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revision 1.138 by edhill, Sun Dec 4 13:57:08 2005 UTC revision 1.214 by jmc, Sat Nov 6 19:03:41 2010 UTC
# Line 1  Line 1 
1  #! /usr/bin/env bash  #! /usr/bin/env bash
2  #  #
3  # $Header$  # $Header$
4    # $Name$
5  #  #
6  # Makefile generator for MITgcm UV codes  # Makefile generator for MITgcm UV codes
7  #   created  by cnh 03/98  #   created  by cnh 03/98
# Line 8  Line 9 
9  #   modified by aja 01/00  #   modified by aja 01/00
10  #   rewritten in bash by eh3 08/03  #   rewritten in bash by eh3 08/03
11    
12    #  Explain usage
13    usage()  {
14    cat <<EOF
15    
16    Usage: "$0" [OPTIONS]
17      where [OPTIONS] can be:
18    
19        -help | --help | -h | --h
20              Print this help message and exit.
21    
22        -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
23          -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
24              Use "NAME" as the adoptfile.  By default, the file at
25              "tools/adjoint_options/adjoint_default" will be used.
26    
27        -nooptfile | --nooptfile
28          -optfile NAME | --optfile NAME | -of NAME | --of NAME
29          -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
30              Use "NAME" as the optfile.  By default, an attempt will be
31              made to find an appropriate "standard" optfile in the
32              tools/build_options/ directory.
33    
34        -pdepend NAME | --pdepend NAME
35          -pdepend=NAME | --pdepend=NAME
36              Get package dependency information from "NAME".
37    
38        -pgroups NAME | --pgroups NAME
39          -pgroups=NAME | --pgroups=NAME
40              Get the package groups information from "NAME".
41    
42        -bash NAME
43              Explicitly specify the Bourne or BASH shell to use
44    
45        -make NAME | -m NAME
46          --make=NAME | -m=NAME
47              Use "NAME" for the MAKE program. The default is "make" but
48              many platforms, "gmake" is the preferred choice.
49    
50        -makefile NAME | -mf NAME
51          --makefile=NAME | -mf=NAME
52              Call the makefile "NAME".  The default is "Makefile".
53    
54        -makedepend NAME | -md NAME
55          --makedepend=NAME | -md=NAME
56              Use "NAME" for the MAKEDEPEND program.
57    
58        -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
59          -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
60              Specify the location of the MITgcm ROOTDIR as "NAME".
61              By default, genamke will try to find the location by
62              looking in parent directories (up to the 5th parent).
63    
64        -mods NAME | --mods NAME | -mo NAME | --mo NAME
65          -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
66              Here, "NAME" specifies a list of directories that are
67              used for additional source code.  Files found in the
68              "mods list" are given preference over files of the same
69              name found elsewhere.
70    
71        -disable NAME | --disable NAME
72          -disable=NAME | --disable=NAME
73              Here "NAME" specifies a list of packages that we don't
74              want to use.  If this violates package dependencies,
75              genamke will exit with an error message.
76    
77        -enable NAME | --enable NAME
78          -enable=NAME | --enable=NAME
79              Here "NAME" specifies a list of packages that we wish
80              to specifically enable.  If this violates package
81              dependencies, genamke will exit with an error message.
82    
83        -standarddirs NAME | --standarddirs NAME
84          -standarddirs=NAME | --standarddirs=NAME
85              Here, "NAME" specifies a list of directories to be
86              used as the "standard" code.
87    
88        -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
89          -fc=NAME | --fc=NAME
90              Use "NAME" as the fortran compiler.  By default, genmake
91              will search for a working compiler by trying a list of
92              "usual suspects" such as g77, f77, etc.
93    
94        -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
95              Use "NAME" as the C compiler.  By default, genmake
96              will search for a working compiler by trying a list of
97              "usual suspects" such as gcc, c89, cc, etc.
98    
99        -[no]ieee | --[no]ieee
100              Do or don't use IEEE numerics.  Note that this option
101              *only* works if it is supported by the OPTFILE that
102              is being used.
103    
104        -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
105              Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
106              *only* works if CPP_EEOPTIONS.h allows this.
107    
108        -ignoretime | -ignore_time | --ignoretime | --ignore_time
109              Ignore all the "wall clock" routines entirely.  This will
110              not in any way hurt the model results -- it simply means
111              that the code that checks how long the model spends in
112              various routines will give junk values.
113    
114        -ts | --ts
115              Produce timing information per timestep
116        -papis | --papis
117              Produce summary MFlop/s (and IPC) with PAPI per timestep
118        -pcls | --pcls
119              Produce summary MFlop/s etc. with PCL per timestep
120        -foolad | --foolad
121              Fool the AD code generator
122        -papi | --papi
123              Performance analysis with PAPI
124        -pcl | --pcl
125              Performance analysis with PCL
126        -hpmt | --hpmt
127              Performance analysis with the HPM Toolkit
128    
129        -gsl | --gsl
130              Use GSL to control floating point rounding and precision
131        -devel | --devel
132              Add additional warning and debugging flags for development
133    
134        -mpi | --mpi
135              Include MPI header files and link to MPI libraries
136        -mpi=PATH | --mpi=PATH
137              Include MPI header files and link to MPI libraries using MPI_ROOT
138              set to PATH. i.e. Include files from \$PATH/include, link to libraries
139              from \$PATH/lib and use binaries from \$PATH/bin.
140    
141        -omp | --omp
142              Activate OpenMP code + use Compiler option OMPFLAG
143        -omp=OMPFLAG | --omp=OMPFLAG
144              Activate OpenMP code + use Compiler option OMPFLAG
145    
146        -es | --es | -embed-source | --embed-source
147              Embed a tarball containing the full source code
148              (including the Makefile, etc.) used to build the
149              executable [off by default]
150    
151        -ds | --ds
152              Report genmake internal variables status (DUMPSTATE)
153              to file "genmake_state" (for debug purpose)
154    
155      While it is most often a single word, the "NAME" variables specified
156      above can in many cases be a space-delimited string such as:
157    
158        --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
159        -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
160        -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
161    
162      which, depending upon your shell, may need to be single-quoted.
163    
164      For more detailed genmake documentation, please see:
165    
166        http://mitgcm.org/public/devel_HOWTO/
167    
168    EOF
169    
170        exit 1
171    }
172    
173  # Search for particular CPP #cmds associated with packages  # Search for particular CPP #cmds associated with packages
174  # usage: test_for_package_in_cpp_options CPP_file package_name  # usage: test_for_package_in_cpp_options CPP_file package_name
175  test_for_package_in_cpp_options() {  test_for_package_in_cpp_options() {
176      cpp_options=$1      cpp_options=$1
177      pkg=$2      pkg=$2
178      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg[ ]"
179      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg[ ]"
180      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg[ ]"
181      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg[ ]"
182        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg$"
183        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg$"
184        test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg$"
185        test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg$"
186  }  }
187    
188  # Search for particular CPP #cmds associated with MPI  # Search for particular CPP #cmds associated with MPI
189  # usage: test_for_mpi_in_cpp_eeoptions CPP_file  # usage: test_for_mpi_in_cpp_eeoptions CPP_file
190  test_for_mpi_in_cpp_eeoptions() {  test_for_mpi_in_cpp_eeoptions() {
191      cpp_options=$1      cpp_options=$1
192      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI[ ]"
193      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI[ ]"
194      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI[ ]"
195      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI[ ]"
196        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI$"
197        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI$"
198        test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI$"
199        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI$"
200  }  }
201    
202  # Search for particular string in a file. Return 1 if detected, 0 if not  # Search for particular string in a file. Return 1 if detected, 0 if not
# Line 39  test_for_string_in_file() { Line 209  test_for_string_in_file() {
209      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
210          printf "Error: In $file there is an illegal line: "          printf "Error: In $file there is an illegal line: "
211          grep -i "$strng" $file          grep -i "$strng" $file
212          return 1          exit 99
213      fi      fi
214      return 0      return 0
215  }  }
# Line 48  test_for_string_in_file() { Line 218  test_for_string_in_file() {
218  # the package list.  # the package list.
219  expand_pkg_groups() {  expand_pkg_groups() {
220      new_packages=      new_packages=
     PKG_GROUPS=$ROOTDIR"/pkg/pkg_groups"  
221      if test -r $PKG_GROUPS ; then      if test -r $PKG_GROUPS ; then
222          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp
223          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp
# Line 59  expand_pkg_groups() { Line 228  expand_pkg_groups() {
228              if test "x$RETVAL" = x0 ; then              if test "x$RETVAL" = x0 ; then
229                  matched=1                  matched=1
230                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`
231                  echo "    replacing \"$i\" with: $replace"                  echo "    replacing \"$i\" with:$replace"
232                  new_packages="$new_packages $replace"                  new_packages="$new_packages $replace"
233              else              else
234                  new_packages="$new_packages $i"                  new_packages="$new_packages $i"
# Line 102  EOF Line 271  EOF
271              check_for_broken_Ff              check_for_broken_Ff
272          else          else
273              cat <<EOF 2>&1              cat <<EOF 2>&1
274  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
275    (fails the "cp" test) and this program cannot find a suitable    (fails the "cp" test) and this program cannot find a suitable
276    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
277    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
278    
279  EOF  EOF
# Line 138  EOF Line 307  EOF
307              check_for_broken_Ff              check_for_broken_Ff
308          else          else
309              cat <<EOF 2>&1              cat <<EOF 2>&1
310  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
311    (fails the "make/ln" test) and this program cannot find a suitable    (fails the "make/ln" test) and this program cannot find a suitable
312    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
313    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
314    
315  EOF  EOF
# Line 157  EOF Line 326  EOF
326      return      return
327  }  }
328    
   
329  look_for_makedepend()  {  look_for_makedepend()  {
330    
331      #  The "original" makedepend is part of the Imake system that is      #  The "original" makedepend is part of the Imake system that is
# Line 186  look_for_makedepend()  { Line 354  look_for_makedepend()  {
354          cat <<EOF >> $MAKEFILE          cat <<EOF >> $MAKEFILE
355  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"
356  #  #
357  #   Some "makedepend" implementations will die if they cannot  #   Some "makedepend" implementations will die if they cannot
358  #   find a Makefile -- so this file is here to gives them an  #   find a Makefile -- so this file is here to gives them an
359  #   empty one to find and parse.  #   empty one to find and parse.
360  EOF  EOF
361          cat <<EOF >> genmake_tc.f          cat <<EOF >> genmake_tc.f
# Line 204  EOF Line 372  EOF
372              MAKEDEPEND=makedepend              MAKEDEPEND=makedepend
373          else          else
374              echo "    a system-default makedepend was not found."              echo "    a system-default makedepend was not found."
               
375              #  Try to build the cyrus implementation              #  Try to build the cyrus implementation
376              build_cyrus_makedepend              build_cyrus_makedepend
377              RETVAL=$?              RETVAL=$?
# Line 223  EOF Line 390  EOF
390      fi      fi
391  }  }
392    
   
