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revision 1.134 by edhill, Wed Nov 9 04:31:30 2005 UTC revision 1.220 by jmc, Fri Jun 3 19:53:45 2011 UTC
# Line 1  Line 1 
1  #! /usr/bin/env bash  #! /usr/bin/env bash
2  #  #
3  # $Header$  # $Header$
4    # $Name$
5  #  #
6  # Makefile generator for MITgcm UV codes  # Makefile generator for MITgcm UV codes
7  #   created  by cnh 03/98  #   created  by cnh 03/98
# Line 8  Line 9 
9  #   modified by aja 01/00  #   modified by aja 01/00
10  #   rewritten in bash by eh3 08/03  #   rewritten in bash by eh3 08/03
11    
12    #  Explain usage
13    usage()  {
14    cat <<EOF
15    
16    Usage: "$0" [OPTIONS]
17      where [OPTIONS] can be:
18    
19        -help | --help | -h | --h
20              Print this help message and exit.
21    
22        -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME
23          -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME
24              Use "NAME" as the adoptfile.  By default, the file at
25              "tools/adjoint_options/adjoint_default" will be used.
26    
27        -nooptfile | --nooptfile
28          -optfile NAME | --optfile NAME | -of NAME | --of NAME
29          -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME
30              Use "NAME" as the optfile.  By default, an attempt will be
31              made to find an appropriate "standard" optfile in the
32              tools/build_options/ directory.
33    
34        -pdepend NAME | --pdepend NAME
35          -pdepend=NAME | --pdepend=NAME
36              Get package dependency information from "NAME".
37    
38        -pgroups NAME | --pgroups NAME
39          -pgroups=NAME | --pgroups=NAME
40              Get the package groups information from "NAME".
41    
42        -bash NAME
43              Explicitly specify the Bourne or BASH shell to use
44    
45        -make NAME | -m NAME
46          --make=NAME | -m=NAME
47              Use "NAME" for the MAKE program. The default is "make" but
48              many platforms, "gmake" is the preferred choice.
49    
50        -makefile NAME | -mf NAME
51          --makefile=NAME | -mf=NAME
52              Call the makefile "NAME".  The default is "Makefile".
53    
54        -makedepend NAME | -md NAME
55          --makedepend=NAME | -md=NAME
56              Use "NAME" for the MAKEDEPEND program.
57    
58        -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME
59          -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME
60              Specify the location of the MITgcm ROOTDIR as "NAME".
61              By default, genamke will try to find the location by
62              looking in parent directories (up to the 5th parent).
63    
64        -mods NAME | --mods NAME | -mo NAME | --mo NAME
65          -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME
66              Here, "NAME" specifies a list of directories that are
67              used for additional source code.  Files found in the
68              "mods list" are given preference over files of the same
69              name found elsewhere.
70    
71        -disable NAME | --disable NAME
72          -disable=NAME | --disable=NAME
73              Here "NAME" specifies a list of packages that we don't
74              want to use.  If this violates package dependencies,
75              genamke will exit with an error message.
76    
77        -enable NAME | --enable NAME
78          -enable=NAME | --enable=NAME
79              Here "NAME" specifies a list of packages that we wish
80              to specifically enable.  If this violates package
81              dependencies, genamke will exit with an error message.
82    
83        -standarddirs NAME | --standarddirs NAME
84          -standarddirs=NAME | --standarddirs=NAME
85              Here, "NAME" specifies a list of directories to be
86              used as the "standard" code.
87    
88        -fortran NAME | --fortran NAME | -fc NAME | --fc NAME
89          -fc=NAME | --fc=NAME
90              Use "NAME" as the fortran compiler.  By default, genmake
91              will search for a working compiler by trying a list of
92              "usual suspects" such as g77, f77, etc.
93    
94        -cc NAME | --cc NAME | -cc=NAME | --cc=NAME
95              Use "NAME" as the C compiler.  By default, genmake
96              will search for a working compiler by trying a list of
97              "usual suspects" such as gcc, c89, cc, etc.
98    
99        -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4
100              Use "real*4" type for _RS variable (#undef REAL4_IS_SLOW)
101              *only* works if CPP_EEOPTIONS.h allows this.
102    
103        -ignoretime | -ignore_time | --ignoretime | --ignore_time
104              Ignore all the "wall clock" routines entirely.  This will
105              not in any way hurt the model results -- it simply means
106              that the code that checks how long the model spends in
107              various routines will give junk values.
108    
109        -ts | --ts
110              Produce timing information per timestep
111        -papis | --papis
112              Produce summary MFlop/s (and IPC) with PAPI per timestep
113        -pcls | --pcls
114              Produce summary MFlop/s etc. with PCL per timestep
115        -foolad | --foolad
116              Fool the AD code generator
117        -papi | --papi
118              Performance analysis with PAPI
119        -pcl | --pcl
120              Performance analysis with PCL
121        -hpmt | --hpmt
122              Performance analysis with the HPM Toolkit
123    
124        -ieee | --ieee
125              use IEEE numerics.  Note that this option *only* works
126              if it is supported by the OPTFILE that is being used.
127        -devel | --devel
128              Add additional warning and debugging flags for development
129              (if supported by the OPTFILE); also switch to IEEE numerics.
130        -gsl | --gsl
131              Use GSL to control floating point rounding and precision
132    
133        -mpi | --mpi
134              Include MPI header files and link to MPI libraries
135        -mpi=PATH | --mpi=PATH
136              Include MPI header files and link to MPI libraries using MPI_ROOT
137              set to PATH. i.e. Include files from \$PATH/include, link to libraries
138              from \$PATH/lib and use binaries from \$PATH/bin.
139    
140        -omp | --omp
141              Activate OpenMP code + use Compiler option OMPFLAG
142        -omp=OMPFLAG | --omp=OMPFLAG
143              Activate OpenMP code + use Compiler option OMPFLAG
144    
145        -es | --es | -embed-source | --embed-source
146              Embed a tarball containing the full source code
147              (including the Makefile, etc.) used to build the
148              executable [off by default]
149    
150        -ds | --ds
151              Report genmake internal variables status (DUMPSTATE)
152              to file "genmake_state" (for debug purpose)
153    
154      While it is most often a single word, the "NAME" variables specified
155      above can in many cases be a space-delimited string such as:
156    
157        --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'
158        -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'
159        -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'
160    
161      which, depending upon your shell, may need to be single-quoted.
162    
163      For more detailed genmake documentation, please see:
164    
165        http://mitgcm.org/public/devel_HOWTO/
166    
167    EOF
168    
169        exit 1
170    }
171    
172  # Search for particular CPP #cmds associated with packages  # Search for particular CPP #cmds associated with packages
173  # usage: test_for_package_in_cpp_options CPP_file package_name  # usage: test_for_package_in_cpp_options CPP_file package_name
174  test_for_package_in_cpp_options() {  test_for_package_in_cpp_options() {
175      cpp_options=$1      cpp_options=$1
176      pkg=$2      pkg=$2
177      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg[ ]"
178      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg[ ]"
179      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg[ ]"
180      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg[ ]"
181        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_$pkg$"
182        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_$pkg$"
183        test_for_string_in_file $cpp_options "^[ ]*#define.*DISABLE_$pkg$"
184        test_for_string_in_file $cpp_options "^[ ]*#undef.*DISABLE_$pkg$"
185  }  }
186    
187  # Search for particular CPP #cmds associated with MPI  # Search for particular CPP #cmds associated with MPI
188  # usage: test_for_mpi_in_cpp_eeoptions CPP_file  # usage: test_for_mpi_in_cpp_eeoptions CPP_file
189  test_for_mpi_in_cpp_eeoptions() {  test_for_mpi_in_cpp_eeoptions() {
190      cpp_options=$1      cpp_options=$1
191      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI[ ]"
192      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI[ ]"
193      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI[ ]"
194      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI" || exit 99      test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI[ ]"
195        test_for_string_in_file $cpp_options "^[ ]*#define.*ALLOW_USE_MPI$"
196        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALLOW_USE_MPI$"
197        test_for_string_in_file $cpp_options "^[ ]*#define.*ALWAYS_USE_MPI$"
198        test_for_string_in_file $cpp_options "^[ ]*#undef.*ALWAYS_USE_MPI$"
199  }  }
200    
201  # Search for particular string in a file. Return 1 if detected, 0 if not  # Search for particular string in a file. Return 1 if detected, 0 if not
# Line 39  test_for_string_in_file() { Line 208  test_for_string_in_file() {
208      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
209          printf "Error: In $file there is an illegal line: "          printf "Error: In $file there is an illegal line: "
210          grep -i "$strng" $file          grep -i "$strng" $file
211          return 1          exit 99
212      fi      fi
213      return 0      return 0
214  }  }
# Line 48  test_for_string_in_file() { Line 217  test_for_string_in_file() {
217  # the package list.  # the package list.
218  expand_pkg_groups() {  expand_pkg_groups() {
219      new_packages=      new_packages=
     PKG_GROUPS=$ROOTDIR"/pkg/pkg_groups"  
220      if test -r $PKG_GROUPS ; then      if test -r $PKG_GROUPS ; then
221          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp          cat $PKG_GROUPS | sed -e 's/#.*$//g' | sed -e 's/:/ : /g' > ./p1.tmp
222          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp          cat ./p1.tmp | $AWK '(NF>2 && $2==":"){ print $0 }' > ./p2.tmp
# Line 59  expand_pkg_groups() { Line 227  expand_pkg_groups() {
227              if test "x$RETVAL" = x0 ; then              if test "x$RETVAL" = x0 ; then
228                  matched=1                  matched=1
229                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`                  replace=`echo $line | $AWK '{ $1=""; $2=""; print $0 }'`
230                  echo "    replacing \"$i\" with: $replace"                  echo "    replacing \"$i\" with:$replace"
231                  new_packages="$new_packages $replace"                  new_packages="$new_packages $replace"
232              else              else
233                  new_packages="$new_packages $i"                  new_packages="$new_packages $i"
# Line 102  EOF Line 270  EOF
270              check_for_broken_Ff              check_for_broken_Ff
271          else          else
272              cat <<EOF 2>&1              cat <<EOF 2>&1
273  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
274    (fails the "cp" test) and this program cannot find a suitable    (fails the "cp" test) and this program cannot find a suitable
275    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
276    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
277    
278  EOF  EOF
# Line 138  EOF Line 306  EOF
306              check_for_broken_Ff              check_for_broken_Ff
307          else          else
308              cat <<EOF 2>&1              cat <<EOF 2>&1
309  ERROR: Your file system cannot distinguish between *.F and *.f files  ERROR: Your file system cannot distinguish between *.F and *.f files
310    (fails the "make/ln" test) and this program cannot find a suitable    (fails the "make/ln" test) and this program cannot find a suitable
311    replacement extension.  Please try a different build environment or    replacement extension.  Please try a different build environment or
312    contact the <MITgcm-support@mitgcm.org> list for help.    contact the <MITgcm-support@mitgcm.org> list for help.
313    
314  EOF  EOF
# Line 157  EOF Line 325  EOF
325      return      return
326  }  }
327    
   
328  look_for_makedepend()  {  look_for_makedepend()  {
329    
330      #  The "original" makedepend is part of the Imake system that is      #  The "original" makedepend is part of the Imake system that is
# Line 178  look_for_makedepend()  { Line 345  look_for_makedepend()  {
345      #    3) locally build and use the cyrus implementation      #    3) locally build and use the cyrus implementation
346      #    4) fall back to the buggy local xmakedpend script      #    4) fall back to the buggy local xmakedpend script
347      #      #
348        echo >> $LOGFILE
349        echo "running: look_for_makedepend()" >> $LOGFILE
350        if test "x${MAKEDEPEND}" != x ; then
351            echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1
352            RETVAL=$?
353            if test x"$RETVAL" = x0 ; then
354                build_cyrus_makedepend
355                RETVAL=$?
356                if test "x$RETVAL" != x0 ; then
357                    echo "WARNING: unable to build cyrus-makedepend. Try 'makedepend'"
358                    MAKEDEPEND=
359                fi
360            else
361                echo " -->     MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
362            fi
363        fi
364      if test "x${MAKEDEPEND}" = x ; then      if test "x${MAKEDEPEND}" = x ; then
365          which makedepend > /dev/null 2>&1          which makedepend > /dev/null 2>&1
366          RV0=$?          RV0=$?
# Line 186  look_for_makedepend()  { Line 369  look_for_makedepend()  {
369          cat <<EOF >> $MAKEFILE          cat <<EOF >> $MAKEFILE
370  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"  #   THIS IS A TEST MAKEFILE GENERATED BY "genmake2"
371  #  #
372  #   Some "makedepend" implementations will die if they cannot  #   Some "makedepend" implementations will die if they cannot
373  #   find a Makefile -- so this file is here to gives them an  #   find a Makefile -- so this file is here to gives them an
374  #   empty one to find and parse.  #   empty one to find and parse.
375  EOF  EOF
376          cat <<EOF >> genmake_tc.f          cat <<EOF >> genmake_tc.f
# Line 202  EOF Line 385  EOF
385          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE          test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
386          if test "x${RV0}${RV1}" = x00 ; then          if test "x${RV0}${RV1}" = x00 ; then
387              MAKEDEPEND=makedepend              MAKEDEPEND=makedepend
388                echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
389          else          else
390              echo "    a system-default makedepend was not found."              echo "    system-default makedepend not found. Try to build cyrus-makedepend"
               
391              #  Try to build the cyrus implementation              #  Try to build the cyrus implementation
392              build_cyrus_makedepend              build_cyrus_makedepend
393              RETVAL=$?              RETVAL=$?
394              if test "x$RETVAL" != x0 ; then              if test "x$RETVAL" != x0 ; then
395                    echo "WARNING: unable to build cyrus-makedepend. Use local xmakedepend"
396                  MAKEDEPEND='$(TOOLSDIR)/xmakedepend'                  MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
397                    echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
398              fi              fi
             rm -f ./genmake_cy_md  
         fi  
     else  
         #  echo "MAKEDEPEND=${MAKEDEPEND}"  
         echo "${MAKEDEPEND}" | grep -i cyrus > /dev/null 2>&1  
         RETVAL=$?  
         if test x"$RETVAL" = x0 ; then  
             build_cyrus_makedepend  
399          fi          fi
400      fi      fi
401  }  }
402    
   
