EOF  
 #       PROGRAM HELLO  
 #       DO 10, I=1,10  
 #       PRINT *,'Hello World'  
 #    10 CONTINUE  
 #       STOP  
 #       END  
 # EOF  
 #       eval "$mpi_fort -showme test.f > out"  
 #       RETVAL=$?  
 #       if test "x${RETVAL}" = x0 ; then  
 #           a=`cat out`  
 #           for i in $a ; do  
 #               case $i in  
 #                   -*)  
 #                       mpi_libs="$mpi_libs $i" ;;  
 #               esac  
 #           done  
 #           echo "The MPI libs appear to be:"  
 #           echo "  "$mpi_libs  
 #       fi  
 #       rm -f test.f out  
 #     fi  
612    
613    #  Do a local copy of MPI headers files (in local dir ./mpi_headers/) after
614    #  checking for additional included headers (in case of chain of included header)
615    mpi_headers_do_local_copy() {
616    
617        dBug=0
618        rm -rf ./mpi_headers
619        if test -d $MPIINCLUDEDIR ; then
620    
621            #----- check for additional headers (chain of included headers)
622            echo -n '  Check MPI headers ... '
623            listIni=$MPI_HEADER_FILES
624            echo $listIni | grep "\<mpif.h\>" > /dev/null 2>&1
625            outp=$?
626            #- always check mpif.h (the only mpi-header included in standard MITgcm code)
627            if test $outp != 0 ; then listIni="mpif.h $listIni" ; fi
628            if test $dBug = 1 ; then echo "listIni='$listIni'" ; fi
629    
630            doCheck=1 ; list2copy='' ; list2check=$listIni
631            while test $doCheck = 1 ; do
632              newList=''
633              for i in $list2check ; do
634                if test -f $MPIINCLUDEDIR/$i ; then
635                  newInc=`grep '^ *include ' $MPIINCLUDEDIR/$i | \
636                    sed -e 's/^ *include //' -e 's/\!.*$//' -e "s/'//g"  -e 's/\"//g'`
637                  if test $dBug = 1 ; then echo -n "checking $i : newInc='$newInc'" ; fi
638                  for j in $newInc ; do
639                    echo $listIni $list2copy $newList | grep "\<$j\>" > /dev/null 2>&1
640                    outp=$?
641                    if test $outp != 0 ; then
642                      if test $dBug = 1 ; then echo -n " ; adding $j" ; fi
643                      newList="$newList $j"
644                    fi
645                  done
646                  if test $dBug = 1 ; then echo "" ; fi
647                fi
648              done
649              if test "x$newList" = x ; then doCheck=0
650              else list2check=$newList ; list2copy="$list2copy $newList"
651              fi
652            done
653            list2copy="$MPI_HEADER_FILES $list2copy"
654            if test $dBug = 1 ; then echo "list2copy='$list2copy'" ; fi
655    
656            #----- create local mpi_headers dir if we have files to copy
657            mkListInc=`echo $list2copy | wc -w`
658            if test $mkListInc != 0 ; then
659              echo 'create local "./mpi_headers" dir'
660              mkdir -p ./mpi_headers
661              INCLUDES="-I./mpi_headers $INCLUDES"
662              mkListInc=1
663            fi
664            if test "x$LOCAL_MPI_HEADERS" != x ; then mkListInc=0 ; fi
665    
666            #----- make local copy and update LOCAL_MPI_HEADERS (if not already set)
667            for i in $list2copy ; do
668              if test -f $MPIINCLUDEDIR/$i ; then
669                cp -p $MPIINCLUDEDIR/$i ./mpi_headers
670                if test $i = 'mpif.h' ; then
671                    perl -i -pe 's/MPI_DISPLACEMENT_CURRENT=-1_8/MPI_DISPLACEMENT_CURRENT=-1/g' mpi_headers/mpif.h
672                fi
673                if test $mkListInc = 2 ; then
674                    LOCAL_MPI_HEADERS="$LOCAL_MPI_HEADERS ./mpi_headers/$i"
675                fi
676                if test $mkListInc = 1 ; then
677                    LOCAL_MPI_HEADERS="./mpi_headers/$i" ; mkListInc=2
678                fi
679              fi
680            done
681        else
682            echo "WARNING: MPIINCLUDEDIR='$MPIINCLUDEDIR' is not a directory"
683            echo "WARNING: => skip checking for MPI headers (no ./mpi_headers dir)"
684    #       exit -1
685        fi
686  }  }
687    
688  #  Parse the package dependency information  #  Parse the package dependency information
# Line 480  get_pdepend_list()  { Line 691  get_pdepend_list()  {
691      #  strip the comments and then convert the dependency file into      #  strip the comments and then convert the dependency file into
692      #  two arrays: PNAME, DNAME      #  two arrays: PNAME, DNAME
693      cat $1 | sed -e 's/#.*$//g' \      cat $1 | sed -e 's/#.*$//g' \
694          | $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}' \
695          > ./.pd_tmp          > ./.pd_tmp
696        RETVAL=$?
697        if test ! "x${RETVAL}" = x0 ; then
698          echo "Error: unable to parse package dependencies -- please check PKG_DEPEND=\"$1\""
699          exit 1
700        fi
701      . ./.pd_tmp      . ./.pd_tmp
702      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.  
   
     -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME  
       -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME  
           Use "NAME" as the adoptfile.  By default, the file at  
           "tools/adjoint_options/adjoint_default" will be used.  
   
     -nooptfile | --nooptfile  
       -optfile NAME | --optfile NAME | -of NAME | --of NAME  
       -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME  
           Use "NAME" as the optfile.  By default, an attempt will be  
           made to find an appropriate "standard" optfile in the  
           tools/build_options/ directory.  
   
     -pdepend NAME | --pdepend NAME  
       -pdepend=NAME | --pdepend=NAME  
           Get package dependency information from "NAME".  
   
     -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.  
   
     -cc NAME | --cc NAME | -cc=NAME | --cc=NAME  
           Use "NAME" as the C compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as gcc, c89, cc, etc.  
   
     -[no]ieee | --[no]ieee  
           Do or don't use IEEE numerics.  Note that this option  
           *only* works if it is supported by the OPTFILE that  
           is being used.  
   
     -ignoretime | -ignore_time | --ignoretime | --ignore_time  
           Ignore all the "wall clock" routines entirely.  This will  
           not in any way hurt the model results -- it simply means  
           that the code that checks how long the model spends in  
           various routines will give junk values.  
   
     -ts | --ts  
           Produce timing information per timestep  
     -papis | --papis  
           Produce summary MFlop/s (and IPC) with PAPI per timestep  
     -pcls | --pcls  
           Produce summary MFlop/s etc. with PCL per timestep  
     -foolad | --foolad  
           Fool the AD code generator  
     -papi | --papi  
           Performance analysis with PAPI  
     -pcl | --pcl  
           Performance analysis with PCL  
     -hpmt | --hpmt  
           Performance analysis with the HPM Toolkit  
   
     -gsl | --gsl  
           Use GSL to control floating point rounding and precision  
     -devel | --devel  
           Add additional warning and debugging flags for development  
   
     -mpi | --mpi  
           Include MPI header files and link to MPI libraries  
     -mpi=PATH | --mpi=PATH  
           Include MPI header files and link to MPI libraries using MPI_ROOT  
           set to PATH. i.e. Include files from \$PATH/include, link to libraries  
           from \$PATH/lib and use binaries from \$PATH/bin.  
   
     -es | --es | -embed-source | --embed-source  
           Embed a tarball containing the full source code  
           (including the Makefile, etc.) used to build the  
           executable [off by default]  
   
     -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  
703  }  }
704    
705  #  Build a CPP macro to automate calling C routines from FORTRAN  #  Build a CPP macro to automate calling C routines from FORTRAN
# Line 642  get_fortran_c_namemangling()  { Line 707  get_fortran_c_namemangling()  {
707    
708      #echo "FC_NAMEMANGLE = \"$FC_NAMEMANGLE\""      #echo "FC_NAMEMANGLE = \"$FC_NAMEMANGLE\""
709      if test ! "x$FC_NAMEMANGLE" = x ; then      if test ! "x$FC_NAMEMANGLE" = x ; then
710          return 0          return 0
711      fi      fi
712        echo " running: get_fortran_c_namemangling()" >> $LOGFILE
713    
714      default_nm="#define FC_NAMEMANGLE(X) X ## _"      default_nm="#define FC_NAMEMANGLE(X) X ## _"
715        
716      cat > genmake_test.c <<EOF      cat > genmake_test.c <<EOF
717  void tcall( char * string ) { tsub( string ); }  void tcall( char * string ) { tsub( string ); }
718  EOF  EOF
719      $MAKE genmake_test.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_test.c"
720        echo ' '$COMM >> $LOGFILE
721        $COMM >> $LOGFILE 2>&1
722      RETVAL=$?      RETVAL=$?
723      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
724          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
725          cat <<EOF>> genmake_errors          cat <<EOF>> $LOGFILE
726    
727  WARNING: C test compile fails   WARNING: C test compile fails
728  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
729  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
730  EOF  EOF
731          return 1          return 1
732      fi      fi
# Line 666  EOF Line 734  EOF
734      RETVAL=$?      RETVAL=$?
735      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
736          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
737          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
738    
739  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
740  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
741  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
742  EOF  EOF
743          return 1          return 1
744      fi      fi
# Line 680  EOF Line 748  EOF
748        call tsub( string )        call tsub( string )
749        end        end
750  EOF  EOF
751      $FC $FFLAGS -c genmake_tcomp.$FS >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -c genmake_tcomp.$FS"
752        echo ' '$COMM >> $LOGFILE
753        $COMM >> $LOGFILE 2>&1
754      RETVAL=$?      RETVAL=$?
755      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
756          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
757          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
758    
759  WARNING: FORTRAN test compile fails -- please see "genmake_errors"   WARNING: FORTRAN test compile fails -- please see '$LOGFILE'
760  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
761  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
762  EOF  EOF
763          return 1          return 1
764      fi      fi
# Line 696  EOF Line 766  EOF
766      RETVAL=$?      RETVAL=$?
767      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
768          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
769          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
770    
771  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
772  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
773  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
774  EOF  EOF
775          return 1          return 1
776      fi      fi
# Line 726  EOF Line 796  EOF
796    
797      #  cleanup the testing files      #  cleanup the testing files
798      rm -f genmake_tcomp.* genmake_test.*      rm -f genmake_tcomp.* genmake_test.*
 }  
799    
800        echo " --> set FC_NAMEMANGLE='$FC_NAMEMANGLE'" >> $LOGFILE
801    }
802    
803  check_HAVE_CLOC()  {  check_HAVE_CLOC()  {
804        echo >> $LOGFILE
805        echo "running: check_HAVE_CLOC()" >> $LOGFILE
806      get_fortran_c_namemangling      get_fortran_c_namemangling
807      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
808  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 747  void FC_NAMEMANGLE(cloc) ( double *curti Line 820  void FC_NAMEMANGLE(cloc) ( double *curti
820  }  }
821  EOF  EOF
822      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
823      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
824      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
825      RET_C=$?      RET_C=$?
826      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
827        program hello        program hello
# Line 759  EOF Line 832  EOF
832        end        end
833  EOF  EOF
834      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
835      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
836      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
837      RET_F=$?      RET_F=$?
838      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> $LOGFILE 2>&1
839      RETVAL=$?      RETVAL=$?
840      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
841          HAVE_CLOC=t          HAVE_CLOC=t
         DEFINES="$DEFINES -DHAVE_CLOC"  
842      fi      fi
843      rm -f genmake_tc*      rm -f genmake_tc*
844        echo " --> set HAVE_CLOC='$HAVE_CLOC'" >> $LOGFILE
845  }  }
846    
   
847  check_HAVE_SIGREG()  {  check_HAVE_SIGREG()  {
848      if test ! "x$HAVE_SIGREG" = x ; then      if test ! "x$HAVE_SIGREG" = x ; then
849          return          return
850      fi      fi
851        echo >> $LOGFILE
852        echo "running: check_HAVE_SIGREG()" >> $LOGFILE
853      get_fortran_c_namemangling      get_fortran_c_namemangling
854      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
855  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 808  void FC_NAMEMANGLE(sigreg) (int * aip) Line 882  void FC_NAMEMANGLE(sigreg) (int * aip)
882  }  }
883  EOF  EOF
884      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
885      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
886      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
887      RET_C=$?      RET_C=$?
888      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
889        program hello        program hello
# Line 819  EOF Line 893  EOF
893        call sigreg(anint)        call sigreg(anint)
894        end        end
895  EOF  EOF
896      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SIGREG()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
897      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
898      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
899      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
900      RETVAL=$?      RETVAL=$?
901      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
902          HAVE_SIGREG=t          HAVE_SIGREG=t
         DEFINES="$DEFINES -DHAVE_SIGREG"  
903      fi      fi
904      rm -f genmake_tc*      rm -f genmake_tc*
905        echo " --> set HAVE_SIGREG='$HAVE_SIGREG'" >> $LOGFILE
906  }  }
907    
   
908  check_HAVE_SETRLSTK()  {  check_HAVE_SETRLSTK()  {
     if test "x$HAVE_SETRLSTK" = xt ; then  
         DEFINES="$DEFINES -DHAVE_SETRLSTK"  
         return  
     fi    
909      if test ! "x$HAVE_SETRLSTK" = x ; then      if test ! "x$HAVE_SETRLSTK" = x ; then
910          return          return
911      fi      fi
912        echo >> $LOGFILE
913        echo "running: check_HAVE_SETRLSTK()" >> $LOGFILE
914      get_fortran_c_namemangling      get_fortran_c_namemangling
915      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
916  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 858  void FC_NAMEMANGLE(setrlstk) () Line 927  void FC_NAMEMANGLE(setrlstk) ()
927  }  }
928  EOF  EOF
929      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
930      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
931      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
932      RET_C=$?      RET_C=$?
933      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
934        program hello        program hello
# Line 867  EOF Line 936  EOF
936        call setrlstk()        call setrlstk()
937        end        end
938  EOF  EOF
939      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SETRLSTK()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
940      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
941      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
942      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
943      RETVAL=$?      RETVAL=$?
944      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
945          HAVE_SETRLSTK=t          HAVE_SETRLSTK=t
         DEFINES="$DEFINES -DHAVE_SETRLSTK"  
946      fi      fi
947      rm -f genmake_tc*      rm -f genmake_tc*
948        echo " --> set HAVE_SETRLSTK='$HAVE_SETRLSTK'" >> $LOGFILE
949  }  }
950    
   
951  check_HAVE_STAT()  {  check_HAVE_STAT()  {
952        echo >> $LOGFILE
953        echo "running: check_HAVE_STAT()" >> $LOGFILE
954      get_fortran_c_namemangling      get_fortran_c_namemangling
955      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
956  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 904  void FC_NAMEMANGLE(tfsize) ( int *nbyte Line 972  void FC_NAMEMANGLE(tfsize) ( int *nbyte
972  }  }
973  EOF  EOF
974      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
975      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
976      $COMM >> genmake_tc.log 2>&1      $COMM >> genmake_tc.log 2>&1
977      RET_C=$?      RET_C=$?
978      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
# Line 914  EOF Line 982  EOF
982        print *," HELLO WORLD", nbyte        print *," HELLO WORLD", nbyte
983        end        end
984  EOF  EOF
985      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_STAT()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
986      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
987      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
988      $COMM >> genmake_tc.log 2>&1      $COMM >> genmake_tc.log 2>&1
989      RETVAL=$?      RETVAL=$?
990      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
991          HAVE_STAT=t          HAVE_STAT=t
         DEFINES="$DEFINES -DHAVE_STAT"  
992      fi      fi
993      rm -f genmake_tc*      rm -f genmake_tc*
994        echo " --> set HAVE_STAT='$HAVE_STAT'" >> $LOGFILE
995  }  }
996    
   