393  build_cyrus_makedepend()  {  build_cyrus_makedepend()  {
394      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
395      (      (
# Line 248  build_cyrus_makedepend()  { Line 414  build_cyrus_makedepend()  {
414      fi      fi
415  }  }
416    
417  # Guess possible config options for this host  build_embed_encode()
418  find_possible_configs()  {  {
419        printf "  building the embed-encode utility...  "
420      tmp1=`uname`"_"`uname -m`      if test ! -e "$ROOTDIR/tools/embed_encode/encode_files" ; then
421      tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`          if test ! -d "$ROOTDIR/tools/embed_encode" ; then
422      tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`              echo
423      tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`              echo "    Error: can't locate \"$ROOTDIR/tools/embed_encode\""
424      tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`              echo
425      tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`              EMBED_SRC=f
426      PLATFORM=$tmp3              return 1
427      echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32          fi
428      OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`          clist="cc gcc c89 $CC"
429      echo "  The platform appears to be:  $PLATFORM"          for ic in $clist ; do
430                    comm="$ic -o encode_files encode_files.c"
431      echo "test" > test              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1
432      ln -s ./test link              RETVAL=$?
433      RETVAL=$?              if test "x$RETVAL" = x0 ; then
434      if test "x${RETVAL}" = x0 ; then                  echo "OK"
435          LN="ln -s"                  DEFINES="$DEFINES -DHAVE_EMBED_SRC"
436      else                  return 0
437          echo "Error: \"ln -s\" does not appear to work on this system!"              fi
438          echo "  For help, please contact <MITgcm-support@mitgcm.org>."          done
439          exit 1          echo
440      fi          echo "    Error: unable to build $ROOTDIR/embed_encode/encode_files"
441      rm -f test link          echo "      so it has been disabled"
442            echo
443      if test "x$CPP" = x ; then          EMBED_SRC=f
444          CPP="cpp -traditional -P"          return 1
445      fi      fi
446        echo "OK"
447        DEFINES="$DEFINES -DHAVE_EMBED_SRC"
448    }
449    
450      look_for_makedepend  #  look for possible C compilers
451    look_for_C_compilers() {
452      #================================================================      echo >> $LOGFILE
453      #  look for possible C compilers      echo "running: look_for_C_compilers()" >> $LOGFILE
454      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc"      rm -f ./genmake_hello.c  ./genmake_hello
455      p_CC=      cat >> genmake_hello.c << EOF
     for c in $tmp ; do  
         rm -f ./genmake_hello.c  ./genmake_hello  
         cat >> genmake_hello.c << EOF  
456  #include <stdio.h>  #include <stdio.h>
457  int main(int argc, char **argv) {  int main(int argc, char **argv) {
458    printf("Hello!\n");    printf("Hello!\n");
459    return 0;    return 0;
460  }  }
461  EOF  EOF
462          $c -o genmake_hello genmake_hello.c > /dev/null 2>&1      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
463        p_CC=
464        for c in $tmp ; do
465            COMM="$c $CFLAGS -o genmake_hello genmake_hello.c"
466            echo $COMM >> $LOGFILE
467            $COMM >> $LOGFILE 2>&1
468          RETVAL=$?          RETVAL=$?
469          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
470                echo " $c test successful" >> $LOGFILE
471              p_CC="$p_CC $c"              p_CC="$p_CC $c"
472          fi          fi
473      done      done
# Line 311  Error: No C compilers were found in your Line 483  Error: No C compilers were found in your
483  EOF  EOF
484          exit 1          exit 1
485      else      else
486          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  
487          if test "x$CC" = x ; then          if test "x$CC" = x ; then
488              CC=`echo $p_CC | $AWK '{print $1}'`              CC=`echo $p_CC | $AWK '{print $1}'`
489              echo "  Setting C compiler to: "$CC              echo "  Setting C compiler to: "$CC
490          fi          fi
491      fi      fi
492        echo " --> set CC='$CC'" >> $LOGFILE
493    }
494    
495    # Guess possible config options for this host
496    find_possible_optfile()  {
497    
498        echo >> $LOGFILE
499        echo "running: find_possible_optfile()" >> $LOGFILE
500        tmp1=`uname`"_"`uname -m`
501        tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`
502        tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`
503        tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`
504        tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`
505        tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`
506        PLATFORM=$tmp3
507        echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
508        OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
509        echo "  The platform appears to be:  $PLATFORM" | tee -a $LOGFILE
510    
511      #================================================================      #================================================================
512      #  look for possible FORTRAN compilers      #  look for possible FORTRAN compilers
513      tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc f90 f95 mpif77 mpf77 mpxlf95 gfortran"      echo "  look for possible FORTRAN compilers" >> $LOGFILE
514        tmp="$MITGCM_FC $FC efc gfortran g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 g95"
515      p_FC=      p_FC=
516      for c in $tmp ; do      rm -f ./genmake_hello.f
517          rm -f ./hello.f ./hello      cat >> genmake_hello.f <<EOF
         cat >> hello.f <<EOF  
518        program hello        program hello
519        do i=1,3        do i=1,3
520          print *, 'hello world : ', i          print *, 'hello world : ', i
521        enddo        enddo
522        end        end
523  EOF  EOF
524          $c -o hello hello.f > /dev/null 2>&1      for f in $tmp ; do
525            COMM="$f -o genmake_hello genmake_hello.f"
526            echo $COMM >> $LOGFILE
527            $COMM >> $LOGFILE 2>&1
528          RETVAL=$?          RETVAL=$?
529          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
530              p_FC="$p_FC $c"              echo " $f test successful" >> $LOGFILE
531                p_FC="$p_FC $f"
532          fi          fi
533      done      done
534      rm -f ./hello.f ./hello      rm -f ./genmake_hello.f ./genmake_hello
535      if test "x${p_FC}" = x ; then      if test "x${p_FC}" = x ; then
536          cat 1>&2 <<EOF          cat 1>&2 <<EOF
537    
# Line 351  Error: No Fortran compilers were found i Line 544  Error: No Fortran compilers were found i
544  EOF  EOF
545          exit 1          exit 1
546      else      else
547          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  
548      fi      fi
549    
550      #  Use the first of the compilers found in the current PATH      #  Use the first of the compilers found in the current PATH
# Line 361  EOF Line 553  EOF
553          for i in $p_FC ; do          for i in $p_FC ; do
554              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
555              if test -r $OPTFILE ; then              if test -r $OPTFILE ; then
556                  echo "  Setting OPTFILE to: "$OPTFILE                  echo "  Setting OPTFILE to: "$OPTFILE | tee -a $LOGFILE
557                  break                  break
558              fi              fi
559          done          done
# Line 373  EOF Line 565  EOF
565               echo "  I looked for the file "$OPTFILE" but did not find it"               echo "  I looked for the file "$OPTFILE" but did not find it"
566          fi          fi
567      fi      fi
568  #    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:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #    break  
 #fi  
 #   done  
569      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
570          cat 1>&2 <<EOF          cat 1>&2 <<EOF
571    
# Line 399  Error: No options file was found in:  $R Line 581  Error: No options file was found in:  $R
581  EOF  EOF
582          exit 1          exit 1
583      fi      fi
584        
585  #     # look for possible MPI libraries  #     # look for possible MPI libraries
586  #     mpi_libs=  #     mpi_libs=
587  #     mpi_fort=`which mpif77 2>/dev/null`  #     mpi_fort=`which mpif77 2>/dev/null`
# Line 418  EOF Line 600  EOF
600  #       if test "x${RETVAL}" = x0 ; then  #       if test "x${RETVAL}" = x0 ; then
601  #           a=`cat out`  #           a=`cat out`
602  #           for i in $a ; do  #           for i in $a ; do
603  #               case $i in  #               case $i in
604  #                   -*)  #                   -*)
605  #                       mpi_libs="$mpi_libs $i" ;;  #                       mpi_libs="$mpi_libs $i" ;;
606  #               esac  #               esac
# Line 428  EOF Line 610  EOF
610  #       fi  #       fi
611  #       rm -f test.f out  #       rm -f test.f out
612  #     fi  #     fi
   
613  }  }
614    
615  #  Parse the package dependency information  #  Parse the package dependency information
# Line 437  get_pdepend_list()  { Line 618  get_pdepend_list()  {
618      #  strip the comments and then convert the dependency file into      #  strip the comments and then convert the dependency file into
619      #  two arrays: PNAME, DNAME      #  two arrays: PNAME, DNAME
620      cat $1 | sed -e 's/#.*$//g' \      cat $1 | sed -e 's/#.*$//g' \
621          | $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}' \
622          > ./.pd_tmp          > ./.pd_tmp
623        RETVAL=$?
624        if test ! "x${RETVAL}" = x0 ; then
625          echo "Error: unable to parse package dependencies -- please check PKG_DEPEND=\"$1\""
626          exit 1
627        fi
628      . ./.pd_tmp      . ./.pd_tmp
629      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.  
   
     -ts | --ts  
           Produce timing information per timestep  
   
     -mpi | --mpi  
           Include MPI header files and link to MPI libraries  
     -mpi=PATH | --mpi=PATH  
           Include MPI header files and link to MPI libraries using MPI_ROOT  
           set to PATH. i.e. Include files from \$PATH/include, link to libraries  
           from \$PATH/lib and use binaries from \$PATH/bin.  
   
     -bash NAME  
           Explicitly specify the Bourne or BASH shell to use  
   
   While it is most often a single word, the "NAME" variables specified  
   above can in many cases be a space-delimited string such as:  
   
     --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'  
     -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'  
     -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'  
   
   which, depending upon your shell, may need to be single-quoted.  
   
   For more detailed genmake documentation, please see:  
   
     http://mitgcm.org/devel_HOWTO/  
   
 EOF  
   
     exit 1  
630  }  }
631    
632  #  Build a CPP macro to automate calling C routines from FORTRAN  #  Build a CPP macro to automate calling C routines from FORTRAN
# Line 573  get_fortran_c_namemangling()  { Line 636  get_fortran_c_namemangling()  {
636      if test ! "x$FC_NAMEMANGLE" = x ; then      if test ! "x$FC_NAMEMANGLE" = x ; then
637          return 0          return 0
638      fi      fi
639        echo " running: get_fortran_c_namemangling()" >> $LOGFILE
640    
641      default_nm="#define FC_NAMEMANGLE(X) X ## _"      default_nm="#define FC_NAMEMANGLE(X) X ## _"
642        
643      cat > genmake_test.c <<EOF      cat > genmake_test.c <<EOF
644  void tcall( char * string ) { tsub( string ); }  void tcall( char * string ) { tsub( string ); }
645  EOF  EOF
646      $MAKE genmake_test.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_test.c"
647        echo ' '$COMM >> $LOGFILE
648        $COMM >> $LOGFILE 2>&1
649      RETVAL=$?      RETVAL=$?
650      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
651          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
652          cat <<EOF>> genmake_errors          cat <<EOF>> $LOGFILE
653    
654  WARNING: C test compile fails   WARNING: C test compile fails
655  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
656  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
657  EOF  EOF
658          return 1          return 1
659      fi      fi
# Line 595  EOF Line 661  EOF
661      RETVAL=$?      RETVAL=$?
662      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
663          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
664          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
665    
666  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
667  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
668  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
669  EOF  EOF
670          return 1          return 1
671      fi      fi
# Line 609  EOF Line 675  EOF
675        call tsub( string )        call tsub( string )
676        end        end
677  EOF  EOF
678      $FC $FFLAGS -c genmake_tcomp.$FS >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -c genmake_tcomp.$FS"
679        echo ' '$COMM >> $LOGFILE
680        $COMM >> $LOGFILE 2>&1
681      RETVAL=$?      RETVAL=$?
682      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
683          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
684          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
685    
686  WARNING: FORTRAN test compile fails -- please see "genmake_errors"   WARNING: FORTRAN test compile fails -- please see '$LOGFILE'
687  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
688  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
689  EOF  EOF
690          return 1          return 1
691      fi      fi
# Line 625  EOF Line 693  EOF
693      RETVAL=$?      RETVAL=$?
694      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
695          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
696          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
697    
698  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
699  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
700  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
701  EOF  EOF
702          return 1          return 1
703      fi      fi
# Line 655  EOF Line 723  EOF
723    
724      #  cleanup the testing files      #  cleanup the testing files
725      rm -f genmake_tcomp.* genmake_test.*      rm -f genmake_tcomp.* genmake_test.*
 }  
726    
727        echo " --> set FC_NAMEMANGLE='$FC_NAMEMANGLE'" >> $LOGFILE
728    }
729    
730  check_HAVE_CLOC()  {  check_HAVE_CLOC()  {
731        echo >> $LOGFILE
732        echo "running: check_HAVE_CLOC()" >> $LOGFILE
733      get_fortran_c_namemangling      get_fortran_c_namemangling
734      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
735  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 675  void FC_NAMEMANGLE(cloc) ( double *curti Line 746  void FC_NAMEMANGLE(cloc) ( double *curti
746   *curtim = *curtim/1.E6;   *curtim = *curtim/1.E6;
747  }  }
748  EOF  EOF
749      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
750        echo $COMM >> $LOGFILE
751        $COMM >> $LOGFILE 2>&1
752      RET_C=$?      RET_C=$?
753      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
754        program hello        program hello
# Line 685  EOF Line 758  EOF
758        print *," HELLO WORLD", wtime        print *," HELLO WORLD", wtime
759        end        end
760  EOF  EOF
761      $FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
762        echo $COMM >> $LOGFILE
763        $COMM >> $LOGFILE 2>&1
764      RET_F=$?      RET_F=$?
765      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> $LOGFILE 2>&1
766      RETVAL=$?      RETVAL=$?
767      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
768          HAVE_CLOC=t          HAVE_CLOC=t
769          DEFINES="$DEFINES -DHAVE_CLOC"          DEFINES="$DEFINES -DHAVE_CLOC"
770      fi      fi
771      rm -f genmake_tc*      rm -f genmake_tc*
772        echo " --> set HAVE_CLOC='$HAVE_CLOC'" >> $LOGFILE
773  }  }
774    
   
775  check_HAVE_SIGREG()  {  check_HAVE_SIGREG()  {
776        if test ! "x$HAVE_SIGREG" = x ; then
777            return
778        fi
779        echo >> $LOGFILE
780        echo "running: check_HAVE_SIGREG()" >> $LOGFILE
781      get_fortran_c_namemangling      get_fortran_c_namemangling
782      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
783  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 729  void FC_NAMEMANGLE(sigreg) (int * aip) Line 809  void FC_NAMEMANGLE(sigreg) (int * aip)
809      return;      return;
810  }  }
811  EOF  EOF
812      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
813        echo $COMM >> $LOGFILE
814        $COMM >> $LOGFILE 2>&1
815      RET_C=$?      RET_C=$?
816      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
817        program hello        program hello
# Line 739  EOF Line 821  EOF
821        call sigreg(anint)        call sigreg(anint)
822        end        end
823  EOF  EOF
824      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SIGREG()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
825      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"
826      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
827      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
828      RETVAL=$?      RETVAL=$?
829      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
830          HAVE_SIGREG=t          HAVE_SIGREG=t
831          DEFINES="$DEFINES -DHAVE_SIGREG"          DEFINES="$DEFINES -DHAVE_SIGREG"
832      fi      fi
833      rm -f genmake_tc*      rm -f genmake_tc*
834        echo " --> set HAVE_SIGREG='$HAVE_SIGREG'" >> $LOGFILE
835  }  }
836    
   
837  check_HAVE_SETRLSTK()  {  check_HAVE_SETRLSTK()  {
838        if test "x$HAVE_SETRLSTK" = xt ; then
839            DEFINES="$DEFINES -DHAVE_SETRLSTK"
840            return
841        fi  
842        if test ! "x$HAVE_SETRLSTK" = x ; then
843            return
844        fi
845        echo >> $LOGFILE
846        echo "running: check_HAVE_SETRLSTK()" >> $LOGFILE
847      get_fortran_c_namemangling      get_fortran_c_namemangling
848      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
849  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 770  void FC_NAMEMANGLE(setrlstk) () Line 859  void FC_NAMEMANGLE(setrlstk) ()
859      return;      return;
860  }  }
861  EOF  EOF
862      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
863        echo $COMM >> $LOGFILE
864        $COMM >> $LOGFILE 2>&1
865      RET_C=$?      RET_C=$?
866      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
867        program hello        program hello
# Line 778  EOF Line 869  EOF
869        call setrlstk()        call setrlstk()
870        end        end
871  EOF  EOF
872      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SETRLSTK()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
873      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"
874      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
875      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
876      RETVAL=$?      RETVAL=$?
877      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
878          HAVE_SETRLSTK=t          HAVE_SETRLSTK=t
879          DEFINES="$DEFINES -DHAVE_SETRLSTK"          DEFINES="$DEFINES -DHAVE_SETRLSTK"
880      fi      fi
881      rm -f genmake_tc*      rm -f genmake_tc*
882        echo " --> set HAVE_SETRLSTK='$HAVE_SETRLSTK'" >> $LOGFILE
883  }  }
884    
   
885  check_HAVE_STAT()  {  check_HAVE_STAT()  {
886        echo >> $LOGFILE
887        echo "running: check_HAVE_STAT()" >> $LOGFILE
888      get_fortran_c_namemangling      get_fortran_c_namemangling
889      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
890  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 814  void FC_NAMEMANGLE(tfsize) ( int *nbyte Line 905  void FC_NAMEMANGLE(tfsize) ( int *nbyte
905          *nbyte = -1;          *nbyte = -1;
906  }  }
907  EOF  EOF
908      make genmake_tc_1.o >> genmake_tc.log 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
909        echo $COMM >> $LOGFILE
910        $COMM >> genmake_tc.log 2>&1
911      RET_C=$?      RET_C=$?
912      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
913        program hello        program hello
# Line 823  EOF Line 916  EOF
916        print *," HELLO WORLD", nbyte        print *," HELLO WORLD", nbyte
917        end        end
918  EOF  EOF
919      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_STAT()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
920      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"
921      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
922      $COMM >> genmake_tc.log 2>&1      $COMM >> genmake_tc.log 2>&1
923      RETVAL=$?      RETVAL=$?
924      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
# Line 835  EOF Line 926  EOF
926          DEFINES="$DEFINES -DHAVE_STAT"          DEFINES="$DEFINES -DHAVE_STAT"
927      fi      fi
928      rm -f genmake_tc*      rm -f genmake_tc*
929        echo " --> set HAVE_STAT='$HAVE_STAT'" >> $LOGFILE
930  }  }
931    
   
