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revision 1.172 by dfer, Wed Jun 25 18:28:06 2008 UTC revision 1.226 by jmc, Fri Sep 30 20:03:10 2011 UTC
# Line 1  Line 1 
1  #! /usr/bin/env bash  #! /usr/bin/env bash
2  #  #
3  # $Header$  # $Header$
4    # $Name$
5  #  #
6  # Makefile generator for MITgcm UV codes  # Makefile generator for MITgcm UV codes
7  #   created  by cnh 03/98  #   created  by cnh 03/98
# Line 8  Line 9 
9  #   modified by aja 01/00  #   modified by aja 01/00
10  #   rewritten in bash by eh3 08/03  #   rewritten in bash by eh3 08/03
11    
12    #  Explain usage
13    usage()  {
14    cat <<EOF
15    
16    Usage: "$0" [OPTIONS]
17      where [OPTIONS] can be:
18    
19        -help | --help | -h | --h
20              Print this help message and exit.
21    
22        -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
23          -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
24              Use "NAME" as the adoptfile.  By default, the file at
25              "tools/adjoint_options/adjoint_default" will be used.
26    
27        -nooptfile | --nooptfile
28          -optfile NAME | --optfile NAME | -of NAME | --of NAME
29          -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
30              Use "NAME" as the optfile.  By default, an attempt will be
31              made to find an appropriate "standard" optfile in the
32              tools/build_options/ directory.
33    
34        -pdepend NAME | --pdepend NAME
35          -pdepend=NAME | --pdepend=NAME
36              Get package dependency information from "NAME".
37    
38        -pgroups NAME | --pgroups NAME
39          -pgroups=NAME | --pgroups=NAME
40              Get the package groups information from "NAME".
41    
42        -bash NAME
43              Explicitly specify the Bourne or BASH shell to use
44    
45        -make NAME | -m NAME
46          --make=NAME | -m=NAME
47              Use "NAME" for the MAKE program. The default is "make" but
48              many platforms, "gmake" is the preferred choice.
49    
50        -makefile NAME | -mf NAME
51          --makefile=NAME | -mf=NAME
52              Call the makefile "NAME".  The default is "Makefile".
53    
54        -makedepend NAME | -md NAME
55          --makedepend=NAME | -md=NAME
56              Use "NAME" for the MAKEDEPEND program.
57    
58        -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
59          -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
60              Specify the location of the MITgcm ROOTDIR as "NAME".
61              By default, genamke will try to find the location by
62              looking in parent directories (up to the 5th parent).
63    
64        -mods NAME | --mods NAME | -mo NAME | --mo NAME
65          -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
66              Here, "NAME" specifies a list of directories that are
67              used for additional source code.  Files found in the
68              "mods list" are given preference over files of the same
69              name found elsewhere.
70    
71        -disable NAME | --disable NAME
72          -disable=NAME | --disable=NAME
73              Here "NAME" specifies a list of packages that we don't
74              want to use.  If this violates package dependencies,
75              genamke will exit with an error message.
76    
77        -enable NAME | --enable NAME
78          -enable=NAME | --enable=NAME
79              Here "NAME" specifies a list of packages that we wish
80              to specifically enable.  If this violates package
81              dependencies, genamke will exit with an error message.
82    
83        -standarddirs NAME | --standarddirs NAME
84          -standarddirs=NAME | --standarddirs=NAME
85              Here, "NAME" specifies a list of directories to be
86              used as the "standard" code.
87    
88        -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
89          -fc=NAME | --fc=NAME
90              Use "NAME" as the fortran compiler.  By default, genmake
91              will search for a working compiler by trying a list of
92              "usual suspects" such as g77, f77, etc.
93    
94        -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
95              Use "NAME" as the C compiler.  By default, genmake
96              will search for a working compiler by trying a list of
97              "usual suspects" such as gcc, c89, cc, etc.
98    
99        -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
100              Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
101              *only* works if CPP_EEOPTIONS.h allows this.
102    
103        -ignoretime | -ignore_time | --ignoretime | --ignore_time
104              Ignore all the "wall clock" routines entirely.  This will
105              not in any way hurt the model results -- it simply means
106              that the code that checks how long the model spends in
107              various routines will give junk values.
108    
109        -ts | --ts
110              Produce timing information per timestep
111        -papis | --papis
112              Produce summary MFlop/s (and IPC) with PAPI per timestep
113        -pcls | --pcls
114              Produce summary MFlop/s etc. with PCL per timestep
115        -foolad | --foolad
116              Fool the AD code generator
117        -papi | --papi
118              Performance analysis with PAPI
119        -pcl | --pcl
120              Performance analysis with PCL
121        -hpmt | --hpmt
122              Performance analysis with the HPM Toolkit
123    
124        -ieee | --ieee
125              use IEEE numerics.  Note that this option *only* works
126              if it is supported by the OPTFILE that is being used.
127        -devel | --devel
128              Add additional warning and debugging flags for development
129              (if supported by the OPTFILE); also switch to IEEE numerics.
130        -gsl | --gsl
131              Use GSL to control floating point rounding and precision
132    
133        -mpi | --mpi
134              Include MPI header files and link to MPI libraries
135        -mpi=PATH | --mpi=PATH
136              Include MPI header files and link to MPI libraries using MPI_ROOT
137              set to PATH. i.e. Include files from \$PATH/include, link to libraries
138              from \$PATH/lib and use binaries from \$PATH/bin.
139    
140        -omp | --omp
141              Activate OpenMP code + use Compiler option OMPFLAG
142        -omp=OMPFLAG | --omp=OMPFLAG
143              Activate OpenMP code + use Compiler option OMPFLAG
144    
145        -es | --es | -embed-source | --embed-source
146              Embed a tarball containing the full source code
147              (including the Makefile, etc.) used to build the
148              executable [off by default]
149    
150        -ds | --ds
151              Report genmake internal variables status (DUMPSTATE)
152              to file "genmake_state" (for debug purpose)
153    
154      While it is most often a single word, the "NAME" variables specified
155      above can in many cases be a space-delimited string such as:
156    
157        --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
158        -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
159        -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
160    
161      which, depending upon your shell, may need to be single-quoted.
162    
163      For more detailed genmake documentation, please see:
164    
165        http://mitgcm.org/public/devel_HOWTO/
166    
167    EOF
168    
169        exit 1
170    }
171    
172  # Search for particular CPP #cmds associated with packages  # Search for particular CPP #cmds associated with packages
173  # usage: test_for_package_in_cpp_options CPP_file package_name  # usage: test_for_package_in_cpp_options CPP_file package_name
174  test_for_package_in_cpp_options() {  test_for_package_in_cpp_options() {
# Line 56  test_for_string_in_file() { Line 217  test_for_string_in_file() {
217  # the package list.  # the package list.
218  expand_pkg_groups() {  expand_pkg_groups() {
219      new_packages=      new_packages=
     PKG_GROUPS=$ROOTDIR"/pkg/pkg_groups"  
220      if test -r $PKG_GROUPS ; then      if test -r $PKG_GROUPS ; then
221          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp
222          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp
# Line 67  expand_pkg_groups() { Line 227  expand_pkg_groups() {
227              if test "x$RETVAL" = x0 ; then              if test "x$RETVAL" = x0 ; then
228                  matched=1                  matched=1
229                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`
230                  echo "    replacing \"$i\" with: $replace"                  echo "    replacing \"$i\" with:$replace"
231                  new_packages="$new_packages $replace"                  new_packages="$new_packages $replace"
232              else              else
233                  new_packages="$new_packages $i"                  new_packages="$new_packages $i"
# Line 110  EOF Line 270  EOF
270              check_for_broken_Ff              check_for_broken_Ff
271          else          else
272              cat <<EOF 2>&1              cat <<EOF 2>&1
273  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
274    (fails the "cp" test) and this program cannot find a suitable    (fails the "cp" test) and this program cannot find a suitable
275    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
276    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
277    
278  EOF  EOF
# Line 146  EOF Line 306  EOF
306              check_for_broken_Ff              check_for_broken_Ff
307          else          else
308              cat <<EOF 2>&1              cat <<EOF 2>&1
309  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
310    (fails the "make/ln" test) and this program cannot find a suitable    (fails the "make/ln" test) and this program cannot find a suitable
311    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
312    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
313    
314  EOF  EOF
# Line 165  EOF Line 325  EOF
325      return      return
326  }  }
327    
   
328  look_for_makedepend()  {  look_for_makedepend()  {
329    
330      #  The "original" makedepend is part of the Imake system that is      #  The "original" makedepend is part of the Imake system that is
# Line 186  look_for_makedepend()  { Line 345  look_for_makedepend()  {
345      #    3) locally build and use the cyrus implementation      #    3) locally build and use the cyrus implementation
346      #    4) fall back to the buggy local xmakedpend script      #    4) fall back to the buggy local xmakedpend script
347      #      #
348        echo >> $LOGFILE
349        echo "running: look_for_makedepend()" >> $LOGFILE
350        if test "x${MAKEDEPEND}" != x ; then
351            echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1
352            RETVAL=$?
353            if test x"$RETVAL" = x0 ; then
354                build_cyrus_makedepend
355                RETVAL=$?
356                if test "x$RETVAL" != x0 ; then
357                    echo "WARNING: unable to build cyrus-makedepend. Try 'makedepend'"
358                    MAKEDEPEND=
359                fi
360            else
361                echo "${MAKEDEPEND}" | grep 'tools.xmakedepend' > /dev/null 2>&1
362                RETVAL=$?
363                if test "x$RETVAL" = x0 ; then
364                    MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
365                fi
366                echo " -->     MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
367            fi
368        fi
369      if test "x${MAKEDEPEND}" = x ; then      if test "x${MAKEDEPEND}" = x ; then
370          which makedepend > /dev/null 2>&1          which makedepend > /dev/null 2>&1
371          RV0=$?          RV0=$?
# Line 194  look_for_makedepend()  { Line 374  look_for_makedepend()  {
374          cat <<EOF >> $MAKEFILE          cat <<EOF >> $MAKEFILE
375  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"
376  #  #
377  #   Some "makedepend" implementations will die if they cannot  #   Some "makedepend" implementations will die if they cannot
378  #   find a Makefile -- so this file is here to gives them an  #   find a Makefile -- so this file is here to gives them an
379  #   empty one to find and parse.  #   empty one to find and parse.
380  EOF  EOF
381          cat <<EOF >> genmake_tc.f          cat <<EOF >> genmake_tc.f
# Line 210  EOF Line 390  EOF
390          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
391          if test "x${RV0}${RV1}" = x00 ; then          if test "x${RV0}${RV1}" = x00 ; then
392              MAKEDEPEND=makedepend              MAKEDEPEND=makedepend
393                echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
394          else          else
395              echo "    a system-default makedepend was not found."              echo "    system-default makedepend not found. Try to build cyrus-makedepend"
               
396              #  Try to build the cyrus implementation              #  Try to build the cyrus implementation
397              build_cyrus_makedepend              build_cyrus_makedepend
398              RETVAL=$?              RETVAL=$?
399              if test "x$RETVAL" != x0 ; then              if test "x$RETVAL" != x0 ; then
400                    echo "WARNING: unable to build cyrus-makedepend. Use local xmakedepend"
401                  MAKEDEPEND='$(TOOLSDIR)/xmakedepend'                  MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
402                    echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
403              fi              fi
             rm -f ./genmake_cy_md  
         fi  
     else  
         #  echo "MAKEDEPEND=${MAKEDEPEND}"  
         echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1  
         RETVAL=$?  
         if test x"$RETVAL" = x0 ; then  
             build_cyrus_makedepend  
404          fi          fi
405      fi      fi
406  }  }
407    
   
408  build_cyrus_makedepend()  {  build_cyrus_makedepend()  {
409        echo >> $LOGFILE
410        echo "running: build_cyrus_makedepend()" >> $LOGFILE
411      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
412      (      (
413          cd $ROOTDIR/tools/cyrus-imapd-makedepend  \          cd $ROOTDIR/tools/cyrus-imapd-makedepend  \
# Line 249  build_cyrus_makedepend()  { Line 424  build_cyrus_makedepend()  {
424      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
425      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
426          MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'          MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'
427            echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
428          return 0          return 0
429      else      else
430          echo "WARNING: unable to build cyrus-imapd-makedepend"          echo "WARNING: fail to build cyrus-imapd-makedepend" >> $LOGFILE
431          return 1          return 1
432      fi      fi
433  }  }
434    
   
