--- /dev/null
+# This Makefile is for the Pairwise extension to perl.
+#
+# It was generated automatically by MakeMaker version
+# 6.03 (Revision: 1.63) from the contents of
+# Makefile.PL. Don't edit this file, edit Makefile.PL instead.
+#
+# ANY CHANGES MADE HERE WILL BE LOST!
+#
+# MakeMaker ARGV: ()
+#
+# MakeMaker Parameters:
+
+# ABSTRACT_FROM => q[Pairwise.pm]
+# AUTHOR => q[Jonathan Barber <jon@compbio.dundee.ac.uk>]
+# DEFINE => q[]
+# INC => q[-I.]
+# LIBS => [q[]]
+# NAME => q[Pairwise]
+# PREREQ_PM => { }
+# VERSION_FROM => q[Pairwise.pm]
+
+# --- MakeMaker post_initialize section:
+
+
+# --- MakeMaker const_config section:
+
+# These definitions are from config.sh (via /usr/lib/perl/5.8.0/Config.pm)
+
+# They may have been overridden via Makefile.PL or on the command line
+AR = ar
+CC = cc
+CCCDLFLAGS = -fPIC
+CCDLFLAGS = -rdynamic
+DLEXT = so
+DLSRC = dl_dlopen.xs
+LD = cc
+LDDLFLAGS = -shared -L/usr/local/lib
+LDFLAGS = -L/usr/local/lib
+LIBC = /lib/libc-2.3.1.so
+LIB_EXT = .a
+OBJ_EXT = .o
+OSNAME = linux
+OSVERS = 2.4.19
+RANLIB = :
+SO = so
+EXE_EXT =
+FULL_AR = /usr/bin/ar
+
+
+# --- MakeMaker constants section:
+AR_STATIC_ARGS = cr
+NAME = Pairwise
+DISTNAME = Pairwise
+NAME_SYM = Pairwise
+VERSION = 0.01
+VERSION_SYM = 0_01
+XS_VERSION = 0.01
+INST_ARCHLIB = blib/arch
+INST_SCRIPT = blib/script
+INST_BIN = blib/bin
+INST_LIB = blib/lib
+INSTALLDIRS = site
+PREFIX = /usr
+SITEPREFIX = $(PREFIX)/local
+VENDORPREFIX = $(PREFIX)
+INSTALLPRIVLIB = $(PREFIX)/share/perl/5.8.0
+INSTALLSITELIB = $(SITEPREFIX)/share/perl/5.8.0
+INSTALLVENDORLIB = $(VENDORPREFIX)/share/perl5
+INSTALLARCHLIB = $(PREFIX)/lib/perl/5.8.0
+INSTALLSITEARCH = $(SITEPREFIX)/lib/perl/5.8.0
+INSTALLVENDORARCH = $(VENDORPREFIX)/lib/perl5
+INSTALLBIN = $(PREFIX)/bin
+INSTALLSITEBIN = $(SITEPREFIX)/bin
+INSTALLVENDORBIN = $(VENDORPREFIX)/bin
+INSTALLSCRIPT = $(PREFIX)/bin
+PERL_LIB = /usr/share/perl/5.8.0
+PERL_ARCHLIB = /usr/lib/perl/5.8.0
+SITELIBEXP = /usr/local/share/perl/5.8.0
+SITEARCHEXP = /usr/local/lib/perl/5.8.0
+LIBPERL_A = libperl.a
+FIRST_MAKEFILE = Makefile
+MAKE_APERL_FILE = Makefile.aperl
+PERLMAINCC = $(CC)
+PERL_INC = /usr/lib/perl/5.8.0/CORE
+PERL = /usr/bin/perl
+FULLPERL = /usr/bin/perl
+PERLRUN = $(PERL)
+FULLPERLRUN = $(FULLPERL)
+PERLRUNINST = $(PERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
+FULLPERLRUNINST = $(FULLPERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
+ABSPERL = $(PERL)
+ABSPERLRUN = $(ABSPERL)
+ABSPERLRUNINST = $(ABSPERLRUN) "-I$(INST_ARCHLIB)" "-I$(INST_LIB)"
+FULL_AR = /usr/bin/ar
+PERL_CORE = 0
+NOOP = $(SHELL) -c true
+NOECHO = @
+
+VERSION_MACRO = VERSION
+DEFINE_VERSION = -D$(VERSION_MACRO)=\"$(VERSION)\"
+XS_VERSION_MACRO = XS_VERSION
+XS_DEFINE_VERSION = -D$(XS_VERSION_MACRO)=\"$(XS_VERSION)\"
+PERL_MALLOC_DEF = -DPERL_EXTMALLOC_DEF -Dmalloc=Perl_malloc -Dfree=Perl_mfree -Drealloc=Perl_realloc -Dcalloc=Perl_calloc
+
+MAKEMAKER = /usr/share/perl/5.8.0/ExtUtils/MakeMaker.pm
+MM_VERSION = 6.03
+
+# FULLEXT = Pathname for extension directory (eg Foo/Bar/Oracle).
