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revision 1.181 by jmc, Fri Jan 2 20:32:21 2009 UTC revision 1.216 by jmc, Mon Dec 13 22:07:20 2010 UTC
# Line 1  Line 1 
1  #! /usr/bin/env bash  #! /usr/bin/env bash
2  #  #
3  # $Header$  # $Header$
4    # $Name$
5  #  #
6  # Makefile generator for MITgcm UV codes  # Makefile generator for MITgcm UV codes
7  #   created  by cnh 03/98  #   created  by cnh 03/98
# Line 8  Line 9 
9  #   modified by aja 01/00  #   modified by aja 01/00
10  #   rewritten in bash by eh3 08/03  #   rewritten in bash by eh3 08/03
11    
12    #  Explain usage
13    usage()  {
14    cat <<EOF
15    
16    Usage: "$0" [OPTIONS]
17      where [OPTIONS] can be:
18    
19        -help | --help | -h | --h
20              Print this help message and exit.
21    
22        -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
23          -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
24              Use "NAME" as the adoptfile.  By default, the file at
25              "tools/adjoint_options/adjoint_default" will be used.
26    
27        -nooptfile | --nooptfile
28          -optfile NAME | --optfile NAME | -of NAME | --of NAME
29          -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
30              Use "NAME" as the optfile.  By default, an attempt will be
31              made to find an appropriate "standard" optfile in the
32              tools/build_options/ directory.
33    
34        -pdepend NAME | --pdepend NAME
35          -pdepend=NAME | --pdepend=NAME
36              Get package dependency information from "NAME".
37    
38        -pgroups NAME | --pgroups NAME
39          -pgroups=NAME | --pgroups=NAME
40              Get the package groups information from "NAME".
41    
42        -bash NAME
43              Explicitly specify the Bourne or BASH shell to use
44    
45        -make NAME | -m NAME
46          --make=NAME | -m=NAME
47              Use "NAME" for the MAKE program. The default is "make" but
48              many platforms, "gmake" is the preferred choice.
49    
50        -makefile NAME | -mf NAME
51          --makefile=NAME | -mf=NAME
52              Call the makefile "NAME".  The default is "Makefile".
53    
54        -makedepend NAME | -md NAME
55          --makedepend=NAME | -md=NAME
56              Use "NAME" for the MAKEDEPEND program.
57    
58        -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
59          -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
60              Specify the location of the MITgcm ROOTDIR as "NAME".
61              By default, genamke will try to find the location by
62              looking in parent directories (up to the 5th parent).
63    
64        -mods NAME | --mods NAME | -mo NAME | --mo NAME
65          -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
66              Here, "NAME" specifies a list of directories that are
67              used for additional source code.  Files found in the
68              "mods list" are given preference over files of the same
69              name found elsewhere.
70    
71        -disable NAME | --disable NAME
72          -disable=NAME | --disable=NAME
73              Here "NAME" specifies a list of packages that we don't
74              want to use.  If this violates package dependencies,
75              genamke will exit with an error message.
76    
77        -enable NAME | --enable NAME
78          -enable=NAME | --enable=NAME
79              Here "NAME" specifies a list of packages that we wish
80              to specifically enable.  If this violates package
81              dependencies, genamke will exit with an error message.
82    
83        -standarddirs NAME | --standarddirs NAME
84          -standarddirs=NAME | --standarddirs=NAME
85              Here, "NAME" specifies a list of directories to be
86              used as the "standard" code.
87    
88        -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
89          -fc=NAME | --fc=NAME
90              Use "NAME" as the fortran compiler.  By default, genmake
91              will search for a working compiler by trying a list of
92              "usual suspects" such as g77, f77, etc.
93    
94        -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
95              Use "NAME" as the C compiler.  By default, genmake
96              will search for a working compiler by trying a list of
97              "usual suspects" such as gcc, c89, cc, etc.
98    
99        -[no]ieee | --[no]ieee
100              Do or don't use IEEE numerics.  Note that this option
101              *only* works if it is supported by the OPTFILE that
102              is being used.
103    
104        -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
105              Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
106              *only* works if CPP_EEOPTIONS.h allows this.
107    
108        -ignoretime | -ignore_time | --ignoretime | --ignore_time
109              Ignore all the "wall clock" routines entirely.  This will
110              not in any way hurt the model results -- it simply means
111              that the code that checks how long the model spends in
112              various routines will give junk values.
113    
114        -ts | --ts
115              Produce timing information per timestep
116        -papis | --papis
117              Produce summary MFlop/s (and IPC) with PAPI per timestep
118        -pcls | --pcls
119              Produce summary MFlop/s etc. with PCL per timestep
120        -foolad | --foolad
121              Fool the AD code generator
122        -papi | --papi
123              Performance analysis with PAPI
124        -pcl | --pcl
125              Performance analysis with PCL
126        -hpmt | --hpmt
127              Performance analysis with the HPM Toolkit
128    
129        -gsl | --gsl
130              Use GSL to control floating point rounding and precision
131        -devel | --devel
132              Add additional warning and debugging flags for development
133    
134        -mpi | --mpi
135              Include MPI header files and link to MPI libraries
136        -mpi=PATH | --mpi=PATH
137              Include MPI header files and link to MPI libraries using MPI_ROOT
138              set to PATH. i.e. Include files from \$PATH/include, link to libraries
139              from \$PATH/lib and use binaries from \$PATH/bin.
140    
141        -omp | --omp
142              Activate OpenMP code + use Compiler option OMPFLAG
143        -omp=OMPFLAG | --omp=OMPFLAG
144              Activate OpenMP code + use Compiler option OMPFLAG
145    
146        -es | --es | -embed-source | --embed-source
147              Embed a tarball containing the full source code
148              (including the Makefile, etc.) used to build the
149              executable [off by default]
150    
151        -ds | --ds
152              Report genmake internal variables status (DUMPSTATE)
153              to file "genmake_state" (for debug purpose)
154    
155      While it is most often a single word, the "NAME" variables specified
156      above can in many cases be a space-delimited string such as:
157    
158        --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
159        -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
160        -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
161    
162      which, depending upon your shell, may need to be single-quoted.
163    
164      For more detailed genmake documentation, please see:
165    
166        http://mitgcm.org/public/devel_HOWTO/
167    
168    EOF
169    
170        exit 1
171    }
172    
173  # Search for particular CPP #cmds associated with packages  # Search for particular CPP #cmds associated with packages
174  # usage: test_for_package_in_cpp_options CPP_file package_name  # usage: test_for_package_in_cpp_options CPP_file package_name
175  test_for_package_in_cpp_options() {  test_for_package_in_cpp_options() {
# Line 56  test_for_string_in_file() { Line 218  test_for_string_in_file() {
218  # the package list.  # the package list.
219  expand_pkg_groups() {  expand_pkg_groups() {
220      new_packages=      new_packages=
     PKG_GROUPS=$ROOTDIR"/pkg/pkg_groups"  
221      if test -r $PKG_GROUPS ; then      if test -r $PKG_GROUPS ; then
222          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp
223          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp
# Line 67  expand_pkg_groups() { Line 228  expand_pkg_groups() {
228              if test "x$RETVAL" = x0 ; then              if test "x$RETVAL" = x0 ; then
229                  matched=1                  matched=1
230                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`
231                  echo "    replacing \"$i\" with: $replace"                  echo "    replacing \"$i\" with:$replace"
232                  new_packages="$new_packages $replace"                  new_packages="$new_packages $replace"
233              else              else
234                  new_packages="$new_packages $i"                  new_packages="$new_packages $i"
# Line 110  EOF Line 271  EOF
271              check_for_broken_Ff              check_for_broken_Ff
272          else          else
273              cat <<EOF 2>&1              cat <<EOF 2>&1
274  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
275    (fails the "cp" test) and this program cannot find a suitable    (fails the "cp" test) and this program cannot find a suitable
276    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
277    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
278    
279  EOF  EOF
# Line 146  EOF Line 307  EOF
307              check_for_broken_Ff              check_for_broken_Ff
308          else          else
309              cat <<EOF 2>&1              cat <<EOF 2>&1
310  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
311    (fails the "make/ln" test) and this program cannot find a suitable    (fails the "make/ln" test) and this program cannot find a suitable
312    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
313    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
314    
315  EOF  EOF
# Line 165  EOF Line 326  EOF
326      return      return
327  }  }
328    
   
329  look_for_makedepend()  {  look_for_makedepend()  {
330    
331      #  The "original" makedepend is part of the Imake system that is      #  The "original" makedepend is part of the Imake system that is
# Line 194  look_for_makedepend()  { Line 354  look_for_makedepend()  {
354          cat <<EOF >> $MAKEFILE          cat <<EOF >> $MAKEFILE
355  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"
356  #  #
357  #   Some "makedepend" implementations will die if they cannot  #   Some "makedepend" implementations will die if they cannot
358  #   find a Makefile -- so this file is here to gives them an  #   find a Makefile -- so this file is here to gives them an
359  #   empty one to find and parse.  #   empty one to find and parse.
360  EOF  EOF
361          cat <<EOF >> genmake_tc.f          cat <<EOF >> genmake_tc.f
# Line 212  EOF Line 372  EOF
372              MAKEDEPEND=makedepend              MAKEDEPEND=makedepend
373          else          else
374              echo "    a system-default makedepend was not found."              echo "    a system-default makedepend was not found."
               
375              #  Try to build the cyrus implementation              #  Try to build the cyrus implementation
376              build_cyrus_makedepend              build_cyrus_makedepend
377              RETVAL=$?              RETVAL=$?
# Line 231  EOF Line 390  EOF
390      fi      fi
391  }  }
392    
   
393  build_cyrus_makedepend()  {  build_cyrus_makedepend()  {
394      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
395      (      (
# Line 256  build_cyrus_makedepend()  { Line 414  build_cyrus_makedepend()  {
414      fi      fi
415  }  }
416    
   