932  check_netcdf_libs()  {  check_netcdf_libs()  {
933      if test ! "x$SKIP_NETCDF_CHECK" = x ; then      if test ! "x$SKIP_NETCDF_CHECK" = x ; then
934          return          return
935      fi      fi
936      echo >> genmake_warnings      echo >> $LOGFILE
937      echo "running: check_netcdf_libs()" >> genmake_warnings      echo "running: check_netcdf_libs()" >> $LOGFILE
938      cat <<EOF > genmake_tnc.F      cat <<EOF > genmake_tnc.F
939        program fgennc        program fgennc
940  #include "netcdf.inc"  #include "netcdf.inc"
# Line 861  EOF Line 952  EOF
952        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
953        end        end
954  EOF  EOF
955      echo "===  genmake_tnc.F  ===" > genmake_tnc.log      echo "===  genmake_tnc.F  >>>" > genmake_tnc.log
956      cat genmake_tnc.F >> genmake_tnc.log      cat genmake_tnc.F >> genmake_tnc.log
957      echo "===  genmake_tnc.F  ===" >> genmake_tnc.log      echo "<<<  genmake_tnc.F  ===" >> genmake_tnc.log
958      RET_CPP=f      RET_CPP=f
959      COMM="$CPP $DEFINES $INCLUDES genmake_tnc.F"      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"
960      echo "$COMM" >> genmake_tnc.log      echo "$COMM" >> genmake_tnc.log
961      $COMM > genmake_tnc.$FS 2>/dev/null  &&  RET_CPP=t      eval $COMM > genmake_tnc.$FS 2>/dev/null  &&  RET_CPP=t
962      if test "x$RET_CPP" = xf ; then      if test "x$RET_CPP" = xf ; then
963          echo "  WARNING: CPP failed to pre-process the netcdf test." \          echo "  WARNING: CPP failed to pre-process the netcdf test." \
964              >> genmake_tnc.log              >> genmake_tnc.log
# Line 875  EOF Line 966  EOF
966              >> genmake_tnc.log              >> genmake_tnc.log
967      fi      fi
968      echo "$FC $FFLAGS $FOPTIM -c genmake_tnc.$FS  \ " >> genmake_tnc.log      echo "$FC $FFLAGS $FOPTIM -c genmake_tnc.$FS  \ " >> genmake_tnc.log
969      echo "  &&  $LINK -o genmake_tnc.o $LIBS" >> genmake_tnc.log      echo "  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc.o $LIBS" >> genmake_tnc.log
970      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
971          &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1
972      RET_COMPILE=$?      RET_COMPILE=$?
973      cat genmake_tnc.log >> genmake_warnings      cat genmake_tnc.log >> $LOGFILE
974    
975      #EH3  Remove test program execution for machines that either disallow      #EH3  Remove test program execution for machines that either disallow
976      #EH3  execution or cannot support it (eg. cross-compilers)      #EH3  execution or cannot support it (eg. cross-compilers)
# Line 890  EOF Line 981  EOF
981    
982      if test "x$RET_COMPILE" = x0 ; then      if test "x$RET_COMPILE" = x0 ; then
983          HAVE_NETCDF=t          HAVE_NETCDF=t
984            echo "check_netcdf: successful" >> $LOGFILE
985      else      else
986          # try again with "-lnetcdf" added to the libs          # try again with "-lnetcdf" added to the libs
987          echo "try again with added '-lnetcdf'" > genmake_tnc.log          echo "==> try again with added '-lnetcdf'" > genmake_tnc.log
988          echo "$CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS \ " >> genmake_tnc.log          echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
989          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
990          echo " &&  $LINK -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
991          $CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS 2>/dev/null  \          cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
992              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
993              &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1
994          RET_COMPILE=$?          RET_COMPILE=$?
995          cat genmake_tnc.log >> genmake_warnings          echo >> $LOGFILE
996            cat genmake_tnc.log >> $LOGFILE
997          if test "x$RET_COMPILE" = x0 ; then          if test "x$RET_COMPILE" = x0 ; then
998              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
999              HAVE_NETCDF=t              HAVE_NETCDF=t
1000                echo "check_netcdf: successful" >> $LOGFILE
1001            else
1002            # try again with "-lnetcdff" added to the libs
1003                echo "==> try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
1004                echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1005                echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1006                echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
1007                cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
1008                    &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1009                    &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
1010                RET_COMPILE=$?
1011                echo >> $LOGFILE
1012                cat genmake_tnc.log >> $LOGFILE
1013                if test "x$RET_COMPILE" = x0 ; then
1014                    LIBS="$LIBS -lnetcdff -lnetcdf"
1015                    HAVE_NETCDF=t
1016                    echo "check_netcdf: successful" >> $LOGFILE
1017                fi
1018          fi          fi
1019      fi      fi
1020      rm -f genmake_tnc*      rm -f genmake_tnc*
1021        echo " --> set HAVE_NETCDF='$HAVE_NETCDF'" >> $LOGFILE
1022  }  }
1023    
1024    
   
1025  ###############################################################################  ###############################################################################
1026  #   Sequential part of script starts here  #   Sequential part of script starts here
1027  ###############################################################################  ###############################################################################
# Line 932  ENABLE= Line 1043  ENABLE=
1043  DISABLE=  DISABLE=
1044  # MAKEFILE=  # MAKEFILE=
1045  # MAKEDEPEND=  # MAKEDEPEND=
1046  PDEPEND=  PKG_DEPEND=
1047  DUMPSTATE=t  PKG_GROUPS=
1048  PDEFAULT=  DUMPSTATE=f
1049  OPTFILE=  OPTFILE=
1050  INCLUDES="-I. $INCLUDES"  INCLUDES="-I. $INCLUDES"
1051  FFLAGS=  FFLAGS=
1052  FOPTIM=  FOPTIM=
1053    FEXTRAFLAGS=
1054    USE_EXTENDED_SRC=
1055    EXTENDED_SRC_FLAG=
1056  CFLAGS=  CFLAGS=
1057  KFLAGS1=  KFLAGS1=
1058  KFLAGS2=  KFLAGS2=
# Line 949  NOOPTFILES= Line 1063  NOOPTFILES=
1063  NOOPTFLAGS=  NOOPTFLAGS=
1064  MPI=  MPI=
1065  MPIPATH=  MPIPATH=
1066    OMP=
1067    OMPFLAG=
1068    USE_R4=
1069  TS=  TS=
1070    PAPIS=
1071    PCLS=
1072    FOOLAD=
1073    PAPI=
1074    PCL=
1075    HPMT=
1076    GSL=
1077    DEVEL=
1078  HAVE_TEST_L=  HAVE_TEST_L=
1079    
1080  # DEFINES checked by test compilation or command-line  # DEFINES checked by test compilation or command-line
# Line 957  HAVE_SYSTEM= Line 1082  HAVE_SYSTEM=
1082  HAVE_FDATE=  HAVE_FDATE=
1083  FC_NAMEMANGLE=  FC_NAMEMANGLE=
1084  HAVE_CLOC=  HAVE_CLOC=
1085  HAVE_SETRLSTK=  # HAVE_SETRLSTK=
1086  HAVE_STAT=  HAVE_STAT=
1087  HAVE_NETCDF=  HAVE_NETCDF=
1088  HAVE_ETIME=  HAVE_ETIME=
# Line 974  BASH= Line 1099  BASH=
1099  PWD=`pwd`  PWD=`pwd`
1100  test "x$MAKE" = x  &&  MAKE=make  test "x$MAKE" = x  &&  MAKE=make
1101  test "x$AWK" = x   &&  AWK=awk  test "x$AWK" = x   &&  AWK=awk
1102    EMBED_SRC=
1103  THISHOST=`hostname`  THISHOST=`hostname`
1104  THISCWD=`pwd`  THISCWD=`pwd`
1105  THISDATE=`date`  THISDATE=`date`
# Line 1004  FTL_TAF_FLAGS= Line 1130  FTL_TAF_FLAGS=
1130  SVD_TAMC_FLAGS=  SVD_TAMC_FLAGS=
1131  TAMC_EXTRA=  TAMC_EXTRA=
1132    
   
1133  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1134  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"  gm_s1="OPTFILE PKG_DEPEND PKG_GROUPS MAKEFILE MAKEDEPEND PLATFORM ROOTDIR MODS DISABLE ENABLE"
1135  gm_s2="FC CPP IEEE TS MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="FC CC IEEE USE_R4 TS PAPIS PCLS PAPI PCL HPMT GSL DEVEL MPI OMP DUMPSTATE STANDARDDIRS"
1136    
1137  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1138  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM "  gm_s3="LN S64 LINK MAKE PACKAGES INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"
1139  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s4="CFLAGS LIBS KPP KFLAGS1 KFLAGS2 KPPFILES NOOPTFILES NOOPTFLAGS"
1140  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD THISHOST THISUSER THISDATE THISVER MACHINE"
1141  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"
1142  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE HAVE_ETIME"  gm_s7="FC_NAMEMANGLE HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME"
1143    
1144  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1145  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"
# Line 1028  cat <<EOF Line 1153  cat <<EOF
1153    
1154  GENMAKE :  GENMAKE :
1155    
1156  A program for GENerating MAKEfiles for the MITgcm project.  For a  A program for GENerating MAKEfiles for the MITgcm project.
1157  quick list of options, use "genmake -h" or for more detail see:     For a quick list of options, use "genmake2 -h"
1158    or for more detail see the Developer's HOWTO manual at:
1159    http://mitgcm.org/devel_HOWTO/     http://mitgcm.org/public/docs.html
1160    
1161  EOF  EOF
1162    
1163    LOGFILE="genmake.log"
1164    #- clean-up previous genmake logfiles:
1165    rm -f genmake_state genmake_*optfile $LOGFILE
1166    
1167  echo "===  Processing options files and arguments  ==="  echo "===  Processing options files and arguments  ==="
1168  gm_local="genmake_local"  gm_local="genmake_local"
 for i in . $MODS ; do  
     if test -r $i/$gm_local ; then  
         . $i/$gm_local  
         break  
     fi  
 done  
1169  printf "  getting local config information:  "  printf "  getting local config information:  "
1170  if test -f $gm_local ; then  if test -f $gm_local ; then
1171      echo "using $gm_local"      echo "using $gm_local"
# Line 1054  else Line 1177  else
1177  fi  fi
1178    
1179  #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=$(( $n + 1 ))  
 #done  
1180  #parse_options  #parse_options
1181  ac_prev=  ac_prev=
1182  for ac_option in "$@" ; do  for ac_option in "$@" ; do
# Line 1075  for ac_option in "$@" ; do Line 1189  for ac_option in "$@" ; do
1189          ac_prev=          ac_prev=
1190          continue          continue
1191      fi      fi
1192        
1193      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`
1194        
1195      case $ac_option in      case $ac_option in
1196                    
1197          -help | --help | -h | --h)          -help | --help | -h | --h)
# Line 1096  for ac_option in "$@" ; do Line 1210  for ac_option in "$@" ; do
1210              AD_OPTFILE=$ac_optarg ;;              AD_OPTFILE=$ac_optarg ;;
1211                    
1212          -pdepend | --pdepend)          -pdepend | --pdepend)
1213              ac_prev=PDEPEND ;;              ac_prev=PKG_DEPEND ;;
1214          -pdepend=* | --pdepend=*)          -pdepend=* | --pdepend=*)
1215              PDEPEND=$ac_optarg ;;              PKG_DEPEND=$ac_optarg ;;
1216                    
1217          -pdefault | --pdefault)          -pgroups | --pgroups)
1218              ac_prev=PDEFAULT ;;              ac_prev=PKG_GROUPS ;;
1219          -pdefault=* | --pdefault=*)          -pgroups=* | --pgroups=*)
1220              PDEFAULT=$ac_optarg ;;              PKG_GROUPS=$ac_optarg ;;
1221                    
1222          -make | --make | -m | --m)          -make | --make | -m | --m)
1223              ac_prev=MAKE ;;              ac_prev=MAKE ;;
# Line 1187  for ac_option in "$@" ; do Line 1301  for ac_option in "$@" ; do
1301          -noieee | --noieee)          -noieee | --noieee)
1302              IEEE= ;;              IEEE= ;;
1303    
1304            -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
1305                USE_R4=true ;;
1306    
1307          -ts | --ts)          -ts | --ts)
1308              TS=true ;;              TS=true ;;
1309            -papis | --papis)
1310                PAPIS=true ;;
1311            -pcls | --pcls)
1312                PCLS=true ;;
1313            -foolad | --foolad)
1314                FOOLAD=true ;;
1315            -papi | --papi)
1316                PAPI=true ;;
1317            -pcl | --pcl)
1318                PCL=true ;;
1319            -hpmt | --hpmt)
1320                HPMT=true ;;
1321    
1322            -gsl | --gsl)
1323                GSL=true ;;
1324    
1325            -devel | --devel)
1326                DEVEL=true ;;
1327    
1328          -mpi | --mpi)          -mpi | --mpi)
1329              MPI=true ;;              MPI=true ;;
# Line 1196  for ac_option in "$@" ; do Line 1331  for ac_option in "$@" ; do
1331              MPIPATH=$ac_optarg              MPIPATH=$ac_optarg
1332              MPI=true ;;              MPI=true ;;
1333                    
1334  #       -jam | --jam)          -omp | --omp)
1335  #           JAM=1 ;;              OMP=true ;;
1336  #       -nojam | --nojam)          -omp=* | --omp=*)
1337  #           JAM=0 ;;              OMPFLAG=$ac_optarg
1338                OMP=true ;;
1339                    
1340          -ds | --ds)          -ds | --ds)
1341              DUMPSTATE=t ;;              DUMPSTATE=t ;;
# Line 1217  for ac_option in "$@" ; do Line 1353  for ac_option in "$@" ; do
1353          -ignoretime | -ignore_time | --ignoretime | --ignore_time)          -ignoretime | -ignore_time | --ignoretime | --ignore_time)
1354              IGNORE_TIME="-DIGNORE_TIME" ;;              IGNORE_TIME="-DIGNORE_TIME" ;;
1355    
1356            -es | --es | -embed-source | --embed-source)
1357                EMBED_SRC=t ;;
1358    
1359          -*)          -*)
1360              echo "Error: unrecognized option: "$ac_option              echo "Error: unrecognized option: "$ac_option
1361              usage              usage
# Line 1228  for ac_option in "$@" ; do Line 1367  for ac_option in "$@" ; do
1367              ;;              ;;
1368                    
1369      esac      esac
       