997  check_netcdf_libs()  {  check_netcdf_libs()  {
998      if test ! "x$SKIP_NETCDF_CHECK" = x ; then      if test ! "x$SKIP_NETCDF_CHECK" = x ; then
999          return          return
1000      fi      fi
1001      echo >> genmake_warnings      echo >> $LOGFILE
1002      echo "running: check_netcdf_libs()" >> genmake_warnings      echo "running: check_netcdf_libs()" >> $LOGFILE
1003      cat <<EOF > genmake_tnc.F      cat <<EOF > genmake_tnc.F
1004        program fgennc        program fgennc
1005  #include "netcdf.inc"  #include "netcdf.inc"
1006  EOF  EOF
1007      if test ! "x$MPI" = x ; then     #if test ! "x$MPI" = x ; then
1008          echo '#include "mpif.h"' >> genmake_tnc.F     #    echo '#include "mpif.h"' >> genmake_tnc.F
1009      fi     #fi
1010      cat <<EOF >> genmake_tnc.F      cat <<EOF >> genmake_tnc.F
1011        integer iret, ncid, xid        integer iret, ncid, xid
1012        iret = nf_create('genmake_tnc.nc', NF_CLOBBER, ncid)        iret = nf_create('genmake_tnc.nc', NF_CLOBBER, ncid)
# Line 952  EOF Line 1017  EOF
1017        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
1018        end        end
1019  EOF  EOF
1020      echo "===  genmake_tnc.F  ===" > genmake_tnc.log      echo "===  genmake_tnc.F  >>>" > genmake_tnc.log
1021      cat genmake_tnc.F >> genmake_tnc.log      cat genmake_tnc.F >> genmake_tnc.log
1022      echo "===  genmake_tnc.F  ===" >> genmake_tnc.log      echo "<<<  genmake_tnc.F  ===" >> genmake_tnc.log
1023      RET_CPP=f      RET_CPP=f
1024      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"
1025      echo "$COMM" >> genmake_tnc.log      echo "$COMM" >> genmake_tnc.log
# Line 970  EOF Line 1035  EOF
1035      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1036          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1
1037      RET_COMPILE=$?      RET_COMPILE=$?
1038      cat genmake_tnc.log >> genmake_warnings      cat genmake_tnc.log >> $LOGFILE
1039    
1040      #EH3  Remove test program execution for machines that either disallow      #EH3  Remove test program execution for machines that either disallow
1041      #EH3  execution or cannot support it (eg. cross-compilers)      #EH3  execution or cannot support it (eg. cross-compilers)
# Line 981  EOF Line 1046  EOF
1046    
1047      if test "x$RET_COMPILE" = x0 ; then      if test "x$RET_COMPILE" = x0 ; then
1048          HAVE_NETCDF=t          HAVE_NETCDF=t
1049            echo "check_netcdf: successful" >> $LOGFILE
1050      else      else
1051          # try again with "-lnetcdf" added to the libs          # try again with "-lnetcdf" added to the libs
1052          echo "try again with added '-lnetcdf'" > genmake_tnc.log          echo "==> try again with added '-lnetcdf'" > genmake_tnc.log
1053          echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log          echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1054          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1055          echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log          echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
# Line 991  EOF Line 1057  EOF
1057              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1058              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1
1059          RET_COMPILE=$?          RET_COMPILE=$?
1060          cat genmake_tnc.log >> genmake_warnings          echo >> $LOGFILE
1061            cat genmake_tnc.log >> $LOGFILE
1062          if test "x$RET_COMPILE" = x0 ; then          if test "x$RET_COMPILE" = x0 ; then
1063              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
1064              HAVE_NETCDF=t              HAVE_NETCDF=t
1065                echo "check_netcdf: successful" >> $LOGFILE
1066          else          else
1067          # try again with "-lnetcdff" added to the libs          # try again with "-lnetcdff" added to the libs
1068              echo "try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log              echo "==> try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
1069              echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log              echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1070              echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log              echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1071              echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log              echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
# Line 1005  EOF Line 1073  EOF
1073                  &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \                  &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1074                  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1                  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
1075              RET_COMPILE=$?              RET_COMPILE=$?
1076              cat genmake_tnc.log >> genmake_warnings              echo >> $LOGFILE
1077                cat genmake_tnc.log >> $LOGFILE
1078              if test "x$RET_COMPILE" = x0 ; then              if test "x$RET_COMPILE" = x0 ; then
1079                  LIBS="$LIBS -lnetcdff -lnetcdf"                  LIBS="$LIBS -lnetcdff -lnetcdf"
1080                  HAVE_NETCDF=t                  HAVE_NETCDF=t
1081                    echo "check_netcdf: successful" >> $LOGFILE
1082                fi
1083            fi
1084        fi
1085        rm -f genmake_tnc*
1086        echo " --> set HAVE_NETCDF='$HAVE_NETCDF'" >> $LOGFILE
1087    }
1088    
1089    check_lapack_libs()  {
1090        if test "x$CHECK_FOR_LAPACK" = xf ; then return ; fi
1091        echo >> $LOGFILE
1092        echo "running: check_lapack_libs()" >> $LOGFILE
1093        cat <<EOF > genmake_tla.F
1094          program fgenla
1095          integer info
1096          integer ipiv( 2 )
1097          double precision ab( 4, 2 ), b( 2 )
1098          data ab / 0., 0., 1., 2., 0., 2., 1., 0. /
1099          data b / 1., 1. /
1100          call dgbsv( 2, 1, 1, 1, ab, 4, ipiv, b, 2, info )
1101          IF (info .NE. 0) write(*,*) 'Error:', info
1102          write(*,*) b
1103          end
1104    EOF
1105        echo "===  genmake_tla.F  >>>" > genmake_tla.log
1106        cat genmake_tla.F >> genmake_tla.log
1107        echo "<<<  genmake_tla.F  ===" >> genmake_tla.log
1108        RET_CPP=f
1109        COMM="cat genmake_tla.F | $CPP $DEFINES $INCLUDES"
1110        echo "$COMM" >> genmake_tla.log
1111        eval $COMM > genmake_tla.$FS 2>/dev/null  &&  RET_CPP=t
1112        if test "x$RET_CPP" = xf ; then
1113            echo "  WARNING: CPP failed to pre-process the lapack test." \
1114                >> genmake_tla.log
1115            echo "    Please check that \$INCLUDES is properly set." \
1116                >> genmake_tla.log
1117        fi
1118        echo "$FC $FFLAGS $FOPTIM -c genmake_tla.$FS  \ " >> genmake_tla.log
1119        echo "  &&  $LINK $FFLAGS $FOPTIM -o genmake_tla.o $LIBS" >> genmake_tla.log
1120        $FC $FFLAGS $FOPTIM -c genmake_tla.$FS >> genmake_tla.log 2>&1  \
1121            &&  $LINK $FFLAGS $FOPTIM -o genmake_tla genmake_tla.o $LIBS >> genmake_tla.log 2>&1
1122        RET_COMPILE=$?
1123        cat genmake_tla.log >> $LOGFILE
1124    
1125        # test program execution not always possible (see check_netcdf_libs)
1126        #
1127        #test -x ./genmake_tla  &&  ./genmake_tla >> genmake_tla.log 2>&1
1128        #RETVAL=$?
1129        #if test "x$RET_COMPILE" = x0 -a "x$RETVAL" = x0 ; then
1130    
1131        if test "x$RET_COMPILE" = x0 ; then
1132            HAVE_LAPACK=t
1133            echo "check_lapack: successful" >> $LOGFILE
1134        else
1135            # try again with "-llapack" added to the libs
1136            echo "==> try again with added '-llapack'" > genmake_tla.log
1137            echo "cat genmake_tla.F | $CPP $DEFINES $INCLUDES > genmake_tla.$FS \ " >> genmake_tla.log
1138            echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tla.$FS \ " >> genmake_tla.log
1139            echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tla genmake_tla.o $LIBS -llapack" >> genmake_tla.log
1140            cat genmake_tla.F | $CPP $DEFINES $INCLUDES > genmake_tla.$FS 2>/dev/null  \
1141                &&  $FC $FFLAGS $FOPTIM -c genmake_tla.$FS >> genmake_tla.log 2>&1  \
1142                &&  $LINK $FFLAGS $FOPTIM -o genmake_tla genmake_tla.o $LIBS -llapack >> genmake_tla.log 2>&1
1143            RET_COMPILE=$?
1144            echo >> $LOGFILE
1145            cat genmake_tla.log >> $LOGFILE
1146            if test "x$RET_COMPILE" = x0 ; then
1147                LIBS="$LIBS -llapack"
1148                HAVE_LAPACK=t
1149                echo "check_lapack: successful" >> $LOGFILE
1150            else
1151            # try again with "-lf77blas -lcblas" added to the libs
1152                echo "==> try again with added '-llapack -lf77blas -lcblas'" > genmake_tla.log
1153                echo "cat genmake_tla.F | $CPP $DEFINES $INCLUDES > genmake_tla.$FS \ " >> genmake_tla.log
1154                echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tla.$FS \ " >> genmake_tla.log
1155                echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tla genmake_tla.o $LIBS -llapack -lf77blas -lcblas" >> genmake_tla.log
1156                cat genmake_tla.F | $CPP $DEFINES $INCLUDES > genmake_tla.$FS 2>/dev/null  \
1157                    &&  $FC $FFLAGS $FOPTIM -c genmake_tla.$FS >> genmake_tla.log 2>&1  \
1158                    &&  $LINK $FFLAGS $FOPTIM -o genmake_tla genmake_tla.o $LIBS -llapack -lf77blas -lcblas >> genmake_tla.log 2>&1
1159                RET_COMPILE=$?
1160                echo >> $LOGFILE
1161                cat genmake_tla.log >> $LOGFILE
1162                if test "x$RET_COMPILE" = x0 ; then
1163                    LIBS="$LIBS -llapack -lf77blas -lcblas"
1164                    HAVE_LAPACK=t
1165                    echo "check_lapack: successful" >> $LOGFILE
1166                else
1167                # try again with "-latlas" added to the libs
1168                    echo "==> try again with added '-llapack -lf77blas -lcblas -latlas'" > genmake_tla.log
1169                    echo "cat genmake_tla.F | $CPP $DEFINES $INCLUDES > genmake_tla.$FS \ " >> genmake_tla.log
1170                    echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tla.$FS \ " >> genmake_tla.log
1171                    echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tla genmake_tla.o $LIBS -llapack -lf77blas -lcblas -latlas" >> genmake_tla.log
1172                    cat genmake_tla.F | $CPP $DEFINES $INCLUDES > genmake_tla.$FS 2>/dev/null  \
1173                        &&  $FC $FFLAGS $FOPTIM -c genmake_tla.$FS >> genmake_tla.log 2>&1  \
1174                        &&  $LINK $FFLAGS $FOPTIM -o genmake_tla genmake_tla.o $LIBS -llapack -lf77blas -lcblas -latlas >> genmake_tla.log 2>&1
1175                    RET_COMPILE=$?
1176                    echo >> $LOGFILE
1177                    cat genmake_tla.log >> $LOGFILE
1178                    if test "x$RET_COMPILE" = x0 ; then
1179                        LIBS="$LIBS -llapack -lf77blas -lcblas -latlas"
1180                        HAVE_LAPACK=t
1181                        echo "check_lapack: successful" >> $LOGFILE
1182                    fi
1183              fi              fi
1184          fi          fi
1185      fi      fi
1186      rm -f genmake_tnc*      rm -f genmake_tla*
1187        echo " --> set HAVE_LAPACK='$HAVE_LAPACK'" >> $LOGFILE
1188    }
1189    
1190    check_HAVE_FLUSH()  {
1191        if test ! "x$SKIP_CHECK_FLUSH" = x ; then
1192            return
1193        fi
1194        echo >> $LOGFILE
1195        echo "running: check_HAVE_FLUSH()" >> $LOGFILE
1196        cat <<EOF > genmake_tflsh.$FS
1197          program fgenflsh
1198          integer iounit
1199          character*9 fname
1200          iounit = 26
1201          fname = 'tmp.tflsh'
1202          open(iounit,FILE=fname,STATUS='unknown')
1203          write(iounit,*) 'genmake_tflsh: hello'
1204          call flush(iounit)
1205          close(iounit)
1206          end
1207    EOF
1208        echo "===  genmake_tflsh.$FS  >>>" > genmake_tflsh.log
1209        cat genmake_tflsh.$FS >> genmake_tflsh.log
1210        echo "<<<  genmake_tflsh.$FS  ===" >> genmake_tflsh.log
1211    
1212        echo "$FC $FFLAGS $FOPTIM -c genmake_tflsh.$FS  \ " >> genmake_tflsh.log
1213        echo "  &&  $LINK $FFLAGS $FOPTIM -o genmake_tflsh.o $LIBS" >> genmake_tflsh.log
1214        $FC $FFLAGS $FOPTIM -c genmake_tflsh.$FS >> genmake_tflsh.log 2>&1  \
1215            &&  $LINK $FFLAGS $FOPTIM -o genmake_tflsh genmake_tflsh.o $LIBS >> genmake_tflsh.log 2>&1
1216        RET_COMPILE=$?
1217    
1218        if test "x$RET_COMPILE" = x0 ; then
1219            HAVE_FLUSH=t
1220            #cat genmake_tflsh.log >> $LOGFILE
1221            echo "  check_HAVE_FLUSH: successful" >> $LOGFILE
1222        else
1223            HAVE_FLUSH=f
1224            cat genmake_tflsh.log >> $LOGFILE
1225        fi
1226        rm -f genmake_tflsh*
1227        echo " --> set HAVE_FLUSH='$HAVE_FLUSH'" >> $LOGFILE
1228  }  }
1229    
   