403  build_cyrus_makedepend()  {  build_cyrus_makedepend()  {
404        echo >> $LOGFILE
405        echo "running: build_cyrus_makedepend()" >> $LOGFILE
406      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
407      (      (
408          cd $ROOTDIR/tools/cyrus-imapd-makedepend  \          cd $ROOTDIR/tools/cyrus-imapd-makedepend  \
# Line 241  build_cyrus_makedepend()  { Line 419  build_cyrus_makedepend()  {
419      rm -f ./genmake_cy_md      rm -f ./genmake_cy_md
420      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
421          MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'          MAKEDEPEND='$(TOOLSDIR)/cyrus-imapd-makedepend/makedepend'
422            echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
423          return 0          return 0
424      else      else
425          echo "WARNING: unable to build cyrus-imapd-makedepend"          echo "WARNING: fail to build cyrus-imapd-makedepend" >> $LOGFILE
426          return 1          return 1
427      fi      fi
428  }  }
429    
430  # Guess possible config options for this host  build_embed_encode()
431  find_possible_configs()  {  {
432        printf "  building the embed-encode utility...  "
433      tmp1=`uname`"_"`uname -m`      if test ! -e "$ROOTDIR/tools/embed_encode/encode_files" ; then
434      tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`          if test ! -d "$ROOTDIR/tools/embed_encode" ; then
435      tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`              echo
436      tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`              echo "    Error: can't locate \"$ROOTDIR/tools/embed_encode\""
437      tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`              echo
438      tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`              EMBED_SRC=f
439      PLATFORM=$tmp3              return 1
440      echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32          fi
441      OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`          clist="cc gcc c89 $CC"
442      echo "  The platform appears to be:  $PLATFORM"          for ic in $clist ; do
443                    comm="$ic -o encode_files encode_files.c"
444      echo "test" > test              ( cd $ROOTDIR/tools/embed_encode && $comm ) > /dev/null 2>&1
445      ln -s ./test link              RETVAL=$?
446      RETVAL=$?              if test "x$RETVAL" = x0 ; then
447      if test "x${RETVAL}" = x0 ; then                  echo "OK"
448          LN="ln -s"                  DEFINES="$DEFINES -DHAVE_EMBED_SRC"
449      else                  return 0
450          echo "Error: \"ln -s\" does not appear to work on this system!"              fi
451          echo "  For help, please contact <MITgcm-support@mitgcm.org>."          done
452          exit 1          echo
453      fi          echo "    Error: unable to build $ROOTDIR/embed_encode/encode_files"
454      rm -f test link          echo "      so it has been disabled"
455            echo
456      if test "x$CPP" = x ; then          EMBED_SRC=f
457          CPP="cpp -traditional -P"          return 1
458      fi      fi
459        echo "OK"
460        DEFINES="$DEFINES -DHAVE_EMBED_SRC"
461    }
462    
463      look_for_makedepend  #  look for possible C compilers
464    look_for_C_compilers() {
465      #================================================================      echo >> $LOGFILE
466      #  look for possible C compilers      echo "running: look_for_C_compilers()" >> $LOGFILE
467      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc"      rm -f ./genmake_hello.c  ./genmake_hello
468      p_CC=      cat >> genmake_hello.c << EOF
     for c in $tmp ; do  
         rm -f ./genmake_hello.c  ./genmake_hello  
         cat >> genmake_hello.c << EOF  
469  #include <stdio.h>  #include <stdio.h>
470  int main(int argc, char **argv) {  int main(int argc, char **argv) {
471    printf("Hello!\n");    printf("Hello!\n");
472    return 0;    return 0;
473  }  }
474  EOF  EOF
475          $c -o genmake_hello genmake_hello.c > /dev/null 2>&1      tmp="$MITGCM_CC $CC gcc c89 cc c99 mpicc icc"
476        p_CC=
477        for c in $tmp ; do
478            COMM="$c $CFLAGS -o genmake_hello genmake_hello.c"
479            echo $COMM >> $LOGFILE
480            $COMM >> $LOGFILE 2>&1
481          RETVAL=$?          RETVAL=$?
482          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
483                echo " $c test successful" >> $LOGFILE
484              p_CC="$p_CC $c"              p_CC="$p_CC $c"
485          fi          fi
486      done      done
# Line 311  Error: No C compilers were found in your Line 496  Error: No C compilers were found in your
496  EOF  EOF
497          exit 1          exit 1
498      else      else
499          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  
500          if test "x$CC" = x ; then          if test "x$CC" = x ; then
501              CC=`echo $p_CC | $AWK '{print $1}'`              CC=`echo $p_CC | $AWK '{print $1}'`
502              echo "  Setting C compiler to: "$CC              echo "  Setting C compiler to: "$CC
503          fi          fi
504      fi      fi
505        echo " --> set CC='$CC'" >> $LOGFILE
506    }
507    
508    # Guess possible config options for this host
509    find_possible_optfile()  {
510    
511        echo >> $LOGFILE
512        echo "running: find_possible_optfile()" >> $LOGFILE
513        tmp1=`uname`"_"`uname -m`
514        tmp2=`echo $tmp1 | sed -e 'y/ABCDEFGHIJKLMNOPQRSTUVWXYZ/abcdefghijklmnopqrstuvwxyz/'`
515        tmp3=`echo $tmp2 | sed -e 's/power macintosh/ppc/'`
516        tmp1=`echo $tmp3 | sed -e 's|x86_64|amd64|'`
517        tmp2=`echo $tmp1 | sed -e 's/i[3-6]86/ia32/' | sed -e 's/athlon/ia32/'`
518        tmp3=`echo $tmp2 | sed -e 's/cray sv1/craysv1/'`
519        PLATFORM=$tmp3
520        echo $PLATFORM | grep cygwin > /dev/null 2>&1  &&  PLATFORM=cygwin_ia32
521        OFLIST=`(cd $ROOTDIR/tools/build_options; ls | grep "^$PLATFORM")`
522        echo "  The platform appears to be:  $PLATFORM" | tee -a $LOGFILE
523    
524      #================================================================      #================================================================
525      #  look for possible FORTRAN compilers      #  look for possible FORTRAN compilers
526      tmp="$MITGCM_FC $FC efc g77 f77 pgf77 pgf95 ifc f90 f95 mpif77 mpf77 mpxlf95 gfortran"      echo "  look for possible FORTRAN compilers" >> $LOGFILE
527        tmp="$MITGCM_FC $FC efc gfortran g77 f77 pgf77 pgf95 ifc ifort f90 f95 mpif77 mpf77 mpxlf95 g95"
528      p_FC=      p_FC=
529      for c in $tmp ; do      rm -f ./genmake_hello.f
530          rm -f ./hello.f ./hello      cat >> genmake_hello.f <<EOF
         cat >> hello.f <<EOF  
531        program hello        program hello
532        do i=1,3        do i=1,3
533          print *, 'hello world : ', i          print *, 'hello world : ', i
534        enddo        enddo
535        end        end
536  EOF  EOF
537          $c -o hello hello.f > /dev/null 2>&1      for f in $tmp ; do
538            COMM="$f -o genmake_hello genmake_hello.f"
539            echo $COMM >> $LOGFILE
540            $COMM >> $LOGFILE 2>&1
541          RETVAL=$?          RETVAL=$?
542          if test "x${RETVAL}" = x0 ; then          if test "x${RETVAL}" = x0 ; then
543              p_FC="$p_FC $c"              echo " $f test successful" >> $LOGFILE
544                p_FC="$p_FC $f"
545          fi          fi
546      done      done
547      rm -f ./hello.f ./hello      rm -f ./genmake_hello.f ./genmake_hello
548      if test "x${p_FC}" = x ; then      if test "x${p_FC}" = x ; then
549          cat 1>&2 <<EOF          cat 1>&2 <<EOF
550    
# Line 351  Error: No Fortran compilers were found i Line 557  Error: No Fortran compilers were found i
557  EOF  EOF
558          exit 1          exit 1
559      else      else
560          echo "  The possible FORTRAN compilers found in your path are:"          echo "  The possible FORTRAN compilers found in your path are: $p_FC" | tee -a $LOGFILE
561          echo "   "$p_FC      fi
562          if test "x$FC" = x ; then  
563              FC=`echo $p_FC | $AWK '{print $1}'`      #  Use the first of the compilers found in the current PATH
564              echo "  Setting FORTRAN compiler to: "$FC      #  that has a correctly-named optfile
565          fi      if test "x$OPTFILE" = x  -a  "x$FC" = x ; then
566            for i in $p_FC ; do
567                OPTFILE=$ROOTDIR"/tools/build_options/"$PLATFORM"_"$i
568                if test -r $OPTFILE ; then
569                    echo "  Setting OPTFILE to: "$OPTFILE | tee -a $LOGFILE
570                    break
571                fi
572            done
573      fi      fi
574    
575      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
# Line 365  EOF Line 578  EOF
578               echo "  I looked for the file "$OPTFILE" but did not find it"               echo "  I looked for the file "$OPTFILE" but did not find it"
579          fi          fi
580      fi      fi
581  #    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:  $p_OF"  
 #    echo "    appears to match so we'll use it."  
 #    break  
 #fi  
 #   done  
582      if test "x$OPTFILE" = x ; then      if test "x$OPTFILE" = x ; then
583          cat 1>&2 <<EOF          cat 1>&2 <<EOF
584    
# Line 391  Error: No options file was found in:  $R Line 594  Error: No options file was found in:  $R
594  EOF  EOF
595          exit 1          exit 1
596      fi      fi
597        
598  #     # look for possible MPI libraries  #     # look for possible MPI libraries
599  #     mpi_libs=  #     mpi_libs=
600  #     mpi_fort=`which mpif77 2>/dev/null`  #     mpi_fort=`which mpif77 2>/dev/null`
# Line 410  EOF Line 613  EOF
613  #       if test "x${RETVAL}" = x0 ; then  #       if test "x${RETVAL}" = x0 ; then
614  #           a=`cat out`  #           a=`cat out`
615  #           for i in $a ; do  #           for i in $a ; do
616  #               case $i in  #               case $i in
617  #                   -*)  #                   -*)
618  #                       mpi_libs="$mpi_libs $i" ;;  #                       mpi_libs="$mpi_libs $i" ;;
619  #               esac  #               esac
# Line 420  EOF Line 623  EOF
623  #       fi  #       fi
624  #       rm -f test.f out  #       rm -f test.f out
625  #     fi  #     fi
   
626  }  }
627    
628  #  Parse the package dependency information  #  Parse the package dependency information
# Line 429  get_pdepend_list()  { Line 631  get_pdepend_list()  {
631      #  strip the comments and then convert the dependency file into      #  strip the comments and then convert the dependency file into
632      #  two arrays: PNAME, DNAME      #  two arrays: PNAME, DNAME
633      cat $1 | sed -e 's/#.*$//g' \      cat $1 | sed -e 's/#.*$//g' \
634          | $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}' \
635          > ./.pd_tmp          > ./.pd_tmp
636        RETVAL=$?
637        if test ! "x${RETVAL}" = x0 ; then
638          echo "Error: unable to parse package dependencies -- please check PKG_DEPEND=\"$1\""
639          exit 1
640        fi
641      . ./.pd_tmp      . ./.pd_tmp
642      rm -f ./.pd_tmp      rm -f ./.pd_tmp
   
     printf "PNAME = "${}  
 }  
   
   
 #  Explain usage  
 usage()  {  
 cat <<EOF  
   
 Usage: "$0" [OPTIONS]  
   where [OPTIONS] can be:  
   
     -help | --help | -h | --h  
           Print this help message and exit.  
   
     -adoptfile NAME | --adoptfile NAME | -adof NAME | --adof NAME  
       -adoptfile=NAME | --adoptfile=NAME | -adof=NAME | --adof=NAME  
           Use "NAME" as the adoptfile.  By default, the file at  
           "tools/adjoint_options/adjoint_default" will be used.  
   
     -nooptfile | --nooptfile  
       -optfile NAME | --optfile NAME | -of NAME | --of NAME  
       -optfile=NAME | --optfile=NAME | -of=NAME | --of=NAME  
           Use "NAME" as the optfile.  By default, an attempt will be  
           made to find an appropriate "standard" optfile in the  
           tools/build_options/ directory.  
   
     -pdepend NAME | --pdepend NAME  
       -pdepend=NAME | --pdepend=NAME  
           Get package dependency information from "NAME".  
   
     -pdefault NAME | --pdefault NAME  
       -pdefault=NAME | --pdefault=NAME  
           Get the default package list from "NAME".  
   
     -make NAME | -m NAME  
       --make=NAME | -m=NAME  
           Use "NAME" for the MAKE program. The default is "make" but  
           many platforms, "gmake" is the preferred choice.  
   
     -makefile NAME | -mf NAME  
       --makefile=NAME | -mf=NAME  
           Call the makefile "NAME".  The default is "Makefile".  
   
     -makedepend NAME | -md NAME  
       --makedepend=NAME | -md=NAME  
           Use "NAME" for the MAKEDEPEND program.  
   
     -rootdir NAME | --rootdir NAME | -rd NAME | --rd NAME  
       -rootdir=NAME | --rootdir=NAME | -rd=NAME | --rd=NAME  
           Specify the location of the MITgcm ROOTDIR as "NAME".  
           By default, genamke will try to find the location by  
           looking in parent directories (up to the 5th parent).  
   
     -mods NAME | --mods NAME | -mo NAME | --mo NAME  
       -mods=NAME | --mods=NAME | -mo=NAME | --mo=NAME  
           Here, "NAME" specifies a list of directories that are  
           used for additional source code.  Files found in the  
           "mods list" are given preference over files of the same  
           name found elsewhere.  
   
     -disable NAME | --disable NAME  
       -disable=NAME | --disable=NAME  
           Here "NAME" specifies a list of packages that we don't  
           want to use.  If this violates package dependencies,  
           genamke will exit with an error message.  
   
     -enable NAME | --enable NAME  
       -enable=NAME | --enable=NAME  
           Here "NAME" specifies a list of packages that we wish  
           to specifically enable.  If this violates package  
           dependencies, genamke will exit with an error message.  
   
     -standarddirs NAME | --standarddirs NAME  
       -standarddirs=NAME | --standarddirs=NAME  
           Here, "NAME" specifies a list of directories to be  
           used as the "standard" code.  
   
     -fortran NAME | --fortran NAME | -fc NAME | --fc NAME  
       -fc=NAME | --fc=NAME  
           Use "NAME" as the fortran compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as g77, f77, etc.  
   
     -cc NAME | --cc NAME | -cc=NAME | --cc=NAME  
           Use "NAME" as the C compiler.  By default, genmake  
           will search for a working compiler by trying a list of  
           "usual suspects" such as gcc, c89, cc, etc.  
   
     -[no]ieee | --[no]ieee  
           Do or don't use IEEE numerics.  Note that this option  
           *only* works if it is supported by the OPTFILE that  
           is being used.  
   
     -ts | --ts  
           Produce timing information per timestep  
   
     -mpi | --mpi  
           Include MPI header files and link to MPI libraries  
     -mpi=PATH | --mpi=PATH  
           Include MPI header files and link to MPI libraries using MPI_ROOT  
           set to PATH. i.e. Include files from \$PATH/include, link to libraries  
           from \$PATH/lib and use binaries from \$PATH/bin.  
   
     -bash NAME  
           Explicitly specify the Bourne or BASH shell to use  
   
   While it is most often a single word, the "NAME" variables specified  
   above can in many cases be a space-delimited string such as:  
   
     --enable pkg1   --enable 'pkg1 pkg2'   --enable 'pkg1 pkg2 pkg3'  
     -mods=dir1   -mods='dir1'   -mods='dir1 dir2 dir3'  
     -foptim='-Mvect=cachesize:512000,transform -xtypemap=real:64,double:64,integer:32'  
   
   which, depending upon your shell, may need to be single-quoted.  
   
   For more detailed genmake documentation, please see:  
   
     http://mitgcm.org/devel_HOWTO/  
   
 EOF  
   
     exit 1  
643  }  }
644    
645  #  Build a CPP macro to automate calling C routines from FORTRAN  #  Build a CPP macro to automate calling C routines from FORTRAN
# Line 565  get_fortran_c_namemangling()  { Line 649  get_fortran_c_namemangling()  {
649      if test ! "x$FC_NAMEMANGLE" = x ; then      if test ! "x$FC_NAMEMANGLE" = x ; then
650          return 0          return 0
651      fi      fi
652        echo " running: get_fortran_c_namemangling()" >> $LOGFILE
653    
654      default_nm="#define FC_NAMEMANGLE(X) X ## _"      default_nm="#define FC_NAMEMANGLE(X) X ## _"
655        
656      cat > genmake_test.c <<EOF      cat > genmake_test.c <<EOF
657  void tcall( char * string ) { tsub( string ); }  void tcall( char * string ) { tsub( string ); }
658  EOF  EOF
659      $MAKE genmake_test.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_test.c"
660        echo ' '$COMM >> $LOGFILE
661        $COMM >> $LOGFILE 2>&1
662      RETVAL=$?      RETVAL=$?
663      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
664          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
665          cat <<EOF>> genmake_errors          cat <<EOF>> $LOGFILE
666    
667  WARNING: C test compile fails   WARNING: C test compile fails
668  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
669  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
670  EOF  EOF
671          return 1          return 1
672      fi      fi
# Line 587  EOF Line 674  EOF
674      RETVAL=$?      RETVAL=$?
675      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
676          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
677          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
678    
679  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
680  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
681  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here
682  EOF  EOF
683          return 1          return 1
684      fi      fi
# Line 601  EOF Line 688  EOF
688        call tsub( string )        call tsub( string )
689        end        end
690  EOF  EOF
691      $FC $FFLAGS -c genmake_tcomp.$FS >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -c genmake_tcomp.$FS"
692        echo ' '$COMM >> $LOGFILE
693        $COMM >> $LOGFILE 2>&1
694      RETVAL=$?      RETVAL=$?
695      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
696          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
697          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
698    
699  WARNING: FORTRAN test compile fails -- please see "genmake_errors"   WARNING: FORTRAN test compile fails -- please see '$LOGFILE'
700  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
701  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
702  EOF  EOF
703          return 1          return 1
704      fi      fi
# Line 617  EOF Line 706  EOF
706      RETVAL=$?      RETVAL=$?
707      if test "x$RETVAL" != x0 ; then      if test "x$RETVAL" != x0 ; then
708          FC_NAMEMANGLE=$default_nm          FC_NAMEMANGLE=$default_nm
709          cat <<EOF>> genmake_warnings          cat <<EOF>> $LOGFILE
710    
711  WARNING: The "nm" command failed.   WARNING: The "nm" command failed.
712  WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'   WARNING: We'll try to use: FC_NAMEMANGLE='$FC_NAMEMANGLE'
713  WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.   WARNING: Please contact <MITgcm-support@mitgcm.org> if you need help here.
714  EOF  EOF
715          return 1          return 1
716      fi      fi
# Line 647  EOF Line 736  EOF
736    
737      #  cleanup the testing files      #  cleanup the testing files
738      rm -f genmake_tcomp.* genmake_test.*      rm -f genmake_tcomp.* genmake_test.*
 }  
739    
740        echo " --> set FC_NAMEMANGLE='$FC_NAMEMANGLE'" >> $LOGFILE
741    }
742    
743  check_HAVE_CLOC()  {  check_HAVE_CLOC()  {
744        echo >> $LOGFILE
745        echo "running: check_HAVE_CLOC()" >> $LOGFILE
746      get_fortran_c_namemangling      get_fortran_c_namemangling
747      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
748  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 667  void FC_NAMEMANGLE(cloc) ( double *curti Line 759  void FC_NAMEMANGLE(cloc) ( double *curti
759   *curtim = *curtim/1.E6;   *curtim = *curtim/1.E6;
760  }  }
761  EOF  EOF
762      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
763        echo $COMM >> $LOGFILE
764        $COMM >> $LOGFILE 2>&1
765      RET_C=$?      RET_C=$?
766      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
767        program hello        program hello
# Line 677  EOF Line 771  EOF
771        print *," HELLO WORLD", wtime        print *," HELLO WORLD", wtime
772        end        end
773  EOF  EOF
774      $FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
775        echo $COMM >> $LOGFILE
776        $COMM >> $LOGFILE 2>&1
777      RET_F=$?      RET_F=$?
778      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1      test -x ./genmake_tc  &&  ./genmake_tc >> $LOGFILE 2>&1
779      RETVAL=$?      RETVAL=$?
780      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
781          HAVE_CLOC=t          HAVE_CLOC=t
782          DEFINES="$DEFINES -DHAVE_CLOC"          DEFINES="$DEFINES -DHAVE_CLOC"
783      fi      fi
784      rm -f genmake_tc*      rm -f genmake_tc*
785        echo " --> set HAVE_CLOC='$HAVE_CLOC'" >> $LOGFILE
786    }
787    
788    check_HAVE_SIGREG()  {
789        if test ! "x$HAVE_SIGREG" = x ; then
790            return
791        fi
792        echo >> $LOGFILE
793        echo "running: check_HAVE_SIGREG()" >> $LOGFILE
794        get_fortran_c_namemangling
795        cat <<EOF > genmake_tc_1.c
796    $FC_NAMEMANGLE
797    #include <stdlib.h>
798    #include <stdio.h>
799    #include <signal.h>
800    #include <errno.h>
801    #include <ucontext.h>
802    
803    int * ip;
804    
805    static void killhandler(
806        unsigned int sn, siginfo_t  si, struct ucontext *sc )
807    {
808        *ip = *ip + 1;
809        return;
810  }  }
811    
812    void FC_NAMEMANGLE(sigreg) (int * aip)
813    {
814        struct sigaction s;
815        ip = aip;
816        s.sa_flags = SA_SIGINFO;
817        s.sa_sigaction = (void *)killhandler;
818        if(sigaction (SIGTERM,&s,(struct sigaction *)NULL)) {
819            printf("Sigaction returned error = %d\n", errno);
820            exit(0);
821        }
822        return;
823    }
824    EOF
825        COMM="$CC $CFLAGS -c genmake_tc_1.c"
826        echo $COMM >> $LOGFILE
827        $COMM >> $LOGFILE 2>&1
828        RET_C=$?
829        cat <<EOF > genmake_tc_2.$FS
830          program hello
831          integer anint
832          common /iv/ anint
833          external sigreg
834          call sigreg(anint)
835          end
836    EOF
837        cat genmake_tc_2.$FS >> $LOGFILE
838        COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
839        echo $COMM >> $LOGFILE
840        $COMM >> $LOGFILE 2>&1
841        RETVAL=$?
842        if test "x$RETVAL" = x0 ; then
843            HAVE_SIGREG=t
844            DEFINES="$DEFINES -DHAVE_SIGREG"
845        fi
846        rm -f genmake_tc*
847        echo " --> set HAVE_SIGREG='$HAVE_SIGREG'" >> $LOGFILE
848    }
849    
850  check_HAVE_SETRLSTK()  {  check_HAVE_SETRLSTK()  {
851        if test "x$HAVE_SETRLSTK" = xt ; then
852            DEFINES="$DEFINES -DHAVE_SETRLSTK"
853            return
854        fi  
855        if test ! "x$HAVE_SETRLSTK" = x ; then
856            return
857        fi
858        echo >> $LOGFILE
859        echo "running: check_HAVE_SETRLSTK()" >> $LOGFILE
860      get_fortran_c_namemangling      get_fortran_c_namemangling
861      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
862  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 705  void FC_NAMEMANGLE(setrlstk) () Line 872  void FC_NAMEMANGLE(setrlstk) ()
872      return;      return;
873  }  }
874  EOF  EOF
875      make genmake_tc_1.o >> genmake_warnings 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
876        echo $COMM >> $LOGFILE
877        $COMM >> $LOGFILE 2>&1
878      RET_C=$?      RET_C=$?
879      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
880        program hello        program hello
# Line 713  EOF Line 882  EOF
882        call setrlstk()        call setrlstk()
883        end        end
884  EOF  EOF
885      $FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o >> genmake_warnings 2>&1      cat genmake_tc_2.$FS >> $LOGFILE
886      RET_F=$?      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
887      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_warnings 2>&1      echo $COMM >> $LOGFILE
888        $COMM >> $LOGFILE 2>&1
889      RETVAL=$?      RETVAL=$?
890      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
891          HAVE_SETRLSTK=t          HAVE_SETRLSTK=t
892          DEFINES="$DEFINES -DHAVE_SETRLSTK"          DEFINES="$DEFINES -DHAVE_SETRLSTK"
893      fi      fi
894      rm -f genmake_tc*      rm -f genmake_tc*
895        echo " --> set HAVE_SETRLSTK='$HAVE_SETRLSTK'" >> $LOGFILE
896  }  }
897    
   