 done  
1370    
1371    done
1372    
1373  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1374      echo      echo
1375      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
1376      echo "  file.  This file format is no longer supported.  Please see:"      echo "  file.  This file format is no longer supported.  For directions on"
1377      echo      echo "  how to setup and use the new \"genmake2\" script, please see:"
1378      echo "    http://mitgcm.org/devel_HOWTO/"      echo "    http://mitgcm.org/devel_HOWTO/"
1379        echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
1380        echo "WARNING: ignore \"./.genmakerc\" and continue."
1381      echo      echo
     echo "  for directions on how to setup and use the new \"genmake2\" input"  
     echo "  files and send an email to MITgcm-support@mitgcm.org if you want help."  
     echo  
1382  fi  fi
1383    
1384  #  Find the MITgcm ${ROOTDIR}  #  Find the MITgcm ${ROOTDIR}
1385  if test "x${ROOTDIR}" = x ; then  if test "x${ROOTDIR}" = x ; then
1386      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
1387      if test "x$tmp" = "xbin" -a -d ../model -a -d ../eesup -a -d ../pkg ; then      if test "x$tmp" = "xbin" -a -d ../model -a -d ../eesupp -a -d ../pkg ; then
1388          ROOTDIR=".."          ROOTDIR=".."
1389      else      else
1390          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do
# Line 1272  if test ! -d ${ROOTDIR} ; then Line 1409  if test ! -d ${ROOTDIR} ; then
1409  fi  fi
1410    
1411  #  Find the MITgcm ${THISVER}  #  Find the MITgcm ${THISVER}
1412  if test -f "${ROOTDIR}/doc/tag-index" ; then  version_file="${ROOTDIR}/doc/tag-index"
1413      THISVER=`grep '^checkpoint' ${ROOTDIR}/doc/tag-index | head -1`  if test -f $version_file ; then
1414        THISVER=`$AWK '/^checkpoint/{print $1; exit}' $version_file`
1415    #-  remove ./BUILD_INFO.h file if older than version_file
1416        if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
1417            echo "  remove ./BUILD_INFO.h (older than ${version_file})"
1418            rm -f ./BUILD_INFO.h
1419        fi
1420  fi  fi
1421    
1422  if test "x$MAKEFILE" = x ; then  if test "x$MAKEFILE" = x ; then
# Line 1285  if test "x${OPTFILE}" = x ; then Line 1428  if test "x${OPTFILE}" = x ; then
1428      if test "x$MITGCM_OF" = x ; then      if test "x$MITGCM_OF" = x ; then
1429          echo "Warning: no OPTFILE specified so we'll look for possible settings"          echo "Warning: no OPTFILE specified so we'll look for possible settings"
1430          printf "\n===  Searching for possible settings for OPTFILE  ===\n"          printf "\n===  Searching for possible settings for OPTFILE  ===\n"
1431          find_possible_configs          find_possible_optfile
1432      else      else
1433          OPTFILE=$MITGCM_OF          OPTFILE=$MITGCM_OF
1434      fi      fi
# Line 1300  if test "x$OPTFILE" != xNONE ; then Line 1443  if test "x$OPTFILE" != xNONE ; then
1443              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1444              exit 1              exit 1
1445          fi          fi
1446          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1447              cp -f $OPTFILE "genmake_optfile"              cp -f $OPTFILE "genmake_optfile"
1448          fi          fi
1449      else      else
# Line 1327  if test "x${AD_OPTFILE}" != xNONE ; then Line 1470  if test "x${AD_OPTFILE}" != xNONE ; then
1470              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1471              exit 1              exit 1
1472          fi          fi
1473          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1474              cp -f $AD_OPTFILE "genmake_ad_optfile"              cp -f $AD_OPTFILE "genmake_ad_optfile"
1475          fi          fi
1476      else      else
# Line 1355  Error: no Fortran compiler: please speci Line 1498  Error: no Fortran compiler: please speci
1498  EOF  EOF
1499      exit 1      exit 1
1500  fi  fi
1501    
1502  if test "x$CC" = x ; then  if test "x$CC" = x ; then
1503      CC=cc      look_for_C_compilers
 #     cat <<EOF 1>&2  
 # Error: no C compiler: please specify using one of the following:  
 #   1) within the options file ("CC=...") as specified by "-of=OPTFILE"  
 #   2) the "-cc=XXX" command-line option  
 #   3) the "./genmake_local" file  
 # EOF  
 #     exit 1  
1504  fi  fi
1505    
1506  if test "x$LINK" = x ; then  if test "x$LINK" = x ; then
1507      LINK=$FC      LINK=$FC
1508  fi  fi
# Line 1372  if test "x$MAKE" = x ; then Line 1510  if test "x$MAKE" = x ; then
1510      MAKE="make"      MAKE="make"
1511  fi  fi
1512  if test "x$CPP" = x ; then  if test "x$CPP" = x ; then
1513      CPP=cpp      CPP="cpp -traditional -P"
1514  fi  fi
1515  #EH3 === UGLY ===  #EH3 === UGLY ===
1516  #  The following is an ugly little hack to check for $CPP in /lib/ and  #  The following is an ugly little hack to check for $CPP in /lib/ and
# Line 1399  EOF Line 1537  EOF
1537  else  else
1538      rm -f test_cpp      rm -f test_cpp
1539  fi  fi
1540    
1541  look_for_makedepend  look_for_makedepend
1542    
1543    #  Check that soft-link command is set and usable
1544  if test "x$LN" = x ; then  if test "x$LN" = x ; then
1545      LN="ln -s"      LN="ln -s"
1546  fi  fi
# Line 1409  RETVAL=$? Line 1550  RETVAL=$?
1550  if test "x$RETVAL" != x0 ; then  if test "x$RETVAL" != x0 ; then
1551      cat <<EOF 1>&2      cat <<EOF 1>&2
1552    
1553  Error: The command "ln -s" failed -- please specify a working soft-link  Error: The command "$LN" failed -- please specify a working soft-link
1554    command in the optfile.    command in the optfile.
1555    
1556  EOF  EOF
# Line 1429  if test ! "x$MPI" = x ; then Line 1570  if test ! "x$MPI" = x ; then
1570        echo "  Turning on MPI cpp macros"        echo "  Turning on MPI cpp macros"
1571        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"
1572  fi  fi
1573    if test ! "x$OMP" = x ; then
1574          echo "  Add OMPFLAG and turn on OpenMP cpp macros"
1575          FFLAGS="$FFLAGS $OMPFLAG"
1576          F90FLAGS="$F90FLAGS $OMPFLAG"
1577          DEFINES="$DEFINES -DUSE_OMP_THREADING"
1578    fi
1579    
1580    if test ! "x$USE_R4" = x ; then
1581          echo "  Turning on LET_RS_BE_REAL4 cpp flag"
1582          DEFINES="$DEFINES -DLET_RS_BE_REAL4"
1583    fi
1584    
1585  if test ! "x$TS" = x ; then  if test ! "x$TS" = x ; then
1586        echo "  Turning on timing per timestep"        echo "  Turning on timing per timestep"
1587        DEFINES="$DEFINES -DTIME_PER_TIMESTEP"        if test ! "x$FOOLAD" = x ; then
1588                DEFINES="$DEFINES -DTIME_PER_TIMESTEP_SFP"
1589          else
1590                DEFINES="$DEFINES -DTIME_PER_TIMESTEP"
1591          fi
1592          PACKAGES="$PACKAGES showflops"
1593    fi
1594    if test ! "x$PAPIS" = x ; then
1595          echo "  Turning on PAPI flop summary per timestep"
1596          echo "  Please make sure PAPIINC, PAPILIB are defined"
1597          if test ! "x$FOOLAD" = x ; then
1598                DEFINES="$DEFINES -DUSE_PAPI_FLOPS_SFP"
1599          else
1600                DEFINES="$DEFINES -DUSE_PAPI_FLOPS"
1601          fi
1602          INCLUDES="$INCLUDES $PAPIINC"
1603          LIBS="$LIBS $PAPILIB"
1604          PACKAGES="$PACKAGES showflops"
1605    fi
1606    if test ! "x$PCLS" = x ; then
1607          echo "  Turning on PCL counter summary per timestep"
1608          echo "  Please make sure PCLINC, PCLLIB are defined"
1609          if test ! "x$FOOLAD" = x ; then
1610                DEFINES="$DEFINES -DUSE_PCL_FLOPS_SFP"
1611          else
1612                DEFINES="$DEFINES -DUSE_PCL_FLOPS"
1613          fi
1614          INCLUDES="$INCLUDES $PCLINC"
1615          LIBS="$LIBS $PCLLIB"
1616          PACKAGES="$PACKAGES showflops"
1617    fi
1618    if test ! "x$PAPI" = x ; then
1619          if test ! "x$PAPIS" = x ; then
1620              echo "  PAPI performance analysis and flop summary per timestep cannot co-exist!"
1621              echo "  Sticking with PAPI flop summary per timestep!"
1622          else
1623              echo "  Turning on performance analysis with PAPI"
1624              echo "  Please make sure PAPIINC, PAPILIB are defined"
1625              DEFINES="$DEFINES -DUSE_PAPI"
1626              INCLUDES="$INCLUDES $PAPIINC"
1627              LIBS="$LIBS $PAPILIB"
1628          fi
1629    fi
1630    if test ! "x$PCL" = x ; then
1631          if test ! "x$PCLS" = x ; then
1632              echo "  PCL performance analysis and flop summary per timestep cannot co-exist!"
1633              echo "  Sticking with PCL flop summary per timestep!"
1634          else
1635              echo "  Turning on performance analysis with PCL"
1636              echo "  Please make sure PCLINC, PCLLIB are defined"
1637              DEFINES="$DEFINES -DUSE_PCL"
1638              INCLUDES="$INCLUDES $PCLINC"
1639              LIBS="$LIBS $PCLLIB"
1640          fi
1641    fi
1642    if test ! "x$HPMT" = x ; then
1643          if test ! "x$PAPI" = x ; then
1644              echo "  PAPI and the HPM Toolkit cannot co-exist!"
1645              echo "  Sticking with PAPI!"
1646          else if test ! "x$PCL" = x ; then
1647              echo "  PCL and the HPM Toolkit cannot co-exist!"
1648              echo "  Sticking with PCL!"
1649          else
1650              echo "  Turning on performance analysis with the HPM Toolkit"
1651              echo "  Please make sure HPMTINC, HPMTLIB are defined"
1652              DEFINES="$DEFINES -DUSE_LIBHPM"
1653              INCLUDES="$INCLUDES $HPMTINC"
1654              LIBS="$LIBS $HPMTLIB"
1655          fi
1656          fi
1657    fi
1658    if test ! "x$GSL" = x ; then
1659          echo "  Turning on use of GSL to control floating point calculations"
1660          echo "  Please make sure GSLINC, GSLLIB are defined"
1661          DEFINES="$DEFINES -DUSE_GSL_IEEE"
1662          INCLUDES="$INCLUDES $GSLINC"
1663          LIBS="$LIBS $GSLLIB"
1664    fi
1665    #- if USE_EXTENDED_SRC is set, add EXTENDED_SRC_FLAG to FFLAGS :
1666    if test ! "x$USE_EXTENDED_SRC" = x ; then
1667          FFLAGS="$FFLAGS $EXTENDED_SRC_FLAG"
1668          F90FIXEDFORMAT="$F90FIXEDFORMAT $EXTENDED_SRC_FLAG"
1669  fi  fi
1670    
1671  printf "\n===  Checking system libraries  ===\n"  printf "\n===  Checking system libraries  ===\n"
# Line 1503  if test "x$HAVE_CLOC" != x ; then Line 1736  if test "x$HAVE_CLOC" != x ; then
1736      echo "yes"      echo "yes"
1737  else  else
1738      echo "no"      echo "no"
1739        if test "x$EMBED_SRC" = xt ; then
1740            echo "    WARNING: you requested file embedding but it has"
1741            echo "      been disabled since C code cannot be called"
1742            EMBED_SRC=
1743        fi
1744  fi  fi
1745  rm -f genmake_t*  rm -f genmake_t*
1746    
1747  printf "  Can we unlimit the stack size using $FC...  "  printf "  Can we unlimit the stack size using $FC...  "
1748  check_HAVE_SETRLSTK  check_HAVE_SETRLSTK
1749  if test "x$HAVE_SETRLSTK" != x ; then  if test "x$HAVE_SETRLSTK" = xt ; then
1750      echo "yes"      echo "yes"
1751  else  else
1752      echo "no"      echo "no"
# Line 1517  rm -f genmake_t* Line 1755  rm -f genmake_t*
1755    
1756  printf "  Can we register a signal handler using $FC...  "  printf "  Can we register a signal handler using $FC...  "
1757  check_HAVE_SIGREG  check_HAVE_SIGREG
1758  if test "x$HAVE_SIGREG" != x ; then  if test "x$HAVE_SIGREG" = xt ; then
1759      echo "yes"      echo "yes"
1760  else  else
1761      echo "no"      echo "no"
# Line 1542  else Line 1780  else
1780  fi  fi