435  build_embed_encode()  build_embed_encode()
436  {  {
437      printf "  building the embed-encode utility...  "      printf "  building the embed-encode utility...  "
# Line 269  build_embed_encode() Line 444  build_embed_encode()
444              return 1              return 1
445          fi          fi
446          clist="cc gcc c89 $CC"          clist="cc gcc c89 $CC"
447          for ic in $clist ; do          for ic in $clist ; do
448              comm="$ic -o encode_files encode_files.c"              comm="$ic -o encode_files encode_files.c"
449              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1
450              RETVAL=$?              RETVAL=$?
# Line 290  build_embed_encode() Line 465  build_embed_encode()
465      DEFINES="$DEFINES -DHAVE_EMBED_SRC"      DEFINES="$DEFINES -DHAVE_EMBED_SRC"
466  }  }
467    
468    #  look for possible C compilers
469  # Guess possible config options for this host  look_for_C_compilers() {
470  find_possible_configs()  {      echo >> $LOGFILE
471        echo "running: look_for_C_compilers()" >> $LOGFILE
472      tmp1=`uname`"_"`uname -m`      rm -f ./genmake_hello.c  ./genmake_hello
473      tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`      cat >> genmake_hello.c << EOF
     tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`  
     tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`  
     tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`  
     tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`  
     PLATFORM=$tmp3  
     echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32  
     OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`  
     echo "  The platform appears to be:  $PLATFORM"  
       
     echo "test" > test  
     ln -s ./test link  
     RETVAL=$?  
     if test "x${RETVAL}" = x0 ; then  
         LN="ln -s"  
     else  
         echo "Error: \"ln -s\" does not appear to work on this system!"  
         echo "  For help, please contact <MITgcm-support@mitgcm.org>."  
         exit 1  
     fi  
     rm -f test link  
   
     if test "x$CPP" = x ; then  
         CPP="cpp -traditional -P"  
     fi  
   
     look_for_makedepend  
   
     #================================================================  
     #  look for possible C compilers  
     tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"  
     p_CC=  
     for c in $tmp ; do  
         rm -f ./genmake_hello.c  ./genmake_hello  
         cat >> genmake_hello.c << EOF  
474  #include <stdio.h>  #include <stdio.h>
475  int main(int argc, char **argv) {  int main(int argc, char **argv) {
476    printf("Hello!\n");    printf("Hello!\n");
477    return 0;    return 0;
478  }  }
479  EOF  EOF
480          $c -o genmake_hello genmake_hello.c > /dev/null 2>&1      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
481        p_CC=
482        for c in $tmp ; do
483            COMM="$c $CFLAGS -o genmake_hello genmake_hello.c"
484            echo $COMM >> $LOGFILE
485            $COMM >> $LOGFILE 2>&1
486          RETVAL=$?          RETVAL=$?
487          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
488                echo " $c test successful" >> $LOGFILE
489              p_CC="$p_CC $c"              p_CC="$p_CC $c"
490          fi          fi
491      done      done
# Line 354  Error: No C compilers were found in your Line 501  Error: No C compilers were found in your
501  EOF  EOF
502          exit 1          exit 1
503      else      else
504          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  
505          if test "x$CC" = x ; then          if test "x$CC" = x ; then
506              CC=`echo $p_CC | $AWK '{print $1}'`              CC=`echo $p_CC | $AWK '{print $1}'`
507              echo "  Setting C compiler to: "$CC              echo "  Setting C compiler to: "$CC
508          fi          fi
509      fi      fi
510        echo " --> set CC='$CC'" >> $LOGFILE
511    }
512    
513    # Guess possible config options for this host
514    find_possible_optfile()  {
515    
516        echo >> $LOGFILE
517        echo "running: find_possible_optfile()" >> $LOGFILE
518        tmp1=`uname`"_"`uname -m`
519        tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`
520        tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`
521        tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`
522        tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`
523        tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`
524        PLATFORM=$tmp3
525        echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
526        OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
527        echo "  The platform appears to be:  $PLATFORM" | tee -a $LOGFILE
528    
529      #================================================================      #================================================================
530      #  look for possible FORTRAN compilers      #  look for possible FORTRAN compilers
531      tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 gfortran g95"      echo "  look for possible FORTRAN compilers" >> $LOGFILE
532        tmp="$MITGCM_FC $FC efc gfortran g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 g95"
533      p_FC=      p_FC=
534      for c in $tmp ; do      rm -f ./genmake_hello.f
535          rm -f ./hello.f ./hello      cat >> genmake_hello.f <<EOF
         cat >> hello.f <<EOF  
536        program hello        program hello
537        do i=1,3        do i=1,3
538          print *, 'hello world : ', i          print *, 'hello world : ', i
539        enddo        enddo
540        end        end
541  EOF  EOF
542          $c -o hello hello.f > /dev/null 2>&1      for f in $tmp ; do
543            COMM="$f -o genmake_hello genmake_hello.f"
544            echo $COMM >> $LOGFILE
545            $COMM >> $LOGFILE 2>&1
546          RETVAL=$?          RETVAL=$?
547          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
548              p_FC="$p_FC $c"              echo " $f test successful" >> $LOGFILE
549                p_FC="$p_FC $f"
550          fi          fi
551      done      done
552      rm -f ./hello.f ./hello      rm -f ./genmake_hello.f ./genmake_hello
553      if test "x${p_FC}" = x ; then      if test "x${p_FC}" = x ; then
554          cat 1>&2 <<EOF          cat 1>&2 <<EOF
555    
# Line 394  Error: No Fortran compilers were found i Line 562  Error: No Fortran compilers were found i
562  EOF  EOF
563          exit 1          exit 1
564      else      else
565          echo "  The possible FORTRAN compilers found in your path are:"          echo "  The possible FORTRAN compilers found in your path are: $p_FC" | tee -a $LOGFILE
         echo "   "$p_FC  
566      fi      fi
567    
568      #  Use the first of the compilers found in the current PATH      #  Use the first of the compilers found in the current PATH
# Line 404  EOF Line 571  EOF
571          for i in $p_FC ; do          for i in $p_FC ; do
572              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
573              if test -r $OPTFILE ; then              if test -r $OPTFILE ; then
574                  echo "  Setting OPTFILE to: "$OPTFILE                  echo "  Setting OPTFILE to: "$OPTFILE | tee -a $LOGFILE
575                  break                  break
576              fi              fi
577          done          done
# Line 416  EOF Line 583  EOF
583               echo "  I looked for the file "$OPTFILE" but did not find it"               echo "  I looked for the file "$OPTFILE" but did not find it"
584          fi          fi
585      fi      fi
586  #    echo "  The options file:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #   for i in $p_FC ; do  
 #p_OF=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i  
 #if test -r $p_OF ; then  
 #    OPTFILE=$p_OF  
 #    echo "  The options file:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #    break  
 #fi  
 #   done  
587      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
588          cat 1>&2 <<EOF          cat 1>&2 <<EOF
589    
# Line 442  Error: No options file was found in:  $R Line 599  Error: No options file was found in:  $R
599  EOF  EOF
600          exit 1          exit 1
601      fi      fi
602        
603  #     # look for possible MPI libraries  #     # look for possible MPI libraries
604  #     mpi_libs=  #     mpi_libs=
605  #     mpi_fort=`which mpif77 2>/dev/null`  #     mpi_fort=`which mpif77 2>/dev/null`
# Line 461  EOF Line 618  EOF
618  #       if test "x${RETVAL}" = x0 ; then  #       if test "x${RETVAL}" = x0 ; then
619  #           a=`cat out`  #           a=`cat out`
620  #           for i in $a ; do  #           for i in $a ; do
621  #               case $i in  #               case $i in
622  #                   -*)  #                   -*)
623  #                       mpi_libs="$mpi_libs $i" ;;  #                       mpi_libs="$mpi_libs $i" ;;
624  #               esac  #               esac
# Line 471  EOF Line 628  EOF
628  #       fi  #       fi
629  #       rm -f test.f out  #       rm -f test.f out
630  #     fi  #     fi
   
631  }  }
632    
633  #  Parse the package dependency information  #  Parse the package dependency information
# Line 480  get_pdepend_list()  { Line 636  get_pdepend_list()  {
636      #  strip the comments and then convert the dependency file into      #  strip the comments and then convert the dependency file into
637      #  two arrays: PNAME, DNAME      #  two arrays: PNAME, DNAME
638      cat $1 | sed -e 's/#.*$//g' \      cat $1 | sed -e 's/#.*$//g' \
639          | $AWK 'BEGIN{nn=0;} (NF>0){ for(i=2;i<=NF;i++){nn++; print "PNAME["nn"]="$1"\nDNAME["nn"]="$i} }' \          | $AWK 'BEGIN{nn=-1;} (NF>0){ for(i=2;i<=NF;i++){nn++; print "PNAME_"nn"="$1"\nDNAME_"nn"="$i}} END{print "nname="nn}' \
640          > ./.pd_tmp          > ./.pd_tmp
641        RETVAL=$?
642        if test ! "x${RETVAL}" = x0 ; then
643          echo "Error: unable to parse package dependencies -- please check PKG_DEPEND=\"$1\""
644          exit 1
645        fi
646      . ./.pd_tmp      . ./.pd_tmp
647      rm -f ./.pd_tmp      rm -f ./.pd_tmp
   
     printf "PNAME = "${}  
 }  
   
   
 #  Explain usage  
 usage()  {  
 cat <<EOF  
   
 Usage: "$0" [OPTIONS]  
   where [OPTIONS] can be:  
   
     -help | --help | -h | --h  
           Print this help message and exit.  
   
     -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME  
       -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME  
           Use "NAME" as the adoptfile.  By default, the file at  
           "tools/adjoint_options/adjoint_default" will be used.  
   
     -nooptfile | --nooptfile  
       -optfile NAME | --optfile NAME | -of NAME | --of NAME  
       -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME  
           Use "NAME" as the optfile.  By default, an attempt will be  
           made to find an appropriate "standard" optfile in the  
           tools/build_options/ directory.  
   
     -pdepend NAME | --pdepend NAME  
       -pdepend=NAME | --pdepend=NAME  
           Get package dependency information from "NAME".  
   
     -pdefault NAME | --pdefault NAME  
       -pdefault=NAME | --pdefault=NAME  
           Get the default package list from "NAME".  
   
     -make NAME | -m NAME  
       --make=NAME | -m=NAME  
           Use "NAME" for the MAKE program. The default is "make" but  
           many platforms, "gmake" is the preferred choice.  
   
     -makefile NAME | -mf NAME  
       --makefile=NAME | -mf=NAME  
           Call the makefile "NAME".  The default is "Makefile".  
   
     -makedepend NAME | -md NAME  
       --makedepend=NAME | -md=NAME  
           Use "NAME" for the MAKEDEPEND program.  
   
     -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME  
       -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME  
           Specify the location of the MITgcm ROOTDIR as "NAME".  
           By default, genamke will try to find the location by  
           looking in parent directories (up to the 5th parent).  
   
     -mods NAME | --mods NAME | -mo NAME | --mo NAME  
       -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME  
           Here, "NAME" specifies a list of directories that are  
           used for additional source code.  Files found in the  
           "mods list" are given preference over files of the same  
           name found elsewhere.  
   
     -disable NAME | --disable NAME  
       -disable=NAME | --disable=NAME  
           Here "NAME" specifies a list of packages that we don't  
           want to use.  If this violates package dependencies,  
           genamke will exit with an error message.  
   
     -enable NAME | --enable NAME  
       -enable=NAME | --enable=NAME  
           Here "NAME" specifies a list of packages that we wish  
           to specifically enable.  If this violates package  
           dependencies, genamke will exit with an error message.  
   
     -standarddirs NAME | --standarddirs NAME  
       -standarddirs=NAME | --standarddirs=NAME  
           Here, "NAME" specifies a list of directories to be  
           used as the "standard" code.  
   
     -fortran NAME | --fortran NAME | -fc NAME | --fc NAME  
       -fc=NAME | --fc=NAME  
           Use "NAME" as the fortran compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as g77, f77, etc.  
   
     -cc NAME | --cc NAME | -cc=NAME | --cc=NAME  
           Use "NAME" as the C compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as gcc, c89, cc, etc.  
   
     -[no]ieee | --[no]ieee  
           Do or don't use IEEE numerics.  Note that this option  
           *only* works if it is supported by the OPTFILE that  
           is being used.  
   
     -ignoretime | -ignore_time | --ignoretime | --ignore_time  
           Ignore all the "wall clock" routines entirely.  This will  
           not in any way hurt the model results -- it simply means  
           that the code that checks how long the model spends in  
           various routines will give junk values.  
   
     -ts | --ts  
           Produce timing information per timestep  
     -papis | --papis  
           Produce summary MFlop/s (and IPC) with PAPI per timestep  
     -pcls | --pcls  
           Produce summary MFlop/s etc. with PCL per timestep  
     -foolad | --foolad  
           Fool the AD code generator  
     -papi | --papi  
           Performance analysis with PAPI  
     -pcl | --pcl  
           Performance analysis with PCL  
     -hpmt | --hpmt  
           Performance analysis with the HPM Toolkit  
   
     -gsl | --gsl  
           Use GSL to control floating point rounding and precision  
     -devel | --devel  
           Add additional warning and debugging flags for development  
   
     -mpi | --mpi  
           Include MPI header files and link to MPI libraries  
     -mpi=PATH | --mpi=PATH  
           Include MPI header files and link to MPI libraries using MPI_ROOT  
           set to PATH. i.e. Include files from \$PATH/include, link to libraries  
           from \$PATH/lib and use binaries from \$PATH/bin.  
   
     -es | --es | -embed-source | --embed-source  
           Embed a tarball containing the full source code  
           (including the Makefile, etc.) used to build the  
           executable [off by default]  
   
     -bash NAME  
           Explicitly specify the Bourne or BASH shell to use  
   
   While it is most often a single word, the "NAME" variables specified  
   above can in many cases be a space-delimited string such as:  
   
     --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'  
     -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'  
     -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'  
   
   which, depending upon your shell, may need to be single-quoted.  
   