+# BASEEXT = Basename part of FULLEXT. May be just equal FULLEXT. (eg Oracle)
+# PARENT_NAME = NAME without BASEEXT and no trailing :: (eg Foo::Bar)
+# DLBASE = Basename part of dynamic library. May be just equal BASEEXT.
+FULLEXT = Pairwise
+BASEEXT = Pairwise
+PARENT_NAME =
+DLBASE = $(BASEEXT)
+VERSION_FROM = Pairwise.pm
+INC = -I.
+DEFINE =
+OBJECT = $(BASEEXT)$(OBJ_EXT)
+LDFROM = $(OBJECT)
+LINKTYPE = dynamic
+
+# Handy lists of source code files:
+XS_FILES= Pairwise.xs
+C_FILES = Pairwise.c
+O_FILES = Pairwise.o
+H_FILES = ppport.h
+MAN1PODS =
+MAN3PODS = Pairwise.pm
+INST_MAN1DIR = blib/man1
+MAN1EXT = 1p
+INSTALLMAN1DIR = $(PREFIX)/share/man/man1
+INSTALLSITEMAN1DIR = $(SITEPREFIX)/man/man1
+INSTALLVENDORMAN1DIR = $(VENDORPREFIX)/share/man/man1
+INST_MAN3DIR = blib/man3
+MAN3EXT = 3pm
+INSTALLMAN3DIR = $(PREFIX)/share/man/man3
+INSTALLSITEMAN3DIR = $(SITEPREFIX)/man/man3
+INSTALLVENDORMAN3DIR = $(VENDORPREFIX)/share/man/man3
+PERM_RW = 644
+PERM_RWX = 755
+
+# work around a famous dec-osf make(1) feature(?):
+makemakerdflt: all
+
+.SUFFIXES: .xs .c .C .cpp .i .s .cxx .cc $(OBJ_EXT)
+
+# Nick wanted to get rid of .PRECIOUS. I don't remember why. I seem to recall, that
+# some make implementations will delete the Makefile when we rebuild it. Because
+# we call false(1) when we rebuild it. So make(1) is not completely wrong when it
+# does so. Our milage may vary.
+# .PRECIOUS: Makefile # seems to be not necessary anymore
+
+.PHONY: all config static dynamic test linkext manifest
+
+# Where is the Config information that we are using/depend on
+CONFIGDEP = $(PERL_ARCHLIB)/Config.pm $(PERL_INC)/config.h
+
+# Where to put things:
+INST_LIBDIR = $(INST_LIB)
+INST_ARCHLIBDIR = $(INST_ARCHLIB)
+
+INST_AUTODIR = $(INST_LIB)/auto/$(FULLEXT)
+INST_ARCHAUTODIR = $(INST_ARCHLIB)/auto/$(FULLEXT)
+
+INST_STATIC = $(INST_ARCHAUTODIR)/$(BASEEXT)$(LIB_EXT)
+INST_DYNAMIC = $(INST_ARCHAUTODIR)/$(DLBASE).$(DLEXT)
+INST_BOOT = $(INST_ARCHAUTODIR)/$(BASEEXT).bs
+
+EXPORT_LIST =
+
+PERL_ARCHIVE =
+
+PERL_ARCHIVE_AFTER =
+
+TO_INST_PM = Pairwise.pm \
+ foo.pl
+
+PM_TO_BLIB = foo.pl \
+ blib/lib/foo.pl \
+ Pairwise.pm \
+ blib/lib/Pairwise.pm
+
+
+# --- MakeMaker tool_autosplit section:
+# Usage: $(AUTOSPLITFILE) FileToSplit AutoDirToSplitInto
+AUTOSPLITFILE = $(PERLRUN) -e 'use AutoSplit; autosplit($$ARGV[0], $$ARGV[1], 0, 1, 1) ;'
+
+
+
+# --- MakeMaker tool_xsubpp section:
+
+XSUBPPDIR = /usr/share/perl/5.8.0/ExtUtils
+XSUBPP = $(XSUBPPDIR)/xsubpp
+XSPROTOARG =
+XSUBPPDEPS = $(XSUBPPDIR)/typemap typemap $(XSUBPP)
+XSUBPPARGS = -typemap $(XSUBPPDIR)/typemap -typemap typemap
+XSUBPP_EXTRA_ARGS =
+
+
+# --- MakeMaker tools_other section:
+
+SHELL = /bin/sh
+CHMOD = chmod
+CP = cp
+LD = cc
+MV = mv
+NOOP = $(SHELL) -c true
+RM_F = rm -f