1781  DEFINES="$DEFINES $IGNORE_TIME"  DEFINES="$DEFINES $IGNORE_TIME"
1782    
1783    if test "x$EMBED_SRC" = xt ; then
1784        build_embed_encode
1785    fi
1786    if test "x$EMBED_SRC" = xt ; then
1787        ENABLE="$ENABLE embed_files"
1788    fi
1789    
1790  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
1791  printf "  Adding MODS directories:  "  printf "  Adding MODS directories: "
1792  for d in $MODS ; do  for d in $MODS ; do
1793      if test ! -d $d ; then      if test ! -d $d ; then
1794          echo          echo
1795          echo "Error: MODS directory \"$d\" not found!"          echo "Error: MODS directory \"$d\" not found!"
1796          exit 1          exit 1
1797      else      else
1798          printf " $d"          printf "$d "
1799          SOURCEDIRS="$SOURCEDIRS $d"          SOURCEDIRS="$SOURCEDIRS $d"
1800          INCLUDEDIRS="$INCLUDEDIRS $d"          INCLUDEDIRS="$INCLUDEDIRS $d"
1801      fi      fi
1802  done  done
1803  echo  echo
1804    
1805  if test "x${PLATFORM}" = x ; then  #if test "x${PLATFORM}" = x ; then
1806      PLATFORM=$p_PLATFORM  #    PLATFORM=$p_PLATFORM
1807  fi  #fi
1808    
1809  if test "x${EXEDIR}" = x ; then  if test "x${EXEDIR}" = x ; then
1810      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
# Line 1599  ERROR: neither of the two default script Line 1844  ERROR: neither of the two default script
1844      ${TOOLSDIR}/set64bitConst.sh      ${TOOLSDIR}/set64bitConst.sh
1845      ${TOOLSDIR}/set64bitConst.csh      ${TOOLSDIR}/set64bitConst.csh
1846    
1847    are working so please check paths or specify (with \$S64) a    are working so please check paths or specify (with \$S64) a
1848    working version of this script.    working version of this script.
1849    
1850  EOF  EOF
# Line 1611  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD Line 1856  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD
1856    
1857  EXECUTABLE=${EXECUTABLE:-mitgcmuv}  EXECUTABLE=${EXECUTABLE:-mitgcmuv}
1858    
1859    #  Set Standard Code Directories:
1860    if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then
1861        STANDARDDIRS="eesupp model"
1862    fi
1863    #  if model in Standard-Code-Dir, add eesupp (needed to compile model)
1864    echo " $STANDARDDIRS " | grep ' model ' > /dev/null 2>&1
1865    ckM=$?
1866    echo " $STANDARDDIRS " | grep ' eesupp ' > /dev/null 2>&1
1867    ckE=$?
1868    if test $ckM = 0 -a $ckE = 1 ; then
1869        STANDARDDIRS="$STANDARDDIRS eesupp"
1870    fi
1871    
1872  #  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
1873  #  generated from some template source files. We'll make them first so  #  generated from some template source files. We'll make them first so
1874  #  they appear as regular source code  #  they appear as regular source code
1875  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then
1876      echo "  Making source files in eesupp from templates"      echo "  Making source files in eesupp from templates"
1877      ( cd $ROOTDIR"/eesupp/src/" && $MAKE ) > make_eesupp.errors 2>&1      ( cd $ROOTDIR"/eesupp/src/" && $MAKE clean_old && $MAKE \
1878        ) > make_eesupp.errors 2>&1
1879      RETVAL=$?      RETVAL=$?
1880      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
1881          rm -f make_eesupp.errors          rm -f make_eesupp.errors
# Line 1627  if test -r $ROOTDIR"/eesupp/src/Makefile Line 1886  if test -r $ROOTDIR"/eesupp/src/Makefile
1886      fi      fi
1887  fi  fi
1888    
1889  #same for exch2  #same for pkg/exch2 and pkg/regrid
1890  if test -r $ROOTDIR"/pkg/exch2/Makefile" ; then  for pdir in exch2 regrid ; do
1891      echo "  Making source files in exch2 from  templates"      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then
1892      ( cd $ROOTDIR"/pkg/exch2/" && $MAKE ) > make_exch2.errors 2>&1          echo "  Making source files in pkg/${pdir} from templates"
1893      RETVAL=$?          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE clean_old && $MAKE \
1894      if test "x${RETVAL}" = x0 ; then          ) > make_${pdir}.errors 2>&1
1895          rm -f make_exch2.errors          RETVAL=$?
1896      else          if test "x${RETVAL}" = x0 ; then
1897          echo "Error: problem encountered while building source files in exch2:"              rm -f make_${pdir}.errors
1898          cat make_exch2.errors 1>&2          else
1899          exit 1              echo "Error: problem encountered while building source files in pkg/${pdir}:"
1900                cat make_${pdir}.errors 1>&2
1901                exit 1
1902            fi
1903      fi      fi
1904  fi  done
1905    
1906  printf "\n===  Determining package settings  ===\n"  printf "\n===  Determining package settings  ===\n"
1907  if  test "x${PDEPEND}" = x ; then  if  test "x${PKG_DEPEND}" = x ; then
1908      tmp=$ROOTDIR"/pkg/pkg_depend"      tmp=$ROOTDIR"/pkg/pkg_depend"
1909      if test -r $tmp ; then      if test -r $tmp ; then PKG_DEPEND=$tmp ; fi
1910          PDEPEND=$tmp  fi
1911      else  if  test "x${PKG_DEPEND}" = x ; then
1912          echo "Warning:  No package dependency information was specified."          echo "Warning:  No package dependency information was specified."
1913          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."
     fi  
1914  else  else
1915      if test ! -r ${PDEPEND} ; then      if test ! -r ${PKG_DEPEND} ; then
1916          echo "Error:  can't read package dependency info from PDEPEND=\"$PDEPEND\""          echo "Error:  can't read package dependency info from PKG_DEPEND=\"$PKG_DEPEND\""
1917          exit 1          exit 1
1918      fi      fi
1919        echo "  getting package dependency info from  $PKG_DEPEND"
1920    #  Strip the comments and then convert the dependency file into arrays: PNAME, DNAME
1921        get_pdepend_list $PKG_DEPEND
1922  fi  fi
1923  echo "  getting package dependency info from  $PDEPEND"  
1924  #  Strip the comments and then convert the dependency file into  # A default package groups file "$ROOTDIR/pkg/pkg_groups" is provided
1925  #  two arrays: PNAME, DNAME  #  to define the "default_pkg_list" and package groups (for convenience, one
1926  cat $PDEPEND | sed -e 's/#.*$//g' \  #  can specify a group of packages using names like "ocean" and "atmosphere").
1927      | $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${PKG_GROUPS}" = x ; then
1928      > ./.pd_tmp      tmp=$ROOTDIR"/pkg/pkg_groups"
1929  RETVAL=$?      if test -r $tmp ; then PKG_GROUPS=$tmp ; fi
1930  if test ! "x${RETVAL}" = x0 ; then  fi
1931      echo "Error: unable to parse package dependencies -- please check PDEPEND=\"$PDEPEND\""  if test "x${PKG_GROUPS}" = x ; then
1932      exit 1          echo "Warning:  No package groups information was specified."
1933            echo "  Please check that ROOTDIR/pkg/pkg_groups exists."
1934    else
1935        if test ! -r ${PKG_GROUPS} ; then
1936            echo "Error:  can't read package groups info from PKG_GROUPS=\"$PKG_GROUPS\""
1937            exit 1
1938        fi
1939        echo "  getting package groups info from      $PKG_GROUPS"
1940  fi  fi
 . ./.pd_tmp  
 rm -f ./.pd_tmp  
1941    
1942  #  Search for default packages.  Note that a "$ROOTDIR/pkg/pkg_groups"  #  Search for packages to compile.
1943  #  file should eventually be added so that, for convenience, one can  echo "  checking list of packages to compile:"
1944  #  specify groups of packages using names like "ocean" and "atmosphere".  PKG_LIST=
1945  echo "  checking default package list:  "  if test "x${PKG_LIST}" = x ; then
 if test "x${PDEFAULT}" = x ; then  
1946      for i in "." $MODS ; do      for i in "." $MODS ; do
1947          if test -r $i"/packages.conf" ; then          if test -r $i"/packages.conf" ; then
1948                  PDEFAULT=$i"/packages.conf"                  PKG_LIST=$i"/packages.conf"
1949                  break                  break
1950          fi          fi
1951      done      done
1952  fi  fi
1953  if test "x${PDEFAULT}" = x ; then  if test "x${PKG_LIST}" = x ; then
1954      PDEFAULT="$ROOTDIR/pkg/pkg_default"      pkg_list='default_pkg_list'
1955  fi      if test "x${PKG_GROUPS}" = x ; then
1956  if test "x${PDEFAULT}" = xNONE ; then          echo "Error:  need package groups info to expand pkg_list=\"$pkg_list\""
1957      echo "    default packages file disabled"          exit 1
1958        fi
1959  else  else
1960      if test ! -r $PDEFAULT ; then      if test ! -r $PKG_LIST ; then
1961          echo "Warning:  can't read default packages from PDEFAULT=\"$PDEFAULT\""          echo "Error:  can't read package list from PKG_LIST=\"$PKG_LIST\""
1962            exit 1
1963      else      else
1964          echo "    using PDEFAULT=\"$PDEFAULT\""          echo "    using PKG_LIST=\"$PKG_LIST\""
1965          #  Strip the comments and add all the names          #  Strip the comments and add all the names
1966          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 $0}'`
1967          RETVAL=$?          RETVAL=$?
1968          if test "x${RETVAL}" != x0 ; then          if test "x${RETVAL}" != x0 ; then
1969              printf "Error: can't parse default package list "              printf "Error: can't parse package list "
1970              echo "-- please check PDEFAULT=\"$PDEFAULT\""              echo "-- please check PKG_LIST=\"$PKG_LIST\""
1971              exit 1              exit 1
1972          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"  
1973      fi      fi
1974  fi  fi
1975    for i in $pkg_list ; do
1976        PACKAGES="$PACKAGES $i"
1977    done
1978    echo     "    before group expansion packages are:$PACKAGES"
1979    if test "x${PKG_GROUPS}" != x ; then
1980        RET=1
1981        while test $RET = 1 ; do expand_pkg_groups; RET=$?; done
1982        echo "    after group expansion packages are: $PACKAGES"
1983    fi
1984    
1985  echo "  applying DISABLE settings"  echo "  applying DISABLE settings"
1986    echo "" > ./.tmp_pack
1987  for i in $PACKAGES ; do  for i in $PACKAGES ; do
1988      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
1989  done  done
# Line 1738  PACKAGES="$PACKAGES $ENABLE" Line 2011  PACKAGES="$PACKAGES $ENABLE"
2011  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2012      j=`echo $i | sed 's/[-+]//'`      j=`echo $i | sed 's/[-+]//'`
2013      if test ! -d "$ROOTDIR/pkg/$j" ; then      if test ! -d "$ROOTDIR/pkg/$j" ; then
2014          echo "Error: can't find package $i at \"$ROOTDIR/pkg/$i\""          echo "Error: dir '$ROOTDIR/pkg/$i' missing for package '$i'"
2015          exit 1          exit 1
2016      fi      fi
2017      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
# Line 1748  for i in `grep -v "-" ./.tmp_pack | sort Line 2021  for i in `grep -v "-" ./.tmp_pack | sort
2021      PACKAGES="$PACKAGES $i"      PACKAGES="$PACKAGES $i"
2022  done  done
2023  rm -f ./.tmp_pack  rm -f ./.tmp_pack
2024  echo "    packages are:  $PACKAGES"  echo "    packages are: $PACKAGES"
2025    
2026  #  Check availability of NetCDF and then either build the MNC template  #  Check for package MNC: if NetCDF is available, then build the MNC
2027  #  files or delete mnc from the list of available packages.  #  template files ; otherwise, delete mnc from the list of packages.
2028  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1  echo " $PACKAGES " | grep ' mnc ' > /dev/null 2>&1
2029  RETVAL=$?  mnc_in=$?
2030  if test "x$RETVAL" = x0 ; then  if test "x$HAVE_NETCDF" != xt ; then
2031      if test "x$HAVE_NETCDF" != xt ; then      if test "x$mnc_in" = x0 ; then
2032          cat <<EOF          cat <<EOF
   