   For more detailed genmake documentation, please see:  
   
     http://mitgcm.org/devel_HOWTO/  
   
 EOF  
   
     exit 1  
648  }  }
649    
650  #  Build a CPP macro to automate calling C routines from FORTRAN  #  Build a CPP macro to automate calling C routines from FORTRAN
# Line 644  get_fortran_c_namemangling()  { Line 654  get_fortran_c_namemangling()  {
654      if test ! "x$FC_NAMEMANGLE" = x ; then      if test ! "x$FC_NAMEMANGLE" = x ; then
655          return 0          return 0
656      fi      fi
657        echo " running: get_fortran_c_namemangling()" >> $LOGFILE
658    
659      default_nm="#define FC_NAMEMANGLE(X) X ## _"      default_nm="#define FC_NAMEMANGLE(X) X ## _"
660        
661      cat > genmake_test.c <<EOF      cat > genmake_test.c <<EOF
662  void tcall( char * string ) { tsub( string ); }  void tcall( char * string ) { tsub( string ); }
663  EOF  EOF
664      $MAKE genmake_test.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_test.c"
665        echo ' '$COMM >> $LOGFILE
666        $COMM >> $LOGFILE 2>&1
667      RETVAL=$?      RETVAL=$?
668      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
669          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
670          cat <<EOF>> genmake_errors          cat <<EOF>> $LOGFILE
671    
672  WARNING: C test compile fails   WARNING: C test compile fails
673  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
674  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
675  EOF  EOF
676          return 1          return 1
677      fi      fi
# Line 666  EOF Line 679  EOF
679      RETVAL=$?      RETVAL=$?
680      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
681          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
682          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
683    
684  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
685  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
686  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
687  EOF  EOF
688          return 1          return 1
689      fi      fi
# Line 680  EOF Line 693  EOF
693        call tsub( string )        call tsub( string )
694        end        end
695  EOF  EOF
696      $FC $FFLAGS -c genmake_tcomp.$FS >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -c genmake_tcomp.$FS"
697        echo ' '$COMM >> $LOGFILE
698        $COMM >> $LOGFILE 2>&1
699      RETVAL=$?      RETVAL=$?
700      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
701          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
702          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
703    
704  WARNING: FORTRAN test compile fails -- please see "genmake_errors"   WARNING: FORTRAN test compile fails -- please see '$LOGFILE'
705  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
706  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
707  EOF  EOF
708          return 1          return 1
709      fi      fi
# Line 696  EOF Line 711  EOF
711      RETVAL=$?      RETVAL=$?
712      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
713          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
714          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
715    
716  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
717  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
718  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
719  EOF  EOF
720          return 1          return 1
721      fi      fi
# Line 726  EOF Line 741  EOF
741    
742      #  cleanup the testing files      #  cleanup the testing files
743      rm -f genmake_tcomp.* genmake_test.*      rm -f genmake_tcomp.* genmake_test.*
 }  
744    
745        echo " --> set FC_NAMEMANGLE='$FC_NAMEMANGLE'" >> $LOGFILE
746    }
747    
748  check_HAVE_CLOC()  {  check_HAVE_CLOC()  {
749        echo >> $LOGFILE
750        echo "running: check_HAVE_CLOC()" >> $LOGFILE
751      get_fortran_c_namemangling      get_fortran_c_namemangling
752      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
753  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 747  void FC_NAMEMANGLE(cloc) ( double *curti Line 765  void FC_NAMEMANGLE(cloc) ( double *curti
765  }  }
766  EOF  EOF
767      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
768      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
769      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
770      RET_C=$?      RET_C=$?
771      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
772        program hello        program hello
# Line 759  EOF Line 777  EOF
777        end        end
778  EOF  EOF
779      COMM="$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"
780      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
781      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
782      RET_F=$?      RET_F=$?
783      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> $LOGFILE 2>&1
784      RETVAL=$?      RETVAL=$?
785      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
786          HAVE_CLOC=t          HAVE_CLOC=t
787          DEFINES="$DEFINES -DHAVE_CLOC"          DEFINES="$DEFINES -DHAVE_CLOC"
788      fi      fi
789      rm -f genmake_tc*      rm -f genmake_tc*
790        echo " --> set HAVE_CLOC='$HAVE_CLOC'" >> $LOGFILE
791  }  }
792    
   
793  check_HAVE_SIGREG()  {  check_HAVE_SIGREG()  {
794      if test ! "x$HAVE_SIGREG" = x ; then      if test ! "x$HAVE_SIGREG" = x ; then
795          return          return
796      fi      fi
797        echo >> $LOGFILE
798        echo "running: check_HAVE_SIGREG()" >> $LOGFILE
799      get_fortran_c_namemangling      get_fortran_c_namemangling
800      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
801  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 808  void FC_NAMEMANGLE(sigreg) (int * aip) Line 828  void FC_NAMEMANGLE(sigreg) (int * aip)
828  }  }
829  EOF  EOF
830      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
831      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
832      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
833      RET_C=$?      RET_C=$?
834      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
835        program hello        program hello
# Line 819  EOF Line 839  EOF
839        call sigreg(anint)        call sigreg(anint)
840        end        end
841  EOF  EOF
842      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SIGREG()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
843      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"
844      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
845      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
846      RETVAL=$?      RETVAL=$?
847      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
848          HAVE_SIGREG=t          HAVE_SIGREG=t
849          DEFINES="$DEFINES -DHAVE_SIGREG"          DEFINES="$DEFINES -DHAVE_SIGREG"
850      fi      fi
851      rm -f genmake_tc*      rm -f genmake_tc*
852        echo " --> set HAVE_SIGREG='$HAVE_SIGREG'" >> $LOGFILE
853  }  }
854    
   
855  check_HAVE_SETRLSTK()  {  check_HAVE_SETRLSTK()  {
856      if test "x$HAVE_SETRLSTK" = xt ; then      if test "x$HAVE_SETRLSTK" = xt ; then
857          DEFINES="$DEFINES -DHAVE_SETRLSTK"          DEFINES="$DEFINES -DHAVE_SETRLSTK"
# Line 842  check_HAVE_SETRLSTK()  { Line 860  check_HAVE_SETRLSTK()  {
860      if test ! "x$HAVE_SETRLSTK" = x ; then      if test ! "x$HAVE_SETRLSTK" = x ; then
861          return          return
862      fi      fi
863        echo >> $LOGFILE
864        echo "running: check_HAVE_SETRLSTK()" >> $LOGFILE
865      get_fortran_c_namemangling      get_fortran_c_namemangling
866      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
867  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 858  void FC_NAMEMANGLE(setrlstk) () Line 878  void FC_NAMEMANGLE(setrlstk) ()
878  }  }
879  EOF  EOF
880      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
881      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
882      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
883      RET_C=$?      RET_C=$?
884      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
885        program hello        program hello
# Line 867  EOF Line 887  EOF
887        call setrlstk()        call setrlstk()
888        end        end
889  EOF  EOF
890      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SETRLSTK()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
891      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"
892      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
893      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
894      RETVAL=$?      RETVAL=$?
895      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
896          HAVE_SETRLSTK=t          HAVE_SETRLSTK=t
897          DEFINES="$DEFINES -DHAVE_SETRLSTK"          DEFINES="$DEFINES -DHAVE_SETRLSTK"
898      fi      fi
899      rm -f genmake_tc*      rm -f genmake_tc*
900        echo " --> set HAVE_SETRLSTK='$HAVE_SETRLSTK'" >> $LOGFILE
901  }  }
902    
   
903  check_HAVE_STAT()  {  check_HAVE_STAT()  {
904        echo >> $LOGFILE
905        echo "running: check_HAVE_STAT()" >> $LOGFILE
906      get_fortran_c_namemangling      get_fortran_c_namemangling
907      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
908  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 904  void FC_NAMEMANGLE(tfsize) ( int *nbyte Line 924  void FC_NAMEMANGLE(tfsize) ( int *nbyte
924  }  }
925  EOF  EOF
926      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
927      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
928      $COMM >> genmake_tc.log 2>&1      $COMM >> genmake_tc.log 2>&1
929      RET_C=$?      RET_C=$?
930      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
# Line 914  EOF Line 934  EOF
934        print *," HELLO WORLD", nbyte        print *," HELLO WORLD", nbyte
935        end        end
936  EOF  EOF
937      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_STAT()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
938      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"
939      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
940      $COMM >> genmake_tc.log 2>&1      $COMM >> genmake_tc.log 2>&1
941      RETVAL=$?      RETVAL=$?
942      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
# Line 926  EOF Line 944  EOF
944          DEFINES="$DEFINES -DHAVE_STAT"          DEFINES="$DEFINES -DHAVE_STAT"
945      fi      fi
946      rm -f genmake_tc*      rm -f genmake_tc*
947        echo " --> set HAVE_STAT='$HAVE_STAT'" >> $LOGFILE
948  }  }
949    
   
950  check_netcdf_libs()  {  check_netcdf_libs()  {
951      if test ! "x$SKIP_NETCDF_CHECK" = x ; then      if test ! "x$SKIP_NETCDF_CHECK" = x ; then
952          return          return
953      fi      fi
954      echo >> genmake_warnings      echo >> $LOGFILE
955      echo "running: check_netcdf_libs()" >> genmake_warnings      echo "running: check_netcdf_libs()" >> $LOGFILE
956      cat <<EOF > genmake_tnc.F      cat <<EOF > genmake_tnc.F
957        program fgennc        program fgennc
958  #include "netcdf.inc"  #include "netcdf.inc"
# Line 952  EOF Line 970  EOF
970        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
971        end        end
972  EOF  EOF
973      echo "===  genmake_tnc.F  ===" > genmake_tnc.log      echo "===  genmake_tnc.F  >>>" > genmake_tnc.log
974      cat genmake_tnc.F >> genmake_tnc.log      cat genmake_tnc.F >> genmake_tnc.log
975      echo "===  genmake_tnc.F  ===" >> genmake_tnc.log      echo "<<<  genmake_tnc.F  ===" >> genmake_tnc.log
976      RET_CPP=f      RET_CPP=f
977      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"
978      echo "$COMM" >> genmake_tnc.log      echo "$COMM" >> genmake_tnc.log
# Line 970  EOF Line 988  EOF
988      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
989          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1
990      RET_COMPILE=$?      RET_COMPILE=$?
991      cat genmake_tnc.log >> genmake_warnings      cat genmake_tnc.log >> $LOGFILE
992    
993      #EH3  Remove test program execution for machines that either disallow      #EH3  Remove test program execution for machines that either disallow
994      #EH3  execution or cannot support it (eg. cross-compilers)      #EH3  execution or cannot support it (eg. cross-compilers)
# Line 981  EOF Line 999  EOF
999    
1000      if test "x$RET_COMPILE" = x0 ; then      if test "x$RET_COMPILE" = x0 ; then
1001          HAVE_NETCDF=t          HAVE_NETCDF=t
1002            echo "check_netcdf: successful" >> $LOGFILE
1003      else      else
1004          # try again with "-lnetcdf" added to the libs          # try again with "-lnetcdf" added to the libs
1005          echo "try again with added '-lnetcdf'" > genmake_tnc.log          echo "==> try again with added '-lnetcdf'" > genmake_tnc.log
1006          echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log          echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1007          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1008          echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log          echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
# Line 991  EOF Line 1010  EOF
1010              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1011              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1
1012          RET_COMPILE=$?          RET_COMPILE=$?
1013          cat genmake_tnc.log >> genmake_warnings          echo >> $LOGFILE
1014            cat genmake_tnc.log >> $LOGFILE
1015          if test "x$RET_COMPILE" = x0 ; then          if test "x$RET_COMPILE" = x0 ; then
1016              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
1017              HAVE_NETCDF=t              HAVE_NETCDF=t
1018                echo "check_netcdf: successful" >> $LOGFILE
1019          else          else
1020          # try again with "-lnetcdff" added to the libs          # try again with "-lnetcdff" added to the libs
1021              echo "try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log              echo "==> try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
1022              echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log              echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1023              echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log              echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1024              echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log              echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
# Line 1005  EOF Line 1026  EOF
1026                  &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \                  &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1027                  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1                  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
1028              RET_COMPILE=$?              RET_COMPILE=$?
1029              cat genmake_tnc.log >> genmake_warnings              echo >> $LOGFILE
1030                cat genmake_tnc.log >> $LOGFILE
1031              if test "x$RET_COMPILE" = x0 ; then              if test "x$RET_COMPILE" = x0 ; then
1032                  LIBS="$LIBS -lnetcdff -lnetcdf"                  LIBS="$LIBS -lnetcdff -lnetcdf"
1033                  HAVE_NETCDF=t                  HAVE_NETCDF=t
1034                    echo "check_netcdf: successful" >> $LOGFILE
1035              fi              fi
1036          fi          fi
1037      fi      fi
1038      rm -f genmake_tnc*      rm -f genmake_tnc*
1039        echo " --> set HAVE_NETCDF='$HAVE_NETCDF'" >> $LOGFILE
1040  }  }
1041    
1042    
   
1043  ###############################################################################  ###############################################################################
1044  #   Sequential part of script starts here  #   Sequential part of script starts here
1045  ###############################################################################  ###############################################################################
# Line 1038  ENABLE= Line 1061  ENABLE=
1061  DISABLE=  DISABLE=
1062  # MAKEFILE=  # MAKEFILE=
1063  # MAKEDEPEND=  # MAKEDEPEND=
1064  PDEPEND=  PKG_DEPEND=
1065  DUMPSTATE=t  PKG_GROUPS=
1066  PDEFAULT=  DUMPSTATE=f
1067  OPTFILE=  OPTFILE=
1068  INCLUDES="-I. $INCLUDES"  INCLUDES="-I. $INCLUDES"
1069  FFLAGS=  FFLAGS=
1070  FOPTIM=  FOPTIM=
1071  FEXTRAFLAGS=  FEXTRAFLAGS=
1072    USE_EXTENDED_SRC=
1073    EXTENDED_SRC_FLAG=
1074    GET_FC_VERSION=
1075  CFLAGS=  CFLAGS=
1076  KFLAGS1=  KFLAGS1=
1077  KFLAGS2=  KFLAGS2=
# Line 1056  NOOPTFILES= Line 1082  NOOPTFILES=
1082  NOOPTFLAGS=  NOOPTFLAGS=
1083  MPI=  MPI=
1084  MPIPATH=  MPIPATH=
1085    OMP=
1086    OMPFLAG=
1087    USE_R4=
1088  TS=  TS=
1089  PAPIS=  PAPIS=
1090  PCLS=  PCLS=
# Line 1099  MACHINE=`uname -a` Line 1128  MACHINE=`uname -a`
1128  EXECUTABLE=  EXECUTABLE=
1129  EXEHOOK=  EXEHOOK=
1130  EXEDIR=  EXEDIR=
 PACKAGES_CONF=  
1131  IEEE=  IEEE=
1132  if test "x$MITGCM_IEEE" != x ; then  if test "x$MITGCM_IEEE" != x ; then
1133      IEEE=$MITGCM_IEEE      IEEE=$MITGCM_IEEE
# Line 1120  FTL_TAF_FLAGS= Line 1148  FTL_TAF_FLAGS=
1148  SVD_TAMC_FLAGS=  SVD_TAMC_FLAGS=
1149  TAMC_EXTRA=  TAMC_EXTRA=
1150    
   