   
1230  ###############################################################################  ###############################################################################
1231  #   Sequential part of script starts here  #   Sequential part of script starts here
1232  ###############################################################################  ###############################################################################
# Line 1038  ENABLE= Line 1248  ENABLE=
1248  DISABLE=  DISABLE=
1249  # MAKEFILE=  # MAKEFILE=
1250  # MAKEDEPEND=  # MAKEDEPEND=
1251  PDEPEND=  PKG_DEPEND=
1252  DUMPSTATE=t  PKG_GROUPS=
1253  PDEFAULT=  DUMPSTATE=f
1254  OPTFILE=  OPTFILE=
1255  INCLUDES="-I. $INCLUDES"  INCLUDES="-I. $INCLUDES"
1256  FFLAGS=  FFLAGS=
# Line 1048  FOPTIM= Line 1258  FOPTIM=
1258  FEXTRAFLAGS=  FEXTRAFLAGS=
1259  USE_EXTENDED_SRC=  USE_EXTENDED_SRC=
1260  EXTENDED_SRC_FLAG=  EXTENDED_SRC_FLAG=
1261    GET_FC_VERSION=
1262  CFLAGS=  CFLAGS=
1263  KFLAGS1=  KFLAGS1=
1264  KFLAGS2=  KFLAGS2=
# Line 1058  NOOPTFILES= Line 1269  NOOPTFILES=
1269  NOOPTFLAGS=  NOOPTFLAGS=
1270  MPI=  MPI=
1271  MPIPATH=  MPIPATH=
1272    OMP=
1273    OMPFLAG=
1274    USE_R4=
1275  TS=  TS=
1276  PAPIS=  PAPIS=
1277  PCLS=  PCLS=
# Line 1069  GSL= Line 1283  GSL=
1283  DEVEL=  DEVEL=
1284  HAVE_TEST_L=  HAVE_TEST_L=
1285    
1286    # set this to "t" to enable lapack test
1287    CHECK_FOR_LAPACK=f
1288    
1289  # DEFINES checked by test compilation or command-line  # DEFINES checked by test compilation or command-line
1290  HAVE_SYSTEM=  HAVE_SYSTEM=
1291  HAVE_FDATE=  HAVE_FDATE=
# Line 1079  HAVE_STAT= Line 1296  HAVE_STAT=
1296  HAVE_NETCDF=  HAVE_NETCDF=
1297  HAVE_ETIME=  HAVE_ETIME=
1298  IGNORE_TIME=  IGNORE_TIME=
1299    HAVE_LAPACK=
1300    HAVE_FLUSH=
1301    
1302  MODS=  MODS=
1303  TOOLSDIR=  TOOLSDIR=
# Line 1086  SOURCEDIRS= Line 1305  SOURCEDIRS=
1305  INCLUDEDIRS=  INCLUDEDIRS=
1306  STANDARDDIRS="USE_THE_DEFAULT"  STANDARDDIRS="USE_THE_DEFAULT"
1307    
1308    #- local config file
1309    gm_local="genmake_local"
1310    
1311  G2ARGS=  G2ARGS=
1312  BASH=  BASH=
1313  PWD=`pwd`  PWD=`pwd`
# Line 1101  MACHINE=`uname -a` Line 1323  MACHINE=`uname -a`
1323  EXECUTABLE=  EXECUTABLE=
1324  EXEHOOK=  EXEHOOK=
1325  EXEDIR=  EXEDIR=
 PACKAGES_CONF=  
1326  IEEE=  IEEE=
1327  if test "x$MITGCM_IEEE" != x ; then  if test "x$MITGCM_IEEE" != x ; then
1328      IEEE=$MITGCM_IEEE      IEEE=$MITGCM_IEEE
# Line 1110  FS= Line 1331  FS=
1331  FS90=  FS90=
1332    
1333  AUTODIFF_PKG_USED=f  AUTODIFF_PKG_USED=f
1334    OPENAD=
1335    OPENAD_DIVA=
1336  AD_OPTFILE=  AD_OPTFILE=
1337    CAT_SRC_FOR_TAF=1
1338  TAF=  TAF=
1339  AD_TAF_FLAGS=  AD_TAF_FLAGS=
1340  FTL_TAF_FLAGS=  FTL_TAF_FLAGS=
# Line 1122  FTL_TAF_FLAGS= Line 1346  FTL_TAF_FLAGS=
1346  SVD_TAMC_FLAGS=  SVD_TAMC_FLAGS=
1347  TAMC_EXTRA=  TAMC_EXTRA=
1348    
1349    DIVA=
1350    MPIINCLUDEDIR=
1351    MPI_HEADER_FILES=
1352    LOCAL_MPI_HEADERS=
1353    
1354  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1355  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"  gm_s1="ROOTDIR STANDARDDIRS MODS PKG_DEPEND PKG_GROUPS DISABLE ENABLE"
1356  gm_s2="FC CPP IEEE TS PAPIS PCLS PAPI PCL HPMT GSL DEVEL MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="PLATFORM OPTFILE MAKE MAKEFILE MAKEDEPEND FC CC MPI OMP USE_R4"
1357    gm_s3="FEXTRAFLAGS IEEE DEVEL GSL TS PAPIS PCLS PAPI PCL HPMT DUMPSTATE"
1358    
1359  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1360  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"  gm_s4="LN S64 LINK PACKAGES INCLUDES FFLAGS FOPTIM"
1361  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s5="CFLAGS LIBS KPP KFLAGS1 KFLAGS2 KPPFILES NOOPTFILES NOOPTFLAGS"
1362  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"  gm_s6="PWD TOOLSDIR SOURCEDIRS INCLUDEDIRS EXEDIR EXECUTABLE EXEHOOK"
1363  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s7="TMP THISHOST THISUSER THISDATE THISVER MACHINE FC_NAMEMANGLE"
1364  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE HAVE_ETIME"  gm_s8="HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME HAVE_LAPACK HAVE_FLUSH"
1365    
1366  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1367  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE OPENAD TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"
1368  gm_s11="FTL_TAMC_FLAGS FTL_TAF_FLAGS SVD_TAMC_FLAGS SVD_TAF_FLAGS"  gm_s11="FTL_TAMC_FLAGS FTL_TAF_FLAGS SVD_TAMC_FLAGS SVD_TAF_FLAGS"
1369  gm_s12="TAF_EXTRA TAMC_EXTRA"  gm_s12="TAF_EXTRA TAMC_EXTRA DIVA MPIINCLUDEDIR MPI_HEADER_FILES"
1370    
1371  gm_state="COMMANDL $gm_s1 $gm_s2 $gm_s3 $gm_s4 $gm_s5 $gm_s6 $gm_s7"  gm_state="COMMANDL $gm_s1 $gm_s2 $gm_s3 $gm_s4 $gm_s5 $gm_s6 $gm_s7 $gm_s8"
1372  gm_state="$gm_state $gm_s10 $gm_s11 $gm_s12"  gm_state="$gm_state $gm_s10 $gm_s11 $gm_s12"
1373    
1374  cat <<EOF  cat <<EOF
1375    
1376  GENMAKE :  GENMAKE :
1377    
1378  A program for GENerating MAKEfiles for the MITgcm project.  For a  A program for GENerating MAKEfiles for the MITgcm project.
1379  quick list of options, use "genmake -h" or for more detail see:     For a quick list of options, use "genmake2 -h"
1380    or for more detail see the Developer's HOWTO manual at:
1381    http://mitgcm.org/devel_HOWTO/     http://mitgcm.org/public/docs.html
1382    
1383  EOF  EOF
1384    
1385    LOGFILE="genmake.log"
1386    #- clean-up previous genmake logfiles:
1387    rm -f genmake_state genmake_*optfile $LOGFILE
1388    
1389  echo "===  Processing options files and arguments  ==="  echo "===  Processing options files and arguments  ==="
 gm_local="genmake_local"  
 printf "  getting local config information:  "  
 if test -f $gm_local ; then  
     echo "using $gm_local"  
     . $gm_local  
     # echo "DISABLE=$DISABLE"  
     # echo "ENABLE=$ENABLE"  
 else  
     echo "none found"  
 fi  
1390    
1391  #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=$(( $n + 1 ))  
 #done  
1392  #parse_options  #parse_options
1393  ac_prev=  ac_prev=
1394  for ac_option in "$@" ; do  for ac_option in "$@" ; do
# Line 1187  for ac_option in "$@" ; do Line 1401  for ac_option in "$@" ; do
1401          ac_prev=          ac_prev=
1402          continue          continue
1403      fi      fi
1404        
1405      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`
1406        
1407      case $ac_option in      case $ac_option in
1408            
1409          -help | --help | -h | --h)          -help | --help | -h | --h)
1410              usage ;;              usage ;;
1411            
1412          -nooptfile | --nooptfile)          -nooptfile | --nooptfile)
1413              OPTFILE="NONE" ;;              OPTFILE="NONE" ;;
1414          -optfile | --optfile | -of | --of)          -optfile | --optfile | -of | --of)
1415              ac_prev=OPTFILE ;;              ac_prev=OPTFILE ;;
1416          -optfile=* | --optfile=* | -of=* | --of=*)          -optfile=* | --optfile=* | -of=* | --of=*)
1417              OPTFILE=$ac_optarg ;;              OPTFILE=$ac_optarg ;;
1418            
1419            -oad | --oad)
1420                OPENAD="true" ; ALWAYS_USE_F90=1 ;;
1421            -nocat4ad | -dog4ad | -ncad | -dad)
1422                CAT_SRC_FOR_TAF=0 ;;
1423          -adoptfile | --adoptfile | -adof | --adof)          -adoptfile | --adoptfile | -adof | --adof)
1424              ac_prev=AD_OPTFILE ;;              ac_prev=AD_OPTFILE ;;
1425          -adoptfile=* | --adoptfile=* | -adof=* | --adof=*)          -adoptfile=* | --adoptfile=* | -adof=* | --adof=*)
1426              AD_OPTFILE=$ac_optarg ;;              AD_OPTFILE=$ac_optarg ;;
1427            
1428            -diva | --diva)
1429                OPENAD_DIVA="ALLOW_OPENAD_DIVA=" ;;
1430    
1431          -pdepend | --pdepend)          -pdepend | --pdepend)
1432              ac_prev=PDEPEND ;;              ac_prev=PKG_DEPEND ;;
1433          -pdepend=* | --pdepend=*)          -pdepend=* | --pdepend=*)
1434              PDEPEND=$ac_optarg ;;              PKG_DEPEND=$ac_optarg ;;
1435            
1436          -pdefault | --pdefault)          -pgroups | --pgroups)
1437              ac_prev=PDEFAULT ;;              ac_prev=PKG_GROUPS ;;
1438          -pdefault=* | --pdefault=*)          -pgroups=* | --pgroups=*)
1439              PDEFAULT=$ac_optarg ;;              PKG_GROUPS=$ac_optarg ;;
1440            
1441          -make | --make | -m | --m)          -make | --make | -m | --m)
1442              ac_prev=MAKE ;;              ac_prev=MAKE ;;
1443          -make=* | --make=* | -m=* | --m=*)          -make=* | --make=* | -m=* | --m=*)
1444              MAKE=$ac_optarg ;;              MAKE=$ac_optarg ;;
1445            
1446          -bash | --bash)          -bash | --bash)
1447              ac_prev=BASH ;;              ac_prev=BASH ;;
1448          -bash=* | --bash=*)          -bash=* | --bash=*)
1449              BASH=$ac_optarg ;;              BASH=$ac_optarg ;;
1450            
1451          -makedepend | --makedepend | -md | --md)          -makedepend | --makedepend | -md | --md)
1452              ac_prev=MAKEDEPEND ;;              ac_prev=MAKEDEPEND ;;
1453          -makedepend=* | --makedepend=* | -md=* | --md=*)          -makedepend=* | --makedepend=* | -md=* | --md=*)
1454              MAKEDEPEND=$ac_optarg ;;              MAKEDEPEND=$ac_optarg ;;
1455            
1456          -makefile | --makefile | -ma | --ma)          -makefile | --makefile | -mf | --mf)
1457              ac_prev=MAKEFILE ;;              ac_prev=MAKEFILE ;;
1458          -makefile=* | --makefile=* | -ma=* | --ma=*)          -makefile=* | --makefile=* | -mf=* | --mf=*)
1459              MAKEFILE=$ac_optarg ;;              MAKEFILE=$ac_optarg ;;
1460            
1461          -platform | --platform | -pl | --pl | -platform=* | --platform=* | -pl=* | --pl=*)          -platform | --platform | -pl | --pl | -platform=* | --platform=* | -pl=* | --pl=*)
1462              echo "ERROR: The platform option has been removed.  Please specify"              echo "ERROR: The platform option has been removed.  Please specify"
1463              echo "  the build options using the \"optfile\" mechanism."              echo "  the build options using the \"optfile\" mechanism."
1464              echo              echo
1465              usage              usage
1466              ;;              ;;
1467            
1468          -rootdir | --rootdir | -rd | --rd)          -rootdir | --rootdir | -rd | --rd)
1469              ac_prev=ROOTDIR ;;              ac_prev=ROOTDIR ;;
1470          -rootdir=* | --rootdir=* | -rd=* | --rd=*)          -rootdir=* | --rootdir=* | -rd=* | --rd=*)
1471              ROOTDIR=$ac_optarg ;;              ROOTDIR=$ac_optarg ;;
1472            
1473          -mods | --mods | -mo | --mo)          -mods | --mods | -mo | --mo)
1474              ac_prev=MODS ;;              ac_prev=MODS ;;
1475          -mods=* | --mods=* | -mo=* | --mo=*)          -mods=* | --mods=* | -mo=* | --mo=*)
1476              MODS=$ac_optarg ;;              MODS=$ac_optarg ;;
1477            
1478          -disable | --disable)          -disable | --disable)
1479              ac_prev=DISABLE ;;              ac_prev=DISABLE ;;
1480          -disable=* | --disable=*)          -disable=* | --disable=*)
1481              DISABLE=$ac_optarg ;;              DISABLE=$ac_optarg ;;
1482            
1483          -enable | --enable)          -enable | --enable)
1484              ac_prev=ENABLE ;;              ac_prev=ENABLE ;;
1485          -enable=* | --enable=*)          -enable=* | --enable=*)
1486              ENABLE=$ac_optarg ;;              ENABLE=$ac_optarg ;;
1487            
1488          -standarddirs | --standarddirs)          -standarddirs | --standarddirs)
1489              ac_prev=STANDARDDIRS ;;              ac_prev=STANDARDDIRS ;;
1490          -standarddirs=* | --standarddirs=*)          -standarddirs=* | --standarddirs=*)
# Line 1273  for ac_option in "$@" ; do Line 1494  for ac_option in "$@" ; do
1494  #               ac_prev=cpp ;;  #               ac_prev=cpp ;;
1495  #           -cpp=* | --cpp=*)  #           -cpp=* | --cpp=*)
1496  #               CPP=$ac_optarg ;;  #               CPP=$ac_optarg ;;
1497            
1498          -cc | --cc)          -cc | --cc)
1499              ac_prev=CC ;;              ac_prev=CC ;;
1500          -cc=* | --cc=*)          -cc=* | --cc=*)
1501              CC=$ac_optarg ;;              CC=$ac_optarg ;;
1502            
1503          -fortran | --fortran | -fc | --fc)          -fortran | --fortran | -fc | --fc)
1504              ac_prev=FC ;;              ac_prev=FC ;;
1505          -fc=* | --fc=*)          -fc=* | --fc=*)
1506              FC=$ac_optarg ;;              FC=$ac_optarg ;;
1507            
1508          -fs | --fs)          -fs | --fs)
1509              ac_prev=FS ;;              ac_prev=FS ;;
1510          -fs=* | --fs=*)          -fs=* | --fs=*)
1511              FS=$ac_optarg ;;              FS=$ac_optarg ;;
1512            
1513          -fs90 | --fs90)          -fs90 | --fs90)
1514              ac_prev=FS90 ;;              ac_prev=FS90 ;;
1515          -fs90=* | --fs90=*)          -fs90=* | --fs90=*)
1516              FS90=$ac_optarg ;;              FS90=$ac_optarg ;;
1517            
1518            -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
1519                USE_R4=true ;;
1520    
1521          -ieee | --ieee)          -ieee | --ieee)
1522              IEEE=true ;;              IEEE=true ;;
1523          -noieee | --noieee)          -noieee | --noieee)
1524              IEEE= ;;              echo "Warning: ignore option '$ac_option' (default is already without '-ieee')" ;;
1525            -devel | --devel)
1526                IEEE=true ; DEVEL=true ;;
1527            -gsl | --gsl)
1528                GSL=true ;;
1529    
1530          -ts | --ts)          -ts | --ts)
1531              TS=true ;;              TS=true ;;
# Line 1314  for ac_option in "$@" ; do Line 1542  for ac_option in "$@" ; do
1542          -hpmt | --hpmt)          -hpmt | --hpmt)
1543              HPMT=true ;;              HPMT=true ;;
1544    
         -gsl | --gsl)  
             GSL=true ;;  
   
         -devel | --devel)  
             DEVEL=true ;;  
   