417  build_embed_encode()  build_embed_encode()
418  {  {
419      printf "  building the embed-encode utility...  "      printf "  building the embed-encode utility...  "
# Line 269  build_embed_encode() Line 426  build_embed_encode()
426              return 1              return 1
427          fi          fi
428          clist="cc gcc c89 $CC"          clist="cc gcc c89 $CC"
429          for ic in $clist ; do          for ic in $clist ; do
430              comm="$ic -o encode_files encode_files.c"              comm="$ic -o encode_files encode_files.c"
431              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1
432              RETVAL=$?              RETVAL=$?
# Line 290  build_embed_encode() Line 447  build_embed_encode()
447      DEFINES="$DEFINES -DHAVE_EMBED_SRC"      DEFINES="$DEFINES -DHAVE_EMBED_SRC"
448  }  }
449    
450    #  look for possible C compilers
451  # Guess possible config options for this host  look_for_C_compilers() {
452  find_possible_configs()  {      echo >> $LOGFILE
453        echo "running: look_for_C_compilers()" >> $LOGFILE
454      tmp1=`uname`"_"`uname -m`      rm -f ./genmake_hello.c  ./genmake_hello
455      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  
456  #include <stdio.h>  #include <stdio.h>
457  int main(int argc, char **argv) {  int main(int argc, char **argv) {
458    printf("Hello!\n");    printf("Hello!\n");
459    return 0;    return 0;
460  }  }
461  EOF  EOF
462          $c -o genmake_hello genmake_hello.c > /dev/null 2>&1      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
463        p_CC=
464        for c in $tmp ; do
465            COMM="$c $CFLAGS -o genmake_hello genmake_hello.c"
466            echo $COMM >> $LOGFILE
467            $COMM >> $LOGFILE 2>&1
468          RETVAL=$?          RETVAL=$?
469          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
470                echo " $c test successful" >> $LOGFILE
471              p_CC="$p_CC $c"              p_CC="$p_CC $c"
472          fi          fi
473      done      done
# Line 354  Error: No C compilers were found in your Line 483  Error: No C compilers were found in your
483  EOF  EOF
484          exit 1          exit 1
485      else      else
486          echo "  The possible C compilers found in your path are:"          echo "  The possible C compilers found in your path are: $p_CC" | tee -a $LOGFILE
         echo "   "$p_CC  
487          if test "x$CC" = x ; then          if test "x$CC" = x ; then
488              CC=`echo $p_CC | $AWK '{print $1}'`              CC=`echo $p_CC | $AWK '{print $1}'`
489              echo "  Setting C compiler to: "$CC              echo "  Setting C compiler to: "$CC
490          fi          fi
491      fi      fi
492        echo " --> set CC='$CC'" >> $LOGFILE
493    }
494    
495    # Guess possible config options for this host
496    find_possible_optfile()  {
497    
498        echo >> $LOGFILE
499        echo "running: find_possible_optfile()" >> $LOGFILE
500        tmp1=`uname`"_"`uname -m`
501        tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`
502        tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`
503        tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`
504        tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`
505        tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`
506        PLATFORM=$tmp3
507        echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
508        OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
509        echo "  The platform appears to be:  $PLATFORM" | tee -a $LOGFILE
510    
511      #================================================================      #================================================================
512      #  look for possible FORTRAN compilers      #  look for possible FORTRAN compilers
513      tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 gfortran g95"      echo "  look for possible FORTRAN compilers" >> $LOGFILE
514        tmp="$MITGCM_FC $FC efc gfortran g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 g95"
515      p_FC=      p_FC=
516      for c in $tmp ; do      rm -f ./genmake_hello.f
517          rm -f ./hello.f ./hello      cat >> genmake_hello.f <<EOF
         cat >> hello.f <<EOF  
518        program hello        program hello
519        do i=1,3        do i=1,3
520          print *, 'hello world : ', i          print *, 'hello world : ', i
521        enddo        enddo
522        end        end
523  EOF  EOF
524          $c -o hello hello.f > /dev/null 2>&1      for f in $tmp ; do
525            COMM="$f -o genmake_hello genmake_hello.f"
526            echo $COMM >> $LOGFILE
527            $COMM >> $LOGFILE 2>&1
528          RETVAL=$?          RETVAL=$?
529          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
530              p_FC="$p_FC $c"              echo " $f test successful" >> $LOGFILE
531                p_FC="$p_FC $f"
532          fi          fi
533      done      done
534      rm -f ./hello.f ./hello      rm -f ./genmake_hello.f ./genmake_hello
535      if test "x${p_FC}" = x ; then      if test "x${p_FC}" = x ; then
536          cat 1>&2 <<EOF          cat 1>&2 <<EOF
537    
# Line 394  Error: No Fortran compilers were found i Line 544  Error: No Fortran compilers were found i
544  EOF  EOF
545          exit 1          exit 1
546      else      else
547          echo "  The possible FORTRAN compilers found in your path are:"          echo "  The possible FORTRAN compilers found in your path are: $p_FC" | tee -a $LOGFILE
         echo "   "$p_FC  
548      fi      fi
549    
550      #  Use the first of the compilers found in the current PATH      #  Use the first of the compilers found in the current PATH
# Line 404  EOF Line 553  EOF
553          for i in $p_FC ; do          for i in $p_FC ; do
554              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i              OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
555              if test -r $OPTFILE ; then              if test -r $OPTFILE ; then
556                  echo "  Setting OPTFILE to: "$OPTFILE                  echo "  Setting OPTFILE to: "$OPTFILE | tee -a $LOGFILE
557                  break                  break
558              fi              fi
559          done          done
# Line 416  EOF Line 565  EOF
565               echo "  I looked for the file "$OPTFILE" but did not find it"               echo "  I looked for the file "$OPTFILE" but did not find it"
566          fi          fi
567      fi      fi
568  #    echo "  The options file:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #   for i in $p_FC ; do  
 #p_OF=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i  
 #if test -r $p_OF ; then  
 #    OPTFILE=$p_OF  
 #    echo "  The options file:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #    break  
 #fi  
 #   done  
569      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
570          cat 1>&2 <<EOF          cat 1>&2 <<EOF
571    
# Line 442  Error: No options file was found in:  $R Line 581  Error: No options file was found in:  $R
581  EOF  EOF
582          exit 1          exit 1
583      fi      fi
584        
585  #     # look for possible MPI libraries  #     # look for possible MPI libraries
586  #     mpi_libs=  #     mpi_libs=
587  #     mpi_fort=`which mpif77 2>/dev/null`  #     mpi_fort=`which mpif77 2>/dev/null`
# Line 461  EOF Line 600  EOF
600  #       if test "x${RETVAL}" = x0 ; then  #       if test "x${RETVAL}" = x0 ; then
601  #           a=`cat out`  #           a=`cat out`
602  #           for i in $a ; do  #           for i in $a ; do
603  #               case $i in  #               case $i in
604  #                   -*)  #                   -*)
605  #                       mpi_libs="$mpi_libs $i" ;;  #                       mpi_libs="$mpi_libs $i" ;;
606  #               esac  #               esac
# Line 471  EOF Line 610  EOF
610  #       fi  #       fi
611  #       rm -f test.f out  #       rm -f test.f out
612  #     fi  #     fi
   
613  }  }
614    
615  #  Parse the package dependency information  #  Parse the package dependency information
# Line 480  get_pdepend_list()  { Line 618  get_pdepend_list()  {
618      #  strip the comments and then convert the dependency file into      #  strip the comments and then convert the dependency file into
619      #  two arrays: PNAME, DNAME      #  two arrays: PNAME, DNAME
620      cat $1 | sed -e 's/#.*$//g' \      cat $1 | sed -e 's/#.*$//g' \
621          | $AWK 'BEGIN{nn=0;} (NF>0){ for(i=2;i<=NF;i++){nn++; print "PNAME["nn"]="$1"\nDNAME["nn"]="$i} }' \          | $AWK 'BEGIN{nn=-1;} (NF>0){ for(i=2;i<=NF;i++){nn++; print "PNAME_"nn"="$1"\nDNAME_"nn"="$i}} END{print "nname="nn}' \
622          > ./.pd_tmp          > ./.pd_tmp
623        RETVAL=$?
624        if test ! "x${RETVAL}" = x0 ; then
625          echo "Error: unable to parse package dependencies -- please check PKG_DEPEND=\"$1\""
626          exit 1
627        fi
628      . ./.pd_tmp      . ./.pd_tmp
629      rm -f ./.pd_tmp      rm -f ./.pd_tmp
   
     printf "PNAME = "${}  
 }  
   
   
 #  Explain usage  
 usage()  {  
 cat <<EOF  
   
 Usage: "$0" [OPTIONS]  
   where [OPTIONS] can be:  
   
     -help | --help | -h | --h  
           Print this help message and exit.  
   
     -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME  
       -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME  
           Use "NAME" as the adoptfile.  By default, the file at  
           "tools/adjoint_options/adjoint_default" will be used.  
   
     -nooptfile | --nooptfile  
       -optfile NAME | --optfile NAME | -of NAME | --of NAME  
       -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME  
           Use "NAME" as the optfile.  By default, an attempt will be  
           made to find an appropriate "standard" optfile in the  
           tools/build_options/ directory.  
   
     -pdepend NAME | --pdepend NAME  
       -pdepend=NAME | --pdepend=NAME  
           Get package dependency information from "NAME".  
   
     -pdefault NAME | --pdefault NAME  
       -pdefault=NAME | --pdefault=NAME  
           Get the default package list from "NAME".  
   
     -make NAME | -m NAME  
       --make=NAME | -m=NAME  
           Use "NAME" for the MAKE program. The default is "make" but  
           many platforms, "gmake" is the preferred choice.  
   
     -makefile NAME | -mf NAME  
       --makefile=NAME | -mf=NAME  
           Call the makefile "NAME".  The default is "Makefile".  
   
     -makedepend NAME | -md NAME  
       --makedepend=NAME | -md=NAME  
           Use "NAME" for the MAKEDEPEND program.  
   
     -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME  
       -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME  
           Specify the location of the MITgcm ROOTDIR as "NAME".  
           By default, genamke will try to find the location by  
           looking in parent directories (up to the 5th parent).  
   
     -mods NAME | --mods NAME | -mo NAME | --mo NAME  
       -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME  
           Here, "NAME" specifies a list of directories that are  
           used for additional source code.  Files found in the  
           "mods list" are given preference over files of the same  
           name found elsewhere.  
   
     -disable NAME | --disable NAME  
       -disable=NAME | --disable=NAME  
           Here "NAME" specifies a list of packages that we don't  
           want to use.  If this violates package dependencies,  
           genamke will exit with an error message.  
   
     -enable NAME | --enable NAME  
       -enable=NAME | --enable=NAME  
           Here "NAME" specifies a list of packages that we wish  
           to specifically enable.  If this violates package  
           dependencies, genamke will exit with an error message.  
   
     -standarddirs NAME | --standarddirs NAME  
       -standarddirs=NAME | --standarddirs=NAME  
           Here, "NAME" specifies a list of directories to be  
           used as the "standard" code.  
   
     -fortran NAME | --fortran NAME | -fc NAME | --fc NAME  
       -fc=NAME | --fc=NAME  
           Use "NAME" as the fortran compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as g77, f77, etc.  
   
     -cc NAME | --cc NAME | -cc=NAME | --cc=NAME  
           Use "NAME" as the C compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as gcc, c89, cc, etc.  
   
     -[no]ieee | --[no]ieee  
           Do or don't use IEEE numerics.  Note that this option  
           *only* works if it is supported by the OPTFILE that  
           is being used.  
   
     -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  
630  }  }
631    
632  #  Build a CPP macro to automate calling C routines from FORTRAN  #  Build a CPP macro to automate calling C routines from FORTRAN
# Line 644  get_fortran_c_namemangling()  { Line 636  get_fortran_c_namemangling()  {
636      if test ! "x$FC_NAMEMANGLE" = x ; then      if test ! "x$FC_NAMEMANGLE" = x ; then
637          return 0          return 0
638      fi      fi
639        echo " running: get_fortran_c_namemangling()" >> $LOGFILE
640    
641      default_nm="#define FC_NAMEMANGLE(X) X ## _"      default_nm="#define FC_NAMEMANGLE(X) X ## _"
642        
643      cat > genmake_test.c <<EOF      cat > genmake_test.c <<EOF
644  void tcall( char * string ) { tsub( string ); }  void tcall( char * string ) { tsub( string ); }
645  EOF  EOF
646      $MAKE genmake_test.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_test.c"
647        echo ' '$COMM >> $LOGFILE
648        $COMM >> $LOGFILE 2>&1
649      RETVAL=$?      RETVAL=$?
650      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
651          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
652          cat <<EOF>> genmake_errors          cat <<EOF>> $LOGFILE
653    
654  WARNING: C test compile fails   WARNING: C test compile fails
655  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
656  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
657  EOF  EOF
658          return 1          return 1
659      fi      fi
# Line 666  EOF Line 661  EOF
661      RETVAL=$?      RETVAL=$?
662      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
663          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
664          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
665    
666  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
667  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
668  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
669  EOF  EOF
670          return 1          return 1
671      fi      fi
# Line 680  EOF Line 675  EOF
675        call tsub( string )        call tsub( string )
676        end        end
677  EOF  EOF
678      $FC $FFLAGS -c genmake_tcomp.$FS >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -c genmake_tcomp.$FS"
679        echo ' '$COMM >> $LOGFILE
680        $COMM >> $LOGFILE 2>&1
681      RETVAL=$?      RETVAL=$?
682      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
683          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
684          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
685    
686  WARNING: FORTRAN test compile fails -- please see "genmake_errors"   WARNING: FORTRAN test compile fails -- please see '$LOGFILE'
687  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
688  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
689  EOF  EOF
690          return 1          return 1
691      fi      fi
# Line 696  EOF Line 693  EOF
693      RETVAL=$?      RETVAL=$?
694      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
695          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
696          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
697    
698  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
699  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
700  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
701  EOF  EOF
702          return 1          return 1
703      fi      fi
# Line 726  EOF Line 723  EOF
723    
724      #  cleanup the testing files      #  cleanup the testing files
725      rm -f genmake_tcomp.* genmake_test.*      rm -f genmake_tcomp.* genmake_test.*
 }  
726    
727        echo " --> set FC_NAMEMANGLE='$FC_NAMEMANGLE'" >> $LOGFILE
728    }
729    
730  check_HAVE_CLOC()  {  check_HAVE_CLOC()  {
731        echo >> $LOGFILE
732        echo "running: check_HAVE_CLOC()" >> $LOGFILE
733      get_fortran_c_namemangling      get_fortran_c_namemangling
734      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
735  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 747  void FC_NAMEMANGLE(cloc) ( double *curti Line 747  void FC_NAMEMANGLE(cloc) ( double *curti
747  }  }
748  EOF  EOF
749      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
750      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
751      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
752      RET_C=$?      RET_C=$?
753      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
754        program hello        program hello
# Line 759  EOF Line 759  EOF
759        end        end
760  EOF  EOF
761      COMM="$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"
762      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
763      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
764      RET_F=$?      RET_F=$?
765      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> $LOGFILE 2>&1
766      RETVAL=$?      RETVAL=$?
767      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
768          HAVE_CLOC=t          HAVE_CLOC=t
769          DEFINES="$DEFINES -DHAVE_CLOC"          DEFINES="$DEFINES -DHAVE_CLOC"
770      fi      fi
771      rm -f genmake_tc*      rm -f genmake_tc*
772        echo " --> set HAVE_CLOC='$HAVE_CLOC'" >> $LOGFILE
773  }  }
774    
   