+RM_RF = rm -rf
+TEST_F = test -f
+TOUCH = touch
+UMASK_NULL = umask 0
+DEV_NULL = > /dev/null 2>&1
+
+# The following is a portable way to say mkdir -p
+# To see which directories are created, change the if 0 to if 1
+MKPATH = $(PERLRUN) "-MExtUtils::Command" -e mkpath
+
+# This helps us to minimize the effect of the .exists files A yet
+# better solution would be to have a stable file in the perl
+# distribution with a timestamp of zero. But this solution doesn't
+# need any changes to the core distribution and works with older perls
+EQUALIZE_TIMESTAMP = $(PERLRUN) "-MExtUtils::Command" -e eqtime
+
+# Here we warn users that an old packlist file was found somewhere,
+# and that they should call some uninstall routine
+WARN_IF_OLD_PACKLIST = $(PERL) -we 'exit unless -f $$ARGV[0];' \
+-e 'print "WARNING: I have found an old package in\n";' \
+-e 'print "\t$$ARGV[0].\n";' \
+-e 'print "Please make sure the two installations are not conflicting\n";'
+
+UNINST=0
+VERBINST=0
+
+MOD_INSTALL = $(PERL) "-I$(INST_LIB)" "-I$(PERL_LIB)" "-MExtUtils::Install" \
+-e "install({@ARGV},'$(VERBINST)',0,'$(UNINST)');"
+
+DOC_INSTALL = $(PERL) -e '$$\="\n\n";' \
+-e 'print "=head2 ", scalar(localtime), ": C<", shift, ">", " L<", $$arg=shift, "|", $$arg, ">";' \
+-e 'print "=over 4";' \
+-e 'while (defined($$key = shift) and defined($$val = shift)){print "=item *";print "C<$$key: $$val>";}' \
+-e 'print "=back";'
+
+UNINSTALL = $(PERLRUN) "-MExtUtils::Install" \
+-e 'uninstall($$ARGV[0],1,1); print "\nUninstall is deprecated. Please check the";' \
+-e 'print " packlist above carefully.\n There may be errors. Remove the";' \
+-e 'print " appropriate files manually.\n Sorry for the inconveniences.\n"'
+
+
+# --- MakeMaker dist section:
+ZIPFLAGS = -r
+TO_UNIX = @$(NOOP)
+TAR = tar
+POSTOP = @$(NOOP)
+ZIP = zip
+DIST_DEFAULT = tardist
+CI = ci -u
+SHAR = shar
+COMPRESS = gzip --best
+DIST_CP = best
+PREOP = @$(NOOP)
+TARFLAGS = cvf
+DISTVNAME = $(DISTNAME)-$(VERSION)
+SUFFIX = .gz
+RCS_LABEL = rcs -Nv$(VERSION_SYM): -q
+
+
+# --- MakeMaker macro section:
+
+
+# --- MakeMaker depend section:
+
+
+# --- MakeMaker cflags section:
+
+CCFLAGS = -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fno-strict-aliasing -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64
+OPTIMIZE = -O3
+PERLTYPE =
+MPOLLUTE =
+
+
+# --- MakeMaker const_loadlibs section:
+
+# Pairwise might depend on some other libraries:
+# See ExtUtils::Liblist for details
+#
+LD_RUN_PATH =
+
+
+# --- MakeMaker const_cccmd section:
+CCCMD = $(CC) -c $(PASTHRU_INC) $(INC) \
+ $(CCFLAGS) $(OPTIMIZE) \
+ $(PERLTYPE) $(MPOLLUTE) $(DEFINE_VERSION) \
+ $(XS_DEFINE_VERSION)
+
+# --- MakeMaker post_constants section:
+
+
+# --- MakeMaker pasthru section:
+
+PASTHRU = LIB="$(LIB)"\