2033  *********************************************************************  *********************************************************************
2034  WARNING: the "mnc" package was enabled but tests failed to compile  WARNING: the "mnc" package was enabled but tests failed to compile
2035    NetCDF applications.  Please check that:    NetCDF applications.  Please check that:
2036    
2037    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2038    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2039         NetCDF library to link against.         NetCDF library to link against.
2040    
2041    Due to this failure, the "mnc" package is now DISABLED.    Due to this failure, the "mnc" package is now DISABLED.
2042  *********************************************************************  *********************************************************************
   
2043  EOF  EOF
2044          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`
2045          DISABLE="$DISABLE mnc"          DISABLE="$DISABLE mnc"
2046      else      else
2047          ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1      #  this prevent to add mnc (due to pdepend rules) if not available
2048          RETVAL=$?          DISABLE="$DISABLE mnc"
2049          if test "x${RETVAL}" = x0 ; then      fi
2050              rm -f make_mnc.errors  else
2051        # we have NetCDF, we try to build MNC template files
2052        ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1
2053        RETVAL=$?
2054        if test "x${RETVAL}" = x0 ; then
2055            rm -f make_mnc.errors
2056        else
2057            echo "Error: problem encountered while building source files in pkg/mnc:"
2058            cat make_mnc.errors 1>&2
2059            if test "x$mnc_in" = x0 ; then
2060                exit 1
2061          else          else
2062              echo "Error: problem encountered while building source files in pkg/mnc:"              DISABLE="$DISABLE mnc"
             cat make_mnc.errors 1>&2  
             exit 1  
2063          fi          fi
2064      fi      fi
2065  fi  fi
2066    
2067  echo "  applying package dependency rules"  #  Check for package PROFILES: if NetCDF is not available,
2068  ck=  #  then delete profiles from the list of available packages.
2069  while test "x$ck" != xtt ; do  if test "x$HAVE_NETCDF" != xt ; then
2070        echo " $PACKAGES " | grep ' profiles ' > /dev/null 2>&1
2071        RETVAL=$?
2072        if test "x$RETVAL" = x0 ; then
2073            cat <<EOF
2074    *********************************************************************
2075    WARNING: the "profiles" package was enabled but tests failed to
2076      compile NetCDF applications.  Please check that:
2077    
2078      1) NetCDF is correctly installed for this compiler and
2079      2) the LIBS variable (within the "optfile") specifies the correct
2080           NetCDF library to link against.
2081    
2082      Due to this failure, the "profiles" package is now DISABLED.
2083    *********************************************************************
2084    EOF
2085            PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
2086            DISABLE="$DISABLE profiles"
2087        else
2088        #  this prevent to add profiles (due to pdepend rules) if not available
2089            DISABLE="$DISABLE profiles"
2090        fi
2091    fi
2092    
2093    if  test "x${PKG_DEPEND}" != x ; then
2094      echo "  applying package dependency rules"
2095      ck=
2096      while test "x$ck" != xtt ; do
2097      i=0      i=0
2098      # rtot=${#PNAME[@]}      # rtot=${#PNAME[@]}
2099      rtot=$nname      rtot=$nname
2100      while test $i -lt $rtot ; do      while test $i -le $rtot ; do
2101    
2102          #  Is $pname in the current $PACKAGES list?          #  Is $pname in the current $PACKAGES list?
2103          #  pname=${PNAME[$i]}          #  pname=${PNAME[$i]}
# Line 1803  while test "x$ck" != xtt ; do Line 2109  while test "x$ck" != xtt ; do
2109                  pin="t"                  pin="t"
2110              fi              fi
2111          done          done
2112            #  or in the current $STANDARDDIRS list?
2113            for p in $STANDARDDIRS ; do
2114                if test "x$p" = "x$pname" ; then pin="t" ; fi
2115            done
2116    
2117          #  Is the DNAME entry a (+) or (-) rule ?          #  Is the DNAME entry a (+) or (-) rule ?
2118          tmp="dname=\"\$DNAME_$i\""          tmp="dname=\"\$DNAME_$i\""
# Line 1825  while test "x$ck" != xtt ; do Line 2135  while test "x$ck" != xtt ; do
2135    
2136          #  Do we need to add $dname according to the dependency rules?          #  Do we need to add $dname according to the dependency rules?
2137          if test "x$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
2138                #echo "   " $pname ": need to add :" $dname
2139              in_dis="f"              in_dis="f"
2140              for dis in $DISABLE ; do              for dis in $DISABLE ; do
2141                  if test "x$dis" = "x$dname" ; then                  if test "x$dis" = "x$dname" ; then
# Line 1845  while test "x$ck" != xtt ; do Line 2156  while test "x$ck" != xtt ; do
2156          #  Do we need to get rid of $dname according to the dependency rules?          #  Do we need to get rid of $dname according to the dependency rules?
2157          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then
2158              echo "Error: can't satisfy package dependencies:"              echo "Error: can't satisfy package dependencies:"
2159              echo "  \"$pname\" was requested but is disallowed by"              echo "  \"$pname\" was requested but is disallowed by"
2160              echo "  the dependency rules for \"$dname\""              echo "  the dependency rules for \"$dname\""
2161              exit 1              exit 1
2162          fi          fi
# Line 1853  while test "x$ck" != xtt ; do Line 2164  while test "x$ck" != xtt ; do
2164          #i=$(( $i + 1 ))          #i=$(( $i + 1 ))
2165      done      done
2166      ck=$ck"t"      ck=$ck"t"
2167  done    done
2168  echo "    packages are:  $PACKAGES"    echo "    packages are: $PACKAGES"
2169    fi
2170  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2171      adr="$ROOTDIR/pkg/$i"      adr="$ROOTDIR/pkg/$i"
2172      if test -d $adr ; then      if test -d $adr ; then
# Line 1871  done Line 2183  done
2183    
2184  # Create a list of #define and #undef to enable/disable packages  # Create a list of #define and #undef to enable/disable packages
2185  PACKAGES_DOT_H=PACKAGES_CONFIG.h  PACKAGES_DOT_H=PACKAGES_CONFIG.h
2186  #  The following UGLY HACK sets multiple "#undef"s and it needs to go  #  The following UGLY HACK sets multiple "#undef"s and it needs to go
2187  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h
2188  #  file would eventually be split up so that all package-related #define  #  file would eventually be split up so that all package-related #define
2189  #  statements could be separated and handled only by genmake.  #  statements could be separated and handled only by genmake.
2190  names=`ls -1 "$ROOTDIR/pkg"`  names=`ls -1 "$ROOTDIR/pkg"`
# Line 1900  for i in $PACKAGES ; do Line 2212  for i in $PACKAGES ; do
2212  #eh3 DEFINES="$DEFINES -D$def"  #eh3 DEFINES="$DEFINES -D$def"
2213    
2214  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!
2215      case $i in      case $i in
2216          aim_v23)          aim_v23)
2217              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"
2218              echo "Warning: ALLOW_AIM is set to enable aim_v23."              echo "Warning: ALLOW_AIM is set to enable aim_v23."
# Line 1910  for i in $PACKAGES ; do Line 2222  for i in $PACKAGES ; do
2222    
2223  done  done
2224    
2225  echo "  Adding STANDARDDIRS"  echo "  Adding STANDARDDIRS='$STANDARDDIRS'"
2226  BUILDDIR=${BUILDDIR:-.}  BUILDDIR=${BUILDDIR:-.}
 if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then  
     STANDARDDIRS="eesupp model"  
 fi  
2227  if test "x$STANDARDDIRS" != x ; then  if test "x$STANDARDDIRS" != x ; then
2228      for d in $STANDARDDIRS ; do      for d in $STANDARDDIRS ; do
2229          adr="$ROOTDIR/$d/src"          adr="$ROOTDIR/$d/src"
# Line 1969  fi Line 2278  fi
2278    
2279  #  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
2280  #  compiler.  #  compiler.
2281  if test -f ./ad_files ; then  if test -f ./adSrcFiles.tmp ; then
2282      rm -f ./ad_files      rm -f ./adSrcFiles.tmp
2283  fi  fi
2284  echo "  Creating the list of files for the adjoint compiler."  echo "  Creating the list of files for the adjoint compiler."
2285    touch adSrcFiles.tmp
2286  for i in $SOURCEDIRS ; do  for i in $SOURCEDIRS ; do
2287      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
2288      for j in $list_files ; do      for j in $list_files ; do
2289          cat $i/$j >> ad_files          cat $i/$j >> adSrcFiles.tmp
2290      done      done
2291  done  done
2292  if test ! "x"$FS = "x.f" ; then  if test ! "x"$FS = "x.f" ; then
2293      cat ad_files | sed -e "s/\.f/.$FS/g" > ad_files_f      cat adSrcFiles.tmp | sed -e "s/\.f/.$FS/g" > adSrcFiles.tmp_f
2294      mv -f ad_files_f ad_files      mv -f adSrcFiles.tmp_f adSrcFiles.tmp
2295  fi  fi
2296    
2297  echo  echo
# Line 1993  for i in $INCLUDEDIRS ; do Line 2303  for i in $INCLUDEDIRS ; do
2303      fi      fi
2304  done  done
2305    
2306    if test ! "x$DIVA" = x ; then
2307        echo "  Creating the pseudo-MPI include directory"
2308        INCLUDES="-I./mpi_headers $INCLUDES"
2309        rm -rf ./mpi_headers
2310        mkdir -p ./mpi_headers
2311    
2312        if test "x$MPIINCLUDEDIR" = x ; then
2313            if test "x$MPIHOME" = x ; then
2314                MPIHOME='/usr'
2315            fi
2316            MPIINCLUDEDIR='$MPIHOME/include'
2317        fi
2318    
2319        if test -r $MPIINCLUDEDIR/mpif.h ; then
2320            for i in $MPI_HEADER_FILES; do
2321                cp -p $MPIINCLUDEDIR/$i ./mpi_headers
2322            done
2323    
2324            perl -i -pe 's/MPI_DISPLACEMENT_CURRENT=-1_8/MPI_DISPLACEMENT_CURRENT=-1/g' mpi_headers/mpif.h
2325        else
2326            echo " We cannot create a copy of mpif.h!"
2327    #       exit -1
2328        fi
2329    fi
2330    
2331  echo "  Determining the list of source and include files"  echo "  Determining the list of source and include files"
2332  rm -rf .links.tmp  rm -rf .links.tmp
2333  mkdir .links.tmp  mkdir .links.tmp
2334    touch .links.tmp/foo
2335    if test ! -r ".links.tmp/foo" ; then
2336        echo
2337        echo "ERROR : something is wrong with your directory permissions or"
2338        echo "   your user file-creation mask (\"umask\") since creating a"
2339        echo "   sub-dir, touch-ing a file within it, and then reading it is"
2340        echo "   not working.  Please try setting your umask to something"
2341        echo "   sane such as:"
2342        echo
2343        echo "      umask 0002"
2344        echo
2345        echo "   and please verify that you have the proper permissions for"
2346        echo "   creating sub-directories and then reading files created"
2347        echo "   within them."
2348        echo
2349        exit 1
2350    fi
2351    rm -f .links.tmp/foo
2352    
2353    if test "x$OPENAD" != x ; then
2354        OAD_DONT_COMPILE="/dev/null"
2355        OAD_DONT_TRANSFORM="/dev/null"
2356        OAD_KEEP_ORIGINAL="/dev/null"
2357        OAD_CB2M_FILES="/dev/null"
2358        echo "  looking for dontCompile file:  "
2359        for i in "." $MODS ; do
2360            if test -r $i"/dontCompile" ; then
2361                OAD_DONT_COMPILE=$i"/dontCompile"
2362                echo "     found $OAD_DONT_COMPILE"
2363                break
2364            fi
2365        done
2366        echo "  looking for dontTransform file:  "
2367        for i in "." $MODS ; do
2368            if test -r $i"/dontTransform" ; then
2369                OAD_DONT_TRANSFORM=$i"/dontTransform"
2370                echo "     found $OAD_DONT_TRANSFORM"
2371                break
2372            fi
2373        done
2374        echo "  looking for keepOriginal file:  "
2375        for i in "." $MODS ; do
2376            if test -r $i"/keepOriginal" ; then
2377                OAD_KEEP_ORIGINAL=$i"/keepOriginal"
2378                echo "     found $OAD_KEEP_ORIGINAL"
2379                break
2380            fi
2381        done
2382        echo "  looking for cb2mFiles:  "
2383        for i in "." $MODS ; do
2384            if test -r $i"/cb2mFiles" ; then
2385                OAD_CB2M_FILES=$i"/cb2mFiles"
2386                echo "     found $OAD_CB2M_FILES"
2387                break
2388            fi
2389        done
2390        echo "   OpenAD exceptions:  "
2391    fi
2392    
2393  echo "# This section creates symbolic links" > srclinks.tmp  echo "# This section creates symbolic links" > srclinks.tmp
2394  echo "" >> srclinks.tmp  echo "" >> srclinks.tmp
2395  printf 'SRCFILES = '    > srclist.inc  printf 'F77_SRC_FILES = ' > F77srclist.tmp
2396  printf 'CSRCFILES = '   > csrclist.inc  printf 'NON_AD_F77_SRC_FILES = ' > nonADF77srclist.tmp
2397  printf 'F90SRCFILES = ' > f90srclist.inc  printf 'C_SRC_FILES = '   > csrclist.tmp
2398  printf 'HEADERFILES = ' > hlist.inc  printf 'F90_SRC_FILES = ' > F90srclist.tmp
2399  printf 'AD_FLOW_FILES = ' > ad_flow_files.inc  printf 'H_SRC_FILES = '   > hsrclist.tmp
2400    printf 'AD_FLOW_FILES = ' > ad_flow_files.tmp
2401  alldirs="$SOURCEDIRS $INCLUDEDIRS ."  alldirs="$SOURCEDIRS $INCLUDEDIRS ."
2402  for d in $alldirs ; do  for d in $alldirs ; do
2403      deplist=      deplist=
2404      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
2405      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
2406        if test "x$OPENAD" != x ; then
2407            sfiles=`( echo $sfiles | grep -v _cb2m\. )`
2408        fi
2409      for sf in $sfiles ; do      for sf in $sfiles ; do
2410          if test ! -r ".links.tmp/$sf" ; then          if test ! -r ".links.tmp/$sf" ; then
2411              if test -f "$d/$sf" ; then              if test -f "$d/$sf" ; then
2412                  ignore_f=f                  ignore_f=f
2413                  case $d/$sf in                  case $d/$sf in
2414                    ./$PACKAGES_DOT_H)                    ./$PACKAGES_DOT_H)
2415                            ignore_f=t
2416                          ;;                          ;;
2417                    ./AD_CONFIG.h)                    ./AD_CONFIG.h)
2418                            ignore_f=t
2419                          ;;                          ;;
2420                    ./FC_NAMEMANGLE.h)                    ./FC_NAMEMANGLE.h)
2421                            ignore_f=t
2422                          ;;                          ;;
2423                    ./BUILD_INFO.h)                    ./BUILD_INFO.h)
2424                            ignore_f=t
2425                            ;;
2426                      ./EMBEDDED_FILES.h)
2427                            ignore_f=t
2428                          ;;                          ;;
2429                    *)                    *)
2430                          #  For the local directory *ONLY*,                          #  For the local directory *ONLY*,
# Line 2035  for d in $alldirs ; do Line 2440  for d in $alldirs ; do
2440                  if test "x$ignore_f" = xf ; then                  if test "x$ignore_f" = xf ; then
2441                      extn=`echo $sf | $AWK -F. '{print $NF}'`                      extn=`echo $sf | $AWK -F. '{print $NF}'`
2442                      case $extn in                      case $extn in
2443                          F)                        F)
2444                              echo    " \\"  >> srclist.inc                          echo    " \\"  >> F77srclist.tmp
2445                              printf " $sf" >> srclist.inc                          printf " $sf" >> F77srclist.tmp
2446                              ;;                          if test "x$OPENAD" != x ; then
2447                          F90)                              basename=${sf%%.F}
2448                              echo    " \\"  >> f90srclist.inc                              isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`
2449                              printf " $sf" >> f90srclist.inc                              if test -z "$isAD" ; then
2450                              ;;                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
2451                          c)                                  if test -z "$toBeIgnored" ; then
2452                              echo    " \\"  >> csrclist.inc                                      echo    " \\"  >> nonADF77srclist.tmp
2453                              printf " $sf" >> csrclist.inc                                      printf " $sf" >> nonADF77srclist.tmp
2454                              ;;                                  else
2455                          h)                                      echo "    not to be compiled   :  $sf"
2456                              echo    " \\"  >> hlist.inc                                  fi
2457                              printf " $sf" >> hlist.inc                              else # file is initially listed as an AD file we want to exclude it
2458                              ;;                                   # or we want to retain the untransformed version
2459                          flow)                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
2460                              echo    " \\"  >> ad_flow_files.inc                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
2461                              printf " $sf" >> ad_flow_files.inc                                  if test -n "$notToBeTransformed"; then
2462                              ;;                                      echo "    not to be transformed:  $sf"
2463                      esac                                  fi
2464                  fi                                  if test -n "$untransformedVersionToBeKept" ; then
2465                                        echo "    original to be kept  :  $sf"
2466                                    fi
2467                                    if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
2468                                        echo    " \\"  >> nonADF77srclist.tmp
2469                                        printf " $sf" >> nonADF77srclist.tmp
2470                                    fi
2471                                fi
2472                            fi
2473                            ;;
2474                        F90)
2475                            echo    " \\"  >> F90srclist.tmp
2476                            printf " $sf" >> F90srclist.tmp
2477                            ;;
2478                        c)
2479                            echo    " \\"  >> csrclist.tmp
2480                            printf " $sf" >> csrclist.tmp
2481                            ;;
2482                        h)
2483                            echo    " \\"  >> hsrclist.tmp
2484                            printf " $sf" >> hsrclist.tmp
2485                            ;;
2486                        flow)
2487                            echo    " \\"  >> ad_flow_files.tmp
2488                            printf " $sf" >> ad_flow_files.tmp
2489                            ;;
2490                       esac
2491                    fi
2492              fi              fi
2493          fi          fi
2494      done      done
2495      if test "x$deplist" != x ; then      if test "x$deplist" != x ; then
2496          echo "" >> srclinks.tmp        if test "$d" != "." ; then
2497            echo "" >> srclinks.tmp
2498          echo "#  These files are linked from $d" >> srclinks.tmp          echo "#  These files are linked from $d" >> srclinks.tmp
2499          echo "$deplist :" >> srclinks.tmp          echo "$deplist :" >> srclinks.tmp
2500          printf "\t\$(LN) %s/\$@ \$@\n" $d >> srclinks.tmp  # We need to make sure that the link isn't already there.
2501    # This may happen when make thinks that a header file has to be "remade"
2502    # because a module it depends on has changed.  In this case we do nothing.
2503            printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp
2504          fi
2505      fi      fi
2506  done  done
2507  rm -rf .links.tmp  rm -rf .links.tmp
2508  echo "" >> srclist.inc  echo "" >> F77srclist.tmp
2509  echo "" >> csrclist.inc  echo "" >> nonADF77srclist.tmp
2510  echo "" >> f90srclist.inc  echo "" >> csrclist.tmp
2511  echo "" >> hlist.inc  echo "" >> F90srclist.tmp
2512  echo "" >> ad_flow_files.inc  echo "" >> hsrclist.tmp
2513    echo "" >> ad_flow_files.tmp
2514    
2515    CMDLINE=$0
2516    for xx in "$@" ; do nw=`echo $xx | wc -w`
2517        if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
2518                            else CMDLINE="$CMDLINE '$xx'" ; fi
2519    done
2520    
2521  if test -f $MAKEFILE ; then  if test -f $MAKEFILE ; then
2522      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.old"
2523  fi  fi
2524  echo "  Writing makefile: $MAKEFILE"  echo "  Writing makefile: $MAKEFILE"
2525  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE
# Line 2083  echo "#    $MACHINE" >> $MAKEFILE Line 2527  echo "#    $MACHINE" >> $MAKEFILE
2527  echo "# This makefile was generated automatically on" >> $MAKEFILE  echo "# This makefile was generated automatically on" >> $MAKEFILE
2528  echo "#    $THISDATE" >> $MAKEFILE  echo "#    $THISDATE" >> $MAKEFILE
2529  echo "# by the command:" >> $MAKEFILE  echo "# by the command:" >> $MAKEFILE
2530  echo "#    $0 $G2ARGS" >> $MAKEFILE  echo "#    $CMDLINE"  >> $MAKEFILE
2531  echo "# executed by:" >> $MAKEFILE  echo "# executed by:" >> $MAKEFILE
2532  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
2533    
# Line 2094  EXE_SVD=$EXECUTABLE"_svd" Line 2538  EXE_SVD=$EXECUTABLE"_svd"
2538  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2539  #  #
2540  # OPTFILE="$OPTFILE"  # OPTFILE="$OPTFILE"
2541  #  #
2542  # BUILDDIR     : Directory where object files are written  # BUILDDIR     : Directory where object files are written
2543  # SOURCEDIRS   : Directories containing the source (.F) files  # SOURCEDIRS   : Directories containing the source (.F) files
2544  # INCLUDEDIRS  : Directories containing the header-source (.h) files  # INCLUDEDIRS  : Directories containing the header-source (.h) files
# Line 2114  cat >>$MAKEFILE <<EOF Line 2558  cat >>$MAKEFILE <<EOF
2558  # LIBS         : Library flags /or/ additional optimization/debugging flags  # LIBS         : Library flags /or/ additional optimization/debugging flags
2559    
2560  ROOTDIR     = ${ROOTDIR}  ROOTDIR     = ${ROOTDIR}
2561  BUILDDIR    = ${BUILDDIR}    BUILDDIR    = ${BUILDDIR}
2562  SOURCEDIRS  = ${SOURCEDIRS}  SOURCEDIRS  = ${SOURCEDIRS}
2563  INCLUDEDIRS = ${INCLUDEDIRS}  INCLUDEDIRS = ${INCLUDEDIRS}
2564  EXEDIR      = ${EXEDIR}  EXEDIR      = ${EXEDIR}
# Line 2132  DISABLED_PACKAGES = ${DISABLED_PACKAGES} Line 2576  DISABLED_PACKAGES = ${DISABLED_PACKAGES}
2576    
2577  # These files are created by Makefile  # These files are created by Makefile
2578  SPECIAL_FILES = ${PACKAGES_DOT_H} AD_CONFIG.h FC_NAMEMANGLE.h BUILD_INFO.h  SPECIAL_FILES = ${PACKAGES_DOT_H} AD_CONFIG.h FC_NAMEMANGLE.h BUILD_INFO.h
   