775  check_HAVE_SIGREG()  {  check_HAVE_SIGREG()  {
776      if test ! "x$HAVE_SIGREG" = x ; then      if test ! "x$HAVE_SIGREG" = x ; then
777          return          return
778      fi      fi
779        echo >> $LOGFILE
780        echo "running: check_HAVE_SIGREG()" >> $LOGFILE
781      get_fortran_c_namemangling      get_fortran_c_namemangling
782      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
783  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 808  void FC_NAMEMANGLE(sigreg) (int * aip) Line 810  void FC_NAMEMANGLE(sigreg) (int * aip)
810  }  }
811  EOF  EOF
812      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
813      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
814      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
815      RET_C=$?      RET_C=$?
816      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
817        program hello        program hello
# Line 819  EOF Line 821  EOF
821        call sigreg(anint)        call sigreg(anint)
822        end        end
823  EOF  EOF
824      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SIGREG()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
825      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
826      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
827      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
828      RETVAL=$?      RETVAL=$?
829      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
830          HAVE_SIGREG=t          HAVE_SIGREG=t
831          DEFINES="$DEFINES -DHAVE_SIGREG"          DEFINES="$DEFINES -DHAVE_SIGREG"
832      fi      fi
833      rm -f genmake_tc*      rm -f genmake_tc*
834        echo " --> set HAVE_SIGREG='$HAVE_SIGREG'" >> $LOGFILE
835  }  }
836    
   
837  check_HAVE_SETRLSTK()  {  check_HAVE_SETRLSTK()  {
838      if test "x$HAVE_SETRLSTK" = xt ; then      if test "x$HAVE_SETRLSTK" = xt ; then
839          DEFINES="$DEFINES -DHAVE_SETRLSTK"          DEFINES="$DEFINES -DHAVE_SETRLSTK"
# Line 842  check_HAVE_SETRLSTK()  { Line 842  check_HAVE_SETRLSTK()  {
842      if test ! "x$HAVE_SETRLSTK" = x ; then      if test ! "x$HAVE_SETRLSTK" = x ; then
843          return          return
844      fi      fi
845        echo >> $LOGFILE
846        echo "running: check_HAVE_SETRLSTK()" >> $LOGFILE
847      get_fortran_c_namemangling      get_fortran_c_namemangling
848      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
849  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 858  void FC_NAMEMANGLE(setrlstk) () Line 860  void FC_NAMEMANGLE(setrlstk) ()
860  }  }
861  EOF  EOF
862      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
863      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
864      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
865      RET_C=$?      RET_C=$?
866      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
867        program hello        program hello
# Line 867  EOF Line 869  EOF
869        call setrlstk()        call setrlstk()
870        end        end
871  EOF  EOF
872      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_SETRLSTK()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
873      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
874      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
875      $COMM >> genmake_warnings 2>&1      $COMM >> $LOGFILE 2>&1
876      RETVAL=$?      RETVAL=$?
877      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
878          HAVE_SETRLSTK=t          HAVE_SETRLSTK=t
879          DEFINES="$DEFINES -DHAVE_SETRLSTK"          DEFINES="$DEFINES -DHAVE_SETRLSTK"
880      fi      fi
881      rm -f genmake_tc*      rm -f genmake_tc*
882        echo " --> set HAVE_SETRLSTK='$HAVE_SETRLSTK'" >> $LOGFILE
883  }  }
884    
   
885  check_HAVE_STAT()  {  check_HAVE_STAT()  {
886        echo >> $LOGFILE
887        echo "running: check_HAVE_STAT()" >> $LOGFILE
888      get_fortran_c_namemangling      get_fortran_c_namemangling
889      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
890  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 904  void FC_NAMEMANGLE(tfsize) ( int *nbyte Line 906  void FC_NAMEMANGLE(tfsize) ( int *nbyte
906  }  }
907  EOF  EOF
908      COMM="$CC $CFLAGS -c genmake_tc_1.c"      COMM="$CC $CFLAGS -c genmake_tc_1.c"
909      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
910      $COMM >> genmake_tc.log 2>&1      $COMM >> genmake_tc.log 2>&1
911      RET_C=$?      RET_C=$?
912      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
# Line 914  EOF Line 916  EOF
916        print *," HELLO WORLD", nbyte        print *," HELLO WORLD", nbyte
917        end        end
918  EOF  EOF
919      echo >> genmake_warnings      cat genmake_tc_2.$FS >> $LOGFILE
     echo "running: check_HAVE_STAT()" >> genmake_warnings  
     cat genmake_tc_2.$FS >> genmake_warnings  
920      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
921      echo $COMM >> genmake_warnings      echo $COMM >> $LOGFILE
922      $COMM >> genmake_tc.log 2>&1      $COMM >> genmake_tc.log 2>&1
923      RETVAL=$?      RETVAL=$?
924      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
# Line 926  EOF Line 926  EOF
926          DEFINES="$DEFINES -DHAVE_STAT"          DEFINES="$DEFINES -DHAVE_STAT"
927      fi      fi
928      rm -f genmake_tc*      rm -f genmake_tc*
929        echo " --> set HAVE_STAT='$HAVE_STAT'" >> $LOGFILE
930  }  }
931    
   
932  check_netcdf_libs()  {  check_netcdf_libs()  {
933      if test ! "x$SKIP_NETCDF_CHECK" = x ; then      if test ! "x$SKIP_NETCDF_CHECK" = x ; then
934          return          return
935      fi      fi
936      echo >> genmake_warnings      echo >> $LOGFILE
937      echo "running: check_netcdf_libs()" >> genmake_warnings      echo "running: check_netcdf_libs()" >> $LOGFILE
938      cat <<EOF > genmake_tnc.F      cat <<EOF > genmake_tnc.F
939        program fgennc        program fgennc
940  #include "netcdf.inc"  #include "netcdf.inc"
# Line 952  EOF Line 952  EOF
952        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
953        end        end
954  EOF  EOF
955      echo "===  genmake_tnc.F  ===" > genmake_tnc.log      echo "===  genmake_tnc.F  >>>" > genmake_tnc.log
956      cat genmake_tnc.F >> genmake_tnc.log      cat genmake_tnc.F >> genmake_tnc.log
957      echo "===  genmake_tnc.F  ===" >> genmake_tnc.log      echo "<<<  genmake_tnc.F  ===" >> genmake_tnc.log
958      RET_CPP=f      RET_CPP=f
959      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"
960      echo "$COMM" >> genmake_tnc.log      echo "$COMM" >> genmake_tnc.log
# Line 970  EOF Line 970  EOF
970      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
971          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1
972      RET_COMPILE=$?      RET_COMPILE=$?
973      cat genmake_tnc.log >> genmake_warnings      cat genmake_tnc.log >> $LOGFILE
974    
975      #EH3  Remove test program execution for machines that either disallow      #EH3  Remove test program execution for machines that either disallow
976      #EH3  execution or cannot support it (eg. cross-compilers)      #EH3  execution or cannot support it (eg. cross-compilers)
# Line 981  EOF Line 981  EOF
981    
982      if test "x$RET_COMPILE" = x0 ; then      if test "x$RET_COMPILE" = x0 ; then
983          HAVE_NETCDF=t          HAVE_NETCDF=t
984            echo "check_netcdf: successful" >> $LOGFILE
985      else      else
986          # try again with "-lnetcdf" added to the libs          # try again with "-lnetcdf" added to the libs
987          echo "try again with added '-lnetcdf'" > genmake_tnc.log          echo "==> try again with added '-lnetcdf'" > genmake_tnc.log
988          echo "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
989          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
990          echo " &&  $LINK $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 992  EOF
992              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
993              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1
994          RET_COMPILE=$?          RET_COMPILE=$?
995          cat genmake_tnc.log >> genmake_warnings          echo >> $LOGFILE
996            cat genmake_tnc.log >> $LOGFILE
997          if test "x$RET_COMPILE" = x0 ; then          if test "x$RET_COMPILE" = x0 ; then
998              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
999              HAVE_NETCDF=t              HAVE_NETCDF=t
1000                echo "check_netcdf: successful" >> $LOGFILE
1001          else          else
1002          # try again with "-lnetcdff" added to the libs          # try again with "-lnetcdff" added to the libs
1003              echo "try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log              echo "==> try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
1004              echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log              echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1005              echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log              echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1006              echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log              echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
# Line 1005  EOF Line 1008  EOF
1008                  &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \                  &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1009                  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1                  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
1010              RET_COMPILE=$?              RET_COMPILE=$?
1011              cat genmake_tnc.log >> genmake_warnings              echo >> $LOGFILE
1012                cat genmake_tnc.log >> $LOGFILE
1013              if test "x$RET_COMPILE" = x0 ; then              if test "x$RET_COMPILE" = x0 ; then
1014                  LIBS="$LIBS -lnetcdff -lnetcdf"                  LIBS="$LIBS -lnetcdff -lnetcdf"
1015                  HAVE_NETCDF=t                  HAVE_NETCDF=t
1016                    echo "check_netcdf: successful" >> $LOGFILE
1017              fi              fi
1018          fi          fi
1019      fi      fi
1020      rm -f genmake_tnc*      rm -f genmake_tnc*
1021        echo " --> set HAVE_NETCDF='$HAVE_NETCDF'" >> $LOGFILE
1022  }  }
1023    
1024    
   