+ LIBPERL_A="$(LIBPERL_A)"\
+ LINKTYPE="$(LINKTYPE)"\
+ PREFIX="$(PREFIX)"\
+ OPTIMIZE="$(OPTIMIZE)"\
+ PASTHRU_DEFINE="$(PASTHRU_DEFINE)"\
+ PASTHRU_INC="$(PASTHRU_INC)"
+
+
+# --- MakeMaker c_o section:
+
+.c.i:
+ cc -E -c $(PASTHRU_INC) $(INC) \
+ $(CCFLAGS) $(OPTIMIZE) \
+ $(PERLTYPE) $(MPOLLUTE) $(DEFINE_VERSION) \
+ $(XS_DEFINE_VERSION) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c > $*.i
+
+.c.s:
+ $(CCCMD) -S $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c
+
+.c$(OBJ_EXT):
+ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c
+
+.C$(OBJ_EXT):
+ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.C
+
+.cpp$(OBJ_EXT):
+ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.cpp
+
+.cxx$(OBJ_EXT):
+ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.cxx
+
+.cc$(OBJ_EXT):
+ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.cc
+
+
+# --- MakeMaker xs_c section:
+
+.xs.c:
+ $(PERLRUN) $(XSUBPP) $(XSPROTOARG) $(XSUBPPARGS) $(XSUBPP_EXTRA_ARGS) $*.xs > $*.xsc && $(MV) $*.xsc $*.c
+
+
+# --- MakeMaker xs_o section:
+
+.xs$(OBJ_EXT):
+ $(PERLRUN) $(XSUBPP) $(XSPROTOARG) $(XSUBPPARGS) $*.xs > $*.xsc && $(MV) $*.xsc $*.c
+ $(CCCMD) $(CCCDLFLAGS) "-I$(PERL_INC)" $(PASTHRU_DEFINE) $(DEFINE) $*.c
+
+
+# --- MakeMaker top_targets section:
+
+all :: pure_all manifypods
+ @$(NOOP)
+
+pure_all :: config pm_to_blib subdirs linkext
+ @$(NOOP)
+
+subdirs :: $(MYEXTLIB)
+ @$(NOOP)
+
+config :: Makefile $(INST_LIBDIR)/.exists
+ @$(NOOP)
+
+config :: $(INST_ARCHAUTODIR)/.exists
+ @$(NOOP)
+
+config :: $(INST_AUTODIR)/.exists
+ @$(NOOP)
+
+$(INST_AUTODIR)/.exists :: /usr/lib/perl/5.8.0/CORE/perl.h
+ @$(MKPATH) $(INST_AUTODIR)
+ @$(EQUALIZE_TIMESTAMP) /usr/lib/perl/5.8.0/CORE/perl.h $(INST_AUTODIR)/.exists
+
+ -@$(CHMOD) $(PERM_RWX) $(INST_AUTODIR)
+
+$(INST_LIBDIR)/.exists :: /usr/lib/perl/5.8.0/CORE/perl.h
+ @$(MKPATH) $(INST_LIBDIR)
+ @$(EQUALIZE_TIMESTAMP) /usr/lib/perl/5.8.0/CORE/perl.h $(INST_LIBDIR)/.exists
+
+ -@$(CHMOD) $(PERM_RWX) $(INST_LIBDIR)
+
+$(INST_ARCHAUTODIR)/.exists :: /usr/lib/perl/5.8.0/CORE/perl.h
+ @$(MKPATH) $(INST_ARCHAUTODIR)
+ @$(EQUALIZE_TIMESTAMP) /usr/lib/perl/5.8.0/CORE/perl.h $(INST_ARCHAUTODIR)/.exists
+
+ -@$(CHMOD) $(PERM_RWX) $(INST_ARCHAUTODIR)
+
+config :: $(INST_MAN3DIR)/.exists
+ @$(NOOP)
+
+
+$(INST_MAN3DIR)/.exists :: /usr/lib/perl/5.8.0/CORE/perl.h
+ @$(MKPATH) $(INST_MAN3DIR)
+ @$(EQUALIZE_TIMESTAMP) /usr/lib/perl/5.8.0/CORE/perl.h $(INST_MAN3DIR)/.exists
+
+ -@$(CHMOD) $(PERM_RWX) $(INST_MAN3DIR)
+
+$(O_FILES): $(H_FILES)
+
+help:
+ perldoc ExtUtils::MakeMaker
+
+
+# --- MakeMaker linkext section:
+
+linkext :: $(LINKTYPE)
+ @$(NOOP)
+
+
+# --- MakeMaker dlsyms section:
+
+
+# --- MakeMaker dynamic section:
+
+## $(INST_PM) has been moved to the all: target.