1151  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1152  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"  gm_s1="OPTFILE PKG_DEPEND PKG_GROUPS DISABLE ENABLE MAKEFILE MAKEDEPEND PLATFORM"
1153  gm_s2="FC CPP IEEE TS PAPIS PCLS PAPI PCL HPMT GSL DEVEL MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="FC CC MPI OMP USE_R4 TS PAPIS PCLS PAPI PCL HPMT IEEE DEVEL GSL FEXTRAFLAGS"
1154    gm_s3="ROOTDIR STANDARDDIRS MODS DUMPSTATE"
1155    
1156  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1157  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"  gm_s4="LN S64 LINK MAKE PACKAGES INCLUDES FFLAGS FOPTIM"
1158  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s5="CFLAGS LIBS KPP KFLAGS1 KFLAGS2 KPPFILES NOOPTFILES NOOPTFLAGS"
1159  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"  gm_s6="TOOLSDIR SOURCEDIRS INCLUDEDIRS EXEDIR EXECUTABLE EXEHOOK"
1160  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s7="PWD THISHOST THISUSER THISDATE THISVER MACHINE"
1161  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE HAVE_ETIME"  gm_s8="FC_NAMEMANGLE HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME"
1162    
1163  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1164  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"
1165  gm_s11="FTL_TAMC_FLAGS FTL_TAF_FLAGS SVD_TAMC_FLAGS SVD_TAF_FLAGS"  gm_s11="FTL_TAMC_FLAGS FTL_TAF_FLAGS SVD_TAMC_FLAGS SVD_TAF_FLAGS"
1166  gm_s12="TAF_EXTRA TAMC_EXTRA"  gm_s12="TAF_EXTRA TAMC_EXTRA"
1167    
1168  gm_state="COMMANDL $gm_s1 $gm_s2 $gm_s3 $gm_s4 $gm_s5 $gm_s6 $gm_s7"  gm_state="COMMANDL $gm_s1 $gm_s2 $gm_s3 $gm_s4 $gm_s5 $gm_s6 $gm_s7 $gm_s8"
1169  gm_state="$gm_state $gm_s10 $gm_s11 $gm_s12"  gm_state="$gm_state $gm_s10 $gm_s11 $gm_s12"
1170    
1171  cat <<EOF  cat <<EOF
1172    
1173  GENMAKE :  GENMAKE :
1174    
1175  A program for GENerating MAKEfiles for the MITgcm project.  For a  A program for GENerating MAKEfiles for the MITgcm project.
1176  quick list of options, use "genmake -h" or for more detail see:     For a quick list of options, use "genmake2 -h"
1177    or for more detail see the Developer's HOWTO manual at:
1178    http://mitgcm.org/devel_HOWTO/     http://mitgcm.org/public/docs.html
1179    
1180  EOF  EOF
1181    
1182    LOGFILE="genmake.log"
1183    #- clean-up previous genmake logfiles:
1184    rm -f genmake_state genmake_*optfile $LOGFILE
1185    
1186  echo "===  Processing options files and arguments  ==="  echo "===  Processing options files and arguments  ==="
1187  gm_local="genmake_local"  gm_local="genmake_local"
1188  printf "  getting local config information:  "  printf "  getting local config information:  "
# Line 1164  else Line 1196  else
1196  fi  fi
1197    
1198  #echo "$0::$1:$2:$3:$4:$5:$6:$7:"  #echo "$0::$1:$2:$3:$4:$5:$6:$7:"
 #OPTIONS=  
 #n=0  
 #for i ; do  
 #   echo "$i  $n"  
 #   setvar="OPTIONS[$n]='$i'"  
 #   #  echo "  $setvar"  
 #   eval "$setvar"  
 #   n=$(( $n + 1 ))  
 #done  
1199  #parse_options  #parse_options
1200  ac_prev=  ac_prev=
1201  for ac_option in "$@" ; do  for ac_option in "$@" ; do
# Line 1185  for ac_option in "$@" ; do Line 1208  for ac_option in "$@" ; do
1208          ac_prev=          ac_prev=
1209          continue          continue
1210      fi      fi
1211        
1212      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`
1213        
1214      case $ac_option in      case $ac_option in
1215                    
1216          -help | --help | -h | --h)          -help | --help | -h | --h)
# Line 1206  for ac_option in "$@" ; do Line 1229  for ac_option in "$@" ; do
1229              AD_OPTFILE=$ac_optarg ;;              AD_OPTFILE=$ac_optarg ;;
1230                    
1231          -pdepend | --pdepend)          -pdepend | --pdepend)
1232              ac_prev=PDEPEND ;;              ac_prev=PKG_DEPEND ;;
1233          -pdepend=* | --pdepend=*)          -pdepend=* | --pdepend=*)
1234              PDEPEND=$ac_optarg ;;              PKG_DEPEND=$ac_optarg ;;
1235                    
1236          -pdefault | --pdefault)          -pgroups | --pgroups)
1237              ac_prev=PDEFAULT ;;              ac_prev=PKG_GROUPS ;;
1238          -pdefault=* | --pdefault=*)          -pgroups=* | --pgroups=*)
1239              PDEFAULT=$ac_optarg ;;              PKG_GROUPS=$ac_optarg ;;
1240                    
1241          -make | --make | -m | --m)          -make | --make | -m | --m)
1242              ac_prev=MAKE ;;              ac_prev=MAKE ;;
# Line 1292  for ac_option in "$@" ; do Line 1315  for ac_option in "$@" ; do
1315          -fs90=* | --fs90=*)          -fs90=* | --fs90=*)
1316              FS90=$ac_optarg ;;              FS90=$ac_optarg ;;
1317                    
1318            -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
1319                USE_R4=true ;;
1320    
1321          -ieee | --ieee)          -ieee | --ieee)
1322              IEEE=true ;;              IEEE=true ;;
1323          -noieee | --noieee)          -noieee | --noieee)
1324              IEEE= ;;              echo "Warning: ignore option '$ac_option' (default is already without '-ieee')" ;;
1325            -devel | --devel)
1326                IEEE=true ; DEVEL=true ;;
1327            -gsl | --gsl)
1328                GSL=true ;;
1329    
1330          -ts | --ts)          -ts | --ts)
1331              TS=true ;;              TS=true ;;
# Line 1312  for ac_option in "$@" ; do Line 1342  for ac_option in "$@" ; do
1342          -hpmt | --hpmt)          -hpmt | --hpmt)
1343              HPMT=true ;;              HPMT=true ;;
1344    
         -gsl | --gsl)  
             GSL=true ;;  
   
         -devel | --devel)  
             DEVEL=true ;;  
   
1345          -mpi | --mpi)          -mpi | --mpi)
1346              MPI=true ;;              MPI=true ;;
1347          -mpi=* | --mpi=*)          -mpi=* | --mpi=*)
1348              MPIPATH=$ac_optarg              MPIPATH=$ac_optarg
1349              MPI=true ;;              MPI=true ;;
1350                    
1351  #       -jam | --jam)          -omp | --omp)
1352  #           JAM=1 ;;              OMP=true ;;
1353  #       -nojam | --nojam)          -omp=* | --omp=*)
1354  #           JAM=0 ;;              OMPFLAG=$ac_optarg
1355                OMP=true ;;
1356                    
1357          -ds | --ds)          -ds | --ds)
1358              DUMPSTATE=t ;;              DUMPSTATE=t ;;
1359                    
1360            -extra_flag | --extra_flag)
1361                ac_prev=FEXTRAFLAGS ;;
1362            -extra_flag=* | --extra_flag=*)
1363                FEXTRAFLAGS=$ac_optarg ;;
1364            
1365          -taf_extra | --taf_extra)          -taf_extra | --taf_extra)
1366              ac_prev=TAF_EXTRA ;;              ac_prev=TAF_EXTRA ;;
1367          -taf_extra=* | --taf_extra=*)          -taf_extra=* | --taf_extra=*)
# Line 1359  for ac_option in "$@" ; do Line 1389  for ac_option in "$@" ; do
1389              ;;              ;;
1390                    
1391      esac      esac
       
 done  
1392    
1393    done
1394    
1395  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1396      echo      echo
1397      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
1398      echo "  file.  This file format is no longer supported.  For directions on"      echo "  file.  This file format is no longer supported.  For directions on"
1399      echo "  how to setup and use the new \"genmake2\" script, please see:"      echo "  how to setup and use the new \"genmake2\" script, please see:"
1400      echo "    http://mitgcm.org/devel_HOWTO/"      echo "    http://mitgcm.org/public/devel_HOWTO/"
1401      echo "  and send an email to MITgcm-support@mitgcm.org if you need help."      echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
1402      echo "WARNING: ignore \"./.genmakerc\" and continue."      echo "WARNING: ignore \"./.genmakerc\" and continue."
1403      echo      echo
1404  fi  fi
1405    
1406  #  Find the MITgcm ${ROOTDIR}  #  Find the MITgcm ${ROOTDIR}
# Line 1383  if test "x${ROOTDIR}" = x ; then Line 1412  if test "x${ROOTDIR}" = x ; then
1412          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do
1413              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then
1414                  ROOTDIR=$d                  ROOTDIR=$d
1415                  printf "Warning:  ROOTDIR was not specified but there appears to be"                  printf "Warning: ROOTDIR was not specified ;"
1416                  echo " a copy of MITgcm at \"$ROOTDIR\" so we'll try it."                  echo " try using a local copy of MITgcm found at \"$ROOTDIR\""
1417                  break                  break
1418              fi              fi
1419          done          done
# Line 1402  if test ! -d ${ROOTDIR} ; then Line 1431  if test ! -d ${ROOTDIR} ; then
1431  fi  fi
1432    
1433  #  Find the MITgcm ${THISVER}  #  Find the MITgcm ${THISVER}
1434  if test -f "${ROOTDIR}/doc/tag-index" ; then  version_file="${ROOTDIR}/doc/tag-index"
1435      THISVER=`grep '^checkpoint' ${ROOTDIR}/doc/tag-index | head -1`  if test -f $version_file ; then
1436        THISVER=`$AWK '/^checkpoint/{print $1; exit}' $version_file`
1437    #-  remove ./BUILD_INFO.h file if older than version_file
1438        if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
1439            echo "  remove ./BUILD_INFO.h (older than ${version_file})"
1440            rm -f ./BUILD_INFO.h
1441        fi
1442  fi  fi
1443    
1444  if test "x$MAKEFILE" = x ; then  if test "x$MAKEFILE" = x ; then
1445      MAKEFILE="Makefile"      MAKEFILE="Makefile"
1446  fi  fi
1447    
1448  echo "  getting OPTFILE information:  "  echo "  getting OPTFILE information:"
1449  if test "x${OPTFILE}" = x ; then  if test "x${OPTFILE}" = x ; then
1450      if test "x$MITGCM_OF" = x ; then      if test "x$MITGCM_OF" = x ; then
1451          echo "Warning: no OPTFILE specified so we'll look for possible settings"          echo "Warning: no OPTFILE specified so we'll look for possible settings"
1452          printf "\n===  Searching for possible settings for OPTFILE  ===\n"          printf "\n===  Searching for possible settings for OPTFILE  ===\n"
1453          find_possible_configs          find_possible_optfile
1454      else      else
1455          OPTFILE=$MITGCM_OF          OPTFILE=$MITGCM_OF
1456      fi      fi
# Line 1430  if test "x$OPTFILE" != xNONE ; then Line 1465  if test "x$OPTFILE" != xNONE ; then
1465              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1466              exit 1              exit 1
1467          fi          fi
1468          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1469              cp -f $OPTFILE "genmake_optfile"              cp -f $OPTFILE "genmake_optfile"
1470          fi          fi
1471      else      else
# Line 1439  if test "x$OPTFILE" != xNONE ; then Line 1474  if test "x$OPTFILE" != xNONE ; then
1474      fi      fi
1475  fi  fi
1476    
1477  echo "  getting AD_OPTFILE information:  "  echo "  getting AD_OPTFILE information:"
1478  if test "x${AD_OPTFILE}" = x ; then  if test "x${AD_OPTFILE}" = x ; then
1479      if test "x$MITGCM_AD_OF" = x ; then      if test "x$MITGCM_AD_OF" = x ; then
1480          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_default          AD_OPTFILE=$ROOTDIR/tools/adjoint_options/adjoint_default
# Line 1457  if test "x${AD_OPTFILE}" != xNONE ; then Line 1492  if test "x${AD_OPTFILE}" != xNONE ; then
1492              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1493              exit 1              exit 1
1494          fi          fi
1495          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1496              cp -f $AD_OPTFILE "genmake_ad_optfile"              cp -f $AD_OPTFILE "genmake_ad_optfile"
1497          fi          fi
1498      else      else
# Line 1485  Error: no Fortran compiler: please speci Line 1520  Error: no Fortran compiler: please speci
1520  EOF  EOF
1521      exit 1      exit 1
1522  fi  fi
1523    if test "x$GET_FC_VERSION" != x ; then
1524      echo "Get compiler version using: $FC $GET_FC_VERSION" >> $LOGFILE
1525      ff=`echo $FC | sed 's/ .*//'` ; xx=`echo $ff | sed 's/^./& /' | sed 's/ .*//'`
1526      if test $xx != '/' ; then which $ff >> $LOGFILE ; fi
1527      $FC $GET_FC_VERSION > genmake_fc_vers1 2> genmake_fc_vers2
1528      if test -s genmake_fc_vers1 ; then
1529        cat genmake_fc_vers1 >> $LOGFILE
1530      else
1531        cat genmake_fc_vers2 >> $LOGFILE
1532      fi
1533      echo "<-- compiler version ----" >> $LOGFILE
1534      rm -f genmake_fc_vers1 genmake_fc_vers2
1535    fi
1536    
1537  if test "x$CC" = x ; then  if test "x$CC" = x ; then
1538      CC=cc      look_for_C_compilers
 #     cat <<EOF 1>&2  
 # Error: no C compiler: please specify using one of the following:  
 #   1) within the options file ("CC=...") as specified by "-of=OPTFILE"  
 #   2) the "-cc=XXX" command-line option  
 #   3) the "./genmake_local" file  
 # EOF  
 #     exit 1  
1539  fi  fi
1540    
1541  if test "x$LINK" = x ; then  if test "x$LINK" = x ; then
1542      LINK=$FC      LINK=$FC
1543  fi  fi
# Line 1502  if test "x$MAKE" = x ; then Line 1545  if test "x$MAKE" = x ; then
1545      MAKE="make"      MAKE="make"
1546  fi  fi
1547  if test "x$CPP" = x ; then  if test "x$CPP" = x ; then
1548      CPP=cpp      CPP="cpp -traditional -P"
1549  fi  fi
1550  #EH3 === UGLY ===  #EH3 === UGLY ===
1551  #  The following is an ugly little hack to check for $CPP in /lib/ and  #  The following is an ugly little hack to check for $CPP in /lib/ and
# Line 1529  EOF Line 1572  EOF
1572  else  else
1573      rm -f test_cpp      rm -f test_cpp
1574  fi  fi
1575    
1576  look_for_makedepend  look_for_makedepend
1577    
1578    #  Check that soft-link command is set and usable
1579  if test "x$LN" = x ; then  if test "x$LN" = x ; then
1580      LN="ln -s"      LN="ln -s"
1581  fi  fi
# Line 1539  RETVAL=$? Line 1585  RETVAL=$?
1585  if test "x$RETVAL" != x0 ; then  if test "x$RETVAL" != x0 ; then
1586      cat <<EOF 1>&2      cat <<EOF 1>&2
1587    
1588  Error: The command "ln -s" failed -- please specify a working soft-link  Error: The command "$LN" failed -- please specify a working soft-link
1589    command in the optfile.    command in the optfile.
1590    
1591  EOF  EOF
# Line 1559  if test ! "x$MPI" = x ; then Line 1605  if test ! "x$MPI" = x ; then
1605        echo "  Turning on MPI cpp macros"        echo "  Turning on MPI cpp macros"
1606        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"
1607  fi  fi
1608    if test ! "x$OMP" = x ; then
1609          echo "  Add OMPFLAG and turn on OpenMP cpp macros"
1610          FFLAGS="$FFLAGS $OMPFLAG"
1611          F90FLAGS="$F90FLAGS $OMPFLAG"
1612          DEFINES="$DEFINES -DUSE_OMP_THREADING"
1613    fi
1614    
1615    if test ! "x$USE_R4" = x ; then
1616          echo "  Turning on LET_RS_BE_REAL4 cpp flag"
1617          DEFINES="$DEFINES -DLET_RS_BE_REAL4"
1618    fi
1619    
1620  if test ! "x$TS" = x ; then  if test ! "x$TS" = x ; then
1621        echo "  Turning on timing per timestep"        echo "  Turning on timing per timestep"
# Line 1640  if test ! "x$GSL" = x ; then Line 1697  if test ! "x$GSL" = x ; then
1697        INCLUDES="$INCLUDES $GSLINC"        INCLUDES="$INCLUDES $GSLINC"
1698        LIBS="$LIBS $GSLLIB"        LIBS="$LIBS $GSLLIB"
1699  fi  fi
1700    #- if USE_EXTENDED_SRC is set, add EXTENDED_SRC_FLAG to FFLAGS :
1701    if test ! "x$USE_EXTENDED_SRC" = x ; then
1702          FFLAGS="$FFLAGS $EXTENDED_SRC_FLAG"
1703          F90FIXEDFORMAT="$F90FIXEDFORMAT $EXTENDED_SRC_FLAG"
1704    fi
1705    
1706  printf "\n===  Checking system libraries  ===\n"  printf "\n===  Checking system libraries  ===\n"
1707  printf "  Do we have the system() command using $FC...  "  printf "  Do we have the system() command using $FC...  "
# Line 1760  if test "x$EMBED_SRC" = xt ; then Line 1822  if test "x$EMBED_SRC" = xt ; then
1822      ENABLE="$ENABLE embed_files"      ENABLE="$ENABLE embed_files"
1823  fi  fi
1824    
   