1545          -mpi | --mpi)          -mpi | --mpi)
1546              MPI=true ;;              MPI=true ;;
1547          -mpi=* | --mpi=*)          -mpi=* | --mpi=*)
1548              MPIPATH=$ac_optarg              MPIPATH=$ac_optarg
1549              MPI=true ;;              MPI=true ;;
1550            
1551  #       -jam | --jam)          -omp | --omp)
1552  #           JAM=1 ;;              OMP=true ;;
1553  #       -nojam | --nojam)          -omp=* | --omp=*)
1554  #           JAM=0 ;;              OMPFLAG=$ac_optarg
1555                        OMP=true ;;
1556    
1557          -ds | --ds)          -ds | --ds)
1558              DUMPSTATE=t ;;              DUMPSTATE=t ;;
1559            
1560            -extra_flag | --extra_flag)
1561                ac_prev=FEXTRAFLAGS ;;
1562            -extra_flag=* | --extra_flag=*)
1563                FEXTRAFLAGS=$ac_optarg ;;
1564    
1565          -taf_extra | --taf_extra)          -taf_extra | --taf_extra)
1566              ac_prev=TAF_EXTRA ;;              ac_prev=TAF_EXTRA ;;
1567          -taf_extra=* | --taf_extra=*)          -taf_extra=* | --taf_extra=*)
# Line 1343  for ac_option in "$@" ; do Line 1571  for ac_option in "$@" ; do
1571              ac_prev=TAMC_EXTRA ;;              ac_prev=TAMC_EXTRA ;;
1572          -tamc_extra=* | --tamc_extra=*)          -tamc_extra=* | --tamc_extra=*)
1573              TAMC_EXTRA=$ac_optarg ;;              TAMC_EXTRA=$ac_optarg ;;
1574            
1575          -ignoretime | -ignore_time | --ignoretime | --ignore_time)          -ignoretime | -ignore_time | --ignoretime | --ignore_time)
1576              IGNORE_TIME="-DIGNORE_TIME" ;;              IGNORE_TIME="-DIGNORE_TIME" ;;
1577    
# Line 1354  for ac_option in "$@" ; do Line 1582  for ac_option in "$@" ; do
1582              echo "Error: unrecognized option: "$ac_option              echo "Error: unrecognized option: "$ac_option
1583              usage              usage
1584              ;;              ;;
1585            
1586          *)          *)
1587              echo "Error: unrecognized argument: "$ac_option              echo "Error: unrecognized argument: "$ac_option
1588              usage              usage
1589              ;;              ;;
1590            
1591      esac      esac
1592        
1593  done  done
1594    
1595    #TMP=./genmk_$$
1596    #- try to put temporary files in system-local /tmp dir
1597    TMP=/tmp/genmk_${USER}_$$
1598    touch $TMP ; retVal=$?
1599    if [ $retVal -eq 0 ] ; then
1600      if test ! -r $TMP ; then TMP=./genmk_$$ ; fi
1601    else
1602      TMP=./genmk_$$
1603    fi
1604    rm -f $TMP
1605    #echo "  temp files: $TMP.*"
1606    
1607    printf "  getting local config information:  "
1608    if test -f $gm_local ; then
1609        echo "using $gm_local"
1610        . $gm_local
1611    else
1612        echo "none found"
1613    fi
1614    
1615  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1616      echo      echo
1617      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
1618      echo "  file.  This file format is no longer supported.  For directions on"      echo "  file.  This file format is no longer supported.  For directions on"
1619      echo "  how to setup and use the new \"genmake2\" script, please see:"      echo "  how to setup and use the new \"genmake2\" script, please see:"
1620      echo "    http://mitgcm.org/devel_HOWTO/"      echo "    http://mitgcm.org/public/devel_HOWTO/"
1621      echo "  and send an email to MITgcm-support@mitgcm.org if you need help."      echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
1622      echo "WARNING: ignore \"./.genmakerc\" and continue."      echo "WARNING: ignore \"./.genmakerc\" and continue."
1623      echo      echo
1624  fi  fi
1625    
1626  #  Find the MITgcm ${ROOTDIR}  #  Find the MITgcm ${ROOTDIR}
# Line 1385  if test "x${ROOTDIR}" = x ; then Line 1632  if test "x${ROOTDIR}" = x ; then
1632          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do
1633              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then
1634                  ROOTDIR=$d                  ROOTDIR=$d
1635                  printf "Warning:  ROOTDIR was not specified but there appears to be"                  printf "Warning: ROOTDIR was not specified ;"
1636                  echo " a copy of MITgcm at \"$ROOTDIR\" so we'll try it."                  echo " try using a local copy of MITgcm found at \"$ROOTDIR\""
1637                  break                  break
1638              fi              fi
1639          done          done
# Line 1406  fi Line 1653  fi
1653  #  Find the MITgcm ${THISVER}  #  Find the MITgcm ${THISVER}
1654  version_file="${ROOTDIR}/doc/tag-index"  version_file="${ROOTDIR}/doc/tag-index"
1655  if test -f $version_file ; then  if test -f $version_file ; then
1656      THISVER=`grep '^checkpoint' $version_file | head -1`      THISVER=`$AWK '/^checkpoint/{print $1; exit}' $version_file`
1657  #-  remove ./BUILD_INFO.h file if older than version_file  #-  remove ./BUILD_INFO.h file if older than version_file
1658      if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then      if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
1659          echo "  remove ./BUILD_INFO.h (older than ${version_file})"          echo "  remove ./BUILD_INFO.h (older than ${version_file})"
# Line 1418  if test "x$MAKEFILE" = x ; then Line 1665  if test "x$MAKEFILE" = x ; then
1665      MAKEFILE="Makefile"      MAKEFILE="Makefile"
1666  fi  fi
1667    
1668  echo "  getting OPTFILE information:  "  echo "  getting OPTFILE information:"
1669  if test "x${OPTFILE}" = x ; then  if test "x${OPTFILE}" = x ; then
1670      if test "x$MITGCM_OF" = x ; then      if test "x$MITGCM_OF" = x ; then
1671          echo "Warning: no OPTFILE specified so we'll look for possible settings"          echo "Warning: no OPTFILE specified so we'll look for possible settings"
1672          printf "\n===  Searching for possible settings for OPTFILE  ===\n"          printf "\n===  Searching for possible settings for OPTFILE  ===\n"
1673          find_possible_configs          find_possible_optfile
1674      else      else
1675          OPTFILE=$MITGCM_OF          OPTFILE=$MITGCM_OF
1676      fi      fi
# Line 1438  if test "x$OPTFILE" != xNONE ; then Line 1685  if test "x$OPTFILE" != xNONE ; then
1685              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1686              exit 1              exit 1
1687          fi          fi
1688          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1689              cp -f $OPTFILE "genmake_optfile"              cp -f $OPTFILE "genmake_optfile"
1690          fi          fi
1691      else      else
# Line 1447  if test "x$OPTFILE" != xNONE ; then Line 1694  if test "x$OPTFILE" != xNONE ; then
1694      fi      fi
1695  fi  fi
1696    
1697  echo "  getting AD_OPTFILE information:  "  echo "  getting AD_OPTFILE information:"
1698  if test "x${AD_OPTFILE}" = x ; then  if test "x${AD_OPTFILE}" = x ; then
1699      if test "x$MITGCM_AD_OF" = x ; then      if test "x$MITGCM_AD_OF" != x ; then
1700            AD_OPTFILE=$MITGCM_AD_OF
1701        elif test "x$OPENAD" = x ; then
1702          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_default          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_default
1703      else      else
1704          AD_OPTFILE=$MITGCM_AD_OF          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_oad
1705      fi      fi
1706  fi  fi
1707  if test "x${AD_OPTFILE}" != xNONE ; then  if test "x${AD_OPTFILE}" != xNONE ; then
# Line 1465  if test "x${AD_OPTFILE}" != xNONE ; then Line 1714  if test "x${AD_OPTFILE}" != xNONE ; then
1714              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1715              exit 1              exit 1
1716          fi          fi
1717          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1718              cp -f $AD_OPTFILE "genmake_ad_optfile"              cp -f $AD_OPTFILE "genmake_ad_optfile"
1719          fi          fi
1720      else      else
# Line 1493  Error: no Fortran compiler: please speci Line 1742  Error: no Fortran compiler: please speci
1742  EOF  EOF
1743      exit 1      exit 1
1744  fi  fi
1745    if test "x$GET_FC_VERSION" != x ; then
1746      echo "Get compiler version using: $FC $GET_FC_VERSION" >> $LOGFILE
1747      ff=`echo $FC | sed 's/ .*//'` ; xx=`echo $ff | sed 's/^./& /' | sed 's/ .*//'`
1748      if test $xx != '/' ; then which $ff >> $LOGFILE ; fi
1749      $FC $GET_FC_VERSION > genmake_fc_vers1 2> genmake_fc_vers2
1750      if test -s genmake_fc_vers1 ; then
1751        cat genmake_fc_vers1 >> $LOGFILE
1752      else
1753        cat genmake_fc_vers2 >> $LOGFILE
1754      fi
1755      echo "<-- compiler version ----" >> $LOGFILE
1756      rm -f genmake_fc_vers1 genmake_fc_vers2
1757    fi
1758    
1759  if test "x$CC" = x ; then  if test "x$CC" = x ; then
1760      CC=cc      look_for_C_compilers
 #     cat <<EOF 1>&2  
 # Error: no C compiler: please specify using one of the following:  
 #   1) within the options file ("CC=...") as specified by "-of=OPTFILE"  
 #   2) the "-cc=XXX" command-line option  
 #   3) the "./genmake_local" file  
 # EOF  
 #     exit 1  
1761  fi  fi
1762    
1763  if test "x$LINK" = x ; then  if test "x$LINK" = x ; then
1764      LINK=$FC      LINK=$FC
1765  fi  fi
# Line 1510  if test "x$MAKE" = x ; then Line 1767  if test "x$MAKE" = x ; then
1767      MAKE="make"      MAKE="make"
1768  fi  fi
1769  if test "x$CPP" = x ; then  if test "x$CPP" = x ; then
1770      CPP=cpp      CPP="cpp -traditional -P"
1771  fi  fi
1772  #EH3 === UGLY ===  #EH3 === UGLY ===
1773  #  The following is an ugly little hack to check for $CPP in /lib/ and  #  The following is an ugly little hack to check for $CPP in /lib/ and
# Line 1537  EOF Line 1794  EOF
1794  else  else
1795      rm -f test_cpp      rm -f test_cpp
1796  fi  fi
1797    
1798  look_for_makedepend  look_for_makedepend
1799    
1800    #  Check that soft-link command is set and usable
1801  if test "x$LN" = x ; then  if test "x$LN" = x ; then
1802      LN="ln -s"      LN="ln -s"
1803  fi  fi
# Line 1547  RETVAL=$? Line 1807  RETVAL=$?
1807  if test "x$RETVAL" != x0 ; then  if test "x$RETVAL" != x0 ; then
1808      cat <<EOF 1>&2      cat <<EOF 1>&2
1809    
1810  Error: The command "ln -s" failed -- please specify a working soft-link  Error: The command "$LN" failed -- please specify a working soft-link
1811    command in the optfile.    command in the optfile.
1812    
1813  EOF  EOF
# Line 1565  check_for_broken_Ff Line 1825  check_for_broken_Ff
1825    
1826  if test ! "x$MPI" = x ; then  if test ! "x$MPI" = x ; then
1827        echo "  Turning on MPI cpp macros"        echo "  Turning on MPI cpp macros"
1828        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"        DEFINES="$DEFINES -DALLOW_USE_MPI"
1829    #- To compile code older than checkpoint63s (2012/09/05), un-comment the following line:
1830    #     DEFINES="$DEFINES -DALWAYS_USE_MPI"
1831    fi
1832    if test ! "x$OMP" = x ; then
1833          echo "  Add OMPFLAG and turn on OpenMP cpp macros"
1834          FFLAGS="$FFLAGS $OMPFLAG"
1835          F90FLAGS="$F90FLAGS $OMPFLAG"
1836          DEFINES="$DEFINES -DUSE_OMP_THREADING"
1837    fi
1838    
1839    if test ! "x$USE_R4" = x ; then
1840          echo "  Turning on LET_RS_BE_REAL4 cpp flag"
1841          DEFINES="$DEFINES -DLET_RS_BE_REAL4"
1842  fi  fi
1843    
1844  if test ! "x$TS" = x ; then  if test ! "x$TS" = x ; then
1845        echo "  Turning on timing per timestep"        echo "  Turning on timing per timestep"
1846        if test ! "x$FOOLAD" = x ; then        if test ! "x$FOOLAD" = x ; then
1847              DEFINES="$DEFINES -DTIME_PER_TIMESTEP_SFP"              DEFINES="$DEFINES -DTIME_PER_TIMESTEP_SFP"
1848        else        else
1849              DEFINES="$DEFINES -DTIME_PER_TIMESTEP"              DEFINES="$DEFINES -DTIME_PER_TIMESTEP"
1850        fi        fi
# Line 1607  if test ! "x$PAPI" = x ; then Line 1880  if test ! "x$PAPI" = x ; then
1880            echo "  Sticking with PAPI flop summary per timestep!"            echo "  Sticking with PAPI flop summary per timestep!"
1881        else        else
1882            echo "  Turning on performance analysis with PAPI"            echo "  Turning on performance analysis with PAPI"
1883            echo "  Please make sure PAPIINC, PAPILIB are defined"            echo "  Please make sure PAPIINC, PAPILIB are defined"
1884            DEFINES="$DEFINES -DUSE_PAPI"            DEFINES="$DEFINES -DUSE_PAPI"
1885            INCLUDES="$INCLUDES $PAPIINC"            INCLUDES="$INCLUDES $PAPIINC"
1886            LIBS="$LIBS $PAPILIB"            LIBS="$LIBS $PAPILIB"
# Line 1619  if test ! "x$PCL" = x ; then Line 1892  if test ! "x$PCL" = x ; then
1892            echo "  Sticking with PCL flop summary per timestep!"            echo "  Sticking with PCL flop summary per timestep!"
1893        else        else
1894            echo "  Turning on performance analysis with PCL"            echo "  Turning on performance analysis with PCL"
1895            echo "  Please make sure PCLINC, PCLLIB are defined"            echo "  Please make sure PCLINC, PCLLIB are defined"
1896            DEFINES="$DEFINES -DUSE_PCL"            DEFINES="$DEFINES -DUSE_PCL"
1897            INCLUDES="$INCLUDES $PCLINC"            INCLUDES="$INCLUDES $PCLINC"
1898            LIBS="$LIBS $PCLLIB"            LIBS="$LIBS $PCLLIB"
# Line 1629  if test ! "x$HPMT" = x ; then Line 1902  if test ! "x$HPMT" = x ; then
1902        if test ! "x$PAPI" = x ; then        if test ! "x$PAPI" = x ; then
1903            echo "  PAPI and the HPM Toolkit cannot co-exist!"            echo "  PAPI and the HPM Toolkit cannot co-exist!"
1904            echo "  Sticking with PAPI!"            echo "  Sticking with PAPI!"
1905        else if test ! "x$PCL" = x ; then        else
1906            if test ! "x$PCL" = x ; then
1907            echo "  PCL and the HPM Toolkit cannot co-exist!"            echo "  PCL and the HPM Toolkit cannot co-exist!"
1908            echo "  Sticking with PCL!"            echo "  Sticking with PCL!"
1909        else          else
1910            echo "  Turning on performance analysis with the HPM Toolkit"            echo "  Turning on performance analysis with the HPM Toolkit"
1911            echo "  Please make sure HPMTINC, HPMTLIB are defined"            echo "  Please make sure HPMTINC, HPMTLIB are defined"
1912            DEFINES="$DEFINES -DUSE_LIBHPM"            DEFINES="$DEFINES -DUSE_LIBHPM"
1913            INCLUDES="$INCLUDES $HPMTINC"            INCLUDES="$INCLUDES $HPMTINC"
1914            LIBS="$LIBS $HPMTLIB"            LIBS="$LIBS $HPMTLIB"
1915        fi          fi
1916        fi        fi
1917  fi  fi
1918  if test ! "x$GSL" = x ; then  if test ! "x$GSL" = x ; then
# Line 1719  rm -f genmake_tcomp* Line 1993  rm -f genmake_tcomp*
1993  printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "  printf "  Can we call simple C routines (here, \"cloc()\") using $FC...  "
1994  check_HAVE_CLOC  check_HAVE_CLOC
1995  if test "x$HAVE_CLOC" != x ; then  if test "x$HAVE_CLOC" != x ; then
1996        DEFINES="$DEFINES -DHAVE_CLOC"
1997      echo "yes"      echo "yes"
1998  else  else
1999      echo "no"      echo "no"
# Line 1733  rm -f genmake_t* Line 2008  rm -f genmake_t*
2008  printf "  Can we unlimit the stack size using $FC...  "  printf "  Can we unlimit the stack size using $FC...  "
2009  check_HAVE_SETRLSTK  check_HAVE_SETRLSTK
2010  if test "x$HAVE_SETRLSTK" = xt ; then  if test "x$HAVE_SETRLSTK" = xt ; then
2011        DEFINES="$DEFINES -DHAVE_SETRLSTK"
2012      echo "yes"      echo "yes"
2013  else  else
2014      echo "no"      echo "no"
# Line 1742  rm -f genmake_t* Line 2018  rm -f genmake_t*
2018  printf "  Can we register a signal handler using $FC...  "  printf "  Can we register a signal handler using $FC...  "
2019  check_HAVE_SIGREG  check_HAVE_SIGREG
2020  if test "x$HAVE_SIGREG" = xt ; then  if test "x$HAVE_SIGREG" = xt ; then
2021        DEFINES="$DEFINES -DHAVE_SIGREG"
2022      echo "yes"      echo "yes"
2023  else  else
2024      echo "no"      echo "no"
# Line 1751  rm -f genmake_t* Line 2028  rm -f genmake_t*
2028  printf "  Can we use stat() through C calls...  "  printf "  Can we use stat() through C calls...  "
2029  check_HAVE_STAT  check_HAVE_STAT
2030  if test "x$HAVE_STAT" != x ; then  if test "x$HAVE_STAT" != x ; then
2031        DEFINES="$DEFINES -DHAVE_STAT"
2032      echo "yes"      echo "yes"
2033  else  else
2034      echo "no"      echo "no"
# Line 1760  rm -f genmake_t* Line 2038  rm -f genmake_t*
2038  printf "  Can we create NetCDF-enabled binaries...  "  printf "  Can we create NetCDF-enabled binaries...  "
2039  check_netcdf_libs  check_netcdf_libs
2040  if test "x$HAVE_NETCDF" != x ; then  if test "x$HAVE_NETCDF" != x ; then
2041        DEFINES="$DEFINES -DHAVE_NETCDF"
2042        echo "yes"
2043    else
2044        echo "no"
2045    fi
2046    
2047    printf "  Can we create LAPACK-enabled binaries...  "
2048    check_lapack_libs
2049    if test "x$HAVE_LAPACK" != x ; then
2050        DEFINES="$DEFINES -DHAVE_LAPACK"
2051        echo "yes"
2052    else
2053        echo "no"
2054    fi
2055    
2056    printf "  Can we call FLUSH intrinsic subroutine...  "
2057    check_HAVE_FLUSH
2058    if test "x$HAVE_FLUSH" = xt ; then
2059        DEFINES="$DEFINES -DHAVE_FLUSH"
2060      echo "yes"      echo "yes"
2061  else  else
2062      echo "no"      echo "no"
2063  fi  fi
 DEFINES="$DEFINES $IGNORE_TIME"  
2064    
2065    DEFINES="$DEFINES $IGNORE_TIME"
2066  if test "x$EMBED_SRC" = xt ; then  if test "x$EMBED_SRC" = xt ; then
2067      build_embed_encode      build_embed_encode
2068  fi  fi
2069  if test "x$EMBED_SRC" = xt ; then  if test "x$EMBED_SRC" = xt ; then
2070      ENABLE="$ENABLE embed_files"      ENABLE="$ENABLE embed_files"
2071    #   DEFINES="$DEFINES -DHAVE_EMBED_SRC"
2072  fi  fi
2073    
   
2074  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
2075  printf "  Adding MODS directories:  "  printf "  Adding MODS directories: "
2076  for d in $MODS ; do  for d in $MODS ; do
2077      if test ! -d $d ; then      if test ! -d $d ; then
2078          echo          echo
2079          echo "Error: MODS directory \"$d\" not found!"          echo "Error: MODS directory \"$d\" not found!"
2080          exit 1          exit 1
2081      else      else
2082          printf " $d"          printf "$d "
2083          SOURCEDIRS="$SOURCEDIRS $d"          SOURCEDIRS="$SOURCEDIRS $d"
2084          INCLUDEDIRS="$INCLUDEDIRS $d"          INCLUDEDIRS="$INCLUDEDIRS $d"
2085      fi      fi
2086  done  done
2087  echo  echo
2088    
2089  if test "x${PLATFORM}" = x ; then  #if test "x${PLATFORM}" = x ; then
2090      PLATFORM=$p_PLATFORM  #    PLATFORM=$p_PLATFORM
2091  fi  #fi
2092    
2093  if test "x${EXEDIR}" = x ; then  if test "x${EXEDIR}" = x ; then
2094      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
# Line 1831  ERROR: neither of the two default script Line 2128  ERROR: neither of the two default script
2128      ${TOOLSDIR}/set64bitConst.sh      ${TOOLSDIR}/set64bitConst.sh
2129      ${TOOLSDIR}/set64bitConst.csh      ${TOOLSDIR}/set64bitConst.csh
2130    
2131    are working so please check paths or specify (with \$S64) a    are working so please check paths or specify (with \$S64) a
2132    working version of this script.    working version of this script.
2133    
2134  EOF  EOF
# Line 1843  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD Line 2140  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD
2140    
2141  EXECUTABLE=${EXECUTABLE:-mitgcmuv}  EXECUTABLE=${EXECUTABLE:-mitgcmuv}
2142    
2143    #  Set Standard Code Directories:
2144    if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then
2145        STANDARDDIRS="eesupp model"
2146    fi
2147    #  if model in Standard-Code-Dir, add eesupp (needed to compile model)
2148    echo " $STANDARDDIRS " | grep ' model ' > /dev/null 2>&1
2149    ckM=$?
2150    echo " $STANDARDDIRS " | grep ' eesupp ' > /dev/null 2>&1
2151    ckE=$?
2152    if test $ckM = 0 -a $ckE = 1 ; then
2153        STANDARDDIRS="$STANDARDDIRS eesupp"
2154    fi
2155    
2156  #  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
2157  #  generated from some template source files. We'll make them first so  #  generated from some template source files. We'll make them first so
2158  #  they appear as regular source code  #  they appear as regular source code
2159  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then
2160      echo "  Making source files in eesupp from templates"      echo "  Making source files in eesupp from templates"
2161      ( cd $ROOTDIR"/eesupp/src/" && $MAKE ) > make_eesupp.errors 2>&1      ( cd $ROOTDIR"/eesupp/src/" && $MAKE clean_old && $MAKE \
2162        ) > make_eesupp.errors 2>&1
2163      RETVAL=$?      RETVAL=$?
2164      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
2165          rm -f make_eesupp.errors          rm -f make_eesupp.errors
# Line 1863  fi Line 2174  fi
2174  for pdir in exch2 regrid ; do  for pdir in exch2 regrid ; do
2175      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then
2176          echo "  Making source files in pkg/${pdir} from templates"          echo "  Making source files in pkg/${pdir} from templates"
2177          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE ) > make_${pdir}.errors 2>&1          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE clean_old && $MAKE \
2178            ) > make_${pdir}.errors 2>&1
2179          RETVAL=$?          RETVAL=$?
2180          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
2181              rm -f make_${pdir}.errors              rm -f make_${pdir}.errors
# Line 1876  for pdir in exch2 regrid ; do Line 2188  for pdir in exch2 regrid ; do
2188  done  done
2189    
2190  printf "\n===  Determining package settings  ===\n"  printf "\n===  Determining package settings  ===\n"
2191  if  test "x${PDEPEND}" = x ; then  if  test "x${PKG_DEPEND}" = x ; then
2192      tmp=$ROOTDIR"/pkg/pkg_depend"      tmp=$ROOTDIR"/pkg/pkg_depend"
2193      if test -r $tmp ; then      if test -r $tmp ; then PKG_DEPEND=$tmp ; fi
2194          PDEPEND=$tmp  fi
2195      else  if  test "x${PKG_DEPEND}" = x ; then
2196          echo "Warning:  No package dependency information was specified."          echo "Warning:  No package dependency information was specified."
2197          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."
     fi  
2198  else  else
2199      if test ! -r ${PDEPEND} ; then      if test ! -r ${PKG_DEPEND} ; then
2200          echo "Error:  can't read package dependency info from PDEPEND=\"$PDEPEND\""          echo "Error:  can't read package dependency info from PKG_DEPEND=\"$PKG_DEPEND\""
2201          exit 1          exit 1
2202      fi      fi
2203        echo "  getting package dependency info from  $PKG_DEPEND"
2204    #  Strip the comments and then convert the dependency file into arrays: PNAME, DNAME
2205        get_pdepend_list $PKG_DEPEND
2206  fi  fi
2207  echo "  getting package dependency info from  $PDEPEND"  
2208  #  Strip the comments and then convert the dependency file into  # A default package groups file "$ROOTDIR/pkg/pkg_groups" is provided
2209  #  two arrays: PNAME, DNAME  #  to define the "default_pkg_list" and package groups (for convenience, one
2210  cat $PDEPEND | sed -e 's/#.*$//g' \  #  can specify a group of packages using names like "ocean" and "atmosphere").
2211      | $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${PKG_GROUPS}" = x ; then
2212      > ./.pd_tmp      tmp=$ROOTDIR"/pkg/pkg_groups"
2213  RETVAL=$?      if test -r $tmp ; then PKG_GROUPS=$tmp ; fi
2214  if test ! "x${RETVAL}" = x0 ; then  fi
2215      echo "Error: unable to parse package dependencies -- please check PDEPEND=\"$PDEPEND\""  if test "x${PKG_GROUPS}" = x ; then
2216      exit 1          echo "Warning:  No package groups information was specified."
2217            echo "  Please check that ROOTDIR/pkg/pkg_groups exists."
2218    else
2219        if test ! -r ${PKG_GROUPS} ; then
2220            echo "Error:  can't read package groups info from PKG_GROUPS=\"$PKG_GROUPS\""
2221            exit 1
2222        fi
2223        echo "  getting package groups info from      $PKG_GROUPS"
2224  fi  fi
 . ./.pd_tmp  
 rm -f ./.pd_tmp  
2225    
2226  #  Search for default packages.  Note that a "$ROOTDIR/pkg/pkg_groups"  #  Search for packages to compile.
2227  #  file should eventually be added so that, for convenience, one can  echo "  checking list of packages to compile:"
2228  #  specify groups of packages using names like "ocean" and "atmosphere".  PKG_LIST=
2229  echo "  checking default package list:  "  if test "x${PKG_LIST}" = x ; then
 if test "x${PDEFAULT}" = x ; then  
2230      for i in "." $MODS ; do      for i in "." $MODS ; do
2231          if test -r $i"/packages.conf" ; then          if test -r $i"/packages.conf" ; then
2232                  PDEFAULT=$i"/packages.conf"                  PKG_LIST=$i"/packages.conf"
2233                  break                  break
2234          fi          fi
2235      done      done
2236  fi  fi
2237  if test "x${PDEFAULT}" = x ; then  if test "x${PKG_LIST}" = x ; then
2238      PDEFAULT="$ROOTDIR/pkg/pkg_default"      pkg_list='default_pkg_list'
2239  fi      if test "x${PKG_GROUPS}" = x ; then
2240  if test "x${PDEFAULT}" = xNONE ; then          echo "Error:  need package groups info to expand pkg_list=\"$pkg_list\""
2241      echo "    default packages file disabled"          exit 1
2242        fi
2243  else  else
2244      if test ! -r $PDEFAULT ; then      if test ! -r $PKG_LIST ; then
2245          echo "Warning:  can't read default packages from PDEFAULT=\"$PDEFAULT\""          echo "Error:  can't read package list from PKG_LIST=\"$PKG_LIST\""
2246            exit 1
2247      else      else
2248          echo "    using PDEFAULT=\"$PDEFAULT\""          echo "    using PKG_LIST=\"$PKG_LIST\""
2249          #  Strip the comments and add all the names          #  Strip the comments and add all the names
2250          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 $0}'`
2251          RETVAL=$?          RETVAL=$?
2252          if test "x${RETVAL}" != x0 ; then          if test "x${RETVAL}" != x0 ; then
2253              printf "Error: can't parse default package list "              printf "Error: can't parse package list "
2254              echo "-- please check PDEFAULT=\"$PDEFAULT\""              echo "-- please check PKG_LIST=\"$PKG_LIST\""
2255              exit 1              exit 1
2256          fi          fi
         for i in $def ; do  
             PACKAGES="$PACKAGES $i"  
         done  
         echo "    before group expansion packages are: $PACKAGES"  
         RET=1  
         while test $RET = 1 ; do expand_pkg_groups; RET=$?; done  
         echo "    after group expansion packages are:  $PACKAGES"  
2257      fi      fi
2258  fi  fi
2259    for i in $pkg_list ; do
2260        PACKAGES="$PACKAGES $i"
2261    done
2262    echo     "    before group expansion packages are:$PACKAGES"
2263    if test "x${PKG_GROUPS}" != x ; then
2264        RET=1
2265        while test $RET = 1 ; do expand_pkg_groups; RET=$?; done
2266        echo "    after group expansion packages are: $PACKAGES"
2267    fi
2268    
2269  echo "  applying DISABLE settings"  echo "  applying DISABLE settings"
2270    echo "" > $TMP.pack
2271  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2272      echo $i >> ./.tmp_pack      echo $i >> $TMP.pack
2273  done  done
2274  for i in `grep  "-" ./.tmp_pack` ; do  for i in `grep  "-" $TMP.pack` ; do
2275      j=`echo $i | sed 's/[-]//'`      j=`echo $i | sed 's/[-]//'`
2276      DISABLE="$DISABLE $j"      DISABLE="$DISABLE $j"
2277  done  done
# Line 1966  for p in $PACKAGES ; do Line 2289  for p in $PACKAGES ; do
2289  done  done
2290  PACKAGES="$pack"  PACKAGES="$pack"
2291  echo "  applying ENABLE settings"  echo "  applying ENABLE settings"
2292  echo "" > ./.tmp_pack  echo "" > $TMP.pack
2293  PACKAGES="$PACKAGES $ENABLE"  PACKAGES="$PACKAGES $ENABLE"
2294  # Test if each explicitly referenced package exists  # Test if each explicitly referenced package exists
2295  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2296      j=`echo $i | sed 's/[-+]//'`      j=`echo $i | sed 's/[-+]//'`
2297      if test ! -d "$ROOTDIR/pkg/$j" ; then      if test ! -d "$ROOTDIR/pkg/$j" ; then
2298          echo "Error: can't find package $i at \"$ROOTDIR/pkg/$i\""          echo "Error: dir '$ROOTDIR/pkg/$i' missing for package '$i'"
2299          exit 1          exit 1
2300      fi      fi
2301      echo $i >> ./.tmp_pack      echo $i >> $TMP.pack
2302  done  done
2303  PACKAGES=  PACKAGES=
2304  for i in `grep -v "-" ./.tmp_pack | sort | uniq` ; do  for i in `grep -v "-" $TMP.pack | sort | uniq` ; do
2305      PACKAGES="$PACKAGES $i"      PACKAGES="$PACKAGES $i"
2306  done  done
2307  rm -f ./.tmp_pack  rm -f $TMP.pack
2308  echo "    packages are:  $PACKAGES"  echo "    packages are: $PACKAGES"
2309    
2310  #  Check for package MNC: if NetCDF is available, then build the MNC  #  Check for package MNC: if NetCDF is available, then build the MNC
2311  #  template files ; otherwise, delete mnc from the list of packages.  #  template files ; otherwise, delete mnc from the list of packages.
2312  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1  echo " $PACKAGES " | grep ' mnc ' > /dev/null 2>&1
2313  RETVAL=$?  mnc_in=$?
2314  if test "x$RETVAL" = x0 ; then  if test "x$HAVE_NETCDF" != xt ; then
2315      if test "x$HAVE_NETCDF" != xt ; then      if test "x$mnc_in" = x0 ; then
2316          cat <<EOF          cat <<EOF
   