898  check_HAVE_STAT()  {  check_HAVE_STAT()  {
899        echo >> $LOGFILE
900        echo "running: check_HAVE_STAT()" >> $LOGFILE
901      get_fortran_c_namemangling      get_fortran_c_namemangling
902      cat <<EOF > genmake_tc_1.c      cat <<EOF > genmake_tc_1.c
903  $FC_NAMEMANGLE  $FC_NAMEMANGLE
# Line 746  void FC_NAMEMANGLE(tfsize) ( int *nbyte Line 918  void FC_NAMEMANGLE(tfsize) ( int *nbyte
918          *nbyte = -1;          *nbyte = -1;
919  }  }
920  EOF  EOF
921      make genmake_tc_1.o >> genmake_tc.log 2>&1      COMM="$CC $CFLAGS -c genmake_tc_1.c"
922        echo $COMM >> $LOGFILE
923        $COMM >> genmake_tc.log 2>&1
924      RET_C=$?      RET_C=$?
925      cat <<EOF > genmake_tc_2.$FS      cat <<EOF > genmake_tc_2.$FS
926        program hello        program hello
# Line 755  EOF Line 929  EOF
929        print *," HELLO WORLD", nbyte        print *," HELLO WORLD", nbyte
930        end        end
931  EOF  EOF
932      $FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o >> genmake_tc.log 2>&1      cat genmake_tc_2.$FS >> $LOGFILE
933      RET_F=$?      COMM="$FC $FFLAGS -o genmake_tc genmake_tc_2.$FS genmake_tc_1.o"
934      test -x ./genmake_tc  &&  ./genmake_tc >> genmake_tc.log 2>&1      echo $COMM >> $LOGFILE
935        $COMM >> genmake_tc.log 2>&1
936      RETVAL=$?      RETVAL=$?
937      if test "x$RETVAL" = x0 ; then      if test "x$RETVAL" = x0 ; then
938          HAVE_STAT=t          HAVE_STAT=t
939          DEFINES="$DEFINES -DHAVE_STAT"          DEFINES="$DEFINES -DHAVE_STAT"
940      fi      fi
941      rm -f genmake_tc*      rm -f genmake_tc*
942        echo " --> set HAVE_STAT='$HAVE_STAT'" >> $LOGFILE
943  }  }
944    
   
945  check_netcdf_libs()  {  check_netcdf_libs()  {
946      if test ! "x$SKIP_NETCDF_CHECK" = x ; then      if test ! "x$SKIP_NETCDF_CHECK" = x ; then
947          return          return
948      fi      fi
949      echo "" > genmake_tnc.log      echo >> $LOGFILE
950        echo "running: check_netcdf_libs()" >> $LOGFILE
951      cat <<EOF > genmake_tnc.F      cat <<EOF > genmake_tnc.F
952        program fgennc        program fgennc
953  #include "netcdf.inc"  #include "netcdf.inc"
# Line 789  EOF Line 965  EOF
965        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)        IF (iret .NE. NF_NOERR) write(*,*) NF_STRERROR(iret)
966        end        end
967  EOF  EOF
968      echo "Executing:" > genmake_tnc.log      echo "===  genmake_tnc.F  >>>" > genmake_tnc.log
969      echo "  $CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS" \      cat genmake_tnc.F >> genmake_tnc.log
970          >> genmake_tnc.log      echo "<<<  genmake_tnc.F  ===" >> genmake_tnc.log
971      RET_CPP=f      RET_CPP=f
972      $CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS 2>/dev/null  \      COMM="cat genmake_tnc.F | $CPP $DEFINES $INCLUDES"
973          &&  RET_CPP=t      echo "$COMM" >> genmake_tnc.log
974        eval $COMM > genmake_tnc.$FS 2>/dev/null  &&  RET_CPP=t
975      if test "x$RET_CPP" = xf ; then      if test "x$RET_CPP" = xf ; then
976          echo "  WARNING: CPP failed to pre-process the netcdf test." \          echo "  WARNING: CPP failed to pre-process the netcdf test." \
977              >> genmake_tnc.log              >> genmake_tnc.log
978          echo "    Please check that \$INCLUDES is properly set." \          echo "    Please check that \$INCLUDES is properly set." \
979              >> genmake_tnc.log              >> genmake_tnc.log
980      fi      fi
981      echo "Executing:" > genmake_tnc.log      echo "$FC $FFLAGS $FOPTIM -c genmake_tnc.$FS  \ " >> genmake_tnc.log
982      echo "  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS" >> genmake_tnc.log      echo "  &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc.o $LIBS" >> genmake_tnc.log
     echo "  $LINK -o genmake_tnc.o $LIBS" >> genmake_tnc.log  
983      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \      $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
984          &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1          &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS >> genmake_tnc.log 2>&1
985      RET_COMPILE=$?      RET_COMPILE=$?
986        cat genmake_tnc.log >> $LOGFILE
987    
988      #EH3  Remove test program execution for machines that either disallow      #EH3  Remove test program execution for machines that either disallow
989      #EH3  execution or cannot support it (eg. cross-compilers)      #EH3  execution or cannot support it (eg. cross-compilers)
# Line 817  EOF Line 994  EOF
994    
995      if test "x$RET_COMPILE" = x0 ; then      if test "x$RET_COMPILE" = x0 ; then
996          HAVE_NETCDF=t          HAVE_NETCDF=t
997            echo "check_netcdf: successful" >> $LOGFILE
998      else      else
999          # try again with "-lnetcdf" added to the libs          # try again with "-lnetcdf" added to the libs
1000          echo "$CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS \ " >> genmake_tnc.log          echo "==> try again with added '-lnetcdf'" > genmake_tnc.log
1001            echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1002          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log          echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1003          echo " &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log          echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
1004          $CPP $DEFINES $INCLUDES genmake_tnc.F > genmake_tnc.$FS 2>/dev/null  \          cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
1005              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \              &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1006              &&  $LINK -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1              &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf >> genmake_tnc.log 2>&1
1007          RET_COMPILE=$?          RET_COMPILE=$?
1008            echo >> $LOGFILE
1009            cat genmake_tnc.log >> $LOGFILE
1010          if test "x$RET_COMPILE" = x0 ; then          if test "x$RET_COMPILE" = x0 ; then
1011              LIBS="$LIBS -lnetcdf"              LIBS="$LIBS -lnetcdf"
1012              HAVE_NETCDF=t              HAVE_NETCDF=t
1013                echo "check_netcdf: successful" >> $LOGFILE
1014          else          else
1015              echo "===  genmake_tnc.F  ===" >> genmake_warnings          # try again with "-lnetcdff" added to the libs
1016              cat genmake_tnc.F >> genmake_warnings              echo "==> try again with added '-lnetcdff -lnetcdf'" > genmake_tnc.log
1017              echo "===  genmake_tnc.F  ===" >> genmake_warnings              echo "cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS \ " >> genmake_tnc.log
1018              cat genmake_tnc.log >> genmake_warnings              echo " &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS \ " >> genmake_tnc.log
1019                echo " &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdf" >> genmake_tnc.log
1020                cat genmake_tnc.F | $CPP $DEFINES $INCLUDES > genmake_tnc.$FS 2>/dev/null  \
1021                    &&  $FC $FFLAGS $FOPTIM -c genmake_tnc.$FS >> genmake_tnc.log 2>&1  \
1022                    &&  $LINK $FFLAGS $FOPTIM -o genmake_tnc genmake_tnc.o $LIBS -lnetcdff -lnetcdf >> genmake_tnc.log 2>&1
1023                RET_COMPILE=$?
1024                echo >> $LOGFILE
1025                cat genmake_tnc.log >> $LOGFILE
1026                if test "x$RET_COMPILE" = x0 ; then
1027                    LIBS="$LIBS -lnetcdff -lnetcdf"
1028                    HAVE_NETCDF=t
1029                    echo "check_netcdf: successful" >> $LOGFILE
1030                fi
1031          fi          fi
1032      fi      fi
1033      rm -f genmake_tnc*      rm -f genmake_tnc*
1034        echo " --> set HAVE_NETCDF='$HAVE_NETCDF'" >> $LOGFILE
1035  }  }
1036    
1037    
   
1038  ###############################################################################  ###############################################################################
1039  #   Sequential part of script starts here  #   Sequential part of script starts here
1040  ###############################################################################  ###############################################################################
# Line 862  ENABLE= Line 1056  ENABLE=
1056  DISABLE=  DISABLE=
1057  # MAKEFILE=  # MAKEFILE=
1058  # MAKEDEPEND=  # MAKEDEPEND=
1059  PDEPEND=  PKG_DEPEND=
1060  DUMPSTATE=t  PKG_GROUPS=
1061  PDEFAULT=  DUMPSTATE=f
1062  OPTFILE=  OPTFILE=
1063  INCLUDES="-I. $INCLUDES"  INCLUDES="-I. $INCLUDES"
1064  FFLAGS=  FFLAGS=
1065  FOPTIM=  FOPTIM=
1066    FEXTRAFLAGS=
1067    USE_EXTENDED_SRC=
1068    EXTENDED_SRC_FLAG=
1069    GET_FC_VERSION=
1070  CFLAGS=  CFLAGS=
1071  KFLAGS1=  KFLAGS1=
1072  KFLAGS2=  KFLAGS2=
# Line 879  NOOPTFILES= Line 1077  NOOPTFILES=
1077  NOOPTFLAGS=  NOOPTFLAGS=
1078  MPI=  MPI=
1079  MPIPATH=  MPIPATH=
1080    OMP=
1081    OMPFLAG=
1082    USE_R4=
1083  TS=  TS=
1084    PAPIS=
1085    PCLS=
1086    FOOLAD=
1087    PAPI=
1088    PCL=
1089    HPMT=
1090    GSL=
1091    DEVEL=
1092  HAVE_TEST_L=  HAVE_TEST_L=
1093    
1094  # DEFINES checked by test compilation or command-line  # DEFINES checked by test compilation or command-line
# Line 887  HAVE_SYSTEM= Line 1096  HAVE_SYSTEM=
1096  HAVE_FDATE=  HAVE_FDATE=
1097  FC_NAMEMANGLE=  FC_NAMEMANGLE=
1098  HAVE_CLOC=  HAVE_CLOC=
1099  HAVE_SETRLSTK=  # HAVE_SETRLSTK=
1100  HAVE_STAT=  HAVE_STAT=
1101  HAVE_NETCDF=  HAVE_NETCDF=
1102  HAVE_ETIME=  HAVE_ETIME=
# Line 904  BASH= Line 1113  BASH=
1113  PWD=`pwd`  PWD=`pwd`
1114  test "x$MAKE" = x  &&  MAKE=make  test "x$MAKE" = x  &&  MAKE=make
1115  test "x$AWK" = x   &&  AWK=awk  test "x$AWK" = x   &&  AWK=awk
1116    EMBED_SRC=
1117  THISHOST=`hostname`  THISHOST=`hostname`
1118  THISCWD=`pwd`  THISCWD=`pwd`
1119  THISDATE=`date`  THISDATE=`date`
# Line 934  FTL_TAF_FLAGS= Line 1144  FTL_TAF_FLAGS=
1144  SVD_TAMC_FLAGS=  SVD_TAMC_FLAGS=
1145  TAMC_EXTRA=  TAMC_EXTRA=
1146    
   