1825  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
1826  printf "  Adding MODS directories:  "  printf "  Adding MODS directories: "
1827  for d in $MODS ; do  for d in $MODS ; do
1828      if test ! -d $d ; then      if test ! -d $d ; then
1829          echo          echo
1830          echo "Error: MODS directory \"$d\" not found!"          echo "Error: MODS directory \"$d\" not found!"
1831          exit 1          exit 1
1832      else      else
1833          printf " $d"          printf "$d "
1834          SOURCEDIRS="$SOURCEDIRS $d"          SOURCEDIRS="$SOURCEDIRS $d"
1835          INCLUDEDIRS="$INCLUDEDIRS $d"          INCLUDEDIRS="$INCLUDEDIRS $d"
1836      fi      fi
1837  done  done
1838  echo  echo
1839    
1840  if test "x${PLATFORM}" = x ; then  #if test "x${PLATFORM}" = x ; then
1841      PLATFORM=$p_PLATFORM  #    PLATFORM=$p_PLATFORM
1842  fi  #fi
1843    
1844  if test "x${EXEDIR}" = x ; then  if test "x${EXEDIR}" = x ; then
1845      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
# Line 1818  ERROR: neither of the two default script Line 1879  ERROR: neither of the two default script
1879      ${TOOLSDIR}/set64bitConst.sh      ${TOOLSDIR}/set64bitConst.sh
1880      ${TOOLSDIR}/set64bitConst.csh      ${TOOLSDIR}/set64bitConst.csh
1881    
1882    are working so please check paths or specify (with \$S64) a    are working so please check paths or specify (with \$S64) a
1883    working version of this script.    working version of this script.
1884    
1885  EOF  EOF
# Line 1830  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD Line 1891  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD
1891    
1892  EXECUTABLE=${EXECUTABLE:-mitgcmuv}  EXECUTABLE=${EXECUTABLE:-mitgcmuv}
1893    
1894    #  Set Standard Code Directories:
1895    if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then
1896        STANDARDDIRS="eesupp model"
1897    fi
1898    #  if model in Standard-Code-Dir, add eesupp (needed to compile model)
1899    echo " $STANDARDDIRS " | grep ' model ' > /dev/null 2>&1
1900    ckM=$?
1901    echo " $STANDARDDIRS " | grep ' eesupp ' > /dev/null 2>&1
1902    ckE=$?
1903    if test $ckM = 0 -a $ckE = 1 ; then
1904        STANDARDDIRS="$STANDARDDIRS eesupp"
1905    fi
1906    
1907  #  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
1908  #  generated from some template source files. We'll make them first so  #  generated from some template source files. We'll make them first so
1909  #  they appear as regular source code  #  they appear as regular source code
1910  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then
1911      echo "  Making source files in eesupp from templates"      echo "  Making source files in eesupp from templates"
1912      ( cd $ROOTDIR"/eesupp/src/" && $MAKE ) > make_eesupp.errors 2>&1      ( cd $ROOTDIR"/eesupp/src/" && $MAKE clean_old && $MAKE \
1913        ) > make_eesupp.errors 2>&1
1914      RETVAL=$?      RETVAL=$?
1915      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
1916          rm -f make_eesupp.errors          rm -f make_eesupp.errors
# Line 1850  fi Line 1925  fi
1925  for pdir in exch2 regrid ; do  for pdir in exch2 regrid ; do
1926      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then
1927          echo "  Making source files in pkg/${pdir} from templates"          echo "  Making source files in pkg/${pdir} from templates"
1928          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE ) > make_${pdir}.errors 2>&1          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE clean_old && $MAKE \
1929            ) > make_${pdir}.errors 2>&1
1930          RETVAL=$?          RETVAL=$?
1931          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
1932              rm -f make_${pdir}.errors              rm -f make_${pdir}.errors
# Line 1863  for pdir in exch2 regrid ; do Line 1939  for pdir in exch2 regrid ; do
1939  done  done
1940    
1941  printf "\n===  Determining package settings  ===\n"  printf "\n===  Determining package settings  ===\n"
1942  if  test "x${PDEPEND}" = x ; then  if  test "x${PKG_DEPEND}" = x ; then
1943      tmp=$ROOTDIR"/pkg/pkg_depend"      tmp=$ROOTDIR"/pkg/pkg_depend"
1944      if test -r $tmp ; then      if test -r $tmp ; then PKG_DEPEND=$tmp ; fi
1945          PDEPEND=$tmp  fi
1946      else  if  test "x${PKG_DEPEND}" = x ; then
1947          echo "Warning:  No package dependency information was specified."          echo "Warning:  No package dependency information was specified."
1948          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."
     fi  
1949  else  else
1950      if test ! -r ${PDEPEND} ; then      if test ! -r ${PKG_DEPEND} ; then
1951          echo "Error:  can't read package dependency info from PDEPEND=\"$PDEPEND\""          echo "Error:  can't read package dependency info from PKG_DEPEND=\"$PKG_DEPEND\""
1952          exit 1          exit 1
1953      fi      fi
1954        echo "  getting package dependency info from  $PKG_DEPEND"
1955    #  Strip the comments and then convert the dependency file into arrays: PNAME, DNAME
1956        get_pdepend_list $PKG_DEPEND
1957  fi  fi
1958  echo "  getting package dependency info from  $PDEPEND"  
1959  #  Strip the comments and then convert the dependency file into  # A default package groups file "$ROOTDIR/pkg/pkg_groups" is provided
1960  #  two arrays: PNAME, DNAME  #  to define the "default_pkg_list" and package groups (for convenience, one
1961  cat $PDEPEND | sed -e 's/#.*$//g' \  #  can specify a group of packages using names like "ocean" and "atmosphere").
1962      | $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${PKG_GROUPS}" = x ; then
1963      > ./.pd_tmp      tmp=$ROOTDIR"/pkg/pkg_groups"
1964  RETVAL=$?      if test -r $tmp ; then PKG_GROUPS=$tmp ; fi
1965  if test ! "x${RETVAL}" = x0 ; then  fi
1966      echo "Error: unable to parse package dependencies -- please check PDEPEND=\"$PDEPEND\""  if test "x${PKG_GROUPS}" = x ; then
1967      exit 1          echo "Warning:  No package groups information was specified."
1968            echo "  Please check that ROOTDIR/pkg/pkg_groups exists."
1969    else
1970        if test ! -r ${PKG_GROUPS} ; then
1971            echo "Error:  can't read package groups info from PKG_GROUPS=\"$PKG_GROUPS\""
1972            exit 1
1973        fi
1974        echo "  getting package groups info from      $PKG_GROUPS"
1975  fi  fi
 . ./.pd_tmp  
 rm -f ./.pd_tmp  
1976    
1977  #  Search for default packages.  Note that a "$ROOTDIR/pkg/pkg_groups"  #  Search for packages to compile.
1978  #  file should eventually be added so that, for convenience, one can  echo "  checking list of packages to compile:"
1979  #  specify groups of packages using names like "ocean" and "atmosphere".  PKG_LIST=
1980  echo "  checking default package list:  "  if test "x${PKG_LIST}" = x ; then
 if test "x${PDEFAULT}" = x ; then  
1981      for i in "." $MODS ; do      for i in "." $MODS ; do
1982          if test -r $i"/packages.conf" ; then          if test -r $i"/packages.conf" ; then
1983                  PDEFAULT=$i"/packages.conf"                  PKG_LIST=$i"/packages.conf"
1984                  break                  break
1985          fi          fi
1986      done      done
1987  fi  fi
1988  if test "x${PDEFAULT}" = x ; then  if test "x${PKG_LIST}" = x ; then
1989      PDEFAULT="$ROOTDIR/pkg/pkg_default"      pkg_list='default_pkg_list'
1990  fi      if test "x${PKG_GROUPS}" = x ; then
1991  if test "x${PDEFAULT}" = xNONE ; then          echo "Error:  need package groups info to expand pkg_list=\"$pkg_list\""
1992      echo "    default packages file disabled"          exit 1
1993        fi
1994  else  else
1995      if test ! -r $PDEFAULT ; then      if test ! -r $PKG_LIST ; then
1996          echo "Warning:  can't read default packages from PDEFAULT=\"$PDEFAULT\""          echo "Error:  can't read package list from PKG_LIST=\"$PKG_LIST\""
1997            exit 1
1998      else      else
1999          echo "    using PDEFAULT=\"$PDEFAULT\""          echo "    using PKG_LIST=\"$PKG_LIST\""
2000          #  Strip the comments and add all the names          #  Strip the comments and add all the names
2001          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 $0}'`
2002          RETVAL=$?          RETVAL=$?
2003          if test "x${RETVAL}" != x0 ; then          if test "x${RETVAL}" != x0 ; then
2004              printf "Error: can't parse default package list "              printf "Error: can't parse package list "
2005              echo "-- please check PDEFAULT=\"$PDEFAULT\""              echo "-- please check PKG_LIST=\"$PKG_LIST\""
2006              exit 1              exit 1
2007          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"  
2008      fi      fi
2009  fi  fi
2010    for i in $pkg_list ; do
2011        PACKAGES="$PACKAGES $i"
2012    done
2013    echo     "    before group expansion packages are:$PACKAGES"
2014    if test "x${PKG_GROUPS}" != x ; then
2015        RET=1
2016        while test $RET = 1 ; do expand_pkg_groups; RET=$?; done
2017        echo "    after group expansion packages are: $PACKAGES"
2018    fi
2019    
2020  echo "  applying DISABLE settings"  echo "  applying DISABLE settings"
2021    echo "" > ./.tmp_pack
2022  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2023      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
2024  done  done
# Line 1959  PACKAGES="$PACKAGES $ENABLE" Line 2046  PACKAGES="$PACKAGES $ENABLE"
2046  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2047      j=`echo $i | sed 's/[-+]//'`      j=`echo $i | sed 's/[-+]//'`
2048      if test ! -d "$ROOTDIR/pkg/$j" ; then      if test ! -d "$ROOTDIR/pkg/$j" ; then
2049          echo "Error: can't find package $i at \"$ROOTDIR/pkg/$i\""          echo "Error: dir '$ROOTDIR/pkg/$i' missing for package '$i'"
2050          exit 1          exit 1
2051      fi      fi
2052      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
# Line 1969  for i in `grep -v "-" ./.tmp_pack | sort Line 2056  for i in `grep -v "-" ./.tmp_pack | sort
2056      PACKAGES="$PACKAGES $i"      PACKAGES="$PACKAGES $i"
2057  done  done
2058  rm -f ./.tmp_pack  rm -f ./.tmp_pack
2059  echo "    packages are:  $PACKAGES"  echo "    packages are: $PACKAGES"
2060    
2061  #  Check for package MNC: if NetCDF is available, then build the MNC  #  Check for package MNC: if NetCDF is available, then build the MNC
2062  #  template files ; otherwise, delete mnc from the list of packages.  #  template files ; otherwise, delete mnc from the list of packages.
2063  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1  echo " $PACKAGES " | grep ' mnc ' > /dev/null 2>&1
2064  RETVAL=$?  mnc_in=$?
2065  if test "x$RETVAL" = x0 ; then  if test "x$HAVE_NETCDF" != xt ; then
2066      if test "x$HAVE_NETCDF" != xt ; then      if test "x$mnc_in" = x0 ; then
2067          cat <<EOF          cat <<EOF
   