2317  *********************************************************************  *********************************************************************
2318  WARNING: the "mnc" package was enabled but tests failed to compile  WARNING: the "mnc" package was enabled but tests failed to compile
2319    NetCDF applications.  Please check that:    NetCDF applications.  Please check that:
2320    
2321    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2322    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2323         NetCDF library to link against.         NetCDF library to link against.
2324    
2325    Due to this failure, the "mnc" package is now DISABLED.    Due to this failure, the "mnc" package is now DISABLED.
2326  *********************************************************************  *********************************************************************
   
2327  EOF  EOF
2328          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`
2329          DISABLE="$DISABLE mnc"          DISABLE="$DISABLE mnc"
2330      else      else
2331          ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1      #  this prevent to add mnc (due to pdepend rules) if not available
2332          RETVAL=$?          DISABLE="$DISABLE mnc"
2333          if test "x${RETVAL}" = x0 ; then      fi
2334              rm -f make_mnc.errors  else
2335          else      # we have NetCDF, we try to build MNC template files
2336              echo "Error: problem encountered while building source files in pkg/mnc:"      ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1
2337              cat make_mnc.errors 1>&2      RETVAL=$?
2338        if test "x${RETVAL}" = x0 ; then
2339            rm -f make_mnc.errors
2340        else
2341            echo "Error: problem encountered while building source files in pkg/mnc:"
2342            cat make_mnc.errors 1>&2
2343            if test "x$mnc_in" = x0 ; then
2344              exit 1              exit 1
2345            else
2346                DISABLE="$DISABLE mnc"
2347          fi          fi
2348      fi      fi
2349  fi  fi
2350    
2351  #  Check for package PROFILES: if NetCDF is not available,  #  Check for package PROFILES: if NetCDF is not available,
2352  #  then delete profiles from the list of available packages.  #  then delete profiles from the list of available packages.
2353  echo $PACKAGES | grep ' profiles ' > /dev/null 2>&1  if test "x$HAVE_NETCDF" != xt ; then
2354  RETVAL=$?      echo " $PACKAGES " | grep ' profiles ' > /dev/null 2>&1
2355  if test "x$RETVAL" = x0 ; then      RETVAL=$?
2356      if test "x$HAVE_NETCDF" != xt ; then      if test "x$RETVAL" = x0 ; then
2357          cat <<EOF          cat <<EOF
   
2358  *********************************************************************  *********************************************************************
2359  WARNING: the "profiles" package was enabled but tests failed to  WARNING: the "profiles" package was enabled but tests failed to
2360    compile NetCDF applications.  Please check that:    compile NetCDF applications.  Please check that:
2361    
2362    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2363    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2364         NetCDF library to link against.         NetCDF library to link against.
2365    
2366    Due to this failure, the "profiles" package is now DISABLED.    Due to this failure, the "profiles" package is now DISABLED.
2367  *********************************************************************  *********************************************************************
   
2368  EOF  EOF
2369          PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
2370          DISABLE="$DISABLE profiles"          DISABLE="$DISABLE profiles"
2371        else
2372        #  this prevent to add profiles (due to pdepend rules) if not available
2373            DISABLE="$DISABLE profiles"
2374        fi
2375    fi
2376    
2377    #  Make sure the openad package is enabled if using OpenAD
2378    if test "x$OPENAD" != x ; then
2379        echo " $PACKAGES " | grep ' openad ' > /dev/null 2>&1
2380        RETVAL=$?
2381        if test "x$RETVAL" != x0 ; then
2382            cat <<EOF
2383    
2384    *********************************************************************
2385    ERROR: when generating an adjoint with OpenAD, the openad package
2386      must be enabled.  Please add it to packages.conf.
2387    *********************************************************************
2388    
2389    EOF
2390            exit 1
2391      fi      fi
2392  fi  fi
2393    
2394  echo "  applying package dependency rules"  if  test "x${PKG_DEPEND}" != x ; then
2395  ck=    echo "  applying package dependency rules"
2396  while test "x$ck" != xtt ; do    ck=
2397      while test "x$ck" != xtt ; do
2398      i=0      i=0
2399      # rtot=${#PNAME[@]}      # rtot=${#PNAME[@]}
2400      rtot=$nname      rtot=$nname
# Line 2062  while test "x$ck" != xtt ; do Line 2410  while test "x$ck" != xtt ; do
2410                  pin="t"                  pin="t"
2411              fi              fi
2412          done          done
2413            #  or in the current $STANDARDDIRS list?
2414            for p in $STANDARDDIRS ; do
2415                if test "x$p" = "x$pname" ; then pin="t" ; fi
2416            done
2417    
2418          #  Is the DNAME entry a (+) or (-) rule ?          #  Is the DNAME entry a (+) or (-) rule ?
2419          tmp="dname=\"\$DNAME_$i\""          tmp="dname=\"\$DNAME_$i\""
# Line 2084  while test "x$ck" != xtt ; do Line 2436  while test "x$ck" != xtt ; do
2436    
2437          #  Do we need to add $dname according to the dependency rules?          #  Do we need to add $dname according to the dependency rules?
2438          if test "x$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
2439              #echo "   " $pname ": need to add :" $dname              #echo "   " $pname ": need to add :" $dname
2440              in_dis="f"              in_dis="f"
2441              for dis in $DISABLE ; do              for dis in $DISABLE ; do
2442                  if test "x$dis" = "x$dname" ; then                  if test "x$dis" = "x$dname" ; then
# Line 2105  while test "x$ck" != xtt ; do Line 2457  while test "x$ck" != xtt ; do
2457          #  Do we need to get rid of $dname according to the dependency rules?          #  Do we need to get rid of $dname according to the dependency rules?
2458          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then
2459              echo "Error: can't satisfy package dependencies:"              echo "Error: can't satisfy package dependencies:"
2460              echo "  \"$pname\" was requested but is disallowed by"              echo "  \"$pname\" was requested but is disallowed by"
2461              echo "  the dependency rules for \"$dname\""              echo "  the dependency rules for \"$dname\""
2462              exit 1              exit 1
2463          fi          fi
2464          i=`echo "$i + 1" | bc -l`          i=`echo "$i + 1" | bc -l`
2465          #i=$(( $i + 1 ))          #i=$(( $i + 1 ))
2466      done      done
2467      ck=$ck"t"      ck=$ck"t"
2468  done    done
2469  echo "    packages are:  $PACKAGES"    echo "    packages are: $PACKAGES"
2470    fi
2471  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2472      adr="$ROOTDIR/pkg/$i"      adr="$ROOTDIR/pkg/$i"
2473      if test -d $adr ; then      if test -d $adr ; then
# Line 2131  done Line 2484  done
2484    
2485  # Create a list of #define and #undef to enable/disable packages  # Create a list of #define and #undef to enable/disable packages
2486  PACKAGES_DOT_H=PACKAGES_CONFIG.h  PACKAGES_DOT_H=PACKAGES_CONFIG.h
2487  #  The following UGLY HACK sets multiple "#undef"s and it needs to go  #  The following UGLY HACK sets multiple "#undef"s and it needs to go
2488  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h
2489  #  file would eventually be split up so that all package-related #define  #  file would eventually be split up so that all package-related #define
2490  #  statements could be separated and handled only by genmake.  #  statements could be separated and handled only by genmake.
2491  names=`ls -1 "$ROOTDIR/pkg"`  names=`ls -1 "$ROOTDIR/pkg"`
# Line 2149  for n in $names ; do Line 2502  for n in $names ; do
2502          done          done
2503          if test "x$has_pack" = xf ; then          if test "x$has_pack" = xf ; then
2504              undef=`echo "ALLOW_$n" | sed -e 'y/abcdefghijklmnopqrstuvwxyz/ABCDEFGHIJKLMNOPQRSTUVWXYZ/'`              undef=`echo "ALLOW_$n" | sed -e 'y/abcdefghijklmnopqrstuvwxyz/ABCDEFGHIJKLMNOPQRSTUVWXYZ/'`
2505              DISABLED_PACKAGES="$DISABLED_PACKAGES -U$undef"              DISABLED_PACKAGES="$DISABLED_PACKAGES -U$undef"
2506          fi          fi
2507      fi      fi
2508  done  done
# Line 2160  for i in $PACKAGES ; do Line 2513  for i in $PACKAGES ; do
2513  #eh3 DEFINES="$DEFINES -D$def"  #eh3 DEFINES="$DEFINES -D$def"
2514    
2515  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!
2516      case $i in      case $i in
2517          aim_v23)          aim_v23)
2518              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"
2519              echo "Warning: ALLOW_AIM is set to enable aim_v23."              echo "Warning: ALLOW_AIM is set to enable aim_v23."
2520              ;;              ;;
2521      esac      esac
# Line 2170  for i in $PACKAGES ; do Line 2523  for i in $PACKAGES ; do
2523    
2524  done  done
2525    
2526  echo "  Adding STANDARDDIRS"  echo "  Adding STANDARDDIRS='$STANDARDDIRS'"
2527  BUILDDIR=${BUILDDIR:-.}  BUILDDIR=${BUILDDIR:-.}
 if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then  
     STANDARDDIRS="eesupp model"  
 fi  
2528  if test "x$STANDARDDIRS" != x ; then  if test "x$STANDARDDIRS" != x ; then
2529      for d in $STANDARDDIRS ; do      for d in $STANDARDDIRS ; do
2530          adr="$ROOTDIR/$d/src"          adr="$ROOTDIR/$d/src"
# Line 2207  for i in $spaths ; do Line 2557  for i in $spaths ; do
2557      if test -f $try -a -r $try -a "x$CPP_OPTIONS" = x ; then      if test -f $try -a -r $try -a "x$CPP_OPTIONS" = x ; then
2558          echo "    found CPP_OPTIONS=\"$try\""          echo "    found CPP_OPTIONS=\"$try\""
2559          CPP_OPTIONS="$try"          CPP_OPTIONS="$try"
2560          # New safety test: make sure packages are not mentioned in CPP_OPTIONS.h          # New safety test: make sure packages are not mentioned in CPP_OPTIONS.h
2561          for n in $names ; do          for n in $names ; do
2562              test_for_package_in_cpp_options $CPP_OPTIONS $n              test_for_package_in_cpp_options $CPP_OPTIONS $n
2563          done          done
2564      fi      fi
2565      try="$i/CPP_EEOPTIONS.h"      try="$i/CPP_EEOPTIONS.h"
2566      if test -f $try -a -r $try -a "x$CPP_EEOPTIONS" = x ; then      if test -f $try -a -r $try -a "x$CPP_EEOPTIONS" = x ; then
2567          echo "    found CPP_EEOPTIONS=\"$try\""          echo "    found CPP_EEOPTIONS=\"$try\""
2568          # New safety test: make sure MPI is not determined by CPP_EEOPTIONS.h          # New safety test: make sure MPI is not determined by CPP_EEOPTIONS.h
2569  #**** not yet enabled ****  #**** not yet enabled ****
2570  #        test_for_mpi_in_cpp_eeoptions $try  #        test_for_mpi_in_cpp_eeoptions $try
2571  #**** not yet enabled ****  #**** not yet enabled ****
# Line 2229  fi Line 2579  fi
2579    
2580  #  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
2581  #  compiler.  #  compiler.
2582  if test -f ./adSrcFiles.tmp ; then  if test -f $TMP.adSrcFiles ; then
2583      rm -f ./adSrcFiles.tmp      rm -f $TMP.adSrcFiles
2584  fi  fi
2585  echo "  Creating the list of files for the adjoint compiler."  echo "  Creating the list of files for the adjoint compiler."
2586    touch $TMP.adSrcFiles
2587  for i in $SOURCEDIRS ; do  for i in $SOURCEDIRS ; do
2588      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
2589      for j in $list_files ; do      for j in $list_files ; do
2590          cat $i/$j >> adSrcFiles.tmp          cat $i/$j >> $TMP.adSrcFiles
2591      done      done
2592  done  done
2593  if test ! "x"$FS = "x.f" ; then  if test ! "x"$FS = "x.f" ; then
2594      cat adSrcFiles.tmp | sed -e "s/\.f/.$FS/g" > adSrcFiles.tmp_f      cat $TMP.adSrcFiles | sed -e "s/\.f/.$FS/g" > $TMP.adSrcFiles_f
2595      mv -f adSrcFiles.tmp_f adSrcFiles.tmp      mv -f $TMP.adSrcFiles_f $TMP.adSrcFiles
2596  fi  fi
2597    
2598  echo  echo
# Line 2253  for i in $INCLUDEDIRS ; do Line 2604  for i in $INCLUDEDIRS ; do
2604      fi      fi
2605  done  done
2606    
2607  if test ! "x$DIVA" = x ; then  if test ! "x$DIVA" = x -a ! "x$MPI" = x ; then
2608      echo "  Creating the pseudo-MPI include directory"      if test ! "x$MPIINCLUDEDIR" = x ; then
2609      INCLUDES="-I./mpi_headers $INCLUDES"          #  Do a local copy of MPI headers files (in local dir ./mpi_headers/) after
2610      rm -rf ./mpi_headers          #   checking for additional included headers (in case of chain of included
2611      mkdir -p ./mpi_headers          #   header); also set LOCAL_MPI_HEADERS (if not already set)
2612            mpi_headers_do_local_copy
     if test "x$MPIINCLUDEDIR" = x ; then  
         if test "x$MPIHOME" = x ; then  
             MPIHOME='/usr'  
         fi  
         MPIINCLUDEDIR='$MPIHOME/include'  
     fi  
       
     if test -r $MPIINCLUDEDIR/mpif.h ; then  
         for i in $MPI_HEADER_FILES; do  
             cp -p $MPIINCLUDEDIR/$i ./mpi_headers  
         done  
   