1147  #  The following state can be set directly by command-line switches  #  The following state can be set directly by command-line switches
1148  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"
1149  gm_s2="FC CPP IEEE TS MPI JAM DUMPSTATE STANDARDDIRS"  gm_s2="FC CC USE_R4 TS PAPIS PCLS PAPI PCL HPMT IEEE DEVEL GSL MPI OMP DUMPSTATE STANDARDDIRS"
1150    
1151  #  The following state is not directly set by command-line switches  #  The following state is not directly set by command-line switches
1152  gm_s3="LN S64 KPP LINK PACKAGES MAKEDEPEND PDEPEND PDEFAULT INCLUDES FFLAGS FOPTIM "  gm_s3="LN S64 LINK MAKE PACKAGES INCLUDES FFLAGS FOPTIM FEXTRAFLAGS"
1153  gm_s4="CFLAGS KFLAGS1 KFLAGS2 LIBS KPPFILES NOOPTFILES NOOPTFLAGS"  gm_s4="CFLAGS LIBS KPP KFLAGS1 KFLAGS2 KPPFILES NOOPTFILES NOOPTFLAGS"
1154  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD MAKE THISHOST THISUSER THISDATE THISVER MACHINE"  gm_s5="TOOLSDIR SOURCEDIRS INCLUDEDIRS PWD THISHOST THISUSER THISDATE THISVER MACHINE"
1155  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"  gm_s6="EXECUTABLE EXEHOOK EXEDIR PACKAGES_CONF"
1156  gm_s7="HAVE_SYSTEM HAVE_FDATE FC_NAMEMANGLE HAVE_ETIME"  gm_s7="FC_NAMEMANGLE HAVE_NETCDF HAVE_SYSTEM HAVE_FDATE HAVE_ETIME"
1157    
1158  #  The following are all related to adjoint/tangent-linear stuff  #  The following are all related to adjoint/tangent-linear stuff
1159  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 958  cat <<EOF Line 1167  cat <<EOF
1167    
1168  GENMAKE :  GENMAKE :
1169    
1170  A program for GENerating MAKEfiles for the MITgcm project.  For a  A program for GENerating MAKEfiles for the MITgcm project.
1171  quick list of options, use "genmake -h" or for more detail see:     For a quick list of options, use "genmake2 -h"
1172    or for more detail see the Developer's HOWTO manual at:
1173    http://mitgcm.org/devel_HOWTO/     http://mitgcm.org/public/docs.html
1174    
1175  EOF  EOF
1176    
1177    LOGFILE="genmake.log"
1178    #- clean-up previous genmake logfiles:
1179    rm -f genmake_state genmake_*optfile $LOGFILE
1180    
1181  echo "===  Processing options files and arguments  ==="  echo "===  Processing options files and arguments  ==="
1182  gm_local="genmake_local"  gm_local="genmake_local"
 for i in . $MODS ; do  
     if test -r $i/$gm_local ; then  
         . $i/$gm_local  
         break  
     fi  
 done  
1183  printf "  getting local config information:  "  printf "  getting local config information:  "
1184  if test -f $gm_local ; then  if test -f $gm_local ; then
1185      echo "using $gm_local"      echo "using $gm_local"
# Line 984  else Line 1191  else
1191  fi  fi
1192    
1193  #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=$(( $n + 1 ))  
 #done  
1194  #parse_options  #parse_options
1195  ac_prev=  ac_prev=
1196  for ac_option in "$@" ; do  for ac_option in "$@" ; do
# Line 1005  for ac_option in "$@" ; do Line 1203  for ac_option in "$@" ; do
1203          ac_prev=          ac_prev=
1204          continue          continue
1205      fi      fi
1206        
1207      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`      ac_optarg=`expr "x$ac_option" : 'x[^=]*=\(.*\)'`
1208        
1209      case $ac_option in      case $ac_option in
1210                    
1211          -help | --help | -h | --h)          -help | --help | -h | --h)
# Line 1026  for ac_option in "$@" ; do Line 1224  for ac_option in "$@" ; do
1224              AD_OPTFILE=$ac_optarg ;;              AD_OPTFILE=$ac_optarg ;;
1225                    
1226          -pdepend | --pdepend)          -pdepend | --pdepend)
1227              ac_prev=PDEPEND ;;              ac_prev=PKG_DEPEND ;;
1228          -pdepend=* | --pdepend=*)          -pdepend=* | --pdepend=*)
1229              PDEPEND=$ac_optarg ;;              PKG_DEPEND=$ac_optarg ;;
1230                    
1231          -pdefault | --pdefault)          -pgroups | --pgroups)
1232              ac_prev=PDEFAULT ;;              ac_prev=PKG_GROUPS ;;
1233          -pdefault=* | --pdefault=*)          -pgroups=* | --pgroups=*)
1234              PDEFAULT=$ac_optarg ;;              PKG_GROUPS=$ac_optarg ;;
1235                    
1236          -make | --make | -m | --m)          -make | --make | -m | --m)
1237              ac_prev=MAKE ;;              ac_prev=MAKE ;;
# Line 1112  for ac_option in "$@" ; do Line 1310  for ac_option in "$@" ; do
1310          -fs90=* | --fs90=*)          -fs90=* | --fs90=*)
1311              FS90=$ac_optarg ;;              FS90=$ac_optarg ;;
1312                    
1313            -use_real4 | -use_r4 | -ur4 | --use_real4 | --use_r4 | --ur4 )
1314                USE_R4=true ;;
1315    
1316          -ieee | --ieee)          -ieee | --ieee)
1317              IEEE=true ;;              IEEE=true ;;
1318          -noieee | --noieee)          -noieee | --noieee)
1319              IEEE= ;;              echo "Warning: ignore option '$ac_option' (default is already without '-ieee')" ;;
1320            -devel | --devel)
1321                IEEE=true ; DEVEL=true ;;
1322            -gsl | --gsl)
1323                GSL=true ;;
1324    
1325          -ts | --ts)          -ts | --ts)
1326              TS=true ;;              TS=true ;;
1327            -papis | --papis)
1328                PAPIS=true ;;
1329            -pcls | --pcls)
1330                PCLS=true ;;
1331            -foolad | --foolad)
1332                FOOLAD=true ;;
1333            -papi | --papi)
1334                PAPI=true ;;
1335            -pcl | --pcl)
1336                PCL=true ;;
1337            -hpmt | --hpmt)
1338                HPMT=true ;;
1339    
1340          -mpi | --mpi)          -mpi | --mpi)
1341              MPI=true ;;              MPI=true ;;
# Line 1126  for ac_option in "$@" ; do Line 1343  for ac_option in "$@" ; do
1343              MPIPATH=$ac_optarg              MPIPATH=$ac_optarg
1344              MPI=true ;;              MPI=true ;;
1345                    
1346  #       -jam | --jam)          -omp | --omp)
1347  #           JAM=1 ;;              OMP=true ;;
1348  #       -nojam | --nojam)          -omp=* | --omp=*)
1349  #           JAM=0 ;;              OMPFLAG=$ac_optarg
1350                OMP=true ;;
1351                    
1352          -ds | --ds)          -ds | --ds)
1353              DUMPSTATE=t ;;              DUMPSTATE=t ;;
# Line 1147  for ac_option in "$@" ; do Line 1365  for ac_option in "$@" ; do
1365          -ignoretime | -ignore_time | --ignoretime | --ignore_time)          -ignoretime | -ignore_time | --ignoretime | --ignore_time)
1366              IGNORE_TIME="-DIGNORE_TIME" ;;              IGNORE_TIME="-DIGNORE_TIME" ;;
1367    
1368            -es | --es | -embed-source | --embed-source)
1369                EMBED_SRC=t ;;
1370    
1371          -*)          -*)
1372              echo "Error: unrecognized option: "$ac_option              echo "Error: unrecognized option: "$ac_option
1373              usage              usage
# Line 1158  for ac_option in "$@" ; do Line 1379  for ac_option in "$@" ; do
1379              ;;              ;;
1380                    
1381      esac      esac
       
 done  
1382    
1383    done
1384    
1385  if test -f ./.genmakerc ; then  if test -f ./.genmakerc ; then
1386      echo      echo
1387      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""      echo "WARNING: genmake2 has detected a copy of the old-style \"./.genmakerc\""
1388      echo "  file.  This file format is no longer supported.  Please see:"      echo "  file.  This file format is no longer supported.  For directions on"
1389      echo      echo "  how to setup and use the new \"genmake2\" script, please see:"
1390      echo "    http://mitgcm.org/devel_HOWTO/"      echo "    http://mitgcm.org/public/devel_HOWTO/"
1391        echo "  and send an email to MITgcm-support@mitgcm.org if you need help."
1392        echo "WARNING: ignore \"./.genmakerc\" and continue."
1393      echo      echo
     echo "  for directions on how to setup and use the new \"genmake2\" input"  
     echo "  files and send an email to MITgcm-support@mitgcm.org if you want help."  
     echo  
1394  fi  fi
1395    
1396  #  Find the MITgcm ${ROOTDIR}  #  Find the MITgcm ${ROOTDIR}
1397  if test "x${ROOTDIR}" = x ; then  if test "x${ROOTDIR}" = x ; then
1398      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
1399      if test "x$tmp" = "xbin" -a -d ../model -a -d ../eesup -a -d ../pkg ; then      if test "x$tmp" = "xbin" -a -d ../model -a -d ../eesupp -a -d ../pkg ; then
1400          ROOTDIR=".."          ROOTDIR=".."
1401      else      else
1402          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do          for d in . .. ../.. ../../.. ../../../.. ../../../../.. ; do
1403              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then              if [ -d "$d/model" -a -d "$d/eesupp" -a -d "$d/pkg" ]; then
1404                  ROOTDIR=$d                  ROOTDIR=$d
1405                  printf "Warning:  ROOTDIR was not specified but there appears to be"                  printf "Warning: ROOTDIR was not specified ;"
1406                  echo " a copy of MITgcm at \"$ROOTDIR\" so we'll try it."                  echo " try using a local copy of MITgcm found at \"$ROOTDIR\""
1407                  break                  break
1408              fi              fi
1409          done          done
# Line 1202  if test ! -d ${ROOTDIR} ; then Line 1421  if test ! -d ${ROOTDIR} ; then
1421  fi  fi
1422    
1423  #  Find the MITgcm ${THISVER}  #  Find the MITgcm ${THISVER}
1424  if test -f "${ROOTDIR}/doc/tag-index" ; then  version_file="${ROOTDIR}/doc/tag-index"
1425      THISVER=`grep '^checkpoint' ${ROOTDIR}/doc/tag-index | head -1`  if test -f $version_file ; then
1426        THISVER=`$AWK '/^checkpoint/{print $1; exit}' $version_file`
1427    #-  remove ./BUILD_INFO.h file if older than version_file
1428        if test -f ./BUILD_INFO.h -a ./BUILD_INFO.h -ot $version_file ; then
1429            echo "  remove ./BUILD_INFO.h (older than ${version_file})"
1430            rm -f ./BUILD_INFO.h
1431        fi
1432  fi  fi
1433    
1434  if test "x$MAKEFILE" = x ; then  if test "x$MAKEFILE" = x ; then
# Line 1215  if test "x${OPTFILE}" = x ; then Line 1440  if test "x${OPTFILE}" = x ; then
1440      if test "x$MITGCM_OF" = x ; then      if test "x$MITGCM_OF" = x ; then
1441          echo "Warning: no OPTFILE specified so we'll look for possible settings"          echo "Warning: no OPTFILE specified so we'll look for possible settings"
1442          printf "\n===  Searching for possible settings for OPTFILE  ===\n"          printf "\n===  Searching for possible settings for OPTFILE  ===\n"
1443          find_possible_configs          find_possible_optfile
1444      else      else
1445          OPTFILE=$MITGCM_OF          OPTFILE=$MITGCM_OF
1446      fi      fi
# Line 1230  if test "x$OPTFILE" != xNONE ; then Line 1455  if test "x$OPTFILE" != xNONE ; then
1455              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1456              exit 1              exit 1
1457          fi          fi
1458          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1459              cp -f $OPTFILE "genmake_optfile"              cp -f $OPTFILE "genmake_optfile"
1460          fi          fi
1461      else      else
# Line 1257  if test "x${AD_OPTFILE}" != xNONE ; then Line 1482  if test "x${AD_OPTFILE}" != xNONE ; then
1482              echo "--please check that variable syntax is bash-compatible"              echo "--please check that variable syntax is bash-compatible"
1483              exit 1              exit 1
1484          fi          fi
1485          if test "x$DUMPSTATE" != xf ; then          if test "x$DUMPSTATE" = xt ; then
1486              cp -f $AD_OPTFILE "genmake_ad_optfile"              cp -f $AD_OPTFILE "genmake_ad_optfile"
1487          fi          fi
1488      else      else
# Line 1285  Error: no Fortran compiler: please speci Line 1510  Error: no Fortran compiler: please speci
1510  EOF  EOF
1511      exit 1      exit 1
1512  fi  fi
1513    if test "x$GET_FC_VERSION" != x ; then
1514      echo "Get compiler version using: $FC $GET_FC_VERSION" >> $LOGFILE
1515      $FC $GET_FC_VERSION >> $LOGFILE 2>&1
1516      echo "<-- compiler version ----" >> $LOGFILE
1517    fi
1518    
1519  if test "x$CC" = x ; then  if test "x$CC" = x ; then
1520      CC=cc      look_for_C_compilers
 #     cat <<EOF 1>&2  
 # Error: no C compiler: please specify using one of the following:  
 #   1) within the options file ("CC=...") as specified by "-of=OPTFILE"  
 #   2) the "-cc=XXX" command-line option  
 #   3) the "./genmake_local" file  
 # EOF  
 #     exit 1  
1521  fi  fi
1522    
1523  if test "x$LINK" = x ; then  if test "x$LINK" = x ; then
1524      LINK=$FC      LINK=$FC
1525  fi  fi
# Line 1302  if test "x$MAKE" = x ; then Line 1527  if test "x$MAKE" = x ; then
1527      MAKE="make"      MAKE="make"
1528  fi  fi
1529  if test "x$CPP" = x ; then  if test "x$CPP" = x ; then
1530      CPP=cpp      CPP="cpp -traditional -P"
1531  fi  fi
1532  #EH3 === UGLY ===  #EH3 === UGLY ===
1533  #  The following is an ugly little hack to check for $CPP in /lib/ and  #  The following is an ugly little hack to check for $CPP in /lib/ and
# Line 1329  EOF Line 1554  EOF
1554  else  else
1555      rm -f test_cpp      rm -f test_cpp
1556  fi  fi
1557    
1558  look_for_makedepend  look_for_makedepend
1559    
1560    #  Check that soft-link command is set and usable
1561  if test "x$LN" = x ; then  if test "x$LN" = x ; then
1562      LN="ln -s"      LN="ln -s"
1563  fi  fi
# Line 1339  RETVAL=$? Line 1567  RETVAL=$?
1567  if test "x$RETVAL" != x0 ; then  if test "x$RETVAL" != x0 ; then
1568      cat <<EOF 1>&2      cat <<EOF 1>&2
1569    
1570  Error: The command "ln -s" failed -- please specify a working soft-link  Error: The command "$LN" failed -- please specify a working soft-link
1571    command in the optfile.    command in the optfile.
1572    
1573  EOF  EOF
# Line 1359  if test ! "x$MPI" = x ; then Line 1587  if test ! "x$MPI" = x ; then
1587        echo "  Turning on MPI cpp macros"        echo "  Turning on MPI cpp macros"
1588        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"        DEFINES="$DEFINES -DALLOW_USE_MPI -DALWAYS_USE_MPI"
1589  fi  fi
1590    if test ! "x$OMP" = x ; then
1591          echo "  Add OMPFLAG and turn on OpenMP cpp macros"
1592          FFLAGS="$FFLAGS $OMPFLAG"
1593          F90FLAGS="$F90FLAGS $OMPFLAG"
1594          DEFINES="$DEFINES -DUSE_OMP_THREADING"
1595    fi
1596    
1597    if test ! "x$USE_R4" = x ; then
1598          echo "  Turning on LET_RS_BE_REAL4 cpp flag"
1599          DEFINES="$DEFINES -DLET_RS_BE_REAL4"
1600    fi
1601    
1602  if test ! "x$TS" = x ; then  if test ! "x$TS" = x ; then
1603        echo "  Turning on timing per timestep"        echo "  Turning on timing per timestep"
1604        DEFINES="$DEFINES -DTIME_PER_TIMESTEP"        if test ! "x$FOOLAD" = x ; then
1605                DEFINES="$DEFINES -DTIME_PER_TIMESTEP_SFP"
1606          else
1607                DEFINES="$DEFINES -DTIME_PER_TIMESTEP"
1608          fi
1609          PACKAGES="$PACKAGES showflops"
1610    fi
1611    if test ! "x$PAPIS" = x ; then
1612          echo "  Turning on PAPI flop summary per timestep"
1613          echo "  Please make sure PAPIINC, PAPILIB are defined"
1614          if test ! "x$FOOLAD" = x ; then
1615                DEFINES="$DEFINES -DUSE_PAPI_FLOPS_SFP"
1616          else
1617                DEFINES="$DEFINES -DUSE_PAPI_FLOPS"
1618          fi
1619          INCLUDES="$INCLUDES $PAPIINC"
1620          LIBS="$LIBS $PAPILIB"
1621          PACKAGES="$PACKAGES showflops"
1622    fi
1623    if test ! "x$PCLS" = x ; then
1624          echo "  Turning on PCL counter summary per timestep"