1025  ###############################################################################  ###############################################################################
1026  #   Sequential part of script starts here  #   Sequential part of script starts here
1027  ###############################################################################  ###############################################################################
# Line 1038  ENABLE= Line 1043  ENABLE=
1043  DISABLE=  DISABLE=
1044  # MAKEFILE=  # MAKEFILE=
1045  # MAKEDEPEND=  # MAKEDEPEND=
1046  PDEPEND=  PKG_DEPEND=
1047  DUMPSTATE=t  PKG_GROUPS=
1048  PDEFAULT=  DUMPSTATE=f
1049  OPTFILE=  OPTFILE=
1050  INCLUDES="-I. $INCLUDES"  INCLUDES="-I. $INCLUDES"
1051  FFLAGS=  FFLAGS=
# Line 1048  FOPTIM= Line 1053  FOPTIM=
1053  FEXTRAFLAGS=  FEXTRAFLAGS=
1054  USE_EXTENDED_SRC=  USE_EXTENDED_SRC=
1055  EXTENDED_SRC_FLAG=  EXTENDED_SRC_FLAG=
1056    GET_FC_VERSION=
1057  CFLAGS=  CFLAGS=
1058  KFLAGS1=  KFLAGS1=
1059  KFLAGS2=  KFLAGS2=
# Line 1058  NOOPTFILES= Line 1064  NOOPTFILES=
1064  NOOPTFLAGS=  NOOPTFLAGS=
1065  MPI=  MPI=
1066  MPIPATH=  MPIPATH=
1067    OMP=
1068    OMPFLAG=
1069    USE_R4=
1070  TS=  TS=
1071  PAPIS=  PAPIS=
1072  PCLS=  PCLS=
# Line 1122  FTL_TAF_FLAGS= Line 1131  FTL_TAF_FLAGS=
1131  SVD_TAMC_FLAGS=  SVD_TAMC_FLAGS=
1132  TAMC_EXTRA=  TAMC_EXTRA=
1133    
   
1134  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1135  gm_s1="OPTFILE PDEPEND PDEFAULT MAKEFILE PLATFORM ROOTDIR MODS DISABLE ENABLE"  gm_s1="OPTFILE PKG_DEPEND PKG_GROUPS MAKEFILE MAKEDEPEND PLATFORM ROOTDIR MODS DISABLE ENABLE"
1136  gm_s2="FC CPP IEEE TS PAPIS PCLS PAPI PCL HPMT GSL DEVEL MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="FC CC IEEE USE_R4 TS PAPIS PCLS PAPI PCL HPMT GSL DEVEL MPI OMP DUMPSTATE STANDARDDIRS"
1137    
1138  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1139  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"  gm_s3="LN S64 LINK MAKE PACKAGES INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"
1140  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s4="CFLAGS LIBS KPP KFLAGS1 KFLAGS2 KPPFILES NOOPTFILES NOOPTFLAGS"
1141  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD THISHOST THISUSER THISDATE THISVER MACHINE"
1142  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"
1143  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE HAVE_ETIME"  gm_s7="FC_NAMEMANGLE HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME"
1144    
1145  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1146  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"  gm_s10="AUTODIFF_PKG_USED AD_OPTFILE TAMC TAF AD_TAMC_FLAGS AD_TAF_FLAGS"
# Line 1146  cat <<EOF Line 1154  cat <<EOF
1154    
1155  GENMAKE :  GENMAKE :
1156    
1157  A program for GENerating MAKEfiles for the MITgcm project.  For a  A program for GENerating MAKEfiles for the MITgcm project.
1158  quick list of options, use "genmake -h" or for more detail see:     For a quick list of options, use "genmake2 -h"
1159    or for more detail see the Developer's HOWTO manual at:
1160    http://mitgcm.org/devel_HOWTO/     http://mitgcm.org/public/docs.html
1161    
1162  EOF  EOF
1163    
1164    LOGFILE="genmake.log"
1165    #- clean-up previous genmake logfiles:
1166    rm -f genmake_state genmake_*optfile $LOGFILE
1167    
1168  echo "===  Processing options files and arguments  ==="  echo "===  Processing options files and arguments  ==="
1169  gm_local="genmake_local"  gm_local="genmake_local"
1170  printf "  getting local config information:  "  printf "  getting local config information:  "
# Line 1166  else Line 1178  else
1178  fi  fi
1179    
1180  #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=$(( $n + 1 ))  
 #done  
1181  #parse_options  #parse_options
1182  ac_prev=  ac_prev=
1183  for ac_option in "$@" ; do  for ac_option in "$@" ; do
# Line 1187  for ac_option in "$@" ; do Line 1190  for ac_option in "$@" ; do
1190          ac_prev=          ac_prev=
1191          continue          continue
1192      fi      fi
1193        
1194      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`
1195        
1196      case $ac_option in      case $ac_option in
1197                    
1198          -help | --help | -h | --h)          -help | --help | -h | --h)
# Line 1208  for ac_option in "$@" ; do Line 1211  for ac_option in "$@" ; do
1211              AD_OPTFILE=$ac_optarg ;;              AD_OPTFILE=$ac_optarg ;;
1212                    
1213          -pdepend | --pdepend)          -pdepend | --pdepend)
1214              ac_prev=PDEPEND ;;              ac_prev=PKG_DEPEND ;;
1215          -pdepend=* | --pdepend=*)          -pdepend=* | --pdepend=*)
1216              PDEPEND=$ac_optarg ;;              PKG_DEPEND=$ac_optarg ;;
1217                    
1218          -pdefault | --pdefault)          -pgroups | --pgroups)
1219              ac_prev=PDEFAULT ;;              ac_prev=PKG_GROUPS ;;
1220          -pdefault=* | --pdefault=*)          -pgroups=* | --pgroups=*)
1221              PDEFAULT=$ac_optarg ;;              PKG_GROUPS=$ac_optarg ;;
1222                    
1223          -make | --make | -m | --m)          -make | --make | -m | --m)
1224              ac_prev=MAKE ;;              ac_prev=MAKE ;;
# Line 1299  for ac_option in "$@" ; do Line 1302  for ac_option in "$@" ; do
1302          -noieee | --noieee)          -noieee | --noieee)
1303              IEEE= ;;              IEEE= ;;
1304    
1305            -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
1306                USE_R4=true ;;
1307    
1308          -ts | --ts)          -ts | --ts)
1309              TS=true ;;              TS=true ;;
1310          -papis | --papis)          -papis | --papis)
# Line 1326  for ac_option in "$@" ; do Line 1332  for ac_option in "$@" ; do
1332              MPIPATH=$ac_optarg              MPIPATH=$ac_optarg
1333              MPI=true ;;              MPI=true ;;
1334                    
1335  #       -jam | --jam)          -omp | --omp)
1336  #           JAM=1 ;;              OMP=true ;;
1337  #       -nojam | --nojam)          -omp=* | --omp=*)
1338  #           JAM=0 ;;              OMPFLAG=$ac_optarg
1339                OMP=true ;;
1340                    
1341          -ds | --ds)          -ds | --ds)
1342              DUMPSTATE=t ;;              DUMPSTATE=t ;;
# Line 1361  for ac_option in "$@" ; do Line 1368  for ac_option in "$@" ; do
1368              ;;              ;;
1369                    
1370      esac      esac
       
 done  
1371    
1372    done
1373    
1374  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1375      echo      echo
# Line 1373  if test -f ./.genmakerc ; then Line 1379  if test -f ./.genmakerc ; then
1379      echo "    http://mitgcm.org/devel_HOWTO/"      echo "    http://mitgcm.org/devel_HOWTO/"
1380      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."
1381      echo "WARNING: ignore \"./.genmakerc\" and continue."      echo "WARNING: ignore \"./.genmakerc\" and continue."
1382      echo      echo
1383  fi  fi
1384    
1385  #  Find the MITgcm ${ROOTDIR}  #  Find the MITgcm ${ROOTDIR}
# Line 1406  fi Line 1412  fi
1412  #  Find the MITgcm ${THISVER}  #  Find the MITgcm ${THISVER}
1413  version_file="${ROOTDIR}/doc/tag-index"  version_file="${ROOTDIR}/doc/tag-index"
1414  if test -f $version_file ; then  if test -f $version_file ; then
1415      THISVER=`grep '^checkpoint' $version_file | head -1`      THISVER=`$AWK '/^checkpoint/{print $1; exit}' $version_file`
1416  #-  remove ./BUILD_INFO.h file if older than version_file  #-  remove ./BUILD_INFO.h file if older than version_file
1417      if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then      if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
1418          echo "  remove ./BUILD_INFO.h (older than ${version_file})"          echo "  remove ./BUILD_INFO.h (older than ${version_file})"
# Line 1423  if test "x${OPTFILE}" = x ; then Line 1429  if test "x${OPTFILE}" = x ; then
1429      if test "x$MITGCM_OF" = x ; then      if test "x$MITGCM_OF" = x ; then
1430          echo "Warning: no OPTFILE specified so we'll look for possible settings"          echo "Warning: no OPTFILE specified so we'll look for possible settings"
1431          printf "\n===  Searching for possible settings for OPTFILE  ===\n"          printf "\n===  Searching for possible settings for OPTFILE  ===\n"
1432          find_possible_configs          find_possible_optfile
1433      else      else
1434          OPTFILE=$MITGCM_OF          OPTFILE=$MITGCM_OF
1435      fi      fi
# Line 1438  if test "x$OPTFILE" != xNONE ; then Line 1444  if test "x$OPTFILE" != xNONE ; then
1444              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1445              exit 1              exit 1
1446          fi          fi
1447          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1448              cp -f $OPTFILE "genmake_optfile"              cp -f $OPTFILE "genmake_optfile"
1449          fi          fi
1450      else      else
# Line 1465  if test "x${AD_OPTFILE}" != xNONE ; then Line 1471  if test "x${AD_OPTFILE}" != xNONE ; then
1471              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1472              exit 1              exit 1
1473          fi          fi
1474          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1475              cp -f $AD_OPTFILE "genmake_ad_optfile"              cp -f $AD_OPTFILE "genmake_ad_optfile"
1476          fi          fi
1477      else      else
# Line 1493  Error: no Fortran compiler: please speci Line 1499  Error: no Fortran compiler: please speci
1499  EOF  EOF
1500      exit 1      exit 1
1501  fi  fi
1502    if test "x$GET_FC_VERSION" != x ; then
1503      echo "Get compiler version using: $FC $GET_FC_VERSION" >> $LOGFILE
1504      $FC $GET_FC_VERSION >> $LOGFILE 2>&1
1505      echo "--- compiler version ----" >> $LOGFILE
1506    fi
1507    
1508  if test "x$CC" = x ; then  if test "x$CC" = x ; then
1509      CC=cc      look_for_C_compilers
 #     cat <<EOF 1>&2  
 # Error: no C compiler: please specify using one of the following:  
 #   1) within the options file ("CC=...") as specified by "-of=OPTFILE"  
 #   2) the "-cc=XXX" command-line option  
 #   3) the "./genmake_local" file  
 # EOF  
 #     exit 1  
1510  fi  fi
1511    
1512  if test "x$LINK" = x ; then  if test "x$LINK" = x ; then
1513      LINK=$FC      LINK=$FC
1514  fi  fi
# Line 1510  if test "x$MAKE" = x ; then Line 1516  if test "x$MAKE" = x ; then
1516      MAKE="make"      MAKE="make"
1517  fi  fi
1518  if test "x$CPP" = x ; then  if test "x$CPP" = x ; then
1519      CPP=cpp      CPP="cpp -traditional -P"
1520  fi  fi
1521  #EH3 === UGLY ===  #EH3 === UGLY ===
1522  #  The following is an ugly little hack to check for $CPP in /lib/ and  #  The following is an ugly little hack to check for $CPP in /lib/ and
# Line 1537  EOF Line 1543  EOF
1543  else  else
1544      rm -f test_cpp      rm -f test_cpp
1545  fi  fi
1546    
1547  look_for_makedepend  look_for_makedepend
1548    
1549    #  Check that soft-link command is set and usable
1550  if test "x$LN" = x ; then  if test "x$LN" = x ; then
1551      LN="ln -s"      LN="ln -s"
1552  fi  fi
# Line 1547  RETVAL=$? Line 1556  RETVAL=$?
1556  if test "x$RETVAL" != x0 ; then  if test "x$RETVAL" != x0 ; then
1557      cat <<EOF 1>&2      cat <<EOF 1>&2
1558    
1559  Error: The command "ln -s" failed -- please specify a working soft-link  Error: The command "$LN" failed -- please specify a working soft-link
1560    command in the optfile.    command in the optfile.
1561    
1562  EOF  EOF
# Line 1567  if test ! "x$MPI" = x ; then Line 1576  if test ! "x$MPI" = x ; then
1576        echo "  Turning on MPI cpp macros"        echo "  Turning on MPI cpp macros"
1577        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"
1578  fi  fi
1579    if test ! "x$OMP" = x ; then
1580          echo "  Add OMPFLAG and turn on OpenMP cpp macros"
1581          FFLAGS="$FFLAGS $OMPFLAG"
1582          F90FLAGS="$F90FLAGS $OMPFLAG"
1583          DEFINES="$DEFINES -DUSE_OMP_THREADING"
1584    fi
1585    
1586    if test ! "x$USE_R4" = x ; then
1587          echo "  Turning on LET_RS_BE_REAL4 cpp flag"
1588          DEFINES="$DEFINES -DLET_RS_BE_REAL4"
1589    fi
1590    
1591  if test ! "x$TS" = x ; then  if test ! "x$TS" = x ; then
1592        echo "  Turning on timing per timestep"        echo "  Turning on timing per timestep"
# Line 1773  if test "x$EMBED_SRC" = xt ; then Line 1793  if test "x$EMBED_SRC" = xt ; then
1793      ENABLE="$ENABLE embed_files"      ENABLE="$ENABLE embed_files"
1794  fi  fi
1795    
   