         perl -i -pe 's/MPI_DISPLACEMENT_CURRENT=-1_8/MPI_DISPLACEMENT_CURRENT=-1/g' mpi_headers/mpif.h  
     else  
         echo " We cannot create a copy of mpif.h!"  
 #       exit -1  
2613      fi      fi
2614  fi  fi
2615    
2616  echo "  Determining the list of source and include files"  echo "  Determining the list of source and include files"
2617  rm -rf .links.tmp  rm -rf $TMP.links
2618  mkdir .links.tmp  mkdir $TMP.links
2619  touch .links.tmp/foo  touch $TMP.links/foo
2620  if test ! -r ".links.tmp/foo" ; then  if test ! -r "$TMP.links/foo" ; then
2621      echo      echo
2622      echo "ERROR : something is wrong with your directory permissions or"      echo "ERROR : something is wrong with your directory permissions or"
2623      echo "   your user file-creation mask (\"umask\") since creating a"      echo "   your user file-creation mask (\"umask\") since creating a"
# Line 2298  if test ! -r ".links.tmp/foo" ; then Line 2633  if test ! -r ".links.tmp/foo" ; then
2633      echo      echo
2634      exit 1      exit 1
2635  fi  fi
2636  rm -f .links.tmp/foo  rm -f $TMP.links/foo
2637    
2638  if test "x$OPENAD" != x ; then  if test "x$OPENAD" != x ; then
2639      OAD_DONT_COMPILE="/dev/null"      OAD_DONT_COMPILE="/dev/null"
2640      OAD_DONT_TRANSFORM="/dev/null"      OAD_DONT_TRANSFORM="/dev/null"
2641      OAD_KEEP_ORIGINAL="/dev/null"      OAD_KEEP_ORIGINAL="/dev/null"
2642      OAD_CB2M_FILES="/dev/null"      OAD_CB2M_FILES="/dev/null"
2643        OADTOOLS="$TOOLSDIR/OAD_support"
2644      echo "  looking for dontCompile file:  "      echo "  looking for dontCompile file:  "
2645      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2646          if test -r $i"/dontCompile" ; then          if test -r $i"/dontCompile" ; then
2647              OAD_DONT_COMPILE=$i"/dontCompile"              OAD_DONT_COMPILE=$i"/dontCompile"
2648              echo "     found $OAD_DONT_COMPILE"              echo "     found $OAD_DONT_COMPILE"
# Line 2314  if test "x$OPENAD" != x ; then Line 2650  if test "x$OPENAD" != x ; then
2650          fi          fi
2651      done      done
2652      echo "  looking for dontTransform file:  "      echo "  looking for dontTransform file:  "
2653      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2654          if test -r $i"/dontTransform" ; then          if test -r $i"/dontTransform" ; then
2655              OAD_DONT_TRANSFORM=$i"/dontTransform"              OAD_DONT_TRANSFORM=$i"/dontTransform"
2656              echo "     found $OAD_DONT_TRANSFORM"              echo "     found $OAD_DONT_TRANSFORM"
# Line 2322  if test "x$OPENAD" != x ; then Line 2658  if test "x$OPENAD" != x ; then
2658          fi          fi
2659      done      done
2660      echo "  looking for keepOriginal file:  "      echo "  looking for keepOriginal file:  "
2661      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2662          if test -r $i"/keepOriginal" ; then          if test -r $i"/keepOriginal" ; then
2663              OAD_KEEP_ORIGINAL=$i"/keepOriginal"              OAD_KEEP_ORIGINAL=$i"/keepOriginal"
2664              echo "     found $OAD_KEEP_ORIGINAL"              echo "     found $OAD_KEEP_ORIGINAL"
# Line 2330  if test "x$OPENAD" != x ; then Line 2666  if test "x$OPENAD" != x ; then
2666          fi          fi
2667      done      done
2668      echo "  looking for cb2mFiles:  "      echo "  looking for cb2mFiles:  "
2669      for i in "." $MODS ; do      for i in "." $MODS $OADTOOLS ; do
2670          if test -r $i"/cb2mFiles" ; then          if test -r $i"/cb2mFiles" ; then
2671              OAD_CB2M_FILES=$i"/cb2mFiles"              OAD_CB2M_FILES=$i"/cb2mFiles"
2672              echo "     found $OAD_CB2M_FILES"              echo "     found $OAD_CB2M_FILES"
# Line 2340  if test "x$OPENAD" != x ; then Line 2676  if test "x$OPENAD" != x ; then
2676      echo "   OpenAD exceptions:  "      echo "   OpenAD exceptions:  "
2677  fi  fi
2678    
2679  echo "# This section creates symbolic links" > srclinks.tmp  echo "# This section creates symbolic links" > $TMP.srclinks
2680  echo "" >> srclinks.tmp  echo "" >> $TMP.srclinks
2681  printf 'F77_SRC_FILES = ' > F77srclist.tmp  printf 'F77_SRC_FILES = ' > $TMP.F77srclist
2682  printf 'NON_AD_F77_SRC_FILES = ' > nonADF77srclist.tmp  printf 'NON_AD_F77_SRC_FILES = ' > $TMP.nonADF77srclist
2683  printf 'C_SRC_FILES = '   > csrclist.tmp  printf 'C_SRC_FILES = '   > $TMP.csrclist
2684  printf 'F90_SRC_FILES = ' > F90srclist.tmp  printf 'F90_SRC_FILES = ' > $TMP.F90srclist
2685  printf 'H_SRC_FILES = '   > hsrclist.tmp  printf 'H_SRC_FILES = '   > $TMP.hsrclist
2686  printf 'AD_FLOW_FILES = ' > ad_flow_files.tmp  printf 'AD_FLOW_FILES = ' > $TMP.ad_flow_files
2687  alldirs="$SOURCEDIRS $INCLUDEDIRS ."  alldirs="$SOURCEDIRS $INCLUDEDIRS ."
2688  for d in $alldirs ; do  for d in $alldirs ; do
2689      deplist=      deplist=
2690      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
2691      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
2692      if test "x$OPENAD" != x ; then      if test "x$OPENAD" != x ; then
2693          sfiles=`( echo $sfiles | grep -v _cb2m\. )`          sfiles=`( echo $sfiles | grep -v _cb2m\. )`
2694      fi      fi
2695      for sf in $sfiles ; do      for sf in $sfiles ; do
2696          if test ! -r ".links.tmp/$sf" ; then          if test ! -r "$TMP.links/$sf" ; then
2697              if test -f "$d/$sf" ; then              if test -f "$d/$sf" ; then
2698                  ignore_f=f                  ignore_f=f
2699                  case $d/$sf in                  case $d/$sf in
2700                    ./$PACKAGES_DOT_H)                    ./$PACKAGES_DOT_H)
2701                          ignore_f=t                          ignore_f=t
2702                          ;;                          ;;
2703                    ./AD_CONFIG.h)                    ./AD_CONFIG.h)
2704                          ignore_f=t                          ignore_f=t
2705                          ;;                          ;;
2706                    ./FC_NAMEMANGLE.h)                    ./FC_NAMEMANGLE.h)
2707                          ignore_f=t                          ignore_f=t
2708                          ;;                          ;;
2709                    ./BUILD_INFO.h)                    ./BUILD_INFO.h)
2710                          ignore_f=t                          ignore_f=t
2711                          ;;                          ;;
2712                    ./EMBEDDED_FILES.h)                    ./EMBEDDED_FILES.h)
2713                          ignore_f=t                          ignore_f=t
2714                          ;;                          ;;
2715                    *)                    *)
2716                          #  For the local directory *ONLY*,                          #  For the local directory *ONLY*,
2717                          #  ignore all soft-links                          #  ignore all soft-links
2718                          if test "x$HAVE_TEST_L" = xt -a "x$d" = x. -a -L $sf ; then                          if test "x$HAVE_TEST_L" = xt -a "x$d" = x. -a -L $sf ; then
2719                              ignore_f=t                              ignore_f=t
2720                          else                          else
2721                              touch .links.tmp/$sf                              touch $TMP.links/$sf
2722                              deplist="$deplist $sf"                              deplist="$deplist $sf"
2723                          fi                          fi
2724                          ;;                          ;;
2725                  esac                  esac
2726                  if test "x$ignore_f" = xf ; then                  if test "x$ignore_f" = xf ; then
2727                      extn=`echo $sf | $AWK -F. '{print $NF}'`                      extn=`echo $sf | $AWK -F. '{print $NF}'`
2728                      case $extn in                      case $extn in
2729                        F)                        F)
2730                          echo    " \\"  >> F77srclist.tmp                          echo    " \\"  >> $TMP.F77srclist
2731                          printf " $sf" >> F77srclist.tmp                          printf " $sf" >> $TMP.F77srclist
2732                          if test "x$OPENAD" != x ; then                          if test "x$OPENAD" = x ; then
2733                                basename=${sf%%.F}
2734                                isAD=`egrep ^$basename.f'[  ]*' $TMP.adSrcFiles`
2735                                if test -z "$isAD" ; then
2736                                    echo    " \\"  >> $TMP.nonADF77srclist
2737                                    printf " $sf" >> $TMP.nonADF77srclist
2738                                fi
2739                            else #- OpenAD case:
2740                              basename=${sf%%.F}                              basename=${sf%%.F}
2741                              isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`                              isAD=`egrep ^$basename.f'[  ]*' $TMP.adSrcFiles`
2742                              if test -z "$isAD" ; then                              if test -z "$isAD" ; then
2743                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
2744                                  if test -z "$toBeIgnored" ; then                                  if test -z "$toBeIgnored" ; then
2745                                      echo    " \\"  >> nonADF77srclist.tmp                                      echo    " \\"  >> $TMP.nonADF77srclist
2746                                      printf " $sf" >> nonADF77srclist.tmp                                      printf " $sf" >> $TMP.nonADF77srclist
2747                                  else                                  else
2748                                      echo "    not to be compiled   :  $sf"                                      echo "    not to be compiled   :  $sf"
2749                                  fi                                  fi
2750                              else # file is initially listed as an AD file we want to exclude it                              else # file is initially listed as an AD file we want to exclude it
2751                                   # or we want to retain the untransformed version                                   # or we want to retain the untransformed version
2752                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
2753                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
2754                                  if test -n "$notToBeTransformed"; then                                  if test -n "$notToBeTransformed"; then
2755                                      echo "    not to be transformed:  $sf"                                      echo "    not to be transformed:  $sf"
2756                                  fi                                  fi
2757                                  if test -n "$untransformedVersionToBeKept" ; then                                  if test -n "$untransformedVersionToBeKept" ; then
2758                                      echo "    original to be kept  :  $sf"                                      echo "    original to be kept  :  $sf"
2759                                  fi                                      fi
2760                                  if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then                                  if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
2761                                      echo    " \\"  >> nonADF77srclist.tmp                                      echo    " \\"  >> $TMP.nonADF77srclist
2762                                      printf " $sf" >> nonADF77srclist.tmp                                      printf " $sf" >> $TMP.nonADF77srclist
2763                                  fi                                  fi
2764                              fi                              fi
2765                          fi                          fi
2766                          ;;                          ;;
2767                      F90)                      F90)
2768                          echo    " \\"  >> F90srclist.tmp                          echo    " \\"  >> $TMP.F90srclist
2769                          printf " $sf" >> F90srclist.tmp                          printf " $sf" >> $TMP.F90srclist
2770                          ;;                          ;;
2771                      c)                      c)
2772                          echo    " \\"  >> csrclist.tmp                          echo    " \\"  >> $TMP.csrclist
2773                          printf " $sf" >> csrclist.tmp                          printf " $sf" >> $TMP.csrclist
2774                          ;;                          ;;
2775                      h)                      h)
2776                          echo    " \\"  >> hsrclist.tmp                          echo    " \\"  >> $TMP.hsrclist
2777                          printf " $sf" >> hsrclist.tmp                          printf " $sf" >> $TMP.hsrclist
2778                          ;;                          ;;
2779                      flow)                      flow)
2780                          echo    " \\"  >> ad_flow_files.tmp                          echo    " \\"  >> $TMP.ad_flow_files
2781                          printf " $sf" >> ad_flow_files.tmp                          printf " $sf" >> $TMP.ad_flow_files
2782                          ;;                          ;;
2783                     esac                     esac
2784                  fi                  fi
# Line 2444  for d in $alldirs ; do Line 2787  for d in $alldirs ; do
2787      done      done
2788      if test "x$deplist" != x ; then      if test "x$deplist" != x ; then
2789        if test "$d" != "." ; then        if test "$d" != "." ; then
2790          echo "" >> srclinks.tmp          echo "" >> $TMP.srclinks
2791          echo "#  These files are linked from $d" >> srclinks.tmp          echo "#  These files are linked from $d" >> $TMP.srclinks
2792          echo "$deplist :" >> srclinks.tmp          echo "$deplist :" >> $TMP.srclinks
2793  # We need to make sure that the link isn't already there.  # We need to make sure that the link isn't already there.
2794  # This may happen when make thinks that a header file has to be "remade"  # This may happen when make thinks that a header file has to be "remade"
2795  # because a module it depends on has changed.  In this case we do nothing.  # because a module it depends on has changed.  In this case we do nothing.
2796          printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp          printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> $TMP.srclinks
2797        fi        fi
2798      fi      fi
2799  done  done
2800  rm -rf .links.tmp  rm -rf $TMP.links
2801  echo "" >> F77srclist.tmp  echo "" >> $TMP.F77srclist
2802  echo "" >> nonADF77srclist.tmp  echo "" >> $TMP.nonADF77srclist
2803  echo "" >> csrclist.tmp  echo "" >> $TMP.csrclist
2804  echo "" >> F90srclist.tmp  echo "" >> $TMP.F90srclist
2805  echo "" >> hsrclist.tmp  echo "" >> $TMP.hsrclist
2806  echo "" >> ad_flow_files.tmp  echo "" >> $TMP.ad_flow_files
2807    
2808    CMDLINE=$0
2809    for xx in "$@" ; do nw=`echo $xx | wc -w`
2810        if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
2811                            else CMDLINE="$CMDLINE '$xx'" ; fi
2812    done
2813    
2814  if test -f $MAKEFILE ; then  if test -f $MAKEFILE ; then
2815      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.old"
2816  fi  fi
2817  echo "  Writing makefile: $MAKEFILE"  echo "  Writing makefile: $MAKEFILE"
2818  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE
# Line 2471  echo "#    $MACHINE" >> $MAKEFILE Line 2820  echo "#    $MACHINE" >> $MAKEFILE
2820  echo "# This makefile was generated automatically on" >> $MAKEFILE  echo "# This makefile was generated automatically on" >> $MAKEFILE
2821  echo "#    $THISDATE" >> $MAKEFILE  echo "#    $THISDATE" >> $MAKEFILE
2822  echo "# by the command:" >> $MAKEFILE  echo "# by the command:" >> $MAKEFILE
2823  echo "#    $0 $G2ARGS" >> $MAKEFILE  echo "#    $CMDLINE"  >> $MAKEFILE
2824  echo "# executed by:" >> $MAKEFILE  echo "# executed by:" >> $MAKEFILE
2825  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
2826    
# Line 2482  EXE_SVD=$EXECUTABLE"_svd" Line 2831  EXE_SVD=$EXECUTABLE"_svd"
2831  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2832  #  #
2833  # OPTFILE="$OPTFILE"  # OPTFILE="$OPTFILE"
2834  #  #
2835  # BUILDDIR     : Directory where object files are written  # BUILDDIR     : Directory where object files are written
2836  # SOURCEDIRS   : Directories containing the source (.F) files  # SOURCEDIRS   : Directories containing the source (.F) files
2837  # INCLUDEDIRS  : Directories containing the header-source (.h) files  # INCLUDEDIRS  : Directories containing the header-source (.h) files
# Line 2493  cat >>$MAKEFILE <<EOF Line 2842  cat >>$MAKEFILE <<EOF
2842  # INCLUDES     : Directories searched for header files  # INCLUDES     : Directories searched for header files
2843  # DEFINES      : Macro definitions for CPP  # DEFINES      : Macro definitions for CPP
2844  # MAKEDEPEND   : Dependency generator  # MAKEDEPEND   : Dependency generator
 # KPP          : Special preprocessor command (specific to platform)  
 # KFLAGS       : Flags for KPP  
2845  # FC           : Fortran compiler command  # FC           : Fortran compiler command
2846  # FFLAGS       : Configuration/debugging options for FC  # FFLAGS       : Configuration/debugging options for FC
2847  # FOPTIM       : Optimization options for FC  # FOPTIM       : Optimization options for FC
# Line 2502  cat >>$MAKEFILE <<EOF Line 2849  cat >>$MAKEFILE <<EOF
2849  # LIBS         : Library flags /or/ additional optimization/debugging flags  # LIBS         : Library flags /or/ additional optimization/debugging flags
2850    
2851  ROOTDIR     = ${ROOTDIR}  ROOTDIR     = ${ROOTDIR}
2852  BUILDDIR    = ${BUILDDIR}    BUILDDIR    = ${BUILDDIR}
2853  SOURCEDIRS  = ${SOURCEDIRS}  SOURCEDIRS  = ${SOURCEDIRS}
2854  INCLUDEDIRS = ${INCLUDEDIRS}  INCLUDEDIRS = ${INCLUDEDIRS}
2855  EXEDIR      = ${EXEDIR}  EXEDIR      = ${EXEDIR}
2856  EXECUTABLE  = \$(EXEDIR)/${EXECUTABLE}  EXECUTABLE  = \$(EXEDIR)/${EXECUTABLE}
2857  TOOLSDIR    = ${TOOLSDIR}  TOOLSDIR    = ${TOOLSDIR}
2858    OADTOOLS    = ${OADTOOLS}
2859    
2860  #eh3  new defines for the adjoint work  #eh3  new defines for the adjoint work
2861  AUTODIFF    = ${ROOTDIR}/pkg/autodiff  AUTODIFF    = ${ROOTDIR}/pkg/autodiff
# Line 2528  else Line 2876  else
2876      echo "EMBEDDED_FILES = " >>$MAKEFILE      echo "EMBEDDED_FILES = " >>$MAKEFILE
2877  fi  fi
2878    
2879  #  Note: figure out some way to add Hyades JAM libraries here  # extract default cpp search path so we can pass it to makedepend
2880    CPPINCLUDES=`cat /dev/null | $CPP -v 2>&1 | awk '/^End of search/{f=0}!/^\#/{if(f){printf " -I%s", $1;}}/^\#include "..." search start/{f=1}'`
2881    
2882  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2883  # Unix ln (link)  # Unix ln (link)
2884  LN = ${LN}  LN = ${LN}
 # C preprocessor  
 CPP = cat \$< | ${S64} | ${CPP}  
2885  # Dependency generator  # Dependency generator
2886  MAKEDEPEND = ${MAKEDEPEND}  MAKEDEPEND = ${MAKEDEPEND}
2887  # Special preprocessor (KAP on DECs, FPP on Crays)  # Special preprocessor (KAP on DECs, FPP on Crays)
# Line 2546  F90C = ${F90C} Line 2894  F90C = ${F90C}
2894  CC = ${CC}  CC = ${CC}
2895  # Link editor  # Link editor
2896  LINK = ${LINK} ${LDADD}  LINK = ${LINK} ${LDADD}
2897    export $OPENAD_DIVA
2898    
2899  # Defines for CPP  # Defines for CPP
2900  DEFINES = ${DEFINES}  DEFINES = ${DEFINES}
2901  # Includes for CPP  # Includes for CPP
2902  INCLUDES = ${INCLUDES}  INCLUDES = ${INCLUDES}
2903    # default CPP includes for makedepend
2904    CPPINCLUDES = ${CPPINCLUDES}
2905  # Flags for KPP  # Flags for KPP
2906  KFLAGS1 = ${KFLAGS1}  KFLAGS1 = ${KFLAGS1}
2907  KFLAGS2 = ${KFLAGS2}  KFLAGS2 = ${KFLAGS2}
2908  # Optim./debug for FC  # Optim./debug for FC
2909  FFLAGS = ${FFLAGS} ${FEXTRAFLAGS}  FFLAGS = ${FFLAGS}
2910  FOPTIM = ${FOPTIM}  FOPTIM = ${FOPTIM} ${FEXTRAFLAGS}
2911  # Optim./debug for FC  # Optim./debug for FC
2912  F90FLAGS = ${F90FLAGS}  F90FLAGS = ${F90FLAGS}
2913  F90OPTIM = ${F90OPTIM}  F90OPTIM = ${F90OPTIM}
# Line 2568  NOOPTFILES = ${NOOPTFILES} Line 2919  NOOPTFILES = ${NOOPTFILES}
2919  NOOPTFLAGS = ${NOOPTFLAGS}  NOOPTFLAGS = ${NOOPTFLAGS}
2920  # Flags and libraries needed for linking  # Flags and libraries needed for linking
2921  LIBS = ${LIBS}  LIBS = ${LIBS}
2922  # Name of the Mekfile  # Name of the makefile
2923  MAKEFILE=${MAKEFILE}  MAKEFILE = ${MAKEFILE}
2924    # Name of the make program
2925    MAKE = ${MAKE}
2926    
2927  EOF  EOF
2928    
2929  cat F77srclist.tmp      >> $MAKEFILE  cat $TMP.F77srclist      >> $MAKEFILE
2930  cat nonADF77srclist.tmp >> $MAKEFILE  cat $TMP.nonADF77srclist >> $MAKEFILE
2931  cat csrclist.tmp        >> $MAKEFILE  cat $TMP.csrclist        >> $MAKEFILE
2932  cat F90srclist.tmp      >> $MAKEFILE  cat $TMP.F90srclist      >> $MAKEFILE
2933  cat hsrclist.tmp        >> $MAKEFILE  cat $TMP.hsrclist        >> $MAKEFILE
2934  cat ad_flow_files.tmp   >> $MAKEFILE  cat $TMP.ad_flow_files   >> $MAKEFILE
2935    
2936  rm -f F77srclist.tmp nonADF77srclist.tmp csrclist.tmp F90srclist.tmp hsrclist.tmp ad_flow_files.tmp  rm -f $TMP.F77srclist $TMP.nonADF77srclist $TMP.csrclist $TMP.F90srclist $TMP.hsrclist $TMP.ad_flow_files
2937    
2938  echo >> $MAKEFILE  echo >> $MAKEFILE
2939    
2940  # add definitions for preprocessed sources  # add definitions for preprocessed sources
2941  # and note that not all systems allow case sensitive extensions  # and note that not all systems allow case sensitive extensions
2942  # hence the $FS and $FS90 here.  # hence the $FS and $FS90 here.
2943  # for fixed format f90 files we use ff90 or FF90 resp  # for fixed format f90 files we use ff90 or FF90 resp
2944  # but these are not expected to be the original source files  # but these are not expected to be the original source files
2945    
2946  echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE  echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
2947  echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE  echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE
2948  echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE  echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE
2949  echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE  echo 'FLOWFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE
2950  echo >> $MAKEFILE  echo >> $MAKEFILE
2951  echo '.SUFFIXES:' >> $MAKEFILE  echo '.SUFFIXES:' >> $MAKEFILE
2952  echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE  echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE
2953    
2954  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2955    
2956  all: \$(EXECUTABLE)  all: fwd_exe_target
2957    fwd_exe_target:
2958            @echo Update AD_CONFIG.h and make \$(EXECUTABLE)
2959            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Forward version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > ad_config.template
2960            @cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
2961            @-rm -f ad_config.template
2962            \$(MAKE) -f \$(MAKEFILE) \$(EXECUTABLE)
2963    
2964  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(OBJFILES) \$(EMBEDDED_FILES)  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(OBJFILES) \$(EMBEDDED_FILES)
2965          @echo Creating \$@ ...          @echo Creating \$@ ...
2966          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
2967    
2968  depend:  depend:
2969          @make links          @\$(MAKE) -f \$(MAKEFILE) links
2970          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)          \$(MAKEDEPEND) -f \$(MAKEFILE) -o .$FS \$(DEFINES) \$(INCLUDES) \$(CPPINCLUDES) \$(F77_SRC_FILES)
2971          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2972          -rm -f makedepend.out          -rm -f makedepend.out
2973    
# Line 2616  libmitgcmuv.a: \$(OBJFILES) Line 2977  libmitgcmuv.a: \$(OBJFILES)
2977          ar rcv libmitgcmuv.a \$(OBJFILES)          ar rcv libmitgcmuv.a \$(OBJFILES)
2978          ar d   libmitgcmuv.a main.o          ar d   libmitgcmuv.a main.o
2979    
2980    obj: \$(OBJFILES)
2981    
2982  links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)  links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)
2983    
2984  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
2985    
2986  output.txt: \$(EXECUTABLE)  # remove most of the files that "make" generates
         @printf 'running ... '  
         @\$(EXECUTABLE) > \$@  
   