1625          echo "  Please make sure PCLINC, PCLLIB are defined"
1626          if test ! "x$FOOLAD" = x ; then
1627                DEFINES="$DEFINES -DUSE_PCL_FLOPS_SFP"
1628          else
1629                DEFINES="$DEFINES -DUSE_PCL_FLOPS"
1630          fi
1631          INCLUDES="$INCLUDES $PCLINC"
1632          LIBS="$LIBS $PCLLIB"
1633          PACKAGES="$PACKAGES showflops"
1634    fi
1635    if test ! "x$PAPI" = x ; then
1636          if test ! "x$PAPIS" = x ; then
1637              echo "  PAPI performance analysis and flop summary per timestep cannot co-exist!"
1638              echo "  Sticking with PAPI flop summary per timestep!"
1639          else
1640              echo "  Turning on performance analysis with PAPI"
1641              echo "  Please make sure PAPIINC, PAPILIB are defined"
1642              DEFINES="$DEFINES -DUSE_PAPI"
1643              INCLUDES="$INCLUDES $PAPIINC"
1644              LIBS="$LIBS $PAPILIB"
1645          fi
1646    fi
1647    if test ! "x$PCL" = x ; then
1648          if test ! "x$PCLS" = x ; then
1649              echo "  PCL performance analysis and flop summary per timestep cannot co-exist!"
1650              echo "  Sticking with PCL flop summary per timestep!"
1651          else
1652              echo "  Turning on performance analysis with PCL"
1653              echo "  Please make sure PCLINC, PCLLIB are defined"
1654              DEFINES="$DEFINES -DUSE_PCL"
1655              INCLUDES="$INCLUDES $PCLINC"
1656              LIBS="$LIBS $PCLLIB"
1657          fi
1658    fi
1659    if test ! "x$HPMT" = x ; then
1660          if test ! "x$PAPI" = x ; then
1661              echo "  PAPI and the HPM Toolkit cannot co-exist!"
1662              echo "  Sticking with PAPI!"
1663          else if test ! "x$PCL" = x ; then
1664              echo "  PCL and the HPM Toolkit cannot co-exist!"
1665              echo "  Sticking with PCL!"
1666          else
1667              echo "  Turning on performance analysis with the HPM Toolkit"
1668              echo "  Please make sure HPMTINC, HPMTLIB are defined"
1669              DEFINES="$DEFINES -DUSE_LIBHPM"
1670              INCLUDES="$INCLUDES $HPMTINC"
1671              LIBS="$LIBS $HPMTLIB"
1672          fi
1673          fi
1674    fi
1675    if test ! "x$GSL" = x ; then
1676          echo "  Turning on use of GSL to control floating point calculations"
1677          echo "  Please make sure GSLINC, GSLLIB are defined"
1678          DEFINES="$DEFINES -DUSE_GSL_IEEE"
1679          INCLUDES="$INCLUDES $GSLINC"
1680          LIBS="$LIBS $GSLLIB"
1681    fi
1682    #- if USE_EXTENDED_SRC is set, add EXTENDED_SRC_FLAG to FFLAGS :
1683    if test ! "x$USE_EXTENDED_SRC" = x ; then
1684          FFLAGS="$FFLAGS $EXTENDED_SRC_FLAG"
1685          F90FIXEDFORMAT="$F90FIXEDFORMAT $EXTENDED_SRC_FLAG"
1686  fi  fi
1687    
1688  printf "\n===  Checking system libraries  ===\n"  printf "\n===  Checking system libraries  ===\n"
# Line 1433  if test "x$HAVE_CLOC" != x ; then Line 1753  if test "x$HAVE_CLOC" != x ; then
1753      echo "yes"      echo "yes"
1754  else  else
1755      echo "no"      echo "no"
1756        if test "x$EMBED_SRC" = xt ; then
1757            echo "    WARNING: you requested file embedding but it has"
1758            echo "      been disabled since C code cannot be called"
1759            EMBED_SRC=
1760        fi
1761  fi  fi
1762  rm -f genmake_t*  rm -f genmake_t*
1763    
1764  printf "  Can we unlimit the stack size using $FC...  "  printf "  Can we unlimit the stack size using $FC...  "
1765  check_HAVE_SETRLSTK  check_HAVE_SETRLSTK
1766  if test "x$HAVE_SETRLSTK" != x ; then  if test "x$HAVE_SETRLSTK" = xt ; then
1767        echo "yes"
1768    else
1769        echo "no"
1770    fi
1771    rm -f genmake_t*
1772    
1773    printf "  Can we register a signal handler using $FC...  "
1774    check_HAVE_SIGREG
1775    if test "x$HAVE_SIGREG" = xt ; then
1776      echo "yes"      echo "yes"
1777  else  else
1778      echo "no"      echo "no"
# Line 1463  else Line 1797  else
1797  fi  fi
1798  DEFINES="$DEFINES $IGNORE_TIME"  DEFINES="$DEFINES $IGNORE_TIME"
1799    
1800    if test "x$EMBED_SRC" = xt ; then
1801        build_embed_encode
1802    fi
1803    if test "x$EMBED_SRC" = xt ; then
1804        ENABLE="$ENABLE embed_files"
1805    fi
1806    
1807  printf "\n===  Setting defaults  ===\n"  printf "\n===  Setting defaults  ===\n"
1808  printf "  Adding MODS directories:  "  printf "  Adding MODS directories: "
1809  for d in $MODS ; do  for d in $MODS ; do
1810      if test ! -d $d ; then      if test ! -d $d ; then
1811          echo          echo
1812          echo "Error: MODS directory \"$d\" not found!"          echo "Error: MODS directory \"$d\" not found!"
1813          exit 1          exit 1
1814      else      else
1815          printf " $d"          printf "$d "
1816          SOURCEDIRS="$SOURCEDIRS $d"          SOURCEDIRS="$SOURCEDIRS $d"
1817          INCLUDEDIRS="$INCLUDEDIRS $d"          INCLUDEDIRS="$INCLUDEDIRS $d"
1818      fi      fi
1819  done  done
1820  echo  echo
1821    
1822  if test "x${PLATFORM}" = x ; then  #if test "x${PLATFORM}" = x ; then
1823      PLATFORM=$p_PLATFORM  #    PLATFORM=$p_PLATFORM
1824  fi  #fi
1825    
1826  if test "x${EXEDIR}" = x ; then  if test "x${EXEDIR}" = x ; then
1827      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`      tmp=`echo $PWD | sed -e 's/\// /g' | $AWK '{print $NR}'`
# Line 1520  ERROR: neither of the two default script Line 1861  ERROR: neither of the two default script
1861      ${TOOLSDIR}/set64bitConst.sh      ${TOOLSDIR}/set64bitConst.sh
1862      ${TOOLSDIR}/set64bitConst.csh      ${TOOLSDIR}/set64bitConst.csh
1863    
1864    are working so please check paths or specify (with \$S64) a    are working so please check paths or specify (with \$S64) a
1865    working version of this script.    working version of this script.
1866    
1867  EOF  EOF
# Line 1532  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD Line 1873  THIS_SCRIPT=`echo ${0} | sed 's:'$TOOLSD
1873    
1874  EXECUTABLE=${EXECUTABLE:-mitgcmuv}  EXECUTABLE=${EXECUTABLE:-mitgcmuv}
1875    
1876    #  Set Standard Code Directories:
1877    if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then
1878        STANDARDDIRS="eesupp model"
1879    fi
1880    #  if model in Standard-Code-Dir, add eesupp (needed to compile model)
1881    echo " $STANDARDDIRS " | grep ' model ' > /dev/null 2>&1
1882    ckM=$?
1883    echo " $STANDARDDIRS " | grep ' eesupp ' > /dev/null 2>&1
1884    ckE=$?
1885    if test $ckM = 0 -a $ckE = 1 ; then
1886        STANDARDDIRS="$STANDARDDIRS eesupp"
1887    fi
1888    
1889  #  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
1890  #  generated from some template source files. We'll make them first so  #  generated from some template source files. We'll make them first so
1891  #  they appear as regular source code  #  they appear as regular source code
1892  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then  if test -r $ROOTDIR"/eesupp/src/Makefile" ; then
1893      echo "  Making source files in eesupp from templates"      echo "  Making source files in eesupp from templates"
1894      ( cd $ROOTDIR"/eesupp/src/" && $MAKE ) > make_eesupp.errors 2>&1      ( cd $ROOTDIR"/eesupp/src/" && $MAKE clean_old && $MAKE \
1895        ) > make_eesupp.errors 2>&1
1896      RETVAL=$?      RETVAL=$?
1897      if test "x${RETVAL}" = x0 ; then      if test "x${RETVAL}" = x0 ; then
1898          rm -f make_eesupp.errors          rm -f make_eesupp.errors
# Line 1548  if test -r $ROOTDIR"/eesupp/src/Makefile Line 1903  if test -r $ROOTDIR"/eesupp/src/Makefile
1903      fi      fi
1904  fi  fi
1905    
1906  #same for exch2  #same for pkg/exch2 and pkg/regrid
1907  if test -r $ROOTDIR"/pkg/exch2/Makefile" ; then  for pdir in exch2 regrid ; do
1908      echo "  Making source files in exch2 from  templates"      if test -r $ROOTDIR"/pkg/${pdir}/Makefile" ; then
1909      ( cd $ROOTDIR"/pkg/exch2/" && $MAKE ) > make_exch2.errors 2>&1          echo "  Making source files in pkg/${pdir} from templates"
1910      RETVAL=$?          ( cd $ROOTDIR"/pkg/"${pdir} && $MAKE clean_old && $MAKE \
1911      if test "x${RETVAL}" = x0 ; then          ) > make_${pdir}.errors 2>&1
1912          rm -f make_exch2.errors          RETVAL=$?
1913      else          if test "x${RETVAL}" = x0 ; then
1914          echo "Error: problem encountered while building source files in exch2:"              rm -f make_${pdir}.errors
1915          cat make_exch2.errors 1>&2          else
1916          exit 1              echo "Error: problem encountered while building source files in pkg/${pdir}:"
1917                cat make_${pdir}.errors 1>&2
1918                exit 1
1919            fi
1920      fi      fi
1921  fi  done
1922    
1923  printf "\n===  Determining package settings  ===\n"  printf "\n===  Determining package settings  ===\n"
1924  if  test "x${PDEPEND}" = x ; then  if  test "x${PKG_DEPEND}" = x ; then
1925      tmp=$ROOTDIR"/pkg/pkg_depend"      tmp=$ROOTDIR"/pkg/pkg_depend"
1926      if test -r $tmp ; then      if test -r $tmp ; then PKG_DEPEND=$tmp ; fi
1927          PDEPEND=$tmp  fi
1928      else  if  test "x${PKG_DEPEND}" = x ; then
1929          echo "Warning:  No package dependency information was specified."          echo "Warning:  No package dependency information was specified."
1930          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."          echo "  Please check that ROOTDIR/pkg/pkg_depend exists."
     fi  
1931  else  else
1932      if test ! -r ${PDEPEND} ; then      if test ! -r ${PKG_DEPEND} ; then
1933          echo "Error:  can't read package dependency info from PDEPEND=\"$PDEPEND\""          echo "Error:  can't read package dependency info from PKG_DEPEND=\"$PKG_DEPEND\""
1934          exit 1          exit 1
1935      fi      fi
1936        echo "  getting package dependency info from  $PKG_DEPEND"
1937    #  Strip the comments and then convert the dependency file into arrays: PNAME, DNAME
1938        get_pdepend_list $PKG_DEPEND
1939  fi  fi
1940  echo "  getting package dependency info from  $PDEPEND"  
1941  #  Strip the comments and then convert the dependency file into  # A default package groups file "$ROOTDIR/pkg/pkg_groups" is provided
1942  #  two arrays: PNAME, DNAME  #  to define the "default_pkg_list" and package groups (for convenience, one
1943  cat $PDEPEND | sed -e 's/#.*$//g' \  #  can specify a group of packages using names like "ocean" and "atmosphere").
1944      | $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${PKG_GROUPS}" = x ; then
1945      > ./.pd_tmp      tmp=$ROOTDIR"/pkg/pkg_groups"
1946  RETVAL=$?      if test -r $tmp ; then PKG_GROUPS=$tmp ; fi
1947  if test ! "x${RETVAL}" = x0 ; then  fi
1948      echo "Error: unable to parse package dependencies -- please check PDEPEND=\"$PDEPEND\""  if test "x${PKG_GROUPS}" = x ; then
1949      exit 1          echo "Warning:  No package groups information was specified."
1950            echo "  Please check that ROOTDIR/pkg/pkg_groups exists."
1951    else
1952        if test ! -r ${PKG_GROUPS} ; then
1953            echo "Error:  can't read package groups info from PKG_GROUPS=\"$PKG_GROUPS\""
1954            exit 1
1955        fi
1956        echo "  getting package groups info from      $PKG_GROUPS"
1957  fi  fi
 . ./.pd_tmp  
 rm -f ./.pd_tmp  
1958    
1959  #  Search for default packages.  Note that a "$ROOTDIR/pkg/pkg_groups"  #  Search for packages to compile.
1960  #  file should eventually be added so that, for convenience, one can  echo "  checking list of packages to compile:"
1961  #  specify groups of packages using names like "ocean" and "atmosphere".  PKG_LIST=
1962  echo "  checking default package list:  "  if test "x${PKG_LIST}" = x ; then
 if test "x${PDEFAULT}" = x ; then  
1963      for i in "." $MODS ; do      for i in "." $MODS ; do
1964          if test -r $i"/packages.conf" ; then          if test -r $i"/packages.conf" ; then
1965                  PDEFAULT=$i"/packages.conf"                  PKG_LIST=$i"/packages.conf"
1966                  break                  break
1967          fi          fi
1968      done      done
1969  fi  fi
1970  if test "x${PDEFAULT}" = x ; then  if test "x${PKG_LIST}" = x ; then
1971      PDEFAULT="$ROOTDIR/pkg/pkg_default"      pkg_list='default_pkg_list'
1972  fi      if test "x${PKG_GROUPS}" = x ; then
1973  if test "x${PDEFAULT}" = xNONE ; then          echo "Error:  need package groups info to expand pkg_list=\"$pkg_list\""
1974      echo "    default packages file disabled"          exit 1
1975        fi
1976  else  else
1977      if test ! -r $PDEFAULT ; then      if test ! -r $PKG_LIST ; then
1978          echo "Warning:  can't read default packages from PDEFAULT=\"$PDEFAULT\""          echo "Error:  can't read package list from PKG_LIST=\"$PKG_LIST\""
1979            exit 1
1980      else      else
1981          echo "    using PDEFAULT=\"$PDEFAULT\""          echo "    using PKG_LIST=\"$PKG_LIST\""
1982          #  Strip the comments and add all the names          #  Strip the comments and add all the names
1983          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 $0}'`
1984          RETVAL=$?          RETVAL=$?
1985          if test "x${RETVAL}" != x0 ; then          if test "x${RETVAL}" != x0 ; then
1986              printf "Error: can't parse default package list "              printf "Error: can't parse package list "
1987              echo "-- please check PDEFAULT=\"$PDEFAULT\""              echo "-- please check PKG_LIST=\"$PKG_LIST\""
1988              exit 1              exit 1
1989          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"  
1990      fi      fi
1991  fi  fi
1992    for i in $pkg_list ; do
1993        PACKAGES="$PACKAGES $i"
1994    done
1995    echo     "    before group expansion packages are:$PACKAGES"
1996    if test "x${PKG_GROUPS}" != x ; then
1997        RET=1
1998        while test $RET = 1 ; do expand_pkg_groups; RET=$?; done
1999        echo "    after group expansion packages are: $PACKAGES"
2000    fi
2001    
2002  echo "  applying DISABLE settings"  echo "  applying DISABLE settings"
2003    echo "" > ./.tmp_pack
2004  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2005      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
2006  done  done
# Line 1659  PACKAGES="$PACKAGES $ENABLE" Line 2028  PACKAGES="$PACKAGES $ENABLE"
2028  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2029      j=`echo $i | sed 's/[-+]//'`      j=`echo $i | sed 's/[-+]//'`
2030      if test ! -d "$ROOTDIR/pkg/$j" ; then      if test ! -d "$ROOTDIR/pkg/$j" ; then
2031          echo "Error: can't find package $i at \"$ROOTDIR/pkg/$i\""          echo "Error: dir '$ROOTDIR/pkg/$i' missing for package '$i'"
2032          exit 1          exit 1
2033      fi      fi
2034      echo $i >> ./.tmp_pack      echo $i >> ./.tmp_pack
# Line 1669  for i in `grep -v "-" ./.tmp_pack | sort Line 2038  for i in `grep -v "-" ./.tmp_pack | sort
2038      PACKAGES="$PACKAGES $i"      PACKAGES="$PACKAGES $i"
2039  done  done
2040  rm -f ./.tmp_pack  rm -f ./.tmp_pack
2041  echo "    packages are:  $PACKAGES"  echo "    packages are: $PACKAGES"
2042    
2043  #  Check availability of NetCDF and then either build the MNC template  #  Check for package MNC: if NetCDF is available, then build the MNC
2044  #  files or delete mnc from the list of available packages.  #  template files ; otherwise, delete mnc from the list of packages.
2045  echo $PACKAGES | grep ' mnc ' > /dev/null 2>&1  echo " $PACKAGES " | grep ' mnc ' > /dev/null 2>&1
2046  RETVAL=$?  mnc_in=$?
2047  if test "x$RETVAL" = x0 ; then  if test "x$HAVE_NETCDF" != xt ; then
2048      if test "x$HAVE_NETCDF" != xt ; then      if test "x$mnc_in" = x0 ; then
2049          cat <<EOF          cat <<EOF
   