2068  *********************************************************************  *********************************************************************
2069  WARNING: the "mnc" package was enabled but tests failed to compile  WARNING: the "mnc" package was enabled but tests failed to compile
2070    NetCDF applications.  Please check that:    NetCDF applications.  Please check that:
2071    
2072    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2073    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2074         NetCDF library to link against.         NetCDF library to link against.
2075    
2076    Due to this failure, the "mnc" package is now DISABLED.    Due to this failure, the "mnc" package is now DISABLED.
2077  *********************************************************************  *********************************************************************
   
2078  EOF  EOF
2079          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`
2080          DISABLE="$DISABLE mnc"          DISABLE="$DISABLE mnc"
2081      else      else
2082          ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1      #  this prevent to add mnc (due to pdepend rules) if not available
2083          RETVAL=$?          DISABLE="$DISABLE mnc"
2084          if test "x${RETVAL}" = x0 ; then      fi
2085              rm -f make_mnc.errors  else
2086        # we have NetCDF, we try to build MNC template files
2087        ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1
2088        RETVAL=$?
2089        if test "x${RETVAL}" = x0 ; then
2090            rm -f make_mnc.errors
2091        else
2092            echo "Error: problem encountered while building source files in pkg/mnc:"
2093            cat make_mnc.errors 1>&2
2094            if test "x$mnc_in" = x0 ; then
2095                exit 1
2096          else          else
2097              echo "Error: problem encountered while building source files in pkg/mnc:"              DISABLE="$DISABLE mnc"
             cat make_mnc.errors 1>&2  
             exit 1  
2098          fi          fi
2099      fi      fi
2100  fi  fi
2101    
2102  #  Check for package PROFILES: if NetCDF is not available,  #  Check for package PROFILES: if NetCDF is not available,
2103  #  then delete profiles from the list of available packages.  #  then delete profiles from the list of available packages.
2104  echo $PACKAGES | grep ' profiles ' > /dev/null 2>&1  if test "x$HAVE_NETCDF" != xt ; then
2105  RETVAL=$?      echo " $PACKAGES " | grep ' profiles ' > /dev/null 2>&1
2106  if test "x$RETVAL" = x0 ; then      RETVAL=$?
2107      if test "x$HAVE_NETCDF" != xt ; then      if test "x$RETVAL" = x0 ; then
2108          cat <<EOF          cat <<EOF
   
2109  *********************************************************************  *********************************************************************
2110  WARNING: the "profiles" package was enabled but tests failed to  WARNING: the "profiles" package was enabled but tests failed to
2111    compile NetCDF applications.  Please check that:    compile NetCDF applications.  Please check that:
2112    
2113    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2114    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2115         NetCDF library to link against.         NetCDF library to link against.
2116    
2117    Due to this failure, the "profiles" package is now DISABLED.    Due to this failure, the "profiles" package is now DISABLED.
2118  *********************************************************************  *********************************************************************
   