2987  clean:  clean:
2988          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2989          -rm -rf *.o          -rm -rf *.o
2990          -rm -rf *.$FS *.flowdir          -rm -rf *.$FS *.flowdir
2991          -rm -rf *.f$FS90 *_mod.h *_mod.F90 *.FF90 *.mod-whirl ad_input*          -rm -rf *.f$FS90 \$(AD_CLEAN) ad_input*
2992          -rm -rf temp.sed  
2993    # remove most of the files that "make" and "make depend" generate
2994  Clean:  Clean:
2995          @make clean          @\$(MAKE) -f \$(MAKEFILE) clean
2996          @make cleanlinks          @\$(MAKE) -f \$(MAKEFILE) cleanlinks
2997          -rm -f \$(SPECIAL_FILES)          -rm -f \$(SPECIAL_FILES) f90mkdepend.log $MAKEFILE.old
2998          -rm -f genmake_state genmake_*optfile genmake_warnings make.log run.log f90mkdepend.log *.bak          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log taf_ftl.log
2999          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log  
3000    # remove also the executable, files that "genmake2" generates (except Makefile)
3001    #         and output from a run (plus log files from testreport)
3002  CLEAN:  CLEAN:
3003          @make Clean          @\$(MAKE) -f \$(MAKEFILE) Clean
3004            -rm -f \$(EXECUTABLE) \$(EXE_AD) \$(EXE_FTL) *.bak
3005            -rm -f $LOGFILE genmake_state genmake_*optfile
3006            -rm -f SIZE.h.mpi genmake.tr_log make.tr_log
3007            -rm -rf mpi_headers mnc_test_*
3008          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
3009          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
3010          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
3011          -rm -f \$(EXECUTABLE) \$(EXE_AD) *.txt STD* *diagnostics.log datetime          -rm -f *.txt STDOUT.* STDERR.* *diagnostics.log *.[0-9][0-9][0-9][0-9].log
3012            -rm -f datetime costfinal divided.ctrl snapshot* output_adm.txt.diva_*
3013          -rm -f *_MIT_CE_000.opt0000 costfunction*0000          -rm -f *_MIT_CE_000.opt0000 costfunction*0000
3014          -rm -rf mnc_test_*          -rm -f oad_cp.[0-9][0-9][0-9].?????
3015    
 #eh3 Makefile: makefile  
3016  makefile:  makefile:
3017          $THIS_SCRIPT $G2ARGS          $THIS_SCRIPT $G2ARGS
3018  cleanlinks:  cleanlinks:
# Line 2654  cleanlinks: Line 3021  cleanlinks:
3021  # Special targets (SPECIAL_FILES) which are created by make  # Special targets (SPECIAL_FILES) which are created by make
3022  ${PACKAGES_DOT_H}:  ${PACKAGES_DOT_H}:
3023          @echo Creating \$@ ...          @echo Creating \$@ ...
3024          @$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) > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@
3025  AD_CONFIG.h:  AD_CONFIG.h:
3026          @echo Creating \$@ ...          @echo Creating \$@ ...
3027          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Default version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > \$@
3028  FC_NAMEMANGLE.h:  FC_NAMEMANGLE.h:
3029          @echo Creating \$@ ...          @echo Creating \$@ ...
3030          echo "$FC_NAMEMANGLE" > \$@          echo "$FC_NAMEMANGLE" > \$@
# Line 2676  if test "x$EMBED_SRC" = xt ; then Line 3043  if test "x$EMBED_SRC" = xt ; then
3043    
3044  decode_files.o : EMBEDDED_FILES.h  decode_files.o : EMBEDDED_FILES.h
3045    
3046  ##  \$(F77_PP_SRC_FILES)  ##  \$(F77_PP_SRC_FILES)
3047  all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile  all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
3048          @echo Creating \$@ ...          @echo Creating \$@ ...
3049          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
# Line 2697  cat >>$MAKEFILE <<EOF Line 3064  cat >>$MAKEFILE <<EOF
3064  ## This nullifies any default implicit rules concerning these two file types:  ## This nullifies any default implicit rules concerning these two file types:
3065  ## %.o : %.F  ## %.o : %.F
3066    
3067    # C preprocessing and replacing the _d in constants:
3068    CPPCMD = cat \$< | ${CPP} \$(DEFINES) \$(INCLUDES) | ${S64}
3069    
3070  .F.$FS:  .F.$FS:
3071          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPPCMD)  > \$@
3072  .$FS.o:  .$FS.o:
3073          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
3074    .F.o:
3075            \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
3076  .F90.$FS90:  .F90.$FS90:
3077          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPPCMD)  > \$@
3078  .FF90.f$FS90:  .FF90.f$FS90:
3079          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPPCMD)  > \$@
3080  .$FS90.o:  .$FS90.o:
3081          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
3082  .f$FS90.o:  .f$FS90.o:
# Line 2713  cat >>$MAKEFILE <<EOF Line 3085  cat >>$MAKEFILE <<EOF
3085  .c.o:  .c.o:
3086          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
3087  .flow.flowdir:  .flow.flowdir:
3088          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPPCMD) > \$@
3089    
3090  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain
3091  .F.p:  .F.p:
3092          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPPCMD) > \$@
3093  .p.$FS:  .p.$FS:
3094          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
3095    
# Line 2727  EOF Line 3099  EOF
3099  #===  Automatic Differentiation Rules  ===  #===  Automatic Differentiation Rules  ===
3100  #===  for TAMC/TAF  ======================  #===  for TAMC/TAF  ======================
3101    
3102  if test "x$OPENAD" == x ; then  if test "x$OPENAD" = x ; then
3103    
3104  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
3105    
# Line 2736  TAF            = ${TAF} Line 3108  TAF            = ${TAF}
3108    
3109  TAF_EXTRA      = ${TAF_EXTRA}  TAF_EXTRA      = ${TAF_EXTRA}
3110  TAMC_EXTRA     = ${TAMC_EXTRA}  TAMC_EXTRA     = ${TAMC_EXTRA}
3111    LOCAL_MPI_HEADERS    = ${LOCAL_MPI_HEADERS}
3112    
3113  EOF  EOF
3114    
# Line 2753  done Line 3126  done
3126  echo "  Add the source list for AD code generation"  echo "  Add the source list for AD code generation"
3127  echo >> $MAKEFILE  echo >> $MAKEFILE
3128  printf "AD_FILES = " >> $MAKEFILE  printf "AD_FILES = " >> $MAKEFILE
3129  AD_FILES=`cat adSrcFiles.tmp`  AD_FILES=`cat $TMP.adSrcFiles`
3130  for i in $AD_FILES ; do  for i in $AD_FILES ; do
3131      echo    " \\" >> $MAKEFILE      echo    " \\" >> $MAKEFILE
3132      printf " $i" >> $MAKEFILE      printf " $i" >> $MAKEFILE
3133  done  done
3134  echo >> $MAKEFILE  echo >> $MAKEFILE
3135  rm -f adSrcFiles.tmp  rm -f $TMP.adSrcFiles
3136    
3137    if test $CAT_SRC_FOR_TAF = 0 ; then
3138    cat >>$MAKEFILE <<EOF
3139    
3140    # ... Utilities ...
3141    remove_comments:
3142            sed -i.bak -f \$(TOOLSDIR)/remove_comments_sed \$(AD_FILES)
3143            @-rm -f \$(AD_FILES:.$FS=.$FS.bak)
3144    adj_sed:
3145            sed -i.bak -f \$(TOOLSDIR)/adjoint_sed \$(AD_FILES:.$FS=_ad.$FS)
3146            @-rm -f \$(AD_FILES:.$FS=_ad.$FS.bak)
3147    ftl_sed:
3148            sed -i.bak -f \$(TOOLSDIR)/adjoint_sed \$(AD_FILES:.$FS=_tl.$FS)
3149            @-rm -f \$(AD_FILES:.$FS=_tl.$FS.bak)
3150    adobjfiles: \$(AD_FILES:.$FS=_ad.o)
3151    ftlobjfiles: \$(AD_FILES:.$FS=_tl.o)
3152    EOF
3153    fi
3154    
3155  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
3156    
3157  # ... AD ...  # ... AD ...
3158  adall: \$(EXE_AD)  adall: ad_exe_target
3159  adtaf: ad_taf_output.$FS  adtaf: ad_taf_output.$FS
3160  adtamc: ad_tamc_output.$FS  adtamc: ad_tamc_output.$FS
3161    
3162  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)  ad_exe_target:
3163          @$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          @echo Update AD_CONFIG.h and make \$(EXE_AD)
3164            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Adjoint version" -bAD_CONFIG_H -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > ad_config.template
3165            @cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3166            @-rm -f ad_config.template
3167            \$(MAKE) -f \$(MAKEFILE) \$(EXE_AD)
3168    
3169    ad_input_code.$FS: \$(AD_FILES) \$(AD_FLOW_FILES)
3170            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Adjoint version" -bAD_CONFIG_H -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > ad_config.template
3171          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3172          -rm -f ad_config.template          @-rm -f ad_config.template
3173          @make \$(F77_PP_SRC_FILES)          @\$(MAKE) -f \$(MAKEFILE) \$(F77_PP_SRC_FILES)
3174          @make \$(FLOFILES)          @\$(MAKE) -f \$(MAKEFILE) \$(FLOWFILES)
3175          cat \$(FLOFILES) \$(AD_FILES) > ad_input_code.$FS          cat \$(FLOWFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS
3176    
3177  ad_taf_output.$FS: ad_input_code.$FS  adtafonly:
3178          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
3179          ls -l ad_input_code_ad.$FS          ls -l ad_input_code_ad.$FS
3180          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
3181    
3182  adtafonly:  EOF
3183    
3184    if test $CAT_SRC_FOR_TAF = 1 ; then
3185    cat >>$MAKEFILE <<EOF
3186    # ... send 1 file to TAF ...
3187    ad_taf_output.$FS: ad_input_code.$FS
3188            @-rm -f ad_input_code_ad.$FS ; echo ''
3189          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
3190          ls -l ad_input_code_ad.$FS          ls -l ad_input_code_ad.$FS
3191          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
3192    
3193  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)  \$(EXE_AD): \$(SPECIAL_FILES) \$(H_SRC_FILES) ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3194          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3195    
3196  ad_tamc_output.$FS: ad_input_code.$FS  adobj: ad_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o)
         \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS  
         cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS  
3197    
3198  ad_tamc: ad_tamc_output.o \$(OBJFILES)  EOF
3199          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)  
3200    else
3201    cat >>$MAKEFILE <<EOF
3202    # ... send multiple files to TAF ...
3203    ad_taf_output.$FS: \$(AD_FLOW_FILES) \$(AD_FILES)
3204            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Adjoint version" -bAD_CONFIG_H -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > ad_config.template
3205            cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3206            @-rm -f ad_config.template
3207            @\$(MAKE) -f \$(MAKEFILE) \$(F77_PP_SRC_FILES)
3208            @\$(MAKE) -f \$(MAKEFILE) \$(FLOWFILES)
3209            @-rm -f \$(AD_FILES:.$FS=_ad.$FS) \$(AD_FILES:.$FS=_ad.o); echo ''
3210            \$(MAKE) -f \$(MAKEFILE) remove_comments
3211            \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) \$(FLOWFILES) \$(AD_FILES)
3212            \$(MAKE) -f \$(MAKEFILE) adj_sed
3213            cat \$(AD_FILES:.$FS=_ad.$FS) > ad_taf_output.$FS
3214    
3215    \$(EXE_AD): \$(SPECIAL_FILES) \$(H_SRC_FILES) ad_taf_output.$FS \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3216            \$(MAKE) -f \$(MAKEFILE) adobjfiles
3217            \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(AD_FILES:.$FS=_ad.o) \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3218    
3219    adobj: ad_taf_output.$FS \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o)
3220            \$(MAKE) -f \$(MAKEFILE) adobjfiles
3221    
3222    EOF
3223    fi
3224    
3225    cat >>$MAKEFILE <<EOF
3226  adonlyfwd:  adonlyfwd:
3227          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
3228    
3229  adtrick:  adtrick:
3230          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
3231    
3232    ad_tamc_output.$FS: ad_input_code.$FS
3233            \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
3234            cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS
3235    
3236    ad_tamc: ad_tamc_output.o \$(OBJFILES)
3237            \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
3238    
3239  # ... FTL ...  # ... FTL ...
3240  ftlall: ftl_taf  ftlall: ftl_exe_target
3241  ftltaf: ftl_taf_output.$FS  ftltaf: ftl_taf_output.$FS
3242  ftltamc: ftl_tamc_output.$FS  ftltamc: ftl_tamc_output.$FS
3243    
3244  ftl_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)  ftl_exe_target:
3245          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template          @echo Update AD_CONFIG.h and make \$(EXE_FTL)
3246          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "TangLin version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN > ad_config.template
3247          -rm -f ftl_config.template          @cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3248          @make \$(F77_PP_SRC_FILES)          @-rm -f ad_config.template
3249          @make \$(AD_FLOW_FILES)          \$(MAKE) -f \$(MAKEFILE) \$(EXE_FTL)
         cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS  
3250    
3251  ftl_taf_output.$FS: ftl_input_code.$FS  ftl_input_code.$FS: \$(AD_FILES)
3252          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "TangLin version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN > ad_config.template
3253          ls -l ftl_input_code_ftl.$FS          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3254          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          @-rm -f ad_config.template
3255            @\$(MAKE) -f \$(MAKEFILE) \$(F77_PP_SRC_FILES)
3256            @\$(MAKE) -f \$(MAKEFILE) \$(AD_FLOW_FILES)
3257            cat \$(AD_FLOW_FILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ftl_input_code.$FS
3258    
3259  ftltafonly:  ftltafonly:
3260          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
3261          ls -l ftl_input_code_ftl.$FS          ls -l ftl_input_code_tl.$FS
3262          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          cat ftl_input_code_tl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
3263    
3264    EOF
3265    
3266    if test $CAT_SRC_FOR_TAF = 1 ; then
3267    cat >>$MAKEFILE <<EOF
3268    # ... send 1 file to TAF ...
3269    ftl_taf_output.$FS: ftl_input_code.$FS
3270            @-rm -f ftl_input_code_tl.$FS ; echo ''
3271            \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
3272            ls -l ftl_input_code_tl.$FS
3273            cat ftl_input_code_tl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
3274    
3275    \$(EXE_FTL): \$(SPECIAL_FILES) \$(H_SRC_FILES) ftl_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3276            \$(LINK) -o \${EXE_FTL} \$(FFLAGS) \$(FOPTIM) ftl_taf_output.o \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3277    
3278    EOF
3279    
3280    else
3281    cat >>$MAKEFILE <<EOF
3282    # ... send multiple files to TAF ...
3283    ftl_taf_output.$FS: \$(AD_FLOW_FILES) \$(AD_FILES)
3284            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "TangLin version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN > ad_config.template
3285            cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3286            @-rm -f ad_config.template
3287            @\$(MAKE) -f \$(MAKEFILE) \$(F77_PP_SRC_FILES)
3288            @\$(MAKE) -f \$(MAKEFILE) \$(AD_FLOW_FILES)
3289            @-rm -f \$(AD_FILES:.$FS=_tl.$FS) \$(AD_FILES:.$FS=_tl.o); echo ''
3290            \$(MAKE) -f \$(MAKEFILE) remove_comments
3291            \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) \$(AD_FLOW_FILES) \$(AD_FILES)
3292            \$(MAKE) -f \$(MAKEFILE) ftl_sed
3293            cat \$(AD_FILES:.$FS=_tl.$FS) > ftl_taf_output.$FS
3294    
3295    \$(EXE_FTL): \$(SPECIAL_FILES) \$(H_SRC_FILES) ftl_taf_output.$FS \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(EMBEDDED_FILES)
3296            \$(MAKE) -f \$(MAKEFILE) ftlobjfiles
3297            \$(LINK) -o \${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(AD_FILES:.$FS=_tl.o) \$(NON_AD_F77_SRC_FILES:.F=.o) \$(F90_SRC_FILES:.F90=.o) \$(C_SRC_FILES:.c=.o) \$(LIBS)
3298    
3299  ftl_taf: ftl_taf_output.o \$(OBJFILES)  EOF
3300          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)  fi
3301    
3302    cat >>$MAKEFILE <<EOF
3303  ftl_tamc_output.$FS: ftl_input_code.$FS  ftl_tamc_output.$FS: ftl_input_code.$FS
3304          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
3305          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_tamc_output.$FS          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_tamc_output.$FS
3306    
3307  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
3308          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
   