2050  *********************************************************************  *********************************************************************
2051  WARNING: the "mnc" package was enabled but tests failed to compile  WARNING: the "mnc" package was enabled but tests failed to compile
2052    NetCDF applications.  Please check that:    NetCDF applications.  Please check that:
2053    
2054    1) NetCDF is correctly installed for this compiler and    1) NetCDF is correctly installed for this compiler and
2055    2) the LIBS variable (within the "optfile") specifies the correct    2) the LIBS variable (within the "optfile") specifies the correct
2056         NetCDF library to link against.         NetCDF library to link against.
2057    
2058    Due to this failure, the "mnc" package is now DISABLED.    Due to this failure, the "mnc" package is now DISABLED.
2059  *********************************************************************  *********************************************************************
   
2060  EOF  EOF
2061          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`          PACKAGES=`echo $PACKAGES | sed -e 's/mnc//g'`
2062          DISABLE="$DISABLE mnc"          DISABLE="$DISABLE mnc"
2063      else      else
2064          ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1      #  this prevent to add mnc (due to pdepend rules) if not available
2065          RETVAL=$?          DISABLE="$DISABLE mnc"
2066          if test "x${RETVAL}" = x0 ; then      fi
2067              rm -f make_mnc.errors  else
2068        # we have NetCDF, we try to build MNC template files
2069        ( cd $ROOTDIR"/pkg/mnc" && $MAKE testclean && $MAKE templates ) > make_mnc.errors 2>&1
2070        RETVAL=$?
2071        if test "x${RETVAL}" = x0 ; then
2072            rm -f make_mnc.errors
2073        else
2074            echo "Error: problem encountered while building source files in pkg/mnc:"
2075            cat make_mnc.errors 1>&2
2076            if test "x$mnc_in" = x0 ; then
2077                exit 1
2078          else          else
2079              echo "Error: problem encountered while building source files in pkg/mnc:"              DISABLE="$DISABLE mnc"
             cat make_mnc.errors 1>&2  
             exit 1  
2080          fi          fi
2081      fi      fi
2082  fi  fi
2083    
2084  echo "  applying package dependency rules"  #  Check for package PROFILES: if NetCDF is not available,
2085  ck=  #  then delete profiles from the list of available packages.
2086  while test "x$ck" != xtt ; do  if test "x$HAVE_NETCDF" != xt ; then
2087        echo " $PACKAGES " | grep ' profiles ' > /dev/null 2>&1
2088        RETVAL=$?
2089        if test "x$RETVAL" = x0 ; then
2090            cat <<EOF
2091    *********************************************************************
2092    WARNING: the "profiles" package was enabled but tests failed to
2093      compile NetCDF applications.  Please check that:
2094    
2095      1) NetCDF is correctly installed for this compiler and
2096      2) the LIBS variable (within the "optfile") specifies the correct
2097           NetCDF library to link against.
2098    
2099      Due to this failure, the "profiles" package is now DISABLED.
2100    *********************************************************************
2101    EOF
2102            PACKAGES=`echo $PACKAGES | sed -e 's/profiles//g'`
2103            DISABLE="$DISABLE profiles"
2104        else
2105        #  this prevent to add profiles (due to pdepend rules) if not available
2106            DISABLE="$DISABLE profiles"
2107        fi
2108    fi
2109    
2110    if  test "x${PKG_DEPEND}" != x ; then
2111      echo "  applying package dependency rules"
2112      ck=
2113      while test "x$ck" != xtt ; do
2114      i=0      i=0
2115      # rtot=${#PNAME[@]}      # rtot=${#PNAME[@]}
2116      rtot=$nname      rtot=$nname
2117      while test $i -lt $rtot ; do      while test $i -le $rtot ; do
2118    
2119          #  Is $pname in the current $PACKAGES list?          #  Is $pname in the current $PACKAGES list?
2120          #  pname=${PNAME[$i]}          #  pname=${PNAME[$i]}
# Line 1724  while test "x$ck" != xtt ; do Line 2126  while test "x$ck" != xtt ; do
2126                  pin="t"                  pin="t"
2127              fi              fi
2128          done          done
2129            #  or in the current $STANDARDDIRS list?
2130            for p in $STANDARDDIRS ; do
2131                if test "x$p" = "x$pname" ; then pin="t" ; fi
2132            done
2133    
2134          #  Is the DNAME entry a (+) or (-) rule ?          #  Is the DNAME entry a (+) or (-) rule ?
2135          tmp="dname=\"\$DNAME_$i\""          tmp="dname=\"\$DNAME_$i\""
# Line 1746  while test "x$ck" != xtt ; do Line 2152  while test "x$ck" != xtt ; do
2152    
2153          #  Do we need to add $dname according to the dependency rules?          #  Do we need to add $dname according to the dependency rules?
2154          if test "x$pin" = xt -a "x$plus" = "x+" -a "x$din" = xf ; then          if test "x$pin" = xt -a "x$plus" = "x+" -a "x$din" = xf ; then
2155                #echo "   " $pname ": need to add :" $dname
2156              in_dis="f"              in_dis="f"
2157              for dis in $DISABLE ; do              for dis in $DISABLE ; do
2158                  if test "x$dis" = "x$dname" ; then                  if test "x$dis" = "x$dname" ; then
# Line 1766  while test "x$ck" != xtt ; do Line 2173  while test "x$ck" != xtt ; do
2173          #  Do we need to get rid of $dname according to the dependency rules?          #  Do we need to get rid of $dname according to the dependency rules?
2174          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then          if test "x$pin" = xt -a "x$plus" = "x-" -a "x$din" = xt; then
2175              echo "Error: can't satisfy package dependencies:"              echo "Error: can't satisfy package dependencies:"
2176              echo "  \"$pname\" was requested but is disallowed by"              echo "  \"$pname\" was requested but is disallowed by"
2177              echo "  the dependency rules for \"$dname\""              echo "  the dependency rules for \"$dname\""
2178              exit 1              exit 1
2179          fi          fi
# Line 1774  while test "x$ck" != xtt ; do Line 2181  while test "x$ck" != xtt ; do
2181          #i=$(( $i + 1 ))          #i=$(( $i + 1 ))
2182      done      done
2183      ck=$ck"t"      ck=$ck"t"
2184  done    done
2185  echo "    packages are:  $PACKAGES"    echo "    packages are: $PACKAGES"
2186    fi
2187  for i in $PACKAGES ; do  for i in $PACKAGES ; do
2188      adr="$ROOTDIR/pkg/$i"      adr="$ROOTDIR/pkg/$i"
2189      if test -d $adr ; then      if test -d $adr ; then
# Line 1792  done Line 2200  done
2200    
2201  # Create a list of #define and #undef to enable/disable packages  # Create a list of #define and #undef to enable/disable packages
2202  PACKAGES_DOT_H=PACKAGES_CONFIG.h  PACKAGES_DOT_H=PACKAGES_CONFIG.h
2203  #  The following UGLY HACK sets multiple "#undef"s and it needs to go  #  The following UGLY HACK sets multiple "#undef"s and it needs to go
2204  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h  #  away.  On 2003-08-12, CNH, JMC, and EH3 agreed that the CPP_OPTIONS.h
2205  #  file would eventually be split up so that all package-related #define  #  file would eventually be split up so that all package-related #define
2206  #  statements could be separated and handled only by genmake.  #  statements could be separated and handled only by genmake.
2207  names=`ls -1 "$ROOTDIR/pkg"`  names=`ls -1 "$ROOTDIR/pkg"`
# Line 1821  for i in $PACKAGES ; do Line 2229  for i in $PACKAGES ; do
2229  #eh3 DEFINES="$DEFINES -D$def"  #eh3 DEFINES="$DEFINES -D$def"
2230    
2231  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!  #EH3  WARNING :  This is an UGLY HACK that needs to be removed!!!
2232      case $i in      case $i in
2233          aim_v23)          aim_v23)
2234              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"              ENABLED_PACKAGES="$ENABLED_PACKAGES -DALLOW_AIM"
2235              echo "Warning: ALLOW_AIM is set to enable aim_v23."              echo "Warning: ALLOW_AIM is set to enable aim_v23."
# Line 1831  for i in $PACKAGES ; do Line 2239  for i in $PACKAGES ; do
2239    
2240  done  done
2241    
2242  echo "  Adding STANDARDDIRS"  echo "  Adding STANDARDDIRS='$STANDARDDIRS'"
2243  BUILDDIR=${BUILDDIR:-.}  BUILDDIR=${BUILDDIR:-.}
 if test "x$STANDARDDIRS" = xUSE_THE_DEFAULT ; then  
     STANDARDDIRS="eesupp model"  
 fi  
2244  if test "x$STANDARDDIRS" != x ; then  if test "x$STANDARDDIRS" != x ; then
2245      for d in $STANDARDDIRS ; do      for d in $STANDARDDIRS ; do
2246          adr="$ROOTDIR/$d/src"          adr="$ROOTDIR/$d/src"
# Line 1890  fi Line 2295  fi
2295    
2296  #  Here, we build the list of files to be "run through" the adjoint  #  Here, we build the list of files to be "run through" the adjoint
2297  #  compiler.  #  compiler.
2298  if test -f ./ad_files ; then  if test -f ./adSrcFiles.tmp ; then
2299      rm -f ./ad_files      rm -f ./adSrcFiles.tmp
2300  fi  fi
2301  echo "  Creating the list of files for the adjoint compiler."  echo "  Creating the list of files for the adjoint compiler."
2302    touch adSrcFiles.tmp
2303  for i in $SOURCEDIRS ; do  for i in $SOURCEDIRS ; do
2304      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`      list_files=`( cd $i && ls -1 *.list 2>/dev/null )`
2305      for j in $list_files ; do      for j in $list_files ; do
2306          cat $i/$j >> ad_files          cat $i/$j >> adSrcFiles.tmp
2307      done      done
2308  done  done
2309  if test ! "x"$FS = "x.f" ; then  if test ! "x"$FS = "x.f" ; then
2310      cat ad_files | sed -e "s/\.f/.$FS/g" > ad_files_f      cat adSrcFiles.tmp | sed -e "s/\.f/.$FS/g" > adSrcFiles.tmp_f
2311      mv -f ad_files_f ad_files      mv -f adSrcFiles.tmp_f adSrcFiles.tmp
2312  fi  fi
2313    
2314  echo  echo
# Line 1914  for i in $INCLUDEDIRS ; do Line 2320  for i in $INCLUDEDIRS ; do
2320      fi      fi
2321  done  done
2322    
2323    if test ! "x$DIVA" = x ; then
2324        echo "  Creating the pseudo-MPI include directory"
2325        INCLUDES="-I./mpi_headers $INCLUDES"
2326        rm -rf ./mpi_headers
2327        mkdir -p ./mpi_headers
2328    
2329        if test "x$MPIINCLUDEDIR" = x ; then
2330            if test "x$MPIHOME" = x ; then
2331                MPIHOME='/usr'
2332            fi
2333            MPIINCLUDEDIR='$MPIHOME/include'
2334        fi
2335    
2336        if test -r $MPIINCLUDEDIR/mpif.h ; then
2337            for i in $MPI_HEADER_FILES; do
2338                cp -p $MPIINCLUDEDIR/$i ./mpi_headers
2339            done
2340    
2341            perl -i -pe 's/MPI_DISPLACEMENT_CURRENT=-1_8/MPI_DISPLACEMENT_CURRENT=-1/g' mpi_headers/mpif.h
2342        else
2343            echo " We cannot create a copy of mpif.h!"
2344    #       exit -1
2345        fi
2346    fi
2347    
2348  echo "  Determining the list of source and include files"  echo "  Determining the list of source and include files"
2349  rm -rf .links.tmp  rm -rf .links.tmp
2350  mkdir .links.tmp  mkdir .links.tmp
2351    touch .links.tmp/foo
2352    if test ! -r ".links.tmp/foo" ; then
2353        echo
2354        echo "ERROR : something is wrong with your directory permissions or"
2355        echo "   your user file-creation mask (\"umask\") since creating a"
2356        echo "   sub-dir, touch-ing a file within it, and then reading it is"
2357        echo "   not working.  Please try setting your umask to something"
2358        echo "   sane such as:"
2359        echo
2360        echo "      umask 0002"
2361        echo
2362        echo "   and please verify that you have the proper permissions for"
2363        echo "   creating sub-directories and then reading files created"
2364        echo "   within them."
2365        echo
2366        exit 1
2367    fi
2368    rm -f .links.tmp/foo
2369    
2370    if test "x$OPENAD" != x ; then
2371        OAD_DONT_COMPILE="/dev/null"
2372        OAD_DONT_TRANSFORM="/dev/null"
2373        OAD_KEEP_ORIGINAL="/dev/null"
2374        OAD_CB2M_FILES="/dev/null"
2375        echo "  looking for dontCompile file:  "
2376        for i in "." $MODS ; do
2377            if test -r $i"/dontCompile" ; then
2378                OAD_DONT_COMPILE=$i"/dontCompile"
2379                echo "     found $OAD_DONT_COMPILE"
2380                break
2381            fi
2382        done
2383        echo "  looking for dontTransform file:  "
2384        for i in "." $MODS ; do
2385            if test -r $i"/dontTransform" ; then
2386                OAD_DONT_TRANSFORM=$i"/dontTransform"
2387                echo "     found $OAD_DONT_TRANSFORM"
2388                break
2389            fi
2390        done
2391        echo "  looking for keepOriginal file:  "
2392        for i in "." $MODS ; do
2393            if test -r $i"/keepOriginal" ; then
2394                OAD_KEEP_ORIGINAL=$i"/keepOriginal"
2395                echo "     found $OAD_KEEP_ORIGINAL"
2396                break
2397            fi
2398        done
2399        echo "  looking for cb2mFiles:  "
2400        for i in "." $MODS ; do
2401            if test -r $i"/cb2mFiles" ; then
2402                OAD_CB2M_FILES=$i"/cb2mFiles"
2403                echo "     found $OAD_CB2M_FILES"
2404                break
2405            fi
2406        done
2407        echo "   OpenAD exceptions:  "
2408    fi
2409    
2410  echo "# This section creates symbolic links" > srclinks.tmp  echo "# This section creates symbolic links" > srclinks.tmp
2411  echo "" >> srclinks.tmp  echo "" >> srclinks.tmp
2412  printf 'SRCFILES = '    > srclist.inc  printf 'F77_SRC_FILES = ' > F77srclist.tmp
2413  printf 'CSRCFILES = '   > csrclist.inc  printf 'NON_AD_F77_SRC_FILES = ' > nonADF77srclist.tmp
2414  printf 'F90SRCFILES = ' > f90srclist.inc  printf 'C_SRC_FILES = '   > csrclist.tmp
2415  printf 'HEADERFILES = ' > hlist.inc  printf 'F90_SRC_FILES = ' > F90srclist.tmp
2416  printf 'AD_FLOW_FILES = ' > ad_flow_files.inc  printf 'H_SRC_FILES = '   > hsrclist.tmp
2417    printf 'AD_FLOW_FILES = ' > ad_flow_files.tmp
2418  alldirs="$SOURCEDIRS $INCLUDEDIRS ."  alldirs="$SOURCEDIRS $INCLUDEDIRS ."
2419  for d in $alldirs ; do  for d in $alldirs ; do
2420      deplist=      deplist=
2421      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`      sfiles=`( cd $d; echo *.[h,c,F] *.flow )`
2422      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`      sfiles=`( echo $sfiles; cd $d; echo *.F90 )`
2423        if test "x$OPENAD" != x ; then
2424            sfiles=`( echo $sfiles | grep -v _cb2m\. )`
2425        fi
2426      for sf in $sfiles ; do      for sf in $sfiles ; do
2427          if test ! -r ".links.tmp/$sf" ; then          if test ! -r ".links.tmp/$sf" ; then
2428              if test -f "$d/$sf" ; then              if test -f "$d/$sf" ; then
2429                  ignore_f=f                  ignore_f=f
2430                  case $d/$sf in                  case $d/$sf in
2431                    ./$PACKAGES_DOT_H)                    ./$PACKAGES_DOT_H)
2432                            ignore_f=t
2433                          ;;                          ;;
2434                    ./AD_CONFIG.h)                    ./AD_CONFIG.h)
2435                            ignore_f=t
2436                          ;;                          ;;
2437                    ./FC_NAMEMANGLE.h)                    ./FC_NAMEMANGLE.h)
2438                            ignore_f=t
2439                          ;;                          ;;
2440                    ./BUILD_INFO.h)                    ./BUILD_INFO.h)
2441                            ignore_f=t
2442                            ;;
2443                      ./EMBEDDED_FILES.h)
2444                            ignore_f=t
2445                          ;;                          ;;
2446                    *)                    *)
2447                          #  For the local directory *ONLY*,                          #  For the local directory *ONLY*,
# Line 1956  for d in $alldirs ; do Line 2457  for d in $alldirs ; do
2457                  if test "x$ignore_f" = xf ; then                  if test "x$ignore_f" = xf ; then
2458                      extn=`echo $sf | $AWK -F. '{print $NF}'`                      extn=`echo $sf | $AWK -F. '{print $NF}'`
2459                      case $extn in                      case $extn in
2460                          F)                        F)
2461                              echo    " \\"  >> srclist.inc                          echo    " \\"  >> F77srclist.tmp
2462                              printf " $sf" >> srclist.inc                          printf " $sf" >> F77srclist.tmp
2463                              ;;                          if test "x$OPENAD" != x ; then
2464                          F90)                              basename=${sf%%.F}
2465                              echo    " \\"  >> f90srclist.inc                              isAD=`egrep ^$basename.f'[  ]*' adSrcFiles.tmp`
2466                              printf " $sf" >> f90srclist.inc                              if test -z "$isAD" ; then
2467                              ;;                                  toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE}`
2468                          c)                                  if test -z "$toBeIgnored" ; then
2469                              echo    " \\"  >> csrclist.inc                                      echo    " \\"  >> nonADF77srclist.tmp
2470                              printf " $sf" >> csrclist.inc                                      printf " $sf" >> nonADF77srclist.tmp
2471                              ;;                                  else
2472                          h)                                      echo "    not to be compiled   :  $sf"
2473                              echo    " \\"  >> hlist.inc                                  fi
2474                              printf " $sf" >> hlist.inc                              else # file is initially listed as an AD file we want to exclude it
2475                              ;;                                   # or we want to retain the untransformed version
2476                          flow)                                  notToBeTransformed=`egrep ^$basename'[      ]*' ${OAD_DONT_TRANSFORM}`
2477                              echo    " \\"  >> ad_flow_files.inc                                  untransformedVersionToBeKept=`egrep ^$basename'[      ]*' ${OAD_KEEP_ORIGINAL}`
2478                              printf " $sf" >> ad_flow_files.inc                                  if test -n "$notToBeTransformed"; then
2479                              ;;                                      echo "    not to be transformed:  $sf"
2480                      esac                                  fi
2481                  fi                                  if test -n "$untransformedVersionToBeKept" ; then
2482                                        echo "    original to be kept  :  $sf"
2483                                    fi
2484                                    if test -n "$notToBeTransformed" -o -n "$untransformedVersionToBeKept" ; then
2485                                        echo    " \\"  >> nonADF77srclist.tmp
2486                                        printf " $sf" >> nonADF77srclist.tmp
2487                                    fi
2488                                fi
2489                            fi
2490                            ;;
2491                        F90)
2492                            echo    " \\"  >> F90srclist.tmp
2493                            printf " $sf" >> F90srclist.tmp
2494                            ;;
2495                        c)
2496                            echo    " \\"  >> csrclist.tmp
2497                            printf " $sf" >> csrclist.tmp
2498                            ;;
2499                        h)
2500                            echo    " \\"  >> hsrclist.tmp
2501                            printf " $sf" >> hsrclist.tmp
2502                            ;;
2503                        flow)
2504                            echo    " \\"  >> ad_flow_files.tmp
2505                            printf " $sf" >> ad_flow_files.tmp
2506                            ;;
2507                       esac
2508                    fi
2509              fi              fi
2510          fi          fi
2511      done      done
2512      if test "x$deplist" != x ; then      if test "x$deplist" != x ; then
2513          echo "" >> srclinks.tmp        if test "$d" != "." ; then
2514            echo "" >> srclinks.tmp
2515          echo "#  These files are linked from $d" >> srclinks.tmp          echo "#  These files are linked from $d" >> srclinks.tmp
2516          echo "$deplist :" >> srclinks.tmp          echo "$deplist :" >> srclinks.tmp
2517          printf "\t\$(LN) %s/\$@ \$@\n" $d >> srclinks.tmp  # We need to make sure that the link isn't already there.
2518    # This may happen when make thinks that a header file has to be "remade"
2519    # because a module it depends on has changed.  In this case we do nothing.
2520            printf "\tif [ ! -L \$@ ]; then \$(LN) %s/\$@ \$@; fi\n" $d >> srclinks.tmp
2521          fi
2522      fi      fi
2523  done  done
2524  rm -rf .links.tmp  rm -rf .links.tmp
2525  echo "" >> srclist.inc  echo "" >> F77srclist.tmp
2526  echo "" >> csrclist.inc  echo "" >> nonADF77srclist.tmp
2527  echo "" >> f90srclist.inc  echo "" >> csrclist.tmp
2528  echo "" >> hlist.inc  echo "" >> F90srclist.tmp
2529  echo "" >> ad_flow_files.inc  echo "" >> hsrclist.tmp
2530    echo "" >> ad_flow_files.tmp
2531    
2532    CMDLINE=$0
2533    for xx in "$@" ; do nw=`echo $xx | wc -w`
2534        if test $nw = '1' ; then CMDLINE="$CMDLINE $xx"
2535                            else CMDLINE="$CMDLINE '$xx'" ; fi
2536    done
2537    
2538  if test -f $MAKEFILE ; then  if test -f $MAKEFILE ; then
2539      mv -f $MAKEFILE "$MAKEFILE.bak"      mv -f $MAKEFILE "$MAKEFILE.old"
2540  fi  fi
2541  echo "  Writing makefile: $MAKEFILE"  echo "  Writing makefile: $MAKEFILE"
2542  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE  echo "# Multithreaded + multi-processing makefile for:" > $MAKEFILE
# Line 2004  echo "#    $MACHINE" >> $MAKEFILE Line 2544  echo "#    $MACHINE" >> $MAKEFILE
2544  echo "# This makefile was generated automatically on" >> $MAKEFILE  echo "# This makefile was generated automatically on" >> $MAKEFILE
2545  echo "#    $THISDATE" >> $MAKEFILE  echo "#    $THISDATE" >> $MAKEFILE
2546  echo "# by the command:" >> $MAKEFILE  echo "# by the command:" >> $MAKEFILE
2547  echo "#    $0 $G2ARGS" >> $MAKEFILE  echo "#    $CMDLINE"  >> $MAKEFILE
2548  echo "# executed by:" >> $MAKEFILE  echo "# executed by:" >> $MAKEFILE
2549  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE  echo "#    ${THISUSER}@${THISHOST}:${THISCWD}" >> $MAKEFILE
2550    
# Line 2015  EXE_SVD=$EXECUTABLE"_svd" Line 2555  EXE_SVD=$EXECUTABLE"_svd"
2555  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2556  #  #
2557  # OPTFILE="$OPTFILE"  # OPTFILE="$OPTFILE"
2558  #  #
2559  # BUILDDIR     : Directory where object files are written  # BUILDDIR     : Directory where object files are written
2560  # SOURCEDIRS   : Directories containing the source (.F) files  # SOURCEDIRS   : Directories containing the source (.F) files
2561  # INCLUDEDIRS  : Directories containing the header-source (.h) files  # INCLUDEDIRS  : Directories containing the header-source (.h) files
# Line 2035  cat >>$MAKEFILE <<EOF Line 2575  cat >>$MAKEFILE <<EOF
2575  # LIBS         : Library flags /or/ additional optimization/debugging flags  # LIBS         : Library flags /or/ additional optimization/debugging flags
2576    
2577  ROOTDIR     = ${ROOTDIR}  ROOTDIR     = ${ROOTDIR}
2578  BUILDDIR    = ${BUILDDIR}    BUILDDIR    = ${BUILDDIR}
2579  SOURCEDIRS  = ${SOURCEDIRS}  SOURCEDIRS  = ${SOURCEDIRS}
2580  INCLUDEDIRS = ${INCLUDEDIRS}  INCLUDEDIRS = ${INCLUDEDIRS}
2581  EXEDIR      = ${EXEDIR}  EXEDIR      = ${EXEDIR}
# Line 2053  DISABLED_PACKAGES = ${DISABLED_PACKAGES} Line 2593  DISABLED_PACKAGES = ${DISABLED_PACKAGES}
2593    
2594  # These files are created by Makefile  # These files are created by Makefile
2595  SPECIAL_FILES = ${PACKAGES_DOT_H} AD_CONFIG.h FC_NAMEMANGLE.h BUILD_INFO.h  SPECIAL_FILES = ${PACKAGES_DOT_H} AD_CONFIG.h FC_NAMEMANGLE.h BUILD_INFO.h
   