2579  EOF  EOF
2580    
2581  #  Note: figure out some way to add Hyades JAM libraries here  if test "x$EMBED_SRC" = xt ; then
2582        echo "EMBEDDED_FILES = EMBEDDED_FILES.h" >>$MAKEFILE
2583    else
2584        echo "EMBEDDED_FILES = " >>$MAKEFILE
2585    fi
2586    
2587  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2588  # Unix ln (link)  # Unix ln (link)
2589  LN = ${LN}  LN = ${LN}
# Line 2163  INCLUDES = ${INCLUDES} Line 2610  INCLUDES = ${INCLUDES}
2610  KFLAGS1 = ${KFLAGS1}  KFLAGS1 = ${KFLAGS1}
2611  KFLAGS2 = ${KFLAGS2}  KFLAGS2 = ${KFLAGS2}
2612  # Optim./debug for FC  # Optim./debug for FC
2613  FFLAGS = ${FFLAGS}  FFLAGS = ${FFLAGS} ${FEXTRAFLAGS}
2614  FOPTIM = ${FOPTIM}  FOPTIM = ${FOPTIM}
2615  # Optim./debug for FC  # Optim./debug for FC
2616  F90FLAGS = ${F90FLAGS}  F90FLAGS = ${F90FLAGS}
2617  F90OPTIM = ${F90OPTIM}  F90OPTIM = ${F90OPTIM}
2618    F90FIXEDFORMAT = ${F90FIXEDFORMAT}
2619  # Flags for CC  # Flags for CC
2620  CFLAGS = ${CFLAGS}  CFLAGS = ${CFLAGS}
2621  # Files that should not be optimized  # Files that should not be optimized
# Line 2180  MAKEFILE=${MAKEFILE} Line 2628  MAKEFILE=${MAKEFILE}
2628    
2629  EOF  EOF
2630    
2631  cat srclist.inc       >> $MAKEFILE  cat F77srclist.tmp      >> $MAKEFILE
2632  cat csrclist.inc      >> $MAKEFILE  cat nonADF77srclist.tmp >> $MAKEFILE
2633  cat f90srclist.inc    >> $MAKEFILE  cat csrclist.tmp        >> $MAKEFILE
2634  cat hlist.inc         >> $MAKEFILE  cat F90srclist.tmp      >> $MAKEFILE
2635  cat ad_flow_files.inc >> $MAKEFILE  cat hsrclist.tmp        >> $MAKEFILE
2636    cat ad_flow_files.tmp   >> $MAKEFILE
2637    
2638    rm -f F77srclist.tmp nonADF77srclist.tmp csrclist.tmp F90srclist.tmp hsrclist.tmp ad_flow_files.tmp
2639    
2640  echo >> $MAKEFILE  echo >> $MAKEFILE
2641  echo 'F77FILES =  $(SRCFILES:.F=.'$FS')'      >> $MAKEFILE  
2642  echo 'F90FILES =  $(F90SRCFILES:.F90=.'$FS90')' >> $MAKEFILE  # add definitions for preprocessed sources
2643  echo 'OBJFILES =  $(SRCFILES:.F=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.F90=.o)' >> $MAKEFILE  # and note that not all systems allow case sensitive extensions
2644    # hence the $FS and $FS90 here.
2645    # for fixed format f90 files we use ff90 or FF90 resp
2646    # but these are not expected to be the original source files
2647    
2648    echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
2649    echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE
2650    echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE
2651    echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE
2652  echo >> $MAKEFILE  echo >> $MAKEFILE
2653  echo '.SUFFIXES:' >> $MAKEFILE  echo '.SUFFIXES:' >> $MAKEFILE
2654  echo '.SUFFIXES: .o .'$FS' .p .F .c .'$FS90' .F90' >> $MAKEFILE  echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE
 rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc  
 rm -f ad_flow_files.inc  
2655    
2656  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2657    
2658  all: \$(EXECUTABLE)  all: \$(EXECUTABLE)
2659  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(OBJFILES)  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(OBJFILES) \$(EMBEDDED_FILES)
2660          @echo Creating \$@ ...          @echo Creating \$@ ...
2661          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
2662  depend:  depend:
2663          @make links          @make links
2664          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(SRCFILES)          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
2665          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2666          -rm -f makedepend.out          -rm -f makedepend.out
2667    
# Line 2211  lib: libmitgcmuv.a Line 2669  lib: libmitgcmuv.a
2669    
2670  libmitgcmuv.a: \$(OBJFILES)  libmitgcmuv.a: \$(OBJFILES)
2671          ar rcv libmitgcmuv.a \$(OBJFILES)          ar rcv libmitgcmuv.a \$(OBJFILES)
2672            ar d   libmitgcmuv.a main.o
2673    
2674  links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)  links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)
2675    
2676  small_f: \$(F77FILES) \$(F90FILES)  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
2677    
2678  output.txt: \$(EXECUTABLE)  output.txt: \$(EXECUTABLE)
2679          @printf 'running ... '          @printf 'running ... '
2680          @\$(EXECUTABLE) > \$@          @\$(EXECUTABLE) > \$@
2681    
2682    # remove most of the files that "make" generates
2683  clean:  clean:
2684          -rm -rf *.o *.$FS *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2685            -rm -rf *.o
2686            -rm -rf *.$FS *.flowdir
2687            -rm -rf *.f$FS90 \$(AD_CLEAN) ad_input*
2688    
2689    # remove most of the files that "make" and "make depend" generate
2690  Clean:  Clean:
2691          @make clean          @make clean
2692          @make cleanlinks          @make cleanlinks
2693          -rm -f \$(SPECIAL_FILES)          -rm -f \$(SPECIAL_FILES) f90mkdepend.log
2694          -rm -f genmake_state genmake_*optfile genmake_warnings make.log run.log *.bak          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log
2695            -rm -f genmake_warnings genmake_errors make.log
2696    
2697    # remove also the executable, files that "genmake2" generates (except Makefile)
2698    #         and output from a run (plus log files from testreport)
2699  CLEAN:  CLEAN:
2700          @make Clean          @make Clean
2701            -rm -f \$(EXECUTABLE) \$(EXE_AD) *.bak $MAKEFILE.old
2702            -rm -f $LOGFILE genmake_state genmake_*optfile genmake.tr_log make.tr_log
2703          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
2704          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
2705          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
2706          -rm -f \$(EXECUTABLE) output.txt STD*          -rm -f *.txt STD* *diagnostics.log datetime
2707            -rm -f *_MIT_CE_000.opt0000 costfunction*0000
2708            -rm -rf mnc_test_*
2709    
 #eh3 Makefile: makefile  
2710  makefile:  makefile:
2711          $THIS_SCRIPT $G2ARGS          $THIS_SCRIPT $G2ARGS
2712  cleanlinks:  cleanlinks:
2713          -find . -type l -exec rm {} \;          -find . -type l -exec rm {} \;
2714    
2715  # Special targets (SPECIAL_FILES) which are create by make  # Special targets (SPECIAL_FILES) which are created by make
2716  ${PACKAGES_DOT_H}:  ${PACKAGES_DOT_H}:
2717          @echo Creating \$@ ...          @echo Creating \$@ ...
2718          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@
# Line 2260  test ! "x$THISUSER" = x && echo "      -echo Line 2732  test ! "x$THISUSER" = x && echo "      -echo
2732  test ! "x$THISDATE" = x && echo "       -echo \"#define THISDATE '$THISDATE'\" >> \$@" >> $MAKEFILE  test ! "x$THISDATE" = x && echo "       -echo \"#define THISDATE '$THISDATE'\" >> \$@" >> $MAKEFILE
2733  test ! "x$THISHOST" = x && echo "       -echo \"#define THISHOST '$THISHOST'\" >> \$@" >> $MAKEFILE  test ! "x$THISHOST" = x && echo "       -echo \"#define THISHOST '$THISHOST'\" >> \$@" >> $MAKEFILE
2734    
2735    if test "x$EMBED_SRC" = xt ; then
2736        cat >>$MAKEFILE <<EOF
2737    
2738    decode_files.o : EMBEDDED_FILES.h
2739    
2740    ##  \$(F77_PP_SRC_FILES)
2741    all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2742            @echo Creating \$@ ...
2743            -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2744            -rm -f all_fF.tar.gz
2745            -gzip all_fF.tar
2746    
2747    EMBEDDED_FILES.h : all_fF.tar.gz
2748            @echo Creating \$@ ...
2749            -\${ROOTDIR}/tools/embed_encode/encode_files EMBEDDED_FILES.h all_fF.tar.gz
2750    
2751    EOF
2752    fi
2753    
2754  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2755    
2756  # The normal chain of rules is (  .F - .$FS - .o  )  # The normal chain of rules is (  .F - .$FS - .o  )
# Line 2271  cat >>$MAKEFILE <<EOF Line 2762  cat >>$MAKEFILE <<EOF
2762          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2763  .$FS.o:  .$FS.o:
2764          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2765    .F.o:
2766            \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2767  .F90.$FS90:  .F90.$FS90:
2768          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2769    .FF90.f$FS90:
2770            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2771  .$FS90.o:  .$FS90.o:
2772          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
2773    .f$FS90.o:
2774            cp \$< \$(basename  \$<).f90
2775            \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$(F90FIXEDFORMAT) \$(basename  \$<).f90
2776  .c.o:  .c.o:
2777          \$(CC) \$(CFLAGS) -c \$<          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
2778    .flow.flowdir:
2779            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2780    
2781  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain
2782  .F.p:  .F.p:
# Line 2284  cat >>$MAKEFILE <<EOF Line 2784  cat >>$MAKEFILE <<EOF
2784  .p.$FS:  .p.$FS:
2785          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
2786    
2787    EOF
2788    
2789  #=========================================  #=========================================
2790  #===  Automatic Differentiation Rules  ===  #===  Automatic Differentiation Rules  ===
2791    #===  for TAMC/TAF  ======================
2792    
2793    if test "x$OPENAD" = x ; then
2794    
2795    cat >>$MAKEFILE <<EOF
2796    
2797  TAMC           = ${TAMC}  TAMC           = ${TAMC}
2798  TAF            = ${TAF}  TAF            = ${TAF}
# Line 2300  ad_vars="$ad_vars FTL_TAMC_FLAGS FTL_TAF Line 2807  ad_vars="$ad_vars FTL_TAMC_FLAGS FTL_TAF
2807  ad_vars="$ad_vars SVD_TAMC_FLAGS SVD_TAF_FLAGS"  ad_vars="$ad_vars SVD_TAMC_FLAGS SVD_TAF_FLAGS"
2808  for i in $ad_vars ; do  for i in $ad_vars ; do
2809      name=$i      name=$i
2810      t1="t2=\$"`echo $i`      t1="t2=\$"`echo "$i"`
2811      eval $t1      eval $t1
2812      printf "%-20s = " $name >> $MAKEFILE      printf "%-20s = " $name >> $MAKEFILE
2813      echo $t2 >> $MAKEFILE      echo "$t2" | sed -e 's| \+| |g' >> $MAKEFILE
2814  done  done
2815    
2816  echo "  Add the source list for AD code generation"  echo "  Add the source list for AD code generation"
2817  echo >> $MAKEFILE  echo >> $MAKEFILE
2818  printf "AD_FILES = " >> $MAKEFILE  printf "AD_FILES = " >> $MAKEFILE
2819  AD_FILES=`cat ad_files`  AD_FILES=`cat adSrcFiles.tmp`
2820  for i in $AD_FILES ; do  for i in $AD_FILES ; do
2821      echo    " \\" >> $MAKEFILE      echo    " \\" >> $MAKEFILE
2822      printf " $i" >> $MAKEFILE      printf " $i" >> $MAKEFILE
2823  done  done
2824  echo >> $MAKEFILE  echo >> $MAKEFILE
2825  rm -f ad_files  rm -f adSrcFiles.tmp
2826    
2827  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2828    
2829  # ... AD ...  # ... AD ...
2830  adall: ad_taf  adall: \$(EXE_AD)
2831  adtaf: ad_taf_output.$FS  adtaf: ad_taf_output.$FS
2832  adtamc: ad_tamc_output.$FS  adtamc: ad_tamc_output.$FS
2833    
2834  ad_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES) \$(AD_FLOW_FILES)
2835          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template
2836          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
2837          -rm -f ad_config.template          -rm -f ad_config.template
2838          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2839          @make \$(AD_FLOW_FILES)          @make \$(FLOFILES)
2840          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ad_input_code.$FS          cat \$(FLOFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS
2841    
2842  ad_taf_output.$FS: ad_input_code.$FS  ad_taf_output.$FS: ad_input_code.$FS
2843          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2844            ls -l ad_input_code_ad.$FS
2845          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
2846    
2847  adtafonly:  adtafonly:
2848          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2849            ls -l ad_input_code_ad.$FS
2850          cat ad_input_code_ad.$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
2851    
2852  ad_taf: ad_taf_output.o \$(OBJFILES)  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)
2853          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)
2854    
2855  ad_tamc_output.$FS: ad_input_code.$FS  ad_tamc_output.$FS: ad_input_code.$FS
2856          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
2857          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_tamc_output.$FS
2858    
2859  ad_tamc: ad_tamc_output.o \$(OBJFILES)  ad_tamc: ad_tamc_output.o \$(OBJFILES)
2860          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
2861    
2862  adonlyfwd:  adonlyfwd:
2863          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
2864    
2865  adtrick:  adtrick:
2866          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
2867    
# Line 2361  ftlall: ftl_taf Line 2870  ftlall: ftl_taf
2870  ftltaf: ftl_taf_output.$FS  ftltaf: ftl_taf_output.$FS
2871  ftltamc: ftl_tamc_output.$FS  ftltamc: ftl_tamc_output.$FS
2872    
2873  ftl_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ftl_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)
2874          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template
2875          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2876          -rm -f ftl_config.template          -rm -f ftl_config.template
2877          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2878          @make \$(AD_FLOW_FILES)          @make \$(AD_FLOW_FILES)
2879          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS
2880    
2881  ftl_taf_output.$FS: ftl_input_code.$FS  ftl_taf_output.$FS: ftl_input_code.$FS
2882          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2883            ls -l ftl_input_code_ftl.$FS
2884          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2885    
2886  ftltafonly:  ftltafonly:
2887          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2888            ls -l ftl_input_code_ftl.$FS
2889          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS          cat ftl_input_code_ftl.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ftl_taf_output.$FS
2890    
2891  ftl_taf: ftl_taf_output.o \$(OBJFILES)  ftl_taf: ftl_taf_output.o \$(OBJFILES)
2892          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)
2893    
2894  ftl_tamc_output.$FS: ftl_input_code.$FS  ftl_tamc_output.$FS: ftl_input_code.$FS
2895          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
2896          cat ftl_input_code_ftl.$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
2897    
2898  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
2899          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
   