3309    
3310  # ... SVD ...  # ... SVD ...
3311  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
# Line 2856  svd_touch: Line 3327  svd_touch:
3327          touch ad_taf_output.$FS ftl_taf_output.$FS          touch ad_taf_output.$FS ftl_taf_output.$FS
3328          \$(FC) \$(FFLAGS) \$(FOPTIM) -c ad_taf_output.$FS          \$(FC) \$(FFLAGS) \$(FOPTIM) -c ad_taf_output.$FS
3329          \$(FC) \$(FFLAGS) \$(FOPTIM) -c ftl_taf_output.$FS          \$(FC) \$(FFLAGS) \$(FOPTIM) -c ftl_taf_output.$FS
3330          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "SVD version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN > ad_config.template
3331          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3332          -rm -f ftl_config.template          @-rm -f ad_config.template
3333    
3334  EOF  EOF
3335    
3336  fi  fi
3337    
3338  #===  for OpenAD  ========================  #===  for OpenAD  ========================
3339    
3340  if test "x$OPENAD" != x ; then  if test "x$OPENAD" != x ; then
3341    
3342  # ============ begin OpenAD specific section ==============  # ============ begin OpenAD specific section ==============
3343    
3344  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
3345    # ... OpenAD ...
3346    
3347  # all the source files linked from the various locations:  # all the source files linked from the various locations:
3348  ALL_LINKED_FILES= \  ALL_LINKED_FILES= \
3349  \$(F77_SRC_FILES) \  \$(F77_SRC_FILES) \
3350  \$(C_SRC_FILES) \  \$(C_SRC_FILES) \
# Line 2910  for i in `cat ${OAD_CB2M_FILES}` ; do Line 3382  for i in `cat ${OAD_CB2M_FILES}` ; do
3382    echo    " \\" >> $MAKEFILE    echo    " \\" >> $MAKEFILE
3383    printf " ${i}_mod.f$FS90" >> $MAKEFILE    printf " ${i}_mod.f$FS90" >> $MAKEFILE
3384  done  done
3385  AD_FILES=`cat adSrcFiles.tmp`  AD_FILES=`cat $TMP.adSrcFiles`
3386  for i in $AD_FILES ; do  for i in $AD_FILES ; do
3387    basename=${i%%.f}    basename=${i%%.f}
3388    toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`    toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`
# Line 2920  for i in $AD_FILES ; do Line 3392  for i in $AD_FILES ; do
3392    fi    fi
3393  done  done
3394  echo >> $MAKEFILE  echo >> $MAKEFILE
3395  rm -f adSrcFiles.tmp  rm -f $TMP.adSrcFiles
3396    
3397  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
3398    
3399  adAll: \$(EXE_AD)  adAll: ad_exe_target
3400  .PHONY: adAll  .PHONY: adAll
3401    
3402    ad_exe_target:
3403            @echo Update AD_CONFIG.h and make \$(EXE_AD)
3404            @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Adjoint version" -bAD_CONFIG_H -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > ad_config.template
3405            @cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
3406            @-rm -f ad_config.template
3407            \$(MAKE) -f \$(MAKEFILE) \$(EXE_AD)
3408    
3409  CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))  CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
3410    
3411  .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)  .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
3412    
3413  .PHONY: adDepend  .PHONY: adDepend
3414  adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)  adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)
3415          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)          \$(MAKEDEPEND) -f \$(MAKEFILE) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
3416          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
3417          -rm -f makedepend.out          -rm -f makedepend.out
3418    
# Line 2942  w2f__types.F90 \ Line 3421  w2f__types.F90 \
3421  OAD_active.F90 \  OAD_active.F90 \
3422  OAD_cp.F90 \  OAD_cp.F90 \
3423  OAD_rev.F90 \  OAD_rev.F90 \
3424  OAD_tape.F90          OAD_tape.F90 \
3425    OAD_regular_cp.F90 \
3426    revolve.F90
3427    
3428  OPENAD_SUPPORT_C_SRC_FILES = \  OPENAD_SUPPORT_C_SRC_FILES = \
3429  iaddr.c \  iaddr.c \
# Line 2951  timeRatio.c Line 3432  timeRatio.c
3432  f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)  f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
3433          cat \$^ > \$@          cat \$^ > \$@
3434    
3435  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$FS90  f95_test.f90: all_mods.xb.x2w.w2f.pp.f$FS90 \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90) ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3436          cat \$^ > \$@          cat \$^ > \$@
3437    
3438  f95_test.out: f95_test_mods.f90 f95_test.f90  f95_test.out: f95_test_mods.f90 f95_test.f90
3439          f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1          f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
3440          f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1          f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
3441    
3442  AD_OBJ_FILES=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) all_mods.xb.x2w.w2f.pp.o  ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.o \$(NON_AD_F77_SRC_FILES:.F=_cb2m.o) \$(C_SRC_FILES:.c=.o) \$(F90_SRC_FILES:.F90=.o)  CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
3443    
3444  \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(AD_OBJ_FILES)  AD_OBJ_FILES_S1=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o)  OAD_intrinsics_oad.o \$(CB2M_AD_FILES:.f$FS90=_oad.o)
         @echo Creating \$@ ...  
         \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES) \$(LIBS)  
3445    
3446  # makefile debug rule  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)
3447  openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90  
3448  .PHONY: openad  \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.tag \$(AD_OBJ_FILES_S2)
3449            \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES_S2) \$(LIBS)
3450    
3451  # create the module files  # create sources files modules from header files containing common blocks
3452  %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk  %_mod.FF90 : %.h \${OADTOOLS}/cb2mGetModules.csh \${OADTOOLS}/cb2mGetModules.awk
3453          ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk          \${OADTOOLS}/cb2mGetModules.csh $< \${OADTOOLS}/cb2mGetModules.awk
3454    
3455  # create the header files  # create new header files with USE statements for the new modules made above
3456  %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk  %_mod.h : %.h \${OADTOOLS}/cb2mGetHeaders.csh \${OADTOOLS}/cb2mGetHeaders.awk
3457          ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)          \${OADTOOLS}/cb2mGetHeaders.csh $< \${OADTOOLS}/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
3458    
3459  # change everybody else to use the new module files:  # change the include directives of everybody to refer to  the new header files with the USE statements
3460  %_cb2m.FF90 : %.F ../OAD_support/cb2mUseModules.bash  %_cb2m.FF90 : %.F \${OADTOOLS}/cb2mUseModules.bash
3461          ../OAD_support/cb2mUseModules.bash $< ${MPI}          \${OADTOOLS}/cb2mUseModules.bash $< ${MPI}
3462    
3463  # makefile debug rule  # makefile debug rule
3464  small_f: \$(CB2M_F90_PP_SRC_FILES)  small_f: \$(CB2M_F90_PP_SRC_FILES)
3465  .PHONY: small_f  .PHONY: small_f
3466    
3467  ad_output.txt: \$(EXE_AD)  ad_input_code.f$FS90:  \$(CB2M_AD_FILES)
         @printf 'linking data files ... '  
         \$(LN) -f ../input_ad/data* ../input_ad/eedata .  
         \$(LN) -f ../../global_ocean.90x40x15/input/*.bin .  
         @printf 'running ... '  
         @./\$(EXE_AD) > \$@  
   
 CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)  
 ad_input_code.f$FS90: ../OAD_support/maxMinDefs.f \$(CB2M_AD_FILES)  
3468          cat \$^ > \$@          cat \$^ > \$@
3469    
 # strip all comments and blanks to reduce  
 # the file size in order to reduce perl's memory requirements  
 ad_input_code_sf.f$FS90 : ad_input_code.f$FS90  
         cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@  
   
 # mfef90 preprocessing  
 # expand statement functions  
 # expose mfef90 specific substring handling  
 # add the w2f__types module  
 ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90  
         ./mfef90 -r8 -z -F -N132 \$<  
         mv \$<.B \$(basename \$<).B  
         ./whirl2f -openad \$(basename \$<).B  
         cat w2f__types.f90 \$(basename \$<).w2f.f > \$@  
   
3470  # canonicalizer  # canonicalizer
3471  ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py  ad_input_code_sf.pre.f90 : \$(CB2M_AD_FILES)
3472          ./preProcess.py --mode=reverse \$< -o \$@          \${OPENADFORTTK_BASE}/tools/SourceProcessing/preProcess.py --timing --r8 -H -S  -o \$@ \$^
3473    
3474    # replace stop statements (to avoid the implied unstructured control flow)  with print statements
3475    ad_input_code_sf.pre.s2p.f90 : ad_input_code_sf.pre.f90
3476            cat \$< | sed -f \${OADTOOLS}/stop2print.sed > ad_input_code_sf.pre.s2p.f90
3477    
3478  # F -> WHIRL  # F -> WHIRL
3479  # note that the canonicalized version cuts off at col 72  ad_input_code_sf.pre.s2p.B: ad_input_code_sf.pre.s2p.f90
3480  # doing this also for string constants which is ok as long          \${OPEN64ROOT}/crayf90/sgi/mfef90 -r8 -z -F ad_input_code_sf.pre.s2p.f90
 # as we are in fixed mode and cut of exactly there.  
 # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)  
 # characters respectively.  
 ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90  
         ./mfef90 -r8 -z -F \$<  
         mv \$<.B \$@  
3481    
3482  # WHIRL -> XAIF  # WHIRL -> XAIF
3483  ad_input_code_sf.w2f.pre.xaif : ad_input_code_sf.w2f.pre.B whirl2xaif  ad_input_code_sf.pre.s2p.xaif : ad_input_code_sf.pre.s2p.B
3484          ./whirl2xaif -s -n --debug 1 -o \$@ \$<          \${OPENADFORTTK}/bin/whirl2xaif -s -n --debug 1 -o \$@ \$<
3485    
3486  # XAIF -> XAIF'  # XAIF -> XAIF'
3487  ad_input_code_sf.w2f.pre.xb.xaif : ad_input_code_sf.w2f.pre.xaif xaif.xsd xaif_base.xsd xaif_inlinable_intrinsics.xsd xaif_derivative_propagator.xsd xaif_output.xsd openad_adm  ad_input_code_sf.pre.s2p.xb.xaif : ad_input_code_sf.pre.s2p.xaif xaif.xsd xaif_base.xsd xaif_inlinable_intrinsics.xsd xaif_derivative_propagator.xsd xaif_output.xsd
3488          ./openad_adm -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r          \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
3489    
3490  # XAIF' -> WHIRL'  # XAIF' -> WHIRL'
3491  ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl  ad_input_code_sf.pre.s2p.xb.x2w.B : ad_input_code_sf.pre.s2p.xb.xaif
3492          ./xaif2whirl --debug 1 --structured ad_input_code_sf.w2f.pre.B \$<          \${OPENADFORTTK}/bin/xaif2whirl --debug 1 ad_input_code_sf.pre.s2p.B \$<
3493    
3494  # WHIRL' -> F'  # WHIRL' -> F'
3495  ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be  ad_input_code_sf.pre.s2p.xb.x2w.w2f.f$FS90: ad_input_code_sf.pre.s2p.xb.x2w.B
3496          ./whirl2f -FLIST:ftn_file=\$@ -openad \$<          \${OPEN64ROOT}/whirl2f/whirl2f -FLIST:ftn_file=\$@ -openad \$<
3497    
3498  # insert template directives  # insert template directives
3499  ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash  ad_input_code_sf.pre.s2p.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.pre.s2p.xb.x2w.w2f.f$FS90 \${OADTOOLS}/insertTemplateDir.bash
3500          ../OAD_support/insertTemplateDir.bash \$< \$@          \${OADTOOLS}/insertTemplateDir.bash \$< \$@
3501    
3502    PPEXTRAS=\$(notdir \$(wildcard \${OADTOOLS}/ad_template.*.F)) ad_inline.F
3503  # postprocess F'  # postprocess F'
3504  ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 multi-pp.pl ../OAD_support/ad_inline.f \$(wildcard ../OAD_support/ad_template.*.f)  postProcess.tag: ad_input_code_sf.pre.s2p.xb.x2w.w2f.td.f$FS90 \$(PPEXTRAS:.F=.f) | w2f__types.f90
3505          perl multi-pp.pl -inline=../OAD_support/ad_inline.f \$<          \${OPENADFORTTK_BASE}/tools/SourceProcessing/postProcess.py --progress --timing --infoUnitFile w2f__types.f90 --outputFormat=fixed --separateOutput --pathSuffix "" --filenameSuffix "_oad" -m r -i ad_inline.f \$<
3506          # the postprocessor still gets the name wrong          # the target is a placeholder to trigger a single execution of the rule
3507          cat \$<.pp | sed 's/RETURN//' > \$@          touch \$@
3508    # put this so make knows about the postprocessing output
3509  # extract all transformed modules  OAD_intrinsics_oad.f \$(CB2M_AD_FILES:.f$FS90=_oad.f): postProcess.tag
 all_mods.xb.x2w.w2f.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90  
         cat \$< | sed -n '/MODULE /,/END MODULE/p' > \$@  
   
 # remove the transformed globals module from the  
 # transformed ad_input_code file  
 # and remove for now the duplicate variables  
 # and fix 2 data statements  
 ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90  
         cat \$< | sed '/MODULE /,/END MODULE/d' | sed '/^      INTEGER(w2f__i4) DOLOOP_UB/d' > \$@  
3510    
3511  # setup some links  # link the XAIF schema files
3512  %.xsd:  %.xsd:
3513          \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .          \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
3514    
 mfef90:  
         \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .  
   
3515  # link the support files:  # link the support files:
3516  \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):  \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES) \$(PPEXTRAS):
3517          \$(LN) ../OAD_support/\$@ .          \$(LN) \${OADTOOLS}/\$@ .
   
 whirl2xaif xaif2whirl:  
         \$(LN) \${OPENADFORTTK}/bin/\$@ .  
3518    
3519  %.pl:  AD_CLEAN += *_mod.h *_mod.F90 *.FF90 *.mod-whirl temp.sed oad_cp.* postProcess.tag
         \$(LN) \${OPENADFORTTK}/bin/\$@ .  
   
 preProcess.py:  
         \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .  
   
 whirl2f whirl2f_be:  
         \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .  
   
 openad_adm:  
         \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/test/t \$@  
3520    
3521  # ============ end OpenAD specific section ==============  # ============ end OpenAD specific section ==============
3522    
# Line 3121  for i in $NOOPTFILES ; do Line 3552  for i in $NOOPTFILES ; do
3552  done  done
3553    
3554  echo "  Add rules for links"  echo "  Add rules for links"
3555  cat srclinks.tmp >> $MAKEFILE  cat $TMP.srclinks >> $MAKEFILE
3556  rm -f srclinks.tmp  rm -f $TMP.srclinks
3557    
3558  echo "  Adding makedepend marker"  echo "  Adding makedepend marker"
3559  printf "\n\n# DO NOT DELETE\n" >> $MAKEFILE  printf "\n\n# DO NOT DELETE\n" >> $MAKEFILE
# Line 3130  printf "\n\n# DO NOT DELETE\n" >> $MAKEF Line 3561  printf "\n\n# DO NOT DELETE\n" >> $MAKEF
3561  printf "\n===  Done  ===\n"  printf "\n===  Done  ===\n"
3562    
3563  # Create special header files  # Create special header files
3564  $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 -bPACKAGES_CONFIG_H "Disabled packages:" $DISABLED_PACKAGES " " "Enabled packages:" $ENABLED_PACKAGES > $PACKAGES_DOT_H".tmp"
3565  if test ! -f $PACKAGES_DOT_H ; then  if test ! -f $PACKAGES_DOT_H ; then
3566      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H
3567  else  else
# Line 3144  else Line 3575  else
3575      fi      fi
3576  fi  fi
3577  if test ! -f AD_CONFIG.h ; then  if test ! -f AD_CONFIG.h ; then
3578      $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 "Default version" -bAD_CONFIG_H -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN > AD_CONFIG.h
3579  fi  fi
3580    
   
3581  #  Write the "state" for future records  #  Write the "state" for future records
3582  if test "x$DUMPSTATE" != xf ; then  if test "x$DUMPSTATE" = xt ; then
3583      printf "" > genmake_state      printf "" > genmake_state
3584      for i in $gm_state ; do      for i in $gm_state ; do
3585          t1="t2=\$$i"          t1="t2=\$$i"
3586          eval $t1          eval $t1
3587          echo "$i='$t2'" >> genmake_state          echo "$i='$t2'" | sed -e 's/  */ /g' >> genmake_state
3588      done      done
3589  fi  fi

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