2596  EOF  EOF
2597    
2598  #  Note: figure out some way to add Hyades JAM libraries here  if test "x$EMBED_SRC" = xt ; then
2599        echo "EMBEDDED_FILES = EMBEDDED_FILES.h" >>$MAKEFILE
2600    else
2601        echo "EMBEDDED_FILES = " >>$MAKEFILE
2602    fi
2603    
2604  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2605  # Unix ln (link)  # Unix ln (link)
2606  LN = ${LN}  LN = ${LN}
# Line 2084  INCLUDES = ${INCLUDES} Line 2627  INCLUDES = ${INCLUDES}
2627  KFLAGS1 = ${KFLAGS1}  KFLAGS1 = ${KFLAGS1}
2628  KFLAGS2 = ${KFLAGS2}  KFLAGS2 = ${KFLAGS2}
2629  # Optim./debug for FC  # Optim./debug for FC
2630  FFLAGS = ${FFLAGS}  FFLAGS = ${FFLAGS} ${FEXTRAFLAGS}
2631  FOPTIM = ${FOPTIM}  FOPTIM = ${FOPTIM}
2632  # Optim./debug for FC  # Optim./debug for FC
2633  F90FLAGS = ${F90FLAGS}  F90FLAGS = ${F90FLAGS}
2634  F90OPTIM = ${F90OPTIM}  F90OPTIM = ${F90OPTIM}
2635    F90FIXEDFORMAT = ${F90FIXEDFORMAT}
2636  # Flags for CC  # Flags for CC
2637  CFLAGS = ${CFLAGS}  CFLAGS = ${CFLAGS}
2638  # Files that should not be optimized  # Files that should not be optimized
# Line 2101  MAKEFILE=${MAKEFILE} Line 2645  MAKEFILE=${MAKEFILE}
2645    
2646  EOF  EOF
2647    
2648  cat srclist.inc       >> $MAKEFILE  cat F77srclist.tmp      >> $MAKEFILE
2649  cat csrclist.inc      >> $MAKEFILE  cat nonADF77srclist.tmp >> $MAKEFILE
2650  cat f90srclist.inc    >> $MAKEFILE  cat csrclist.tmp        >> $MAKEFILE
2651  cat hlist.inc         >> $MAKEFILE  cat F90srclist.tmp      >> $MAKEFILE
2652  cat ad_flow_files.inc >> $MAKEFILE  cat hsrclist.tmp        >> $MAKEFILE
2653    cat ad_flow_files.tmp   >> $MAKEFILE
2654    
2655    rm -f F77srclist.tmp nonADF77srclist.tmp csrclist.tmp F90srclist.tmp hsrclist.tmp ad_flow_files.tmp
2656    
2657  echo >> $MAKEFILE  echo >> $MAKEFILE
2658  echo 'F77FILES =  $(SRCFILES:.F=.'$FS')'      >> $MAKEFILE  
2659  echo 'F90FILES =  $(F90SRCFILES:.F90=.'$FS90')' >> $MAKEFILE  # add definitions for preprocessed sources
2660  echo 'OBJFILES =  $(SRCFILES:.F=.o) $(CSRCFILES:.c=.o) $(F90SRCFILES:.F90=.o)' >> $MAKEFILE  # and note that not all systems allow case sensitive extensions
2661    # hence the $FS and $FS90 here.
2662    # for fixed format f90 files we use ff90 or FF90 resp
2663    # but these are not expected to be the original source files
2664    
2665    echo 'F77_PP_SRC_FILES = $(F77_SRC_FILES:.F=.'$FS')'      >> $MAKEFILE
2666    echo 'F90_PP_SRC_FILES = $(F90_SRC_FILES:.F90=.'$FS90')' >> $MAKEFILE
2667    echo 'OBJFILES= $(F77_SRC_FILES:.F=.o) $(C_SRC_FILES:.c=.o) $(F90_SRC_FILES:.F90=.o)' >> $MAKEFILE
2668    echo 'FLOFILES =  $(AD_FLOW_FILES:.flow=.flowdir)' >> $MAKEFILE
2669  echo >> $MAKEFILE  echo >> $MAKEFILE
2670  echo '.SUFFIXES:' >> $MAKEFILE  echo '.SUFFIXES:' >> $MAKEFILE
2671  echo '.SUFFIXES: .o .'$FS' .p .F .c .'$FS90' .F90' >> $MAKEFILE  echo '.SUFFIXES: .o .'$FS' .p .F .c .f'$FS90' .'$FS90' .FF90 .F90 .flowdir .flow' >> $MAKEFILE
 rm -f srclist.inc csrclist.inc hlist.inc flist.tmp clist.tmp f90srclist.inc  
 rm -f ad_flow_files.inc  
2672    
2673  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2674    
2675  all: \$(EXECUTABLE)  all: \$(EXECUTABLE)
2676  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(OBJFILES)  \$(EXECUTABLE): \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(OBJFILES) \$(EMBEDDED_FILES)
2677          @echo Creating \$@ ...          @echo Creating \$@ ...
2678          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)          \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) \$(LIBS)
2679  depend:  depend:
2680          @make links          @make links
2681          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(SRCFILES)          \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
2682          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)          \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
2683          -rm -f makedepend.out          -rm -f makedepend.out
2684    
# Line 2132  lib: libmitgcmuv.a Line 2686  lib: libmitgcmuv.a
2686    
2687  libmitgcmuv.a: \$(OBJFILES)  libmitgcmuv.a: \$(OBJFILES)
2688          ar rcv libmitgcmuv.a \$(OBJFILES)          ar rcv libmitgcmuv.a \$(OBJFILES)
2689            ar d   libmitgcmuv.a main.o
2690    
2691  links: \$(SRCFILES) \$(CSRCFILES) \$(HEADERFILES) \$(F90SRCFILES) \$(SPECIAL_FILES)  links: \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(SPECIAL_FILES)
2692    
2693  small_f: \$(F77FILES) \$(F90FILES)  small_f: \$(F77_PP_SRC_FILES) \$(F90_PP_SRC_FILES)
2694    
2695  output.txt: \$(EXECUTABLE)  output.txt: \$(EXECUTABLE)
2696          @printf 'running ... '          @printf 'running ... '
2697          @\$(EXECUTABLE) > \$@          @\$(EXECUTABLE) > \$@
2698    
2699    # remove most of the files that "make" generates
2700  clean:  clean:
2701          -rm -rf *.o *.$FS *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template          -rm -rf *.p *.$FS90 *.mod ${RMFILES} work.{pc,pcl} *.template
2702            -rm -rf *.o
2703            -rm -rf *.$FS *.flowdir
2704            -rm -rf *.f$FS90 \$(AD_CLEAN) ad_input*
2705    
2706    # remove most of the files that "make" and "make depend" generate
2707  Clean:  Clean:
2708          @make clean          @make clean
2709          @make cleanlinks          @make cleanlinks
2710          -rm -f \$(SPECIAL_FILES)          -rm -f \$(SPECIAL_FILES) f90mkdepend.log $MAKEFILE.old
2711          -rm -f genmake_state genmake_*optfile genmake_warnings make.log run.log *.bak          -rm -f taf_command taf_output taf_ad.log taf_ad_flow.log
2712            -rm -f genmake_warnings genmake_errors make.log
2713    
2714    # remove also the executable, files that "genmake2" generates (except Makefile)
2715    #         and output from a run (plus log files from testreport)
2716  CLEAN:  CLEAN:
2717          @make Clean          @make Clean
2718            -rm -f \$(EXECUTABLE) \$(EXE_AD) *.bak
2719            -rm -f $LOGFILE genmake_state genmake_*optfile
2720            -rm -f SIZE.h.mpi genmake.tr_log make.tr_log
2721          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;          -find \$(EXEDIR) -name "*.meta" -exec rm {} \;
2722          -find \$(EXEDIR) -name "*.data" -exec rm {} \;          -find \$(EXEDIR) -name "*.data" -exec rm {} \;
2723          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;          -find \$(EXEDIR) -name "fort.*" -exec rm {} \;
2724          -rm -f \$(EXECUTABLE) output.txt STD*          -rm -f *.txt STD* *diagnostics.log datetime
2725            -rm -f *_MIT_CE_000.opt0000 costfunction*0000
2726            -rm -rf mnc_test_*
2727    
 #eh3 Makefile: makefile  
2728  makefile:  makefile:
2729          $THIS_SCRIPT $G2ARGS          $THIS_SCRIPT $G2ARGS
2730  cleanlinks:  cleanlinks:
2731          -find . -type l -exec rm {} \;          -find . -type l -exec rm {} \;
2732    
2733  # Special targets (SPECIAL_FILES) which are create by make  # Special targets (SPECIAL_FILES) which are created by make
2734  ${PACKAGES_DOT_H}:  ${PACKAGES_DOT_H}:
2735          @echo Creating \$@ ...          @echo Creating \$@ ...
2736          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -bPACKAGES_CONFIG_H "Disabled packages:" \$(DISABLED_PACKAGES) " " "Enabled packages:" \$(ENABLED_PACKAGES) > \$@
# Line 2181  test ! "x$THISUSER" = x && echo "      -echo Line 2750  test ! "x$THISUSER" = x && echo "      -echo
2750  test ! "x$THISDATE" = x && echo "       -echo \"#define THISDATE '$THISDATE'\" >> \$@" >> $MAKEFILE  test ! "x$THISDATE" = x && echo "       -echo \"#define THISDATE '$THISDATE'\" >> \$@" >> $MAKEFILE
2751  test ! "x$THISHOST" = x && echo "       -echo \"#define THISHOST '$THISHOST'\" >> \$@" >> $MAKEFILE  test ! "x$THISHOST" = x && echo "       -echo \"#define THISHOST '$THISHOST'\" >> \$@" >> $MAKEFILE
2752    
2753    if test "x$EMBED_SRC" = xt ; then
2754        cat >>$MAKEFILE <<EOF
2755    
2756    decode_files.o : EMBEDDED_FILES.h
2757    
2758    ##  \$(F77_PP_SRC_FILES)
2759    all_fF.tar.gz : \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2760            @echo Creating \$@ ...
2761            -tar -hcf all_fF.tar \$(SPECIAL_FILES) \$(F77_SRC_FILES) \$(C_SRC_FILES) \$(H_SRC_FILES) \$(F90_SRC_FILES) \$(F77_PP_SRC_FILES) Makefile
2762            -rm -f all_fF.tar.gz
2763            -gzip all_fF.tar
2764    
2765    EMBEDDED_FILES.h : all_fF.tar.gz
2766            @echo Creating \$@ ...
2767            -\${ROOTDIR}/tools/embed_encode/encode_files EMBEDDED_FILES.h all_fF.tar.gz
2768    
2769    EOF
2770    fi
2771    
2772  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2773    
2774  # The normal chain of rules is (  .F - .$FS - .o  )  # The normal chain of rules is (  .F - .$FS - .o  )
# Line 2192  cat >>$MAKEFILE <<EOF Line 2780  cat >>$MAKEFILE <<EOF
2780          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2781  .$FS.o:  .$FS.o:
2782          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<          \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2783    .F.o:
2784            \$(FC) \$(FFLAGS) \$(FOPTIM) -c \$<
2785  .F90.$FS90:  .F90.$FS90:
2786          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@          \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2787    .FF90.f$FS90:
2788            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2789  .$FS90.o:  .$FS90.o:
2790          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<          \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$<
2791    .f$FS90.o:
2792            cp \$< \$(basename  \$<).f90
2793            \$(F90C) \$(F90FLAGS) \$(F90OPTIM) -c \$(F90FIXEDFORMAT) \$(basename  \$<).f90
2794  .c.o:  .c.o:
2795          \$(CC) \$(CFLAGS) -c \$<          \$(CC) \$(CFLAGS) \$(DEFINES) \$(INCLUDES) -c \$<
2796    .flow.flowdir:
2797            \$(CPP) \$(DEFINES) \$(INCLUDES) > \$@
2798    
2799  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain  # Special exceptions that use the ( .F - .p - .$FS - .o ) rule-chain
2800  .F.p:  .F.p:
# Line 2205  cat >>$MAKEFILE <<EOF Line 2802  cat >>$MAKEFILE <<EOF
2802  .p.$FS:  .p.$FS:
2803          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<          \$(KPP) \$(KFLAGS1)\$@ \$(KFLAGS2) \$<
2804    
2805    EOF
2806    
2807  #=========================================  #=========================================
2808  #===  Automatic Differentiation Rules  ===  #===  Automatic Differentiation Rules  ===
2809    #===  for TAMC/TAF  ======================
2810    
2811    if test "x$OPENAD" = x ; then
2812    
2813    cat >>$MAKEFILE <<EOF
2814    
2815  TAMC           = ${TAMC}  TAMC           = ${TAMC}
2816  TAF            = ${TAF}  TAF            = ${TAF}
# Line 2221  ad_vars="$ad_vars FTL_TAMC_FLAGS FTL_TAF Line 2825  ad_vars="$ad_vars FTL_TAMC_FLAGS FTL_TAF
2825  ad_vars="$ad_vars SVD_TAMC_FLAGS SVD_TAF_FLAGS"  ad_vars="$ad_vars SVD_TAMC_FLAGS SVD_TAF_FLAGS"
2826  for i in $ad_vars ; do  for i in $ad_vars ; do
2827      name=$i      name=$i
2828      t1="t2=\$"`echo $i`      t1="t2=\$"`echo "$i"`
2829      eval $t1      eval $t1
2830      printf "%-20s = " $name >> $MAKEFILE      printf "%-20s = " $name >> $MAKEFILE
2831      echo $t2 >> $MAKEFILE      echo "$t2" | sed -e 's| \+| |g' >> $MAKEFILE
2832  done  done
2833    
2834  echo "  Add the source list for AD code generation"  echo "  Add the source list for AD code generation"
2835  echo >> $MAKEFILE  echo >> $MAKEFILE
2836  printf "AD_FILES = " >> $MAKEFILE  printf "AD_FILES = " >> $MAKEFILE
2837  AD_FILES=`cat ad_files`  AD_FILES=`cat adSrcFiles.tmp`
2838  for i in $AD_FILES ; do  for i in $AD_FILES ; do
2839      echo    " \\" >> $MAKEFILE      echo    " \\" >> $MAKEFILE
2840      printf " $i" >> $MAKEFILE      printf " $i" >> $MAKEFILE
2841  done  done
2842  echo >> $MAKEFILE  echo >> $MAKEFILE
2843  rm -f ad_files  rm -f adSrcFiles.tmp
2844    
2845  cat >>$MAKEFILE <<EOF  cat >>$MAKEFILE <<EOF
2846    
2847  # ... AD ...  # ... AD ...
2848  adall: ad_taf  adall: \$(EXE_AD)
2849  adtaf: ad_taf_output.$FS  adtaf: ad_taf_output.$FS
2850  adtamc: ad_tamc_output.$FS  adtamc: ad_tamc_output.$FS
2851    
2852  ad_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ad_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES) \$(AD_FLOW_FILES)
2853          @$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          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -DALLOW_ADJOINT_RUN -UALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ad_config.template
2854          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h          cmp ad_config.template AD_CONFIG.h || cat ad_config.template > AD_CONFIG.h
2855          -rm -f ad_config.template          -rm -f ad_config.template
2856          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2857          @make \$(AD_FLOW_FILES)          @make \$(FLOFILES)
2858          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ad_input_code.$FS          cat \$(FLOFILES) \$(AD_FILES) | sed -f \$(TOOLSDIR)/remove_comments_sed > ad_input_code.$FS
2859    
2860  ad_taf_output.$FS: ad_input_code.$FS  ad_taf_output.$FS: ad_input_code.$FS
2861          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2862            ls -l ad_input_code_ad.$FS
2863          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
2864    
2865  adtafonly:  adtafonly:
2866          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS          \$(TAF) \$(AD_TAF_FLAGS) \$(TAF_EXTRA) ad_input_code.$FS
2867            ls -l ad_input_code_ad.$FS
2868          cat ad_input_code_ad.$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
2869    
2870  ad_taf: ad_taf_output.o \$(OBJFILES)  \${EXE_AD}: ad_taf_output.o \$(OBJFILES)
2871          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)          \$(LINK) -o \${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_taf_output.o \$(LIBS)
2872    
2873  ad_tamc_output.$FS: ad_input_code.$FS  ad_tamc_output.$FS: ad_input_code.$FS
2874          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS          \$(TAMC) \$(AD_TAMC_FLAGS) \$(TAMC_EXTRA) ad_input_code.$FS
2875          cat ad_input_code_ad.$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
2876    
2877  ad_tamc: ad_tamc_output.o \$(OBJFILES)  ad_tamc: ad_tamc_output.o \$(OBJFILES)
2878          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_AD} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ad_tamc_output.o \$(LIBS)
2879    
2880  adonlyfwd:  adonlyfwd:
2881          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.onlyfwd.diff
2882    
2883  adtrick:  adtrick:
2884          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff          patch < \$(TOOLSDIR)/ad_taf_output.f.adtrick.diff
2885    
# Line 2282  ftlall: ftl_taf Line 2888  ftlall: ftl_taf
2888  ftltaf: ftl_taf_output.$FS  ftltaf: ftl_taf_output.$FS
2889  ftltamc: ftl_tamc_output.$FS  ftltamc: ftl_tamc_output.$FS
2890    
2891  ftl_input_code.$FS: \$(AD_FILES) \$(HEADERFILES)  ftl_input_code.$FS: \$(AD_FILES) \$(H_SRC_FILES)
2892          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template          @$BASH\$(TOOLSDIR)/convert_cpp_cmd2defines "Warning - this file is automatically generated - do NOT edit" -UALLOW_ADJOINT_RUN -DALLOW_TANGENTLINEAR_RUN -UALLOW_ECCO_OPTIMIZATION > ftl_config.template
2893          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2894          -rm -f ftl_config.template          -rm -f ftl_config.template
2895          @make \$(F77FILES)          @make \$(F77_PP_SRC_FILES)
2896          @make \$(AD_FLOW_FILES)          @make \$(AD_FLOW_FILES)
2897          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS          cat \$(AD_FLOW_FILES) \$(AD_FILES) > ftl_input_code.$FS
2898    
2899  ftl_taf_output.$FS: ftl_input_code.$FS  ftl_taf_output.$FS: ftl_input_code.$FS
2900          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2901            ls -l ftl_input_code_ftl.$FS
2902          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
2903    
2904  ftltafonly:  ftltafonly:
2905          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS          \$(TAF) \$(FTL_TAF_FLAGS) \$(TAF_EXTRA) ftl_input_code.$FS
2906            ls -l ftl_input_code_ftl.$FS
2907          cat ftl_input_code_ftl.$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
2908    
2909  ftl_taf: ftl_taf_output.o \$(OBJFILES)  ftl_taf: ftl_taf_output.o \$(OBJFILES)
2910          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_taf_output.o \$(LIBS)
2911    
2912  ftl_tamc_output.$FS: ftl_input_code.$FS  ftl_tamc_output.$FS: ftl_input_code.$FS
2913          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS          \$(TAMC) \$(FTL_TAMC_FLAGS) \$(TAMC_EXTRA) ftl_input_code.$FS
2914          cat ftl_input_code_ftl.$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
2915    
2916  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)  ftl_tamc: ftl_tamc_output.o \$(OBJFILES)
2917          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)          \$(LINK) -o ${EXE_FTL} \$(FFLAGS) \$(FOPTIM) \$(OBJFILES) ftl_tamc_output.o \$(LIBS)
   