1796  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
1797  printf "  Adding MODS directories:  "  printf "  Adding MODS directories: "
1798  for d in $MODS ; do  for d in $MODS ; do
1799      if test ! -d $d ; then      if test ! -d $d ; then
1800          echo          echo
1801          echo "Error: MODS directory \"$d\" not found!"          echo "Error: MODS directory \"$d\" not found!"
1802          exit 1          exit 1
1803      else      else
1804          printf " $d"          printf "$d "
1805          SOURCEDIRS="$SOURCEDIRS $d"          SOURCEDIRS="$SOURCEDIRS $d"
1806          INCLUDEDIRS="$INCLUDEDIRS $d"          INCLUDEDIRS="$INCLUDEDIRS $d"
1807      fi      fi
1808  done  done
1809  echo  echo
1810    
1811  if test "x${PLATFORM}" = x ; then  #if test "x${PLATFORM}" = x ; then
1812      PLATFORM=$p_PLATFORM  #    PLATFORM=$p_PLATFORM
1813  fi  #fi
1814    
1815  if test "x${EXEDIR}" = x ; then  if test "x${EXEDIR}" = x ; then
1816      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
# Line 1831  ERROR: neither of the two default script Line 1850  ERROR: neither of the two default script
1850      ${TOOLSDIR}/set64bitConst.sh      ${TOOLSDIR}/set64bitConst.sh
1851      ${TOOLSDIR}/set64bitConst.csh      ${TOOLSDIR}/set64bitConst.csh
1852    
1853    are working so please check paths or specify (with \$S64) a    are working so please check paths or specify (with \$S64) a
1854    working version of this script.    working version of this script.
1855    
1856  EOF  EOF
# Line 1843  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD Line 1862  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD
1862    
1863  EXECUTABLE=${EXECUTABLE:-mitgcmuv}  EXECUTABLE=${EXECUTABLE:-mitgcmuv}
1864    
1865    #  Set Standard Code Directories:
1866    if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then
1867        STANDARDDIRS="eesupp model"
1868    fi
1869    #  if model in Standard-Code-Dir, add eesupp (needed to compile model)
1870    echo " $STANDARDDIRS " | grep ' model ' > /dev/null 2>&1
1871    ckM=$?
1872    echo " $STANDARDDIRS " | grep ' eesupp ' > /dev/null 2>&1
1873    ckE=$?
1874    if test $ckM = 0 -a $ckE = 1 ; then
1875        STANDARDDIRS="$STANDARDDIRS eesupp"
1876    fi
1877    
1878  #  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
1879  #  generated from some template source files. We'll make them first so  #  generated from some template source files. We'll make them first so
1880  #  they appear as regular source code  #  they appear as regular source code
1881  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then
1882      echo "  Making source files in eesupp from templates"      echo "  Making source files in eesupp from templates"
1883      ( cd $ROOTDIR"/eesupp/src/" && $MAKE ) > make_eesupp.errors 2>&1      ( cd $ROOTDIR"/eesupp/src/" && $MAKE clean_old && $MAKE \
1884        ) > make_eesupp.errors 2>&1
1885      RETVAL=$?      RETVAL=$?
1886      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
1887          rm -f make_eesupp.errors          rm -f make_eesupp.errors
# Line 1863  fi Line 1896  fi
1896  for pdir in exch2 regrid ; do  for pdir in exch2 regrid ; do
1897      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then
1898          echo "  Making source files in pkg/${pdir} from templates"          echo "  Making source files in pkg/${pdir} from templates"
1899          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE ) > make_${pdir}.errors 2>&1          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE clean_old && $MAKE \
1900            ) > make_${pdir}.errors 2>&1
1901          RETVAL=$?          RETVAL=$?
1902          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
1903              rm -f make_${pdir}.errors              rm -f make_${pdir}.errors
# Line 1876  for pdir in exch2 regrid ; do Line 1910  for pdir in exch2 regrid ; do
1910  done  done
1911    
1912  printf "\n===  Determining package settings  ===\n"  printf "\n===  Determining package settings  ===\n"
1913  if  test "x${PDEPEND}" = x ; then  if  test "x${PKG_DEPEND}" = x ; then
1914      tmp=$ROOTDIR"/pkg/pkg_depend"      tmp=$ROOTDIR"/pkg/pkg_depend"
1915      if test -r $tmp ; then      if test -r $tmp ; then PKG_DEPEND=$tmp ; fi
1916          PDEPEND=$tmp  fi
1917      else  if  test "x${PKG_DEPEND}" = x ; then
1918          echo "Warning:  No package dependency information was specified."          echo "Warning:  No package dependency information was specified."
1919          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."
     fi  
1920  else  else
1921      if test ! -r ${PDEPEND} ; then      if test ! -r ${PKG_DEPEND} ; then
1922          echo "Error:  can't read package dependency info from PDEPEND=\"$PDEPEND\""          echo "Error:  can't read package dependency info from PKG_DEPEND=\"$PKG_DEPEND\""
1923          exit 1          exit 1
1924      fi      fi
1925        echo "  getting package dependency info from  $PKG_DEPEND"
1926    #  Strip the comments and then convert the dependency file into arrays: PNAME, DNAME
1927        get_pdepend_list $PKG_DEPEND
1928  fi  fi
1929  echo "  getting package dependency info from  $PDEPEND"  
1930  #  Strip the comments and then convert the dependency file into  # A default package groups file "$ROOTDIR/pkg/pkg_groups" is provided
1931  #  two arrays: PNAME, DNAME  #  to define the "default_pkg_list" and package groups (for convenience, one
1932  cat $PDEPEND | sed -e 's/#.*$//g' \  #  can specify a group of packages using names like "ocean" and "atmosphere").
1933      | $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${PKG_GROUPS}" = x ; then
1934      > ./.pd_tmp      tmp=$ROOTDIR"/pkg/pkg_groups"
1935  RETVAL=$?      if test -r $tmp ; then PKG_GROUPS=$tmp ; fi
1936  if test ! "x${RETVAL}" = x0 ; then  fi
1937      echo "Error: unable to parse package dependencies -- please check PDEPEND=\"$PDEPEND\""  if test "x${PKG_GROUPS}" = x ; then
1938      exit 1          echo "Warning:  No package groups information was specified."
1939            echo "  Please check that ROOTDIR/pkg/pkg_groups exists."
1940    else
1941        if test ! -r ${PKG_GROUPS} ; then
1942            echo "Error:  can't read package groups info from PKG_GROUPS=\"$PKG_GROUPS\""
1943            exit 1
1944        fi
1945        echo "  getting package groups info from      $PKG_GROUPS"
1946  fi  fi
 . ./.pd_tmp  
 rm -f ./.pd_tmp  
1947    
1948  #  Search for default packages.  Note that a "$ROOTDIR/pkg/pkg_groups"  #  Search for packages to compile.
1949  #  file should eventually be added so that, for convenience, one can  echo "  checking list of packages to compile:"
1950  #  specify groups of packages using names like "ocean" and "atmosphere".  PKG_LIST=
1951  echo "  checking default package list:  "  if test "x${PKG_LIST}" = x ; then
 if test "x${PDEFAULT}" = x ; then  
1952      for i in "." $MODS ; do      for i in "." $MODS ; do
1953          if test -r $i"/packages.conf" ; then          if test -r $i"/packages.conf" ; then
1954                  PDEFAULT=$i"/packages.conf"                  PKG_LIST=$i"/packages.conf"
1955                  break                  break
1956          fi          fi
1957      done      done
1958  fi  fi
1959  if test "x${PDEFAULT}" = x ; then  if test "x${PKG_LIST}" = x ; then
1960      PDEFAULT="$ROOTDIR/pkg/pkg_default"      pkg_list='default_pkg_list'
1961  fi      if test "x${PKG_GROUPS}" = x ; then
1962  if test "x${PDEFAULT}" = xNONE ; then          echo "Error:  need package groups info to expand pkg_list=\"$pkg_list\""
1963      echo "    default packages file disabled"          exit 1
1964        fi
1965  else  else
1966      if test ! -r $PDEFAULT ; then      if test ! -r $PKG_LIST ; then
1967          echo "Warning:  can't read default packages from PDEFAULT=\"$PDEFAULT\""          echo "Error:  can't read package list from PKG_LIST=\"$PKG_LIST\""
1968            exit 1
1969      else      else
1970          echo "    using PDEFAULT=\"$PDEFAULT\""          echo "    using PKG_LIST=\"$PKG_LIST\""
1971          #  Strip the comments and add all the names          #  Strip the comments and add all the names
1972          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 $0}'`
1973          RETVAL=$?          RETVAL=$?
1974          if test "x${RETVAL}" != x0 ; then          if test "x${RETVAL}" != x0 ; then
1975              printf "Error: can't parse default package list "              printf "Error: can't parse package list "
1976              echo "-- please check PDEFAULT=\"$PDEFAULT\""              echo "-- please check PKG_LIST=\"$PKG_LIST\""
1977              exit 1              exit 1
1978          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"  
1979      fi      fi
1980  fi  fi
1981    for i in $pkg_list ; do
1982        PACKAGES="$PACKAGES $i"
1983    done
1984    echo     "    before group expansion packages are:$PACKAGES"
1985    if test "x${PKG_GROUPS}" != x ; then
1986        RET=1
1987        while test $RET = 1 ; do expand_pkg_groups; RET=$?; done
1988        echo "    after group expansion packages are: $PACKAGES"
1989    fi
1990    
1991  echo "  applying DISABLE settings"  echo "  applying DISABLE settings"
1992    echo "" > ./.tmp_pack
1993  for i in $PACKAGES ; do  for i in $PACKAGES ; do
1994      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
1995  done  done
# Line 1972  PACKAGES="$PACKAGES $ENABLE" Line 2017  PACKAGES="$PACKAGES $ENABLE"
2017  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2018      j=`echo $i | sed 's/[-+]//'`      j=`echo $i | sed 's/[-+]//'`
2019      if test ! -d "$ROOTDIR/pkg/$j" ; then      if test ! -d "$ROOTDIR/pkg/$j" ; then
2020          echo "Error: can't find package $i at \"$ROOTDIR/pkg/$i\""          echo "Error: dir '$ROOTDIR/pkg/$i' missing for package '$i'"
2021          exit 1          exit 1
2022      fi      fi
2023      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
# Line 1982  for i in `grep -v "-" ./.tmp_pack | sort Line 2027  for i in `grep -v "-" ./.tmp_pack | sort
2027      PACKAGES="$PACKAGES $i"      PACKAGES="$PACKAGES $i"
2028  done  done
2029  rm -f ./.tmp_pack  rm -f ./.tmp_pack
2030  echo "    packages are:  $PACKAGES"  echo "    packages are: $PACKAGES"
2031    
2032  #  Check for package MNC: if NetCDF is available, then build the MNC  #  Check for package MNC: if NetCDF is available, then build the MNC
2033  #  template files ; otherwise, delete mnc from the list of packages.  #  template files ; otherwise, delete mnc from the list of packages.
2034  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1  echo " $PACKAGES " | grep ' mnc ' > /dev/null 2>&1
2035  RETVAL=$?  mnc_in=$?
2036  if test "x$RETVAL" = x0 ; then  if test "x$HAVE_NETCDF" != xt ; then
2037      if test "x$HAVE_NETCDF" != xt ; then      if test "x$mnc_in" = x0 ; then
2038          cat <<EOF          cat <<EOF
   