2900    
2901  # ... SVD ...  # ... SVD ...
2902  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
# Line 2412  svd_touch: Line 2922  svd_touch:
2922          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2923          -rm -f ftl_config.template          -rm -f ftl_config.template
2924    
2925  #=========================================  EOF
2926    
2927    fi
2928    
2929    #===  for OpenAD  ========================
2930    
2931    if test "x$OPENAD" != x ; then
2932    
2933    # ============ begin OpenAD specific section ==============
2934    
2935    cat >>$MAKEFILE <<EOF
2936    
2937    # all the source files linked from the various locations:
2938    ALL_LINKED_FILES= \
2939    \$(F77_SRC_FILES) \
2940    \$(C_SRC_FILES) \
2941    \$(H_SRC_FILES) \
2942    \$(F90_SRC_FILES) \
2943    \$(SPECIAL_FILES)
2944    
2945    ifndef OPENADROOT
2946      \$(error "Error:  environment variable OPENADROOT not defined!")
2947    endif
2948    
2949    ifndef XAIFSCHEMAROOT
2950      \$(error "Error:  environment variable XAIFSCHEMAROOT not defined!")
2951    endif
2952    
2953    ifndef XAIFBOOSTERROOT
2954      \$(error "Error:  environment variable XAIFBOOSTERROOT not defined!")
2955    endif
2956    
2957  EOF  EOF
2958    
2959    echo "  Add the source list for common block to module conversion "
2960    echo >> $MAKEFILE
2961    printf "CB2M_F90_SRC_NAMES = " >> $MAKEFILE
2962    for i in `cat ${OAD_CB2M_FILES}` ; do
2963      echo    " \\" >> $MAKEFILE
2964      printf " $i" >> $MAKEFILE
2965    done
2966    echo >> $MAKEFILE
2967    
2968    echo "  Add the source list for AD code generation"
2969    echo >> $MAKEFILE
2970    printf "AD_FILES = " >> $MAKEFILE
2971    for i in `cat ${OAD_CB2M_FILES}` ; do
2972      echo    " \\" >> $MAKEFILE
2973      printf " ${i}_mod.f$FS90" >> $MAKEFILE
2974    done
2975    AD_FILES=`cat adSrcFiles.tmp`
2976    for i in $AD_FILES ; do
2977      basename=${i%%.f}
2978      toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`
2979      if test -z "$toBeIgnored" ; then
2980        echo    " \\" >> $MAKEFILE
2981        printf " $i" >> $MAKEFILE
2982      fi
2983    done
2984    echo >> $MAKEFILE
2985    rm -f adSrcFiles.tmp
2986    
2987    cat >>$MAKEFILE <<EOF
2988    
2989    adAll: \$(EXE_AD)
2990    .PHONY: adAll
2991    
2992    CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
2993    
2994    .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
2995    
2996    .PHONY: adDepend
2997    adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)
2998            \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
2999            \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
3000            -rm -f makedepend.out
3001    
3002    OPENAD_SUPPORT_F90_SRC_FILES = \
3003    w2f__types.F90 \
3004    OAD_active.F90 \
3005    OAD_cp.F90 \
3006    OAD_rev.F90 \
3007    OAD_tape.F90
3008    
3009    OPENAD_SUPPORT_C_SRC_FILES = \
3010    iaddr.c \
3011    timeRatio.c
3012    
3013    f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
3014            cat \$^ > \$@
3015    
3016    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$FS90
3017            cat \$^ > \$@
3018    
3019    f95_test.out: f95_test_mods.f90 f95_test.f90
3020            f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
3021            f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
3022    
3023    # the file included below is created by the
3024    # postProcessor and its inclusion sets the
3025    # variable POSTPROCESSEDFILES
3026    # used below. Because the file is made during
3027    # make it won't be read until the second (recursive)
3028    # invocation in the rule below
3029    -include postProcess.make
3030    
3031    AD_OBJ_FILES_S1=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) \$(POSTPROCESSEDFILES:.f$FS90=.o)
3032    
3033    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)
3034    
3035    postProcess.comp: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.tag \$(AD_OBJ_FILES_S1)
3036    ifeq (\$(MAKELEVEL),0)
3037            \$(MAKE) adAll
3038    else
3039            touch \$@
3040    endif
3041    
3042    \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.comp \$(AD_OBJ_FILES_S2)
3043    ifeq (\$(MAKELEVEL),1)
3044            \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES_S2) \$(LIBS)
3045    else
3046            touch \$@
3047    endif
3048    
3049    # makefile debug rule
3050    openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3051    .PHONY: openad
3052    
3053    # create the module files
3054    %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk
3055            ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk
3056    
3057    # create the header files
3058    %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk
3059            ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
3060    
3061    # change everybody else to use the new module files:
3062    %_cb2m.FF90 : %.F ../OAD_support/cb2mUseModules.bash
3063            ../OAD_support/cb2mUseModules.bash $< ${MPI}
3064    
3065    # makefile debug rule
3066    small_f: \$(CB2M_F90_PP_SRC_FILES)
3067    .PHONY: small_f
3068    
3069    ad_output.txt: \$(EXE_AD)
3070            @printf 'linking data files ... '
3071            \$(LN) -f ../input_ad/data* ../input_ad/eedata .
3072            \$(LN) -f ../../global_ocean.90x40x15/input/*.bin .
3073            @printf 'running ... '
3074            @./\$(EXE_AD) > \$@
3075    
3076    CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
3077    ad_input_code.f$FS90:  \$(CB2M_AD_FILES)
3078            cat \$^ > \$@
3079    
3080    # strip all comments and blanks to reduce
3081    # the file size in order to reduce perl's memory requirements
3082    ad_input_code_sf.f$FS90 : ad_input_code.f$FS90
3083            cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@
3084    
3085    # mfef90 preprocessing
3086    # expand statement functions
3087    # expose mfef90 specific substring handling
3088    # add the w2f__types module
3089    ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90
3090            ./mfef90 -r8 -z -F -N132 \$<
3091            mv \$<.B \$(basename \$<).B
3092            ./whirl2f -openad \$(basename \$<).B
3093            cat w2f__types.f90 \$(basename \$<).w2f.f > \$@
3094    
3095    # canonicalizer
3096    ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py
3097            ./preProcess.py --timing --r8 -H -S \$< -o \$@
3098    
3099    # F -> WHIRL
3100    # note that the canonicalized version cuts off at col 72
3101    # doing this also for string constants which is ok as long
3102    # as we are in fixed mode and cut of exactly there.
3103    # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)
3104    # characters respectively.
3105    ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90
3106            ./mfef90 -r8 -z -F \$<
3107            mv \$<.B \$@
3108    
3109    # WHIRL -> XAIF
3110    ad_input_code_sf.w2f.pre.xaif : ad_input_code_sf.w2f.pre.B whirl2xaif
3111            ./whirl2xaif -s -n --debug 1 -o \$@ \$<
3112    
3113    # XAIF -> XAIF'
3114    ad_input_code_sf.w2f.pre.xb.xaif : ad_input_code_sf.w2f.pre.xaif xaif.xsd xaif_base.xsd xaif_inlinable_intrinsics.xsd xaif_derivative_propagator.xsd xaif_output.xsd oadDriver
3115            ./oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
3116    
3117    # XAIF' -> WHIRL'
3118    ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl
3119            ./xaif2whirl --debug 1 ad_input_code_sf.w2f.pre.B \$<
3120    
3121    # WHIRL' -> F'
3122    ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be
3123            ./whirl2f -FLIST:ftn_file=\$@ -openad \$<
3124    
3125    # insert template directives
3126    ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash
3127            ../OAD_support/insertTemplateDir.bash \$< \$@
3128    
3129    PPEXTRAS=\$(wildcard ../OAD_support/ad_template.*.F) ../OAD_support/ad_inline.F
3130    # postprocess F'
3131    postProcess.tag: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 postProcess.py \$(PPEXTRAS:.F=.f)
3132            # the target is a placeholder to signal execution of the rule
3133            touch \$@
3134            # this step also creates the file postProcess.make but we cannot
3135            # name it as the target or else make will try to remake it for
3136            # the include directive above for any rule, e.g. make clean
3137            ./postProcess.py --progress --timing --outputFormat=fixed -m r -i ../OAD_support/ad_inline.f --width 4 \$<
3138    
3139    # setup some links
3140    %.xsd:
3141            \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
3142    
3143    mfef90:
3144            \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .
3145    
3146    # link the support files:
3147    \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):
3148            \$(LN) ../OAD_support/\$@ .
3149    
3150    whirl2xaif xaif2whirl:
3151            \$(LN) \${OPENADFORTTK}/bin/\$@ .
3152    
3153    preProcess.py postProcess.py:
3154            \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .
3155    
3156    whirl2f whirl2f_be:
3157            \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .
3158    
3159    oadDriver:
3160            \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver \$@
3161    
3162    AD_CLEAN += *_mod.h *_mod.F90 *.FF90 *.mod-whirl temp.sed oad_cp.* postProcess.make postProcess.tag postProcess.comp \$(PPEXTRAS:.F=.f)
3163    
3164    # ============ end OpenAD specific section ==============
3165    
3166    EOF
3167    
3168    fi
3169    
3170    #=========================================
3171    
3172  if test "x$EXEHOOK" != x ; then  if test "x$EXEHOOK" != x ; then
3173      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE
3174  fi  fi
# Line 2451  printf "\n\n# DO NOT DELETE\n" >> $MAKEF Line 3204  printf "\n\n# DO NOT DELETE\n" >> $MAKEF
3204  printf "\n===  Done  ===\n"  printf "\n===  Done  ===\n"
3205    
3206  # Create special header files  # Create special header files
3207  $BASH $TOOLSDIR/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" $DISABLED_PACKAGES " " "Enabled packages:" $ENABLED_PACKAGES > $PACKAGES_DOT_H".tmp"  $BASH $TOOLSDIR/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" $DISABLED_PACKAGES " " "Enabled packages:" $ENABLED_PACKAGES > $PACKAGES_DOT_H".tmp"
3208  if test ! -f $PACKAGES_DOT_H ; then  if test ! -f $PACKAGES_DOT_H ; then
3209      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H
3210  else  else
# Line 2468  if test ! -f AD_CONFIG.h ; then Line 3221  if test ! -f AD_CONFIG.h ; then
3221      $BASH $TOOLSDIR/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > AD_CONFIG.h      $BASH $TOOLSDIR/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > AD_CONFIG.h
3222  fi  fi
3223    
   
3224  #  Write the "state" for future records  #  Write the "state" for future records
3225  if test "x$DUMPSTATE" != xf ; then  if test "x$DUMPSTATE" = xt ; then
3226      printf "" > genmake_state      printf "" > genmake_state
3227      for i in $gm_state ; do      for i in $gm_state ; do
3228          t1="t2=\$$i"          t1="t2=\$$i"

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