2918    
2919  # ... SVD ...  # ... SVD ...
2920  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS  svdtaf: ad_taf_output.$FS ftl_taf_output.$FS
# Line 2333  svd_touch: Line 2940  svd_touch:
2940          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h          cmp ftl_config.template AD_CONFIG.h || cat ftl_config.template > AD_CONFIG.h
2941          -rm -f ftl_config.template          -rm -f ftl_config.template
2942    
2943  #=========================================  EOF
2944    
2945    fi
2946    
2947    #===  for OpenAD  ========================
2948    
2949    if test "x$OPENAD" != x ; then
2950    
2951    # ============ begin OpenAD specific section ==============
2952    
2953    cat >>$MAKEFILE <<EOF
2954    
2955    # all the source files linked from the various locations:
2956    ALL_LINKED_FILES= \
2957    \$(F77_SRC_FILES) \
2958    \$(C_SRC_FILES) \
2959    \$(H_SRC_FILES) \
2960    \$(F90_SRC_FILES) \
2961    \$(SPECIAL_FILES)
2962    
2963    ifndef OPENADROOT
2964      \$(error "Error:  environment variable OPENADROOT not defined!")
2965    endif
2966    
2967    ifndef XAIFSCHEMAROOT
2968      \$(error "Error:  environment variable XAIFSCHEMAROOT not defined!")
2969    endif
2970    
2971    ifndef XAIFBOOSTERROOT
2972      \$(error "Error:  environment variable XAIFBOOSTERROOT not defined!")
2973    endif
2974    
2975    EOF
2976    
2977    echo "  Add the source list for common block to module conversion "
2978    echo >> $MAKEFILE
2979    printf "CB2M_F90_SRC_NAMES = " >> $MAKEFILE
2980    for i in `cat ${OAD_CB2M_FILES}` ; do
2981      echo    " \\" >> $MAKEFILE
2982      printf " $i" >> $MAKEFILE
2983    done
2984    echo >> $MAKEFILE
2985    
2986    echo "  Add the source list for AD code generation"
2987    echo >> $MAKEFILE
2988    printf "AD_FILES = " >> $MAKEFILE
2989    for i in `cat ${OAD_CB2M_FILES}` ; do
2990      echo    " \\" >> $MAKEFILE
2991      printf " ${i}_mod.f$FS90" >> $MAKEFILE
2992    done
2993    AD_FILES=`cat adSrcFiles.tmp`
2994    for i in $AD_FILES ; do
2995      basename=${i%%.f}
2996      toBeIgnored=`egrep ^$basename'[      ]*' ${OAD_DONT_COMPILE} ${OAD_DONT_TRANSFORM}`
2997      if test -z "$toBeIgnored" ; then
2998        echo    " \\" >> $MAKEFILE
2999        printf " $i" >> $MAKEFILE
3000      fi
3001    done
3002    echo >> $MAKEFILE
3003    rm -f adSrcFiles.tmp
3004    
3005    cat >>$MAKEFILE <<EOF
3006    
3007    adAll: \$(EXE_AD)
3008    .PHONY: adAll
3009    
3010    CB2M_F90_PP_SRC_FILES=\$(addsuffix _mod.f$FS90, \$(CB2M_F90_SRC_NAMES))
3011    
3012    .PRECIOUS: \$(CB2M_F90_PP_SRC_FILES) \$(NON_AD_F77_SRC_FILES:.F=_cb2m.f$FS90)
3013    
3014    .PHONY: adDepend
3015    adDepend: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) \$(addsuffix _mod.FF90, \$(CB2M_F90_SRC_NAMES)) \$(F77_SRC_FILES:.F=_cb2m.FF90)
3016            \$(MAKEDEPEND) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
3017            \$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
3018            -rm -f makedepend.out
3019    
3020    OPENAD_SUPPORT_F90_SRC_FILES = \
3021    w2f__types.F90 \
3022    OAD_active.F90 \
3023    OAD_cp.F90 \
3024    OAD_rev.F90 \
3025    OAD_tape.F90
3026    
3027    OPENAD_SUPPORT_C_SRC_FILES = \
3028    iaddr.c \
3029    timeRatio.c
3030    
3031    f95_test_mods.f90: \$(OPENAD_SUPPORT_F90_SRC_FILES:F90=$FS90)
3032            cat \$^ > \$@
3033    
3034    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$FS90
3035            cat \$^ > \$@
3036    
3037    f95_test.out: f95_test_mods.f90 f95_test.f90
3038            f95 -fixed -w=unused -maxcontin=132 -c f95_test_mods.f90 > \$@ 2>&1
3039            f95 -fixed -w=unused -maxcontin=132 -c -fixed f95_test.f90 >> \$@ 2>&1
3040    
3041    # the file included below is created by the
3042    # postProcessor and its inclusion sets the
3043    # variable POSTPROCESSEDFILES
3044    # used below. Because the file is made during
3045    # make it won't be read until the second (recursive)
3046    # invocation in the rule below
3047    -include postProcess.make
3048    
3049    AD_OBJ_FILES_S1=\$(OPENAD_SUPPORT_F90_SRC_FILES:.F90=.o) \$(OPENAD_SUPPORT_C_SRC_FILES:.c=.o) \$(POSTPROCESSEDFILES:.f$FS90=.o)
3050    
3051    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)
3052    
3053    postProcess.comp: \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.tag \$(AD_OBJ_FILES_S1)
3054    ifeq (\$(MAKELEVEL),0)
3055            \$(MAKE) adAll
3056    else
3057            touch \$@
3058    endif
3059    
3060    \$(EXE_AD): \$(ALL_LINKED_FILES) \$(addsuffix _mod.h, \$(CB2M_F90_SRC_NAMES)) postProcess.comp \$(AD_OBJ_FILES_S2)
3061    ifeq (\$(MAKELEVEL),1)
3062            \$(LINK) -o \$@ \$(FFLAGS) \$(FOPTIM) \$(AD_OBJ_FILES_S2) \$(LIBS)
3063    else
3064            touch \$@
3065    endif
3066    
3067    # makefile debug rule
3068    openad: ad_input_code.w2f.pre.xb.x2w.w2f.td.pp.f$FS90
3069    .PHONY: openad
3070    
3071    # create the module files
3072    %_mod.FF90 : %.h ../OAD_support/cb2mGetModules.csh ../OAD_support/cb2mGetModules.awk
3073            ../OAD_support/cb2mGetModules.csh $< ../OAD_support/cb2mGetModules.awk
3074    
3075    # create the header files
3076    %_mod.h : %.h ../OAD_support/cb2mGetHeaders.csh ../OAD_support/cb2mGetHeaders.awk
3077            ../OAD_support/cb2mGetHeaders.csh $< ../OAD_support/cb2mGetHeaders.awk \$(CB2M_F90_SRC_NAMES)
3078    
3079    # change everybody else to use the new module files:
3080    %_cb2m.FF90 : %.F ../OAD_support/cb2mUseModules.bash
3081            ../OAD_support/cb2mUseModules.bash $< ${MPI}
3082    
3083    # makefile debug rule
3084    small_f: \$(CB2M_F90_PP_SRC_FILES)
3085    .PHONY: small_f
3086    
3087    ad_output.txt: \$(EXE_AD)
3088            @printf 'linking data files ... '
3089            \$(LN) -f ../input_ad/data* ../input_ad/eedata .
3090            \$(LN) -f ../../global_ocean.90x40x15/input/*.bin .
3091            @printf 'running ... '
3092            @./\$(EXE_AD) > \$@
3093    
3094    CB2M_AD_FILES=\$(AD_FILES:.f=_cb2m.f$FS90)
3095    ad_input_code.f$FS90:  \$(CB2M_AD_FILES)
3096            cat \$^ > \$@
3097    
3098    # strip all comments and blanks to reduce
3099    # the file size in order to reduce perl's memory requirements
3100    ad_input_code_sf.f$FS90 : ad_input_code.f$FS90
3101            cat \$^ | sed -f ../OAD_support/strip.sed | sed -f ../OAD_support/stop2print.sed > \$@
3102    
3103    # mfef90 preprocessing
3104    # expand statement functions
3105    # expose mfef90 specific substring handling
3106    # add the w2f__types module
3107    ad_input_code_sf.w2f.f$FS90: ad_input_code_sf.f$FS90 mfef90 whirl2f whirl2f_be w2f__types.f90
3108            ./mfef90 -r8 -z -F -N132 \$<
3109            mv \$<.B \$(basename \$<).B
3110            ./whirl2f -openad \$(basename \$<).B
3111            cat w2f__types.f90 \$(basename \$<).w2f.f > \$@
3112    
3113    # canonicalizer
3114    ad_input_code_sf.w2f.pre.f$FS90: ad_input_code_sf.w2f.f$FS90 preProcess.py
3115            ./preProcess.py --timing --r8 -H -S \$< -o \$@
3116    
3117    # F -> WHIRL
3118    # note that the canonicalized version cuts off at col 72
3119    # doing this also for string constants which is ok as long
3120    # as we are in fixed mode and cut of exactly there.
3121    # Otherwise mfef90 patches in spaces to fill up to 72 (or 132)
3122    # characters respectively.
3123    ad_input_code_sf.w2f.pre.B: ad_input_code_sf.w2f.pre.f$FS90 mfef90
3124            ./mfef90 -r8 -z -F \$<
3125            mv \$<.B \$@
3126    
3127    # WHIRL -> XAIF
3128    ad_input_code_sf.w2f.pre.xaif : ad_input_code_sf.w2f.pre.B whirl2xaif
3129            ./whirl2xaif -s -n --debug 1 -o \$@ \$<
3130    
3131    # XAIF -> XAIF'
3132    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
3133            ./oadDriver -f -t forward_step -i \$< -c \${XAIFSCHEMAROOT}/schema/examples/inlinable_intrinsics.xaif -o \$@ -I -r
3134    
3135    # XAIF' -> WHIRL'
3136    ad_input_code_sf.w2f.pre.xb.x2w.B : ad_input_code_sf.w2f.pre.xb.xaif xaif2whirl
3137            ./xaif2whirl --debug 1 ad_input_code_sf.w2f.pre.B \$<
3138    
3139    # WHIRL' -> F'
3140    ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.B whirl2f whirl2f_be
3141            ./whirl2f -FLIST:ftn_file=\$@ -openad \$<
3142    
3143    # insert template directives
3144    ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90: ad_input_code_sf.w2f.pre.xb.x2w.w2f.f$FS90 ../OAD_support/insertTemplateDir.bash
3145            ../OAD_support/insertTemplateDir.bash \$< \$@
3146    
3147    PPEXTRAS=\$(wildcard ../OAD_support/ad_template.*.F) ../OAD_support/ad_inline.F
3148    # postprocess F'
3149    postProcess.tag: ad_input_code_sf.w2f.pre.xb.x2w.w2f.td.f$FS90 postProcess.py \$(PPEXTRAS:.F=.f)
3150            # the target is a placeholder to signal execution of the rule
3151            touch \$@
3152            # this step also creates the file postProcess.make but we cannot
3153            # name it as the target or else make will try to remake it for
3154            # the include directive above for any rule, e.g. make clean
3155            ./postProcess.py --progress --timing --outputFormat=fixed -m r -i ../OAD_support/ad_inline.f --width 4 \$<
3156    
3157    # setup some links
3158    %.xsd:
3159            \$(LN) \${XAIFSCHEMAROOT}/schema/\$@ .
3160    
3161    mfef90:
3162            \$(LN) \${OPEN64ROOT}/crayf90/sgi/mfef90 .
3163    
3164    # link the support files:
3165    \$(OPENAD_SUPPORT_F90_SRC_FILES) \$(OPENAD_SUPPORT_C_SRC_FILES):
3166            \$(LN) ../OAD_support/\$@ .
3167    
3168    whirl2xaif xaif2whirl:
3169            \$(LN) \${OPENADFORTTK}/bin/\$@ .
3170    
3171    preProcess.py postProcess.py:
3172            \$(LN) \${OPENADFORTTK_BASE}/tools/SourceProcessing/\$@ .
3173    
3174    whirl2f whirl2f_be:
3175            \$(LN) \${OPEN64ROOT}/whirl2f/\$@ .
3176    
3177    oadDriver:
3178            \$(LN) \${XAIFBOOSTERROOT}/xaifBooster/algorithms/BasicBlockPreaccumulationReverse/driver/oadDriver \$@
3179    
3180    AD_CLEAN += *_mod.h *_mod.F90 *.FF90 *.mod-whirl temp.sed oad_cp.* postProcess.make postProcess.tag postProcess.comp \$(PPEXTRAS:.F=.f)
3181    
3182    # ============ end OpenAD specific section ==============
3183    
3184  EOF  EOF
3185    
3186    fi
3187    
3188    #=========================================
3189    
3190  if test "x$EXEHOOK" != x ; then  if test "x$EXEHOOK" != x ; then
3191      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE      printf "\nexehook:\n\t%s\n" $EXEHOOK >> $MAKEFILE
3192  fi  fi
# Line 2372  printf "\n\n# DO NOT DELETE\n" >> $MAKEF Line 3222  printf "\n\n# DO NOT DELETE\n" >> $MAKEF
3222  printf "\n===  Done  ===\n"  printf "\n===  Done  ===\n"
3223    
3224  # Create special header files  # Create special header files
3225  $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"
3226  if test ! -f $PACKAGES_DOT_H ; then  if test ! -f $PACKAGES_DOT_H ; then
3227      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H      mv -f $PACKAGES_DOT_H".tmp" $PACKAGES_DOT_H
3228  else  else
# Line 2389  if test ! -f AD_CONFIG.h ; then Line 3239  if test ! -f AD_CONFIG.h ; then
3239      $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
3240  fi  fi
3241    
   
3242  #  Write the "state" for future records  #  Write the "state" for future records
3243  if test "x$DUMPSTATE" != xf ; then  if test "x$DUMPSTATE" = xt ; then
3244      printf "" > genmake_state      printf "" > genmake_state
3245      for i in $gm_state ; do      for i in $gm_state ; do
3246          t1="t2=\$$i"          t1="t2=\$$i"

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