2039  *********************************************************************  *********************************************************************
2040  WARNING: the "mnc" package was enabled but tests failed to compile  WARNING: the "mnc" package was enabled but tests failed to compile
2041    NetCDF applications.  Please check that:    NetCDF applications.  Please check that:
2042    
2043    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2044    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2045         NetCDF library to link against.         NetCDF library to link against.
2046    
2047    Due to this failure, the "mnc" package is now DISABLED.    Due to this failure, the "mnc" package is now DISABLED.
2048  *********************************************************************  *********************************************************************
   
2049  EOF  EOF
2050          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`
2051          DISABLE="$DISABLE mnc"          DISABLE="$DISABLE mnc"
2052      else      else
2053          ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1      #  this prevent to add mnc (due to pdepend rules) if not available
2054          RETVAL=$?          DISABLE="$DISABLE mnc"
2055          if test "x${RETVAL}" = x0 ; then      fi
2056              rm -f make_mnc.errors  else
2057        # we have NetCDF, we try to build MNC template files
2058        ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1
2059        RETVAL=$?
2060        if test "x${RETVAL}" = x0 ; then
2061            rm -f make_mnc.errors
2062        else
2063            echo "Error: problem encountered while building source files in pkg/mnc:"
2064            cat make_mnc.errors 1>&2
2065            if test "x$mnc_in" = x0 ; then
2066                exit 1
2067          else          else
2068              echo "Error: problem encountered while building source files in pkg/mnc:"              DISABLE="$DISABLE mnc"
             cat make_mnc.errors 1>&2  
             exit 1  
2069          fi          fi
2070      fi      fi
2071  fi  fi
2072    
2073  #  Check for package PROFILES: if NetCDF is not available,  #  Check for package PROFILES: if NetCDF is not available,
2074  #  then delete profiles from the list of available packages.  #  then delete profiles from the list of available packages.
2075  echo $PACKAGES | grep ' profiles ' > /dev/null 2>&1  if test "x$HAVE_NETCDF" != xt ; then
2076  RETVAL=$?      echo " $PACKAGES " | grep ' profiles ' > /dev/null 2>&1
2077  if test "x$RETVAL" = x0 ; then      RETVAL=$?
2078      if test "x$HAVE_NETCDF" != xt ; then      if test "x$RETVAL" = x0 ; then
2079          cat <<EOF          cat <<EOF
   
2080  *********************************************************************  *********************************************************************
2081  WARNING: the "profiles" package was enabled but tests failed to  WARNING: the "profiles" package was enabled but tests failed to
2082    compile NetCDF applications.  Please check that:    compile NetCDF applications.  Please check that:
2083    
2084    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2085    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2086         NetCDF library to link against.         NetCDF library to link against.
2087    
2088    Due to this failure, the "profiles" package is now DISABLED.    Due to this failure, the "profiles" package is now DISABLED.
2089  *********************************************************************  *********************************************************************
   