2119  EOF  EOF
2120          PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
2121          DISABLE="$DISABLE profiles"          DISABLE="$DISABLE profiles"
2122        else
2123        #  this prevent to add profiles (due to pdepend rules) if not available
2124            DISABLE="$DISABLE profiles"
2125      fi      fi
2126  fi  fi
2127    
2128  echo "  applying package dependency rules"  if  test "x${PKG_DEPEND}" != x ; then
2129  ck=    echo "  applying package dependency rules"
2130  while test "x$ck" != xtt ; do    ck=
2131      while test "x$ck" != xtt ; do
2132      i=0      i=0
2133      # rtot=${#PNAME[@]}      # rtot=${#PNAME[@]}
2134      rtot=$nname      rtot=$nname
# Line 2049  while test "x$ck" != xtt ; do Line 2144  while test "x$ck" != xtt ; do
2144                  pin="t"                  pin="t"
2145              fi              fi
2146          done          done
2147            #  or in the current $STANDARDDIRS list?
2148            for p in $STANDARDDIRS ; do
2149                if test "x$p" = "x$pname" ; then pin="t" ; fi
2150            done
2151    
2152          #  Is the DNAME entry a (+) or (-) rule ?          #  Is the DNAME entry a (+) or (-) rule ?
2153          tmp="dname=\"\$DNAME_$i\""          tmp="dname=\"\$DNAME_$i\""
# Line 2092  while test "x$ck" != xtt ; do Line 2191  while test "x$ck" != xtt ; do
2191          #  Do we need to get rid of $dname according to the dependency rules?          #  Do we need to get rid of $dname according to the dependency rules?
2192          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then
2193              echo "Error: can't satisfy package dependencies:"              echo "Error: can't satisfy package dependencies:"
2194              echo "  \"$pname\" was requested but is disallowed by"              echo "  \"$pname\" was requested but is disallowed by"
2195              echo "  the dependency rules for \"$dname\""              echo "  the dependency rules for \"$dname\""
2196              exit 1              exit 1
2197          fi          fi
# Line 2100  while test "x$ck" != xtt ; do Line 2199  while test "x$ck" != xtt ; do
2199          #i=$(( $i + 1 ))          #i=$(( $i + 1 ))
2200      done      done
2201      ck=$ck"t"      ck=$ck"t"
2202  done    done
2203  echo "    packages are:  $PACKAGES"    echo "    packages are: $PACKAGES"
2204    fi
2205  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2206      adr="$ROOTDIR/pkg/$i"      adr="$ROOTDIR/pkg/$i"
2207      if test -d $adr ; then      if test -d $adr ; then
# Line 2118  done Line 2218  done
2218    
2219  # Create a list of #define and #undef to enable/disable packages  # Create a list of #define and #undef to enable/disable packages
2220  PACKAGES_DOT_H=PACKAGES_CONFIG.h  PACKAGES_DOT_H=PACKAGES_CONFIG.h
2221  #  The following UGLY HACK sets multiple "#undef"s and it needs to go  #  The following UGLY HACK sets multiple "#undef"s and it needs to go
2222  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h
2223  #  file would eventually be split up so that all package-related #define  #  file would eventually be split up so that all package-related #define
2224  #  statements could be separated and handled only by genmake.  #  statements could be separated and handled only by genmake.
2225  names=`ls -1 "$ROOTDIR/pkg"`  names=`ls -1 "$ROOTDIR/pkg"`
# Line 2147  for i in $PACKAGES ; do Line 2247  for i in $PACKAGES ; do
2247  #eh3 DEFINES="$DEFINES -D$def"  #eh3 DEFINES="$DEFINES -D$def"
2248    
2249  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!
2250      case $i in      case $i in
2251          aim_v23)          aim_v23)
2252              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"
2253              echo "Warning: ALLOW_AIM is set to enable aim_v23."              echo "Warning: ALLOW_AIM is set to enable aim_v23."
# Line 2157  for i in $PACKAGES ; do Line 2257  for i in $PACKAGES ; do
2257    
2258  done  done
2259    
2260  echo "  Adding STANDARDDIRS"  echo "  Adding STANDARDDIRS='$STANDARDDIRS'"
2261  BUILDDIR=${BUILDDIR:-.}  BUILDDIR=${BUILDDIR:-.}
 if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then  
     STANDARDDIRS="eesupp model"  
 fi  
2262  if test "x$STANDARDDIRS" != x ; then  if test "x$STANDARDDIRS" != x ; then
2263      for d in $STANDARDDIRS ; do      for d in $STANDARDDIRS ; do
2264          adr="$ROOTDIR/$d/src"          adr="$ROOTDIR/$d/src"
# Line 2216  fi Line 2313  fi
2313    
2314  #  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
2315  #  compiler.  #  compiler.
2316  if test -f ./ad_files ; then  if test -f ./adSrcFiles.tmp ; then
2317      rm -f ./ad_files      rm -f ./adSrcFiles.tmp
2318  fi  fi
2319  echo "  Creating the list of files for the adjoint compiler."  echo "  Creating the list of files for the adjoint compiler."
2320    touch adSrcFiles.tmp
2321  for i in $SOURCEDIRS ; do  for i in $SOURCEDIRS ; do
2322      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
2323      for j in $list_files ; do      for j in $list_files ; do
2324          cat $i/$j >> ad_files          cat $i/$j >> adSrcFiles.tmp
2325      done      done
2326  done  done
2327  if test ! "x"$FS = "x.f" ; then  if test ! "x"$FS = "x.f" ; then
2328      cat ad_files | sed -e "s/\.f/.$FS/g" > ad_files_f      cat adSrcFiles.tmp | sed -e "s/\.f/.$FS/g" > adSrcFiles.tmp_f
2329      mv -f ad_files_f ad_files      mv -f adSrcFiles.tmp_f adSrcFiles.tmp
2330  fi  fi
2331    
2332  echo  echo
# Line 2252  if test ! "x$DIVA" = x ; then Line 2350  if test ! "x$DIVA" = x ; then
2350          fi          fi
2351          MPIINCLUDEDIR='$MPIHOME/include'          MPIINCLUDEDIR='$MPIHOME/include'
2352      fi      fi
2353        
2354      if test -r $MPIINCLUDEDIR/mpif.h ; then      if test -r $MPIINCLUDEDIR/mpif.h ; then
2355          for i in $MPI_HEADER_FILES; do          for i in $MPI_HEADER_FILES; do
2356              cp -p $MPIINCLUDEDIR/$i ./mpi_headers              cp -p $MPIINCLUDEDIR/$i ./mpi_headers
# Line 2286  if test ! -r ".links.tmp/foo" ; then Line 2384  if test ! -r ".links.tmp/foo" ; then
2384      exit 1      exit 1
2385  fi  fi
2386  rm -f .links.tmp/foo  rm -f .links.tmp/foo
2387    
2388    if test "x$OPENAD" != x ; then
2389        OAD_DONT_COMPILE="/dev/null"
2390        OAD_DONT_TRANSFORM="/dev/null"
2391        OAD_KEEP_ORIGINAL="/dev/null"
2392        OAD_CB2M_FILES="/dev/null"
2393        echo "  looking for dontCompile file:  "
2394        for i in "." $MODS ; do
2395            if test -r $i"/dontCompile" ; then
2396                OAD_DONT_COMPILE=$i"/dontCompile"
2397                echo "     found $OAD_DONT_COMPILE"
2398                break
2399            fi
2400        done
2401        echo "  looking for dontTransform file:  "
2402        for i in "." $MODS ; do
2403            if test -r $i"/dontTransform" ; then
2404                OAD_DONT_TRANSFORM=$i"/dontTransform"
2405                echo "     found $OAD_DONT_TRANSFORM"
2406                break
2407            fi
2408        done
2409        echo "  looking for keepOriginal file:  "
2410        for i in "." $MODS ; do
2411            if test -r $i"/keepOriginal" ; then
2412                OAD_KEEP_ORIGINAL=$i"/keepOriginal"
2413                echo "     found $OAD_KEEP_ORIGINAL"
2414                break
2415            fi
2416        done
2417        echo "  looking for cb2mFiles:  "
2418        for i in "." $MODS ; do
2419            if test -r $i"/cb2mFiles" ; then
2420                OAD_CB2M_FILES=$i"/cb2mFiles"
2421                echo "     found $OAD_CB2M_FILES"
2422                break
2423            fi
2424        done
2425        echo "   OpenAD exceptions:  "
2426    fi
2427    
2428  echo "# This section creates symbolic links" > srclinks.tmp  echo "# This section creates symbolic links" > srclinks.tmp
2429  echo "" >> srclinks.tmp  echo "" >> srclinks.tmp
2430  printf 'SRCFILES = '    > srclist.inc  printf 'F77_SRC_FILES = ' > F77srclist.tmp
2431  printf 'CSRCFILES = '   > csrclist.inc  printf 'NON_AD_F77_SRC_FILES = ' > nonADF77srclist.tmp
2432  printf 'F90SRCFILES = ' > f90srclist.inc  printf 'C_SRC_FILES = '   > csrclist.tmp
2433  printf 'HEADERFILES = ' > hlist.inc  printf 'F90_SRC_FILES = ' > F90srclist.tmp
2434  printf 'AD_FLOW_FILES = ' > ad_flow_files.inc  printf 'H_SRC_FILES = '   > hsrclist.tmp
2435    printf 'AD_FLOW_FILES = ' > ad_flow_files.tmp
2436  alldirs="$SOURCEDIRS $INCLUDEDIRS ."  alldirs="$SOURCEDIRS $INCLUDEDIRS ."
2437  for d in $alldirs ; do  for d in $alldirs ; do
2438      deplist=      deplist=
2439      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
2440      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
2441        if test "x$OPENAD" != x ; then
2442            sfiles=`( echo $sfiles | grep -v _cb2m\. )`
2443        fi
2444      for sf in $sfiles ; do      for sf in $sfiles ; do
2445          if test ! -r ".links.tmp/$sf" ; then          if test ! -r ".links.tmp/$sf" ; then
2446              if test -f "$d/$sf" ; then              if test -f "$d/$sf" ; then
# Line 2332  for d in $alldirs ; do Line 2475  for d in $alldirs ; do
2475                  if test "x$ignore_f" = xf ; then                  if test "x$ignore_f" = xf ; then
2476                      extn=`echo $sf | $AWK -F. '{print $NF}'`                      extn=`echo $sf | $AWK -F. '{print $NF}'`
2477                      case $extn in                      case $extn in
2478                          F)                        F)
2479                              echo    " \\"  >> srclist.inc                          echo    " \\"  >> F77srclist.tmp
2480                              printf " $sf" >> srclist.inc                          printf " $sf" >> F77srclist.tmp
2481                              ;;                          if test "x$OPENAD" != x ; then
2482                          F90)                              basename=${sf%%.F}
2483                              echo    " \\"  >> f90srclist.inc                              isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`
2484                              printf " $sf" >> f90srclist.inc                              if test -z "$isAD" ; then
2485                              ;;                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
2486                          c)                                  if test -z "$toBeIgnored" ; then
2487                              echo    " \\"  >> csrclist.inc                                      echo    " \\"  >> nonADF77srclist.tmp
2488                              printf " $sf" >> csrclist.inc                                      printf " $sf" >> nonADF77srclist.tmp
2489                              ;;                                  else
2490                          h)                                      echo "    not to be compiled   :  $sf"
2491                              echo    " \\"  >> hlist.inc                                  fi
2492                              printf " $sf" >> hlist.inc                              else # file is initially listed as an AD file we want to exclude it
2493                              ;;                                   # or we want to retain the untransformed version
2494                          flow)                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
2495                              echo    " \\"  >> ad_flow_files.inc                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
2496                              printf " $sf" >> ad_flow_files.inc                                  if test -n "$notToBeTransformed"; then
2497                              ;;                                      echo "    not to be transformed:  $sf"
2498                      esac                                  fi
2499                  fi                                  if test -n "$untransformedVersionToBeKept" ; then
2500                                        echo "    original to be kept  :  $sf"
2501                                    fi
2502                                    if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
2503                                        echo    " \\"  >> nonADF77srclist.tmp
2504                                        printf " $sf" >> nonADF77srclist.tmp
2505                                    fi
2506                                fi
2507                            fi
2508                            ;;
2509                        F90)
2510                            echo    " \\"  >> F90srclist.tmp
2511                            printf " $sf" >> F90srclist.tmp
2512                            ;;
2513                        c)
2514                            echo    " \\"  >> csrclist.tmp
2515                            printf " $sf" >> csrclist.tmp
2516                            ;;
2517                        h)
2518                            echo    " \\"  >> hsrclist.tmp
2519                            printf " $sf" >> hsrclist.tmp
2520                            ;;
2521                        flow)
2522                            echo    " \\"  >> ad_flow_files.tmp
2523                            printf " $sf" >> ad_flow_files.tmp
2524                            ;;
2525                       esac
2526                    fi
2527              fi              fi
2528          fi          fi
2529      done      done
2530      if test "x$deplist" != x ; then      if test "x$deplist" != x ; then
2531          echo "" >> srclinks.tmp        if test "$d" != "." ; then
2532            echo "" >> srclinks.tmp
2533          echo "#  These files are linked from $d" >> srclinks.tmp          echo "#  These files are linked from $d" >> srclinks.tmp
2534          echo "$deplist :" >> srclinks.tmp          echo "$deplist :" >> srclinks.tmp
2535  # We need to make sure that the link isn't already there.  # We need to make sure that the link isn't already there.
2536  # This may happen when make thinks that a header file has to be "remade"  # This may happen when make thinks that a header file has to be "remade"
2537  # because a module it depends on has changed.  In this case we do nothing.  # because a module it depends on has changed.  In this case we do nothing.
2538          printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp          printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp
2539          fi
2540      fi      fi
2541  done  done
2542  rm -rf .links.tmp  rm -rf .links.tmp
2543  echo "" >> srclist.inc  echo "" >> F77srclist.tmp
2544  echo "" >> csrclist.inc  echo "" >> nonADF77srclist.tmp
2545  echo "" >> f90srclist.inc  echo "" >> csrclist.tmp
2546  echo "" >> hlist.inc  echo "" >> F90srclist.tmp
2547  echo "" >> ad_flow_files.inc  echo "" >> hsrclist.tmp
2548    echo "" >> ad_flow_files.tmp
2549    
2550    CMDLINE=$0
2551    for xx in "$@" ; do nw=`echo $xx | wc -w`
2552        if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
2553                            else CMDLINE="$CMDLINE '$xx'" ; fi
2554    done
2555    
2556  if test -f $MAKEFILE ; then  if test -f $MAKEFILE ; then
2557      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.old"
2558  fi  fi
2559  echo "  Writing makefile: $MAKEFILE"  echo "  Writing makefile: $MAKEFILE"
2560  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE
# Line 2383  echo "#    $MACHINE" >> $MAKEFILE Line 2562  echo "#    $MACHINE" >> $MAKEFILE
2562  echo "# This makefile was generated automatically on" >> $MAKEFILE  echo "# This makefile was generated automatically on" >> $MAKEFILE
2563  echo "#    $THISDATE" >> $MAKEFILE  echo "#    $THISDATE" >> $MAKEFILE
2564  echo "# by the command:" >> $MAKEFILE  echo "# by the command:" >> $MAKEFILE
2565  echo "#    $0 $G2ARGS" >> $MAKEFILE  echo "#    $CMDLINE"  >> $MAKEFILE
2566  echo "# executed by:" >> $MAKEFILE  echo "# executed by:" >> $MAKEFILE
2567  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
2568    
# Line 2394  EXE_SVD=$EXECUTABLE"_svd" Line 2573  EXE_SVD=$EXECUTABLE"_svd"
2573  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2574  #  #
2575  # OPTFILE="$OPTFILE"  # OPTFILE="$OPTFILE"
2576  #  #
2577  # BUILDDIR     : Directory where object files are written  # BUILDDIR     : Directory where object files are written
2578  # SOURCEDIRS   : Directories containing the source (.F) files  # SOURCEDIRS   : Directories containing the source (.F) files
2579  # INCLUDEDIRS  : Directories containing the header-source (.h) files  # INCLUDEDIRS  : Directories containing the header-source (.h) files
# Line 2414  cat >>$MAKEFILE <<EOF Line 2593  cat >>$MAKEFILE <<EOF
2593  # LIBS         : Library flags /or/ additional optimization/debugging flags  # LIBS         : Library flags /or/ additional optimization/debugging flags
2594    
2595  ROOTDIR     = ${ROOTDIR}  ROOTDIR     = ${ROOTDIR}
2596  BUILDDIR    = ${BUILDDIR}    BUILDDIR    = ${BUILDDIR}
2597  SOURCEDIRS  = ${SOURCEDIRS}  SOURCEDIRS  = ${SOURCEDIRS}
2598  INCLUDEDIRS = ${INCLUDEDIRS}  INCLUDEDIRS = ${INCLUDEDIRS}
2599  EXEDIR      = ${EXEDIR}  EXEDIR      = ${EXEDIR}
# Line 2440  else Line 2619  else
2619      echo "EMBEDDED_FILES = " >>$MAKEFILE      echo "EMBEDDED_FILES = " >>$MAKEFILE
2620  fi  fi
2621    
 #  Note: figure out some way to add Hyades JAM libraries here  
2622  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2623  # Unix ln (link)  # Unix ln (link)
2624  LN = ${LN}  LN = ${LN}
# Line 2472  FOPTIM = ${FOPTIM} Line 2650  FOPTIM = ${FOPTIM}
2650  # Optim./debug for FC  # Optim./debug for FC
2651  F90FLAGS = ${F90FLAGS}  F90FLAGS = ${F90FLAGS}
2652  F90OPTIM = ${F90OPTIM}  F90OPTIM = ${F90OPTIM}
2653    F90FIXEDFORMAT = ${F90FIXEDFORMAT}
2654  # Flags for CC  # Flags for CC
2655  CFLAGS = ${CFLAGS}  CFLAGS = ${CFLAGS}
2656  # Files that should not be optimized  # Files that should not be optimized
# Line 2484  MAKEFILE=${MAKEFILE} Line 2663  MAKEFILE=${MAKEFILE}
2663    
2664  EOF  EOF
2665    
2666  cat srclist.inc       >> $MAKEFILE  cat F77srclist.tmp      >> $MAKEFILE
2667  cat csrclist.inc      >> $MAKEFILE  cat nonADF77srclist.tmp >> $MAKEFILE
2668  cat f90srclist.inc    >> $MAKEFILE  cat csrclist.tmp        >> $MAKEFILE
2669  cat hlist.inc         >> $MAKEFILE  cat F90srclist.tmp      >> $MAKEFILE
2670  cat ad_flow_files.inc >> $MAKEFILE  cat hsrclist.tmp        >> $MAKEFILE
2671    cat ad_flow_files.tmp   >> $MAKEFILE
2672    
2673    rm -f F77srclist.tmp nonADF77srclist.tmp csrclist.tmp F90srclist.tmp hsrclist.tmp ad_flow_files.tmp
2674    
2675  echo >> $MAKEFILE  echo >> $MAKEFILE
2676  echo 'F77FILES =  $(SRCFILES:.F=.'$FS')'      >> $MAKEFILE  
2677  echo 'F90FILES =  $(F90SRCFILES:.F90=.'$FS90')' >> $MAKEFILE  # add definitions for preprocessed sources
2678  echo 'OBJFILES =  $(SRCFILES:.F=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.F90=.o)' >> $MAKEFILE  # and note that not all systems allow case sensitive extensions
2679    # hence the $FS and $FS90 here.
2680    # for fixed format f90 files we use ff90 or FF90 resp
2681    # but these are not expected to be the original source files
2682    
2683    echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
2684    echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE
2685    echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE
2686  echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE  echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE
2687  echo >> $MAKEFILE  echo >> $MAKEFILE
2688  echo '.SUFFIXES:' >> $MAKEFILE  echo '.SUFFIXES:' >> $MAKEFILE
2689  echo '.SUFFIXES: .o .'$FS' .p .F .c .'$FS90' .F90 .flowdir .flow' >> $MAKEFILE  echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE
 rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc  
 rm -f ad_flow_files.inc  
2690    
2691  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2692    
2693  all: \$(EXECUTABLE)  all: \$(EXECUTABLE)
2694  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(OBJFILES) \$(EMBEDDED_FILES)  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(OBJFILES) \$(EMBEDDED_FILES)
2695          @echo Creating \$@ ...          @echo Creating \$@ ...
2696          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
2697    
2698  depend:  depend:
2699          @make links          @make links
2700          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(SRCFILES)          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
2701          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2702          -rm -f makedepend.out          -rm -f makedepend.out
2703    
# Line 2518  libmitgcmuv.a: \$(OBJFILES) Line 2707  libmitgcmuv.a: \$(OBJFILES)
2707          ar rcv libmitgcmuv.a \$(OBJFILES)          ar rcv libmitgcmuv.a \$(OBJFILES)
2708          ar d   libmitgcmuv.a main.o          ar d   libmitgcmuv.a main.o
2709    
2710  links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)  obj: \$(OBJFILES)
2711    
2712    links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)
2713    
2714  small_f: \$(F77FILES) \$(F90FILES)  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
2715    
2716  output.txt: \$(EXECUTABLE)  output.txt: \$(EXECUTABLE)
2717          @printf 'running ... '          @printf 'running ... '
2718          @\$(EXECUTABLE) > \$@          @\$(EXECUTABLE) > \$@
2719    
2720    # remove most of the files that "make" generates
2721  clean:  clean:
2722          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2723          -rm -rf *.o          -rm -rf *.o
2724          -rm -rf *.$FS *.flowdir          -rm -rf *.$FS *.flowdir
2725            -rm -rf *.f$FS90 \$(AD_CLEAN) ad_input*
2726    
2727    # remove most of the files that "make" and "make depend" generate
2728  Clean:  Clean:
2729          @make clean          @make clean
2730          @make cleanlinks          @make cleanlinks
2731          -rm -f \$(SPECIAL_FILES)          -rm -f \$(SPECIAL_FILES) f90mkdepend.log $MAKEFILE.old
         -rm -f genmake_state genmake_*optfile genmake_warnings make.log run.log f90mkdepend.log *.bak  
2732          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log
2733            -rm -f genmake_warnings genmake_errors make.log
2734    
2735    # remove also the executable, files that "genmake2" generates (except Makefile)
2736    #         and output from a run (plus log files from testreport)
2737  CLEAN:  CLEAN:
2738          @make Clean          @make Clean
2739            -rm -f \$(EXECUTABLE) \$(EXE_AD) *.bak
2740            -rm -f $LOGFILE genmake_state genmake_*optfile
2741            -rm -f SIZE.h.mpi genmake.tr_log make.tr_log
2742          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
2743          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
2744          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
2745          -rm -f \$(EXECUTABLE) \$(EXE_AD) *.txt STD* *diagnostics.log datetime          -rm -f *.txt STD* *diagnostics.log datetime
2746          -rm -f *_MIT_CE_000.opt0000 costfunction*0000          -rm -f *_MIT_CE_000.opt0000 costfunction*0000
2747          -rm -rf mnc_test_*          -rm -rf mnc_test_*
2748    
 #eh3 Makefile: makefile  
2749  makefile:  makefile:
2750          $THIS_SCRIPT $G2ARGS          $THIS_SCRIPT $G2ARGS
2751  cleanlinks:  cleanlinks:
2752          -find . -type l -exec rm {} \;          -find . -type l -exec rm {} \;
2753    
2754  # Special targets (SPECIAL_FILES) which are create by make  # Special targets (SPECIAL_FILES) which are created by make
2755  ${PACKAGES_DOT_H}:  ${PACKAGES_DOT_H}:
2756          @echo Creating \$@ ...          @echo Creating \$@ ...
2757          @$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) > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@
# Line 2576  if test "x$EMBED_SRC" = xt ; then Line 2776  if test "x$EMBED_SRC" = xt ; then
2776    
2777  decode_files.o : EMBEDDED_FILES.h  decode_files.o : EMBEDDED_FILES.h
2778    
2779  ##  \$(F77FILES)  ##  \$(F77_PP_SRC_FILES)
2780  all_fF.tar.gz : \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(F77FILES) Makefile  all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2781          @echo Creating \$@ ...          @echo Creating \$@ ...
2782          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(F77FILES) Makefile          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2783          -rm -f all_fF.tar.gz          -rm -f all_fF.tar.gz
2784          -gzip all_fF.tar          -gzip all_fF.tar
2785    
# Line 2603  cat >>$MAKEFILE <<EOF Line 2803  cat >>$MAKEFILE <<EOF
2803          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2804  .F.o:  .F.o:
2805          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2806  .F90.o:    .F90.$FS90:
2807            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2808    .FF90.f$FS90:
2809            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2810    .$FS90.o:
2811          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
2812    .f$FS90.o:
2813            cp \$< \$(basename  \$<).f90
2814            \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$(F90FIXEDFORMAT) \$(basename  \$<).f90
2815  .c.o:  .c.o:
2816          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
2817  .flow.flowdir:  .flow.flowdir:
# Line 2616  cat >>$MAKEFILE <<EOF Line 2823  cat >>$MAKEFILE <<EOF
2823  .p.$FS:  .p.$FS:
2824          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
2825    
2826    EOF
2827    
2828  #=========================================  #=========================================
2829  #===  Automatic Differentiation Rules  ===  #===  Automatic Differentiation Rules  ===
2830    #===  for TAMC/TAF  ======================
2831    
2832    if test "x$OPENAD" = x ; then
2833    
2834    cat >>$MAKEFILE <<EOF
2835    
2836  TAMC           = ${TAMC}  TAMC           = ${TAMC}
2837  TAF            = ${TAF}  TAF            = ${TAF}
# Line 2641  done Line 2855  done
2855  echo "  Add the source list for AD code generation"  echo "  Add the source list for AD code generation"
2856  echo >> $MAKEFILE  echo >> $MAKEFILE
2857  printf "AD_FILES = " >> $MAKEFILE  printf "AD_FILES = " >> $MAKEFILE
2858  AD_FILES=`cat ad_files`  AD_FILES=`cat adSrcFiles.tmp`
2859  for i in $AD_FILES ; do  for i in $AD_FILES ; do
2860      echo    " \\" >> $MAKEFILE      echo    " \\" >> $MAKEFILE
2861      printf " $i" >> $MAKEFILE      printf " $i" >> $MAKEFILE
2862  done  done
2863  echo >> $MAKEFILE  echo >> $MAKEFILE
2864  rm -f ad_files  rm -f adSrcFiles.tmp
2865    
2866  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2867    
# Line 2656  adall: \$(EXE_AD) Line 2870  adall: \$(EXE_AD)
2870  adtaf: ad_taf_output.$FS  adtaf: ad_taf_output.$FS
2871  adtamc: ad_tamc_output.$FS  adtamc: ad_tamc_output.$FS
2872    
2873  ad_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES) \$(AD_FLOW_FILES)
2874          @$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          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template
2875          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
2876          -rm -f ad_config.template          -rm -f ad_config.template
2877          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2878          @make \$(FLOFILES)          @make \$(FLOFILES)
2879          cat \$(FLOFILES) \$(AD_FILES) > ad_input_code.$FS          cat \$(FLOFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS
2880    
2881  ad_taf_output.$FS: ad_input_code.$FS  ad_taf_output.$FS: ad_input_code.$FS
2882          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2883            ls -l ad_input_code_ad.$FS
2884          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
2885    
2886  adtafonly:  adtafonly:
2887          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2888            ls -l ad_input_code_ad.$FS
2889          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2890    
2891  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)
2892          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)
2893    
2894  ad_tamc_output.$FS: ad_input_code.$FS  ad_tamc_output.$FS: ad_input_code.$FS
2895          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
2896          cat ad_input_code_ad.$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
2897    
2898  ad_tamc: ad_tamc_output.o \$(OBJFILES)  ad_tamc: ad_tamc_output.o \$(OBJFILES)
2899          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
2900    
2901  adonlyfwd:  adonlyfwd:
2902          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
2903    
2904  adtrick:  adtrick:
2905          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
2906    
2907    adobj: ad_taf_output.o \$(OBJFILES)
2908    
2909  # ... FTL ...  # ... FTL ...
2910  ftlall: ftl_taf  ftlall: ftl_taf
2911  ftltaf: ftl_taf_output.$FS  ftltaf: ftl_taf_output.$FS
2912  ftltamc: ftl_tamc_output.$FS  ftltamc: ftl_tamc_output.$FS
2913    
2914  ftl_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ftl_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)
2915          @$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          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template
2916          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2917          -rm -f ftl_config.template          -rm -f ftl_config.template
2918          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2919          @make \$(AD_FLOW_FILES)          @make \$(AD_FLOW_FILES)
2920          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS
2921    
2922  ftl_taf_output.$FS: ftl_input_code.$FS  ftl_taf_output.$FS: ftl_input_code.$FS
2923          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2924            ls -l ftl_input_code_ftl.$FS
2925          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
2926    
2927  ftltafonly:  ftltafonly:
2928          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2929            ls -l ftl_input_code_ftl.$FS
2930          cat ftl_input_code_ftl.$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
2931    
2932  ftl_taf: ftl_taf_output.o \$(OBJFILES)  ftl_taf: ftl_taf_output.o \$(OBJFILES)
2933          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)
2934    
2935  ftl_tamc_output.$FS: ftl_input_code.$FS  ftl_tamc_output.$FS: ftl_input_code.$FS
2936          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
2937          cat ftl_input_code_ftl.$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
2938    
2939  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
2940          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
   
2941    
2942  # ... SVD ...  # ... SVD ...
2943  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
# Line 2744  svd_touch: Line 2963  svd_touch:
2963          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
2964          -rm -f ftl_config.template          -rm -f ftl_config.template
2965    
2966  #=========================================  EOF
2967    
2968    fi
2969    
2970    #===  for OpenAD  ========================
2971    
2972    if test "x$OPENAD" != x ; then
2973    
2974    # ============ begin OpenAD specific section ==============
2975    
2976    cat >>$MAKEFILE <<EOF
2977    
2978    # all the source files linked from the various locations:
2979    ALL_LINKED_FILES= \
2980    \$(F77_SRC_FILES) \
2981    \$(C_SRC_FILES) \
2982    \$(H_SRC_FILES) \
2983    \$(F90_SRC_FILES) \
2984    \$(SPECIAL_FILES)
2985    
2986    ifndef OPENADROOT
2987      \$(error "Error:  environment variable OPENADROOT not defined!")
2988    endif
2989    
2990    ifndef XAIFSCHEMAROOT
2991      \$(error "Error:  environment variable XAIFSCHEMAROOT not defined!")
2992    endif
2993    
2994    ifndef XAIFBOOSTERROOT
2995      \$(error "Error:  environment variable XAIFBOOSTERROOT not defined!")
2996    endif
2997    
2998  EOF  EOF
2999    
3000    echo "  Add the source list for common block to module conversion "
3001    echo >> $MAKEFILE
3002    printf "CB2M_F90_SRC_NAMES = " >> $MAKEFILE
3003    for i in `cat ${OAD_CB2M_FILES}` ; do
3004      echo    " \\" >> $MAKEFILE
3005      printf " $i" >> $MAKEFILE
3006    done
3007    echo >> $MAKEFILE
3008    
3009    echo "  Add the source list for AD code generation"
3010    echo >> $MAKEFILE
3011    printf "AD_FILES = " >> $MAKEFILE
3012    for i in `cat ${OAD_CB2M_FILES}` ; do
3013      echo    " \\" >> $MAKEFILE
3014      printf " ${i}_mod.f$FS90" >> $MAKEFILE
3015    done
3016    AD_FILES=`cat adSrcFiles.tmp`
3017    for i in $AD_FILES ; do
3018      basename=${i%%.f}
3019      toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`
3020      if test -z "$toBeIgnored" ; then
3021        echo    " \\" >> $MAKEFILE
3022        printf " $i" >> $MAKEFILE
3023      fi
3024    done
3025    echo >> $MAKEFILE
3026    rm -f adSrcFiles.tmp
3027    
3028    cat >>$MAKEFILE <<EOF
3029    
3030    adAll: \$(EXE_AD)
3031    .PHONY: adAll
3032    
3033    CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
3034    
3035    .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
3036    
3037    .PHONY: adDepend
3038    adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)
3039            \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
3040            \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
3041            -rm -f makedepend.out
3042    
3043    OPENAD_SUPPORT_F90_SRC_FILES = \
3044    w2f__types.F90 \
3045    OAD_active.F90 \
3046    OAD_cp.F90 \
3047    OAD_rev.F90 \
3048    OAD_tape.F90
3049    
3050    OPENAD_SUPPORT_C_SRC_FILES = \
3051    iaddr.c \
3052    timeRatio.c
3053    
3054    f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
3055            cat \$^ > \$@
3056    
3057    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$FS90
3058            cat \$^ > \$@
3059    
3060    f95_test.out: f95_test_mods.f90 f95_test.f90
3061            f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
3062            f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
3063    
3064    # the file included below is created by the
3065    # postProcessor and its inclusion sets the
3066    # variable POSTPROCESSEDFILES
3067    # used below. Because the file is made during
3068    # make it won't be read until the second (recursive)
3069    # invocation in the rule below
3070    -include postProcess.make
3071    
3072    AD_OBJ_FILES_S1=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) \$(POSTPROCESSEDFILES:.f$FS90=.o)
3073    
3074    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)
3075    
3076    postProcess.comp: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.tag \$(AD_OBJ_FILES_S1)
3077    ifeq (\$(MAKELEVEL),0)
3078            \$(MAKE) adAll
3079    else
3080            touch \$@
3081    endif
3082    
3083    \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.comp \$(AD_OBJ_FILES_S2)
3084    ifeq (\$(MAKELEVEL),1)
3085            \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES_S2) \$(LIBS)
3086    else
3087            touch \$@
3088    endif
3089    
3090    # makefile debug rule
3091    openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3092    .PHONY: openad
3093    
3094    # create the module files
3095    %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk
3096            ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk
3097    
3098    # create the header files
3099    %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk
3100            ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
3101    
3102    # change everybody else to use the new module files:
3103    %_cb2m.FF90 : %.F ../OAD_support/cb2mUseModules.bash
3104            ../OAD_support/cb2mUseModules.bash $< ${MPI}
3105    
3106    # makefile debug rule
3107    small_f: \$(CB2M_F90_PP_SRC_FILES)
3108    .PHONY: small_f
3109    
3110    ad_output.txt: \$(EXE_AD)
3111            @printf 'linking data files ... '
3112            \$(LN) -f ../input_ad/data* ../input_ad/eedata .
3113            \$(LN) -f ../../global_ocean.90x40x15/input/*.bin .
3114            @printf 'running ... '
3115            @./\$(EXE_AD) > \$@
3116    
3117    CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
3118    ad_input_code.f$FS90:  \$(CB2M_AD_FILES)
3119            cat \$^ > \$@
3120    
3121    # strip all comments and blanks to reduce
3122    # the file size in order to reduce perl's memory requirements
3123    ad_input_code_sf.f$FS90 : ad_input_code.f$FS90
3124            cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@
3125    
3126    # mfef90 preprocessing
3127    # expand statement functions
3128    # expose mfef90 specific substring handling
3129    # add the w2f__types module
3130    ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90
3131            ./mfef90 -r8 -z -F -N132 \$<
3132            mv \$<.B \$(basename \$<).B
3133            ./whirl2f -openad \$(basename \$<).B
3134            cat w2f__types.f90 \$(basename \$<).w2f.f > \$@
3135    
3136    # canonicalizer
3137    ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py
3138            ./preProcess.py --timing --r8 -H -S \$< -o \$@
3139    
3140    # F -> WHIRL
3141    # note that the canonicalized version cuts off at col 72
3142    # doing this also for string constants which is ok as long
3143    # as we are in fixed mode and cut of exactly there.
3144    # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)
3145    # characters respectively.
3146    ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90
3147            ./mfef90 -r8 -z -F \$<
3148            mv \$<.B \$@
3149    
3150    # WHIRL -> XAIF
3151    ad_input_code_sf.w2f.pre.xaif : ad_input_code_sf.w2f.pre.B whirl2xaif
3152            ./whirl2xaif -s -n --debug 1 -o \$@ \$<
3153    
3154    # XAIF -> XAIF'
3155    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
3156            ./oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
3157    
3158    # XAIF' -> WHIRL'
3159    ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl
3160            ./xaif2whirl --debug 1 ad_input_code_sf.w2f.pre.B \$<
3161    
3162    # WHIRL' -> F'
3163    ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be
3164            ./whirl2f -FLIST:ftn_file=\$@ -openad \$<
3165    
3166    # insert template directives
3167    ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash
3168            ../OAD_support/insertTemplateDir.bash \$< \$@
3169    
3170    PPEXTRAS=\$(wildcard ../OAD_support/ad_template.*.F) ../OAD_support/ad_inline.F
3171    # postprocess F'
3172    postProcess.tag: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 postProcess.py \$(PPEXTRAS:.F=.f)
3173            # the target is a placeholder to signal execution of the rule
3174            touch \$@
3175            # this step also creates the file postProcess.make but we cannot
3176            # name it as the target or else make will try to remake it for
3177            # the include directive above for any rule, e.g. make clean
3178            ./postProcess.py --progress --timing --outputFormat=fixed -m r -i ../OAD_support/ad_inline.f --width 4 \$<
3179    
3180    # setup some links
3181    %.xsd:
3182            \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
3183    
3184    mfef90:
3185            \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .
3186    
3187    # link the support files:
3188    \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):
3189            \$(LN) ../OAD_support/\$@ .
3190    
3191    whirl2xaif xaif2whirl:
3192            \$(LN) \${OPENADFORTTK}/bin/\$@ .
3193    
3194    preProcess.py postProcess.py:
3195            \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .
3196    
3197    whirl2f whirl2f_be:
3198            \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .
3199    
3200    oadDriver:
3201            \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver \$@
3202    
3203    AD_CLEAN += *_mod.h *_mod.F90 *.FF90 *.mod-whirl temp.sed oad_cp.* postProcess.make postProcess.tag postProcess.comp \$(PPEXTRAS:.F=.f)
3204    
3205    # ============ end OpenAD specific section ==============
3206    
3207    EOF
3208    
3209    fi
3210    
3211    #=========================================
3212    
3213  if test "x$EXEHOOK" != x ; then  if test "x$EXEHOOK" != x ; then
3214      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE
3215  fi  fi
# Line 2783  printf "\n\n# DO NOT DELETE\n" >> $MAKEF Line 3245  printf "\n\n# DO NOT DELETE\n" >> $MAKEF
3245  printf "\n===  Done  ===\n"  printf "\n===  Done  ===\n"
3246    
3247  # Create special header files  # Create special header files
3248  $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"
3249  if test ! -f $PACKAGES_DOT_H ; then  if test ! -f $PACKAGES_DOT_H ; then
3250      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H
3251  else  else
# Line 2800  if test ! -f AD_CONFIG.h ; then Line 3262  if test ! -f AD_CONFIG.h ; then
3262      $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
3263  fi  fi
3264    
   
3265  #  Write the "state" for future records  #  Write the "state" for future records
3266  if test "x$DUMPSTATE" != xf ; then  if test "x$DUMPSTATE" = xt ; then
3267      printf "" > genmake_state      printf "" > genmake_state
3268      for i in $gm_state ; do      for i in $gm_state ; do
3269          t1="t2=\$$i"          t1="t2=\$$i"
3270          eval $t1          eval $t1
3271          echo "$i='$t2'" >> genmake_state          echo "$i='$t2'" | sed -e 's/  */ /g' >> genmake_state
3272      done      done
3273  fi  fi

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