2090  EOF  EOF
2091          PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
2092          DISABLE="$DISABLE profiles"          DISABLE="$DISABLE profiles"
2093        else
2094        #  this prevent to add profiles (due to pdepend rules) if not available
2095            DISABLE="$DISABLE profiles"
2096      fi      fi
2097  fi  fi
2098    
2099  echo "  applying package dependency rules"  if  test "x${PKG_DEPEND}" != x ; then
2100  ck=    echo "  applying package dependency rules"
2101  while test "x$ck" != xtt ; do    ck=
2102      while test "x$ck" != xtt ; do
2103      i=0      i=0
2104      # rtot=${#PNAME[@]}      # rtot=${#PNAME[@]}
2105      rtot=$nname      rtot=$nname
# Line 2062  while test "x$ck" != xtt ; do Line 2115  while test "x$ck" != xtt ; do
2115                  pin="t"                  pin="t"
2116              fi              fi
2117          done          done
2118            #  or in the current $STANDARDDIRS list?
2119            for p in $STANDARDDIRS ; do
2120                if test "x$p" = "x$pname" ; then pin="t" ; fi
2121            done
2122    
2123          #  Is the DNAME entry a (+) or (-) rule ?          #  Is the DNAME entry a (+) or (-) rule ?
2124          tmp="dname=\"\$DNAME_$i\""          tmp="dname=\"\$DNAME_$i\""
# Line 2105  while test "x$ck" != xtt ; do Line 2162  while test "x$ck" != xtt ; do
2162          #  Do we need to get rid of $dname according to the dependency rules?          #  Do we need to get rid of $dname according to the dependency rules?
2163          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then
2164              echo "Error: can't satisfy package dependencies:"              echo "Error: can't satisfy package dependencies:"
2165              echo "  \"$pname\" was requested but is disallowed by"              echo "  \"$pname\" was requested but is disallowed by"
2166              echo "  the dependency rules for \"$dname\""              echo "  the dependency rules for \"$dname\""
2167              exit 1              exit 1
2168          fi          fi
# Line 2113  while test "x$ck" != xtt ; do Line 2170  while test "x$ck" != xtt ; do
2170          #i=$(( $i + 1 ))          #i=$(( $i + 1 ))
2171      done      done
2172      ck=$ck"t"      ck=$ck"t"
2173  done    done
2174  echo "    packages are:  $PACKAGES"    echo "    packages are: $PACKAGES"
2175    fi
2176  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2177      adr="$ROOTDIR/pkg/$i"      adr="$ROOTDIR/pkg/$i"
2178      if test -d $adr ; then      if test -d $adr ; then
# Line 2131  done Line 2189  done
2189    
2190  # Create a list of #define and #undef to enable/disable packages  # Create a list of #define and #undef to enable/disable packages
2191  PACKAGES_DOT_H=PACKAGES_CONFIG.h  PACKAGES_DOT_H=PACKAGES_CONFIG.h
2192  #  The following UGLY HACK sets multiple "#undef"s and it needs to go  #  The following UGLY HACK sets multiple "#undef"s and it needs to go
2193  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h
2194  #  file would eventually be split up so that all package-related #define  #  file would eventually be split up so that all package-related #define
2195  #  statements could be separated and handled only by genmake.  #  statements could be separated and handled only by genmake.
2196  names=`ls -1 "$ROOTDIR/pkg"`  names=`ls -1 "$ROOTDIR/pkg"`
# Line 2160  for i in $PACKAGES ; do Line 2218  for i in $PACKAGES ; do
2218  #eh3 DEFINES="$DEFINES -D$def"  #eh3 DEFINES="$DEFINES -D$def"
2219    
2220  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!
2221      case $i in      case $i in
2222          aim_v23)          aim_v23)
2223              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"
2224              echo "Warning: ALLOW_AIM is set to enable aim_v23."              echo "Warning: ALLOW_AIM is set to enable aim_v23."
# Line 2170  for i in $PACKAGES ; do Line 2228  for i in $PACKAGES ; do
2228    
2229  done  done
2230    
2231  echo "  Adding STANDARDDIRS"  echo "  Adding STANDARDDIRS='$STANDARDDIRS'"
2232  BUILDDIR=${BUILDDIR:-.}  BUILDDIR=${BUILDDIR:-.}
 if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then  
     STANDARDDIRS="eesupp model"  
 fi  
2233  if test "x$STANDARDDIRS" != x ; then  if test "x$STANDARDDIRS" != x ; then
2234      for d in $STANDARDDIRS ; do      for d in $STANDARDDIRS ; do
2235          adr="$ROOTDIR/$d/src"          adr="$ROOTDIR/$d/src"
# Line 2233  if test -f ./adSrcFiles.tmp ; then Line 2288  if test -f ./adSrcFiles.tmp ; then
2288      rm -f ./adSrcFiles.tmp      rm -f ./adSrcFiles.tmp
2289  fi  fi
2290  echo "  Creating the list of files for the adjoint compiler."  echo "  Creating the list of files for the adjoint compiler."
2291    touch adSrcFiles.tmp
2292  for i in $SOURCEDIRS ; do  for i in $SOURCEDIRS ; do
2293      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
2294      for j in $list_files ; do      for j in $list_files ; do
# Line 2265  if test ! "x$DIVA" = x ; then Line 2321  if test ! "x$DIVA" = x ; then
2321          fi          fi
2322          MPIINCLUDEDIR='$MPIHOME/include'          MPIINCLUDEDIR='$MPIHOME/include'
2323      fi      fi
2324        
2325      if test -r $MPIINCLUDEDIR/mpif.h ; then      if test -r $MPIINCLUDEDIR/mpif.h ; then
2326          for i in $MPI_HEADER_FILES; do          for i in $MPI_HEADER_FILES; do
2327              cp -p $MPIINCLUDEDIR/$i ./mpi_headers              cp -p $MPIINCLUDEDIR/$i ./mpi_headers
# Line 2300  if test ! -r ".links.tmp/foo" ; then Line 2356  if test ! -r ".links.tmp/foo" ; then
2356  fi  fi
2357  rm -f .links.tmp/foo  rm -f .links.tmp/foo
2358    
2359  if test "x$OPENAD" != x ; then  if test "x$OPENAD" != x ; then
2360      OAD_DONT_COMPILE="/dev/null"      OAD_DONT_COMPILE="/dev/null"
2361      OAD_DONT_TRANSFORM="/dev/null"      OAD_DONT_TRANSFORM="/dev/null"
2362      OAD_KEEP_ORIGINAL="/dev/null"      OAD_KEEP_ORIGINAL="/dev/null"
# Line 2353  for d in $alldirs ; do Line 2409  for d in $alldirs ; do
2409      deplist=      deplist=
2410      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
2411      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
2412      if test "x$OPENAD" != x ; then      if test "x$OPENAD" != x ; then
2413          sfiles=`( echo $sfiles | grep -v _cb2m\. )`          sfiles=`( echo $sfiles | grep -v _cb2m\. )`
2414      fi      fi
2415      for sf in $sfiles ; do      for sf in $sfiles ; do
# Line 2393  for d in $alldirs ; do Line 2449  for d in $alldirs ; do
2449                        F)                        F)
2450                          echo    " \\"  >> F77srclist.tmp                          echo    " \\"  >> F77srclist.tmp
2451                          printf " $sf" >> F77srclist.tmp                          printf " $sf" >> F77srclist.tmp
2452                          if test "x$OPENAD" != x ; then                          if test "x$OPENAD" != x ; then
2453                              basename=${sf%%.F}                              basename=${sf%%.F}
2454                              isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`                              isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`
2455                              if test -z "$isAD" ; then                              if test -z "$isAD" ; then
2456                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
2457                                  if test -z "$toBeIgnored" ; then                                  if test -z "$toBeIgnored" ; then
2458                                      echo    " \\"  >> nonADF77srclist.tmp                                      echo    " \\"  >> nonADF77srclist.tmp
2459                                      printf " $sf" >> nonADF77srclist.tmp                                      printf " $sf" >> nonADF77srclist.tmp
2460                                  else                                  else
2461                                      echo "    not to be compiled   :  $sf"                                      echo "    not to be compiled   :  $sf"
2462                                  fi                                  fi
2463                              else # file is initially listed as an AD file we want to exclude it                              else # file is initially listed as an AD file we want to exclude it
2464                                   # or we want to retain the untransformed version                                   # or we want to retain the untransformed version
2465                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
2466                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
2467                                  if test -n "$notToBeTransformed"; then                                  if test -n "$notToBeTransformed"; then
2468                                      echo "    not to be transformed:  $sf"                                      echo "    not to be transformed:  $sf"
2469                                  fi                                  fi
2470                                  if test -n "$untransformedVersionToBeKept" ; then                                  if test -n "$untransformedVersionToBeKept" ; then
2471                                      echo "    original to be kept  :  $sf"                                      echo "    original to be kept  :  $sf"
2472                                  fi                                      fi
2473                                  if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then                                  if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
2474                                      echo    " \\"  >> nonADF77srclist.tmp                                      echo    " \\"  >> nonADF77srclist.tmp
2475                                      printf " $sf" >> nonADF77srclist.tmp                                      printf " $sf" >> nonADF77srclist.tmp
# Line 2462  echo "" >> F90srclist.tmp Line 2518  echo "" >> F90srclist.tmp
2518  echo "" >> hsrclist.tmp  echo "" >> hsrclist.tmp
2519  echo "" >> ad_flow_files.tmp  echo "" >> ad_flow_files.tmp
2520    
2521    CMDLINE=$0
2522    for xx in "$@" ; do nw=`echo $xx | wc -w`
2523        if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
2524                            else CMDLINE="$CMDLINE '$xx'" ; fi
2525    done
2526    
2527  if test -f $MAKEFILE ; then  if test -f $MAKEFILE ; then
2528      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.old"
2529  fi  fi
2530  echo "  Writing makefile: $MAKEFILE"  echo "  Writing makefile: $MAKEFILE"
2531  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE
# Line 2471  echo "#    $MACHINE" >> $MAKEFILE Line 2533  echo "#    $MACHINE" >> $MAKEFILE
2533  echo "# This makefile was generated automatically on" >> $MAKEFILE  echo "# This makefile was generated automatically on" >> $MAKEFILE
2534  echo "#    $THISDATE" >> $MAKEFILE  echo "#    $THISDATE" >> $MAKEFILE
2535  echo "# by the command:" >> $MAKEFILE  echo "# by the command:" >> $MAKEFILE
2536  echo "#    $0 $G2ARGS" >> $MAKEFILE  echo "#    $CMDLINE"  >> $MAKEFILE
2537  echo "# executed by:" >> $MAKEFILE  echo "# executed by:" >> $MAKEFILE
2538  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
2539    
# Line 2482  EXE_SVD=$EXECUTABLE"_svd" Line 2544  EXE_SVD=$EXECUTABLE"_svd"
2544  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2545  #  #
2546  # OPTFILE="$OPTFILE"  # OPTFILE="$OPTFILE"
2547  #  #
2548  # BUILDDIR     : Directory where object files are written  # BUILDDIR     : Directory where object files are written
2549  # SOURCEDIRS   : Directories containing the source (.F) files  # SOURCEDIRS   : Directories containing the source (.F) files
2550  # INCLUDEDIRS  : Directories containing the header-source (.h) files  # INCLUDEDIRS  : Directories containing the header-source (.h) files
# Line 2502  cat >>$MAKEFILE <<EOF Line 2564  cat >>$MAKEFILE <<EOF
2564  # LIBS         : Library flags /or/ additional optimization/debugging flags  # LIBS         : Library flags /or/ additional optimization/debugging flags
2565    
2566  ROOTDIR     = ${ROOTDIR}  ROOTDIR     = ${ROOTDIR}
2567  BUILDDIR    = ${BUILDDIR}    BUILDDIR    = ${BUILDDIR}
2568  SOURCEDIRS  = ${SOURCEDIRS}  SOURCEDIRS  = ${SOURCEDIRS}
2569  INCLUDEDIRS = ${INCLUDEDIRS}  INCLUDEDIRS = ${INCLUDEDIRS}
2570  EXEDIR      = ${EXEDIR}  EXEDIR      = ${EXEDIR}
# Line 2528  else Line 2590  else
2590      echo "EMBEDDED_FILES = " >>$MAKEFILE      echo "EMBEDDED_FILES = " >>$MAKEFILE
2591  fi  fi
2592    
 #  Note: figure out some way to add Hyades JAM libraries here  
2593  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2594  # Unix ln (link)  # Unix ln (link)
2595  LN = ${LN}  LN = ${LN}
# Line 2584  rm -f F77srclist.tmp nonADF77srclist.tmp Line 2645  rm -f F77srclist.tmp nonADF77srclist.tmp
2645    
2646  echo >> $MAKEFILE  echo >> $MAKEFILE
2647    
2648  # add definitions for preprocessed sources  # add definitions for preprocessed sources
2649  # and note that not all systems allow case sensitive extensions  # and note that not all systems allow case sensitive extensions
2650  # hence the $FS and $FS90 here.  # hence the $FS and $FS90 here.
2651  # for fixed format f90 files we use ff90 or FF90 resp  # for fixed format f90 files we use ff90 or FF90 resp
2652  # but these are not expected to be the original source files  # but these are not expected to be the original source files
2653    
2654  echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE  echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
# Line 2624  output.txt: \$(EXECUTABLE) Line 2685  output.txt: \$(EXECUTABLE)
2685          @printf 'running ... '          @printf 'running ... '
2686          @\$(EXECUTABLE) > \$@          @\$(EXECUTABLE) > \$@
2687    
2688    # remove most of the files that "make" generates
2689  clean:  clean:
2690          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2691          -rm -rf *.o          -rm -rf *.o
2692          -rm -rf *.$FS *.flowdir          -rm -rf *.$FS *.flowdir
2693          -rm -rf *.f$FS90 *_mod.h *_mod.F90 *.FF90 *.mod-whirl ad_input*          -rm -rf *.f$FS90 \$(AD_CLEAN) ad_input*
2694          -rm -rf temp.sed  
2695    # remove most of the files that "make" and "make depend" generate
2696  Clean:  Clean:
2697          @make clean          @make clean
2698          @make cleanlinks          @make cleanlinks
2699          -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  
2700          -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
2701            -rm -f genmake_warnings genmake_errors make.log
2702    
2703    # remove also the executable, files that "genmake2" generates (except Makefile)
2704    #         and output from a run (plus log files from testreport)
2705  CLEAN:  CLEAN:
2706          @make Clean          @make Clean
2707            -rm -f \$(EXECUTABLE) \$(EXE_AD) *.bak
2708            -rm -f $LOGFILE genmake_state genmake_*optfile genmake.tr_log make.tr_log
2709          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
2710          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
2711          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
2712          -rm -f \$(EXECUTABLE) \$(EXE_AD) *.txt STD* *diagnostics.log datetime          -rm -f *.txt STD* *diagnostics.log datetime
2713          -rm -f *_MIT_CE_000.opt0000 costfunction*0000          -rm -f *_MIT_CE_000.opt0000 costfunction*0000
2714          -rm -rf mnc_test_*          -rm -rf mnc_test_*
2715    
 #eh3 Makefile: makefile  
2716  makefile:  makefile:
2717          $THIS_SCRIPT $G2ARGS          $THIS_SCRIPT $G2ARGS
2718  cleanlinks:  cleanlinks:
# Line 2676  if test "x$EMBED_SRC" = xt ; then Line 2743  if test "x$EMBED_SRC" = xt ; then
2743    
2744  decode_files.o : EMBEDDED_FILES.h  decode_files.o : EMBEDDED_FILES.h
2745    
2746  ##  \$(F77_PP_SRC_FILES)  ##  \$(F77_PP_SRC_FILES)
2747  all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile  all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2748          @echo Creating \$@ ...          @echo Creating \$@ ...
2749          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile          -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
# Line 2701  cat >>$MAKEFILE <<EOF Line 2768  cat >>$MAKEFILE <<EOF
2768          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2769  .$FS.o:  .$FS.o:
2770          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2771    .F.o:
2772            \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2773  .F90.$FS90:  .F90.$FS90:
2774          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2775  .FF90.f$FS90:  .FF90.f$FS90:
# Line 2727  EOF Line 2796  EOF
2796  #===  Automatic Differentiation Rules  ===  #===  Automatic Differentiation Rules  ===
2797  #===  for TAMC/TAF  ======================  #===  for TAMC/TAF  ======================
2798    
2799  if test "x$OPENAD" == x ; then  if test "x$OPENAD" = x ; then
2800    
2801  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2802    
# Line 2768  adall: \$(EXE_AD) Line 2837  adall: \$(EXE_AD)
2837  adtaf: ad_taf_output.$FS  adtaf: ad_taf_output.$FS
2838  adtamc: ad_tamc_output.$FS  adtamc: ad_tamc_output.$FS
2839    
2840  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES) \$(AD_FLOW_FILES)
2841          @$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          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template
2842          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
2843          -rm -f ad_config.template          -rm -f ad_config.template
2844          @make \$(F77_PP_SRC_FILES)          @make \$(F77_PP_SRC_FILES)
2845          @make \$(FLOFILES)          @make \$(FLOFILES)
2846          cat \$(FLOFILES) \$(AD_FILES) > ad_input_code.$FS          cat \$(FLOFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS
2847    
2848  ad_taf_output.$FS: ad_input_code.$FS  ad_taf_output.$FS: ad_input_code.$FS
2849          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
# Line 2787  adtafonly: Line 2856  adtafonly:
2856          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS          cat ad_input_code_ad.$FS | sed -f \$(TOOLSDIR)/adjoint_sed > ad_taf_output.$FS
2857    
2858  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)
2859          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)
2860    
2861  ad_tamc_output.$FS: ad_input_code.$FS  ad_tamc_output.$FS: ad_input_code.$FS
2862          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
2863          cat ad_input_code_ad.$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
2864    
2865  ad_tamc: ad_tamc_output.o \$(OBJFILES)  ad_tamc: ad_tamc_output.o \$(OBJFILES)
2866          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
2867    
2868  adonlyfwd:  adonlyfwd:
2869          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
2870    
2871  adtrick:  adtrick:
2872          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
2873    
# Line 2826  ftltafonly: Line 2895  ftltafonly:
2895          cat ftl_input_code_ftl.$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
2896    
2897  ftl_taf: ftl_taf_output.o \$(OBJFILES)  ftl_taf: ftl_taf_output.o \$(OBJFILES)
2898          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)
2899    
2900  ftl_tamc_output.$FS: ftl_input_code.$FS  ftl_tamc_output.$FS: ftl_input_code.$FS
2901          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
2902          cat ftl_input_code_ftl.$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
2903    
2904  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
2905          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
   
2906    
2907  # ... SVD ...  # ... SVD ...
2908  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
# Line 2862  svd_touch: Line 2930  svd_touch:
2930    
2931  EOF  EOF
2932    
2933  fi  fi
2934    
2935  #===  for OpenAD  ========================  #===  for OpenAD  ========================
2936    
2937  if test "x$OPENAD" != x ; then  if test "x$OPENAD" != x ; then
2938    
2939  # ============ begin OpenAD specific section ==============  # ============ begin OpenAD specific section ==============
2940    
2941  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2942    
2943  # all the source files linked from the various locations:  # all the source files linked from the various locations:
2944  ALL_LINKED_FILES= \  ALL_LINKED_FILES= \
2945  \$(F77_SRC_FILES) \  \$(F77_SRC_FILES) \
2946  \$(C_SRC_FILES) \  \$(C_SRC_FILES) \
# Line 2924  rm -f adSrcFiles.tmp Line 2992  rm -f adSrcFiles.tmp
2992    
2993  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2994    
2995  adAll: \$(EXE_AD)  adAll: \$(EXE_AD)
2996  .PHONY: adAll  .PHONY: adAll
2997    
2998  CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))  CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
# Line 2942  w2f__types.F90 \ Line 3010  w2f__types.F90 \
3010  OAD_active.F90 \  OAD_active.F90 \
3011  OAD_cp.F90 \  OAD_cp.F90 \
3012  OAD_rev.F90 \  OAD_rev.F90 \
3013  OAD_tape.F90          OAD_tape.F90
3014    
3015  OPENAD_SUPPORT_C_SRC_FILES = \  OPENAD_SUPPORT_C_SRC_FILES = \
3016  iaddr.c \  iaddr.c \
# Line 2951  timeRatio.c Line 3019  timeRatio.c
3019  f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)  f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
3020          cat \$^ > \$@          cat \$^ > \$@
3021    
3022  f95_test.f90: all_mods.xb.x2w.w2f.pp.f$FS90 \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90) ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90  f95_test.f90: all_mods.xb.x2w.w2f.pp.f$FS90 \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90) ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3023          cat \$^ > \$@          cat \$^ > \$@
3024    
3025  f95_test.out: f95_test_mods.f90 f95_test.f90  f95_test.out: f95_test_mods.f90 f95_test.f90
3026          f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1          f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
3027          f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1          f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
3028    
3029  AD_OBJ_FILES=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) all_mods.xb.x2w.w2f.pp.o  ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.o \$(NON_AD_F77_SRC_FILES:.F=_cb2m.o) \$(C_SRC_FILES:.c=.o) \$(F90_SRC_FILES:.F90=.o)  # the file included below is created by the
3030    # postProcessor and its inclusion sets the
3031    # variable POSTPROCESSEDFILES
3032    # used below. Because the file is made during
3033    # make it won't be read until the second (recursive)
3034    # invocation in the rule below
3035    -include postProcess.make
3036    
3037    AD_OBJ_FILES_S1=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) \$(POSTPROCESSEDFILES:.f$FS90=.o)
3038    
3039    AD_OBJ_FILES_S2=\$(AD_OBJ_FILES_S1) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.o) \$(C_SRC_FILES:.c=.o) \$(F90_SRC_FILES:.F90=.o)
3040    
3041    postProcess.comp: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.tag \$(AD_OBJ_FILES_S1)
3042    ifeq (\$(MAKELEVEL),0)
3043            \$(MAKE) adAll
3044    else
3045            touch \$@
3046    endif
3047    
3048  \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(AD_OBJ_FILES)  \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.comp \$(AD_OBJ_FILES_S2)
3049          @echo Creating \$@ ...  ifeq (\$(MAKELEVEL),1)
3050          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES_S2) \$(LIBS)
3051    else
3052            touch \$@
3053    endif
3054    
3055  # makefile debug rule  # makefile debug rule
3056  openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90  openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3057  .PHONY: openad  .PHONY: openad
3058    
3059  # create the module files  # create the module files
3060  %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk  %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk
3061          ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk          ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk
3062    
3063  # create the header files  # create the header files
3064  %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk  %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk
3065          ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)          ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
3066    
3067  # change everybody else to use the new module files:  # change everybody else to use the new module files:
# Line 2992  ad_output.txt: \$(EXE_AD) Line 3080  ad_output.txt: \$(EXE_AD)
3080          @./\$(EXE_AD) > \$@          @./\$(EXE_AD) > \$@
3081    
3082  CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)  CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
3083  ad_input_code.f$FS90: ../OAD_support/maxMinDefs.f \$(CB2M_AD_FILES)  ad_input_code.f$FS90:  \$(CB2M_AD_FILES)
3084          cat \$^ > \$@          cat \$^ > \$@
3085    
3086  # strip all comments and blanks to reduce  # strip all comments and blanks to reduce
3087  # the file size in order to reduce perl's memory requirements  # the file size in order to reduce perl's memory requirements
3088  ad_input_code_sf.f$FS90 : ad_input_code.f$FS90  ad_input_code_sf.f$FS90 : ad_input_code.f$FS90
3089          cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@          cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@
3090    
3091  # mfef90 preprocessing  # mfef90 preprocessing
3092  # expand statement functions  # expand statement functions
3093  # expose mfef90 specific substring handling  # expose mfef90 specific substring handling
3094  # add the w2f__types module  # add the w2f__types module
3095  ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90  ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90
3096          ./mfef90 -r8 -z -F -N132 \$<          ./mfef90 -r8 -z -F -N132 \$<
3097          mv \$<.B \$(basename \$<).B          mv \$<.B \$(basename \$<).B
3098          ./whirl2f -openad \$(basename \$<).B          ./whirl2f -openad \$(basename \$<).B
3099          cat w2f__types.f90 \$(basename \$<).w2f.f > \$@          cat w2f__types.f90 \$(basename \$<).w2f.f > \$@
3100    
3101  # canonicalizer  # canonicalizer
3102  ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py  ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py
3103          ./preProcess.py --mode=reverse \$< -o \$@          ./preProcess.py --timing --r8 -H -S \$< -o \$@
3104    
3105  # F -> WHIRL  # F -> WHIRL
3106  # note that the canonicalized version cuts off at col 72  # note that the canonicalized version cuts off at col 72
3107  # doing this also for string constants which is ok as long  # doing this also for string constants which is ok as long
3108  # as we are in fixed mode and cut of exactly there.  # as we are in fixed mode and cut of exactly there.
3109  # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)  # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)
3110  # characters respectively.  # characters respectively.
3111  ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90  ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90
3112          ./mfef90 -r8 -z -F \$<          ./mfef90 -r8 -z -F \$<
# Line 3029  ad_input_code_sf.w2f.pre.xaif : ad_input Line 3117  ad_input_code_sf.w2f.pre.xaif : ad_input
3117          ./whirl2xaif -s -n --debug 1 -o \$@ \$<          ./whirl2xaif -s -n --debug 1 -o \$@ \$<
3118    
3119  # XAIF -> XAIF'  # XAIF -> XAIF'
3120  ad_input_code_sf.w2f.pre.xb.xaif : ad_input_code_sf.w2f.pre.xaif xaif.xsd xaif_base.xsd xaif_inlinable_intrinsics.xsd xaif_derivative_propagator.xsd xaif_output.xsd openad_adm  ad_input_code_sf.w2f.pre.xb.xaif : ad_input_code_sf.w2f.pre.xaif xaif.xsd xaif_base.xsd xaif_inlinable_intrinsics.xsd xaif_derivative_propagator.xsd xaif_output.xsd oadDriver
3121          ./openad_adm -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r          ./oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
3122    
3123  # XAIF' -> WHIRL'  # XAIF' -> WHIRL'
3124  ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl  ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl
3125          ./xaif2whirl --debug 1 --structured ad_input_code_sf.w2f.pre.B \$<          ./xaif2whirl --debug 1 ad_input_code_sf.w2f.pre.B \$<
3126    
3127  # WHIRL' -> F'  # WHIRL' -> F'
3128  ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be  ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be
3129          ./whirl2f -FLIST:ftn_file=\$@ -openad \$<          ./whirl2f -FLIST:ftn_file=\$@ -openad \$<
3130    
3131  # insert template directives  # insert template directives
3132  ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash  ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash
3133          ../OAD_support/insertTemplateDir.bash \$< \$@          ../OAD_support/insertTemplateDir.bash \$< \$@
3134    
3135    PPEXTRAS=\$(wildcard ../OAD_support/ad_template.*.F) ../OAD_support/ad_inline.F
3136  # postprocess F'  # postprocess F'
3137  ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 multi-pp.pl ../OAD_support/ad_inline.f \$(wildcard ../OAD_support/ad_template.*.f)  postProcess.tag: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 postProcess.py \$(PPEXTRAS:.F=.f)
3138          perl multi-pp.pl -inline=../OAD_support/ad_inline.f \$<          # the target is a placeholder to signal execution of the rule
3139          # the postprocessor still gets the name wrong          touch \$@
3140          cat \$<.pp | sed 's/RETURN//' > \$@          # this step also creates the file postProcess.make but we cannot
3141            # name it as the target or else make will try to remake it for
3142  # extract all transformed modules          # the include directive above for any rule, e.g. make clean
3143  all_mods.xb.x2w.w2f.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90          ./postProcess.py --progress --timing --outputFormat=fixed -m r -i ../OAD_support/ad_inline.f --width 4 \$<
         cat \$< | sed -n '/MODULE /,/END MODULE/p' > \$@  
   
 # remove the transformed globals module from the  
 # transformed ad_input_code file  
 # and remove for now the duplicate variables  
 # and fix 2 data statements  
 ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.pp.f$FS90  
         cat \$< | sed '/MODULE /,/END MODULE/d' | sed '/^      INTEGER(w2f__i4) DOLOOP_UB/d' > \$@  
3144    
3145  # setup some links  # setup some links
3146  %.xsd:  %.xsd:
3147          \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .          \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
3148    
3149  mfef90:  mfef90:
3150          \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .          \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .
3151    
3152  # link the support files:  # link the support files:
3153  \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):  \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):
3154          \$(LN) ../OAD_support/\$@ .          \$(LN) ../OAD_support/\$@ .
3155    
3156  whirl2xaif xaif2whirl:  whirl2xaif xaif2whirl:
         \$(LN) \${OPENADFORTTK}/bin/\$@ .  
   
 %.pl:  
3157          \$(LN) \${OPENADFORTTK}/bin/\$@ .          \$(LN) \${OPENADFORTTK}/bin/\$@ .
3158    
3159  preProcess.py:  preProcess.py postProcess.py:
3160          \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .          \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .
3161    
3162  whirl2f whirl2f_be:  whirl2f whirl2f_be:
3163          \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .          \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .
3164    
3165  openad_adm:  oadDriver:
3166          \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/test/t \$@          \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver \$@
3167    
3168    AD_CLEAN += *_mod.h *_mod.F90 *.FF90 *.mod-whirl temp.sed oad_cp.* postProcess.make postProcess.tag postProcess.comp \$(PPEXTRAS:.F=.f)
3169    
3170  # ============ end OpenAD specific section ==============  # ============ end OpenAD specific section ==============
3171    
# Line 3130  printf "\n\n# DO NOT DELETE\n" >> $MAKEF Line 3210  printf "\n\n# DO NOT DELETE\n" >> $MAKEF
3210  printf "\n===  Done  ===\n"  printf "\n===  Done  ===\n"
3211    
3212  # Create special header files  # Create special header files
3213  $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"
3214  if test ! -f $PACKAGES_DOT_H ; then  if test ! -f $PACKAGES_DOT_H ; then
3215      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H
3216  else  else
# Line 3147  if test ! -f AD_CONFIG.h ; then Line 3227  if test ! -f AD_CONFIG.h ; then
3227      $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
3228  fi  fi
3229    
   
3230  #  Write the "state" for future records  #  Write the "state" for future records
3231  if test "x$DUMPSTATE" != xf ; then  if test "x$DUMPSTATE" = xt ; then
3232      printf "" > genmake_state      printf "" > genmake_state
3233      for i in $gm_state ; do      for i in $gm_state ; do
3234          t1="t2=\$$i"          t1="t2=\$$i"

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