+## It remains here for awhile to allow for old usage: "make dynamic"
+#dynamic :: Makefile $(INST_DYNAMIC) $(INST_BOOT) $(INST_PM)
+dynamic :: Makefile $(INST_DYNAMIC) $(INST_BOOT)
+ @$(NOOP)
+
+
+# --- MakeMaker dynamic_bs section:
+
+BOOTSTRAP = Pairwise.bs
+
+# As Mkbootstrap might not write a file (if none is required)
+# we use touch to prevent make continually trying to remake it.
+# The DynaLoader only reads a non-empty file.
+$(BOOTSTRAP): Makefile $(INST_ARCHAUTODIR)/.exists
+ @echo "Running Mkbootstrap for $(NAME) ($(BSLOADLIBS))"
+ @$(PERLRUN) \
+ "-MExtUtils::Mkbootstrap" \
+ -e "Mkbootstrap('$(BASEEXT)','$(BSLOADLIBS)');"
+ @$(TOUCH) $(BOOTSTRAP)
+ $(CHMOD) $(PERM_RW) $@
+
+$(INST_BOOT): $(BOOTSTRAP) $(INST_ARCHAUTODIR)/.exists
+ @rm -rf $(INST_BOOT)
+ -cp $(BOOTSTRAP) $(INST_BOOT)
+ $(CHMOD) $(PERM_RW) $@
+
+
+# --- MakeMaker dynamic_lib section:
+
+# This section creates the dynamically loadable $(INST_DYNAMIC)
+# from $(OBJECT) and possibly $(MYEXTLIB).
+ARMAYBE = :
+OTHERLDFLAGS =
+INST_DYNAMIC_DEP =
+
+$(INST_DYNAMIC): $(OBJECT) $(MYEXTLIB) $(BOOTSTRAP) $(INST_ARCHAUTODIR)/.exists $(EXPORT_LIST) $(PERL_ARCHIVE) $(PERL_ARCHIVE_AFTER) $(INST_DYNAMIC_DEP)
+ $(RM_F) $@
+ LD_RUN_PATH="$(LD_RUN_PATH)" $(LD) $(LDDLFLAGS) $(LDFROM) $(OTHERLDFLAGS) -o $@ $(MYEXTLIB) $(PERL_ARCHIVE) $(LDLOADLIBS) $(PERL_ARCHIVE_AFTER) $(EXPORT_LIST)
+ $(CHMOD) $(PERM_RWX) $@
+
+
+# --- MakeMaker static section:
+
+## $(INST_PM) has been moved to the all: target.
+## It remains here for awhile to allow for old usage: "make static"
+#static :: Makefile $(INST_STATIC) $(INST_PM)
+static :: Makefile $(INST_STATIC)
+ @$(NOOP)
+
+
+# --- MakeMaker static_lib section:
+
+$(INST_STATIC): $(OBJECT) $(MYEXTLIB) $(INST_ARCHAUTODIR)/.exists
+ $(RM_RF) $@
+ $(FULL_AR) $(AR_STATIC_ARGS) $@ $(OBJECT) && $(RANLIB) $@
+ $(CHMOD) $(PERM_RWX) $@
+ @echo "$(EXTRALIBS)" > $(INST_ARCHAUTODIR)/extralibs.ld
+
+
+
+# --- MakeMaker manifypods section:
+POD2MAN_EXE = /usr/bin/pod2man
+POD2MAN = $(PERL) -we '%m=@ARGV;for (keys %m){' \
+-e 'next if -e $$m{$$_} && -M $$m{$$_} < -M $$_ && -M $$m{$$_} < -M "Makefile";' \
+-e 'print "Manifying $$m{$$_}\n";' \
+-e 'system(q[$(PERLRUN) $(POD2MAN_EXE) ].qq[$$_>$$m{$$_}])==0 or warn "Couldn\047t install $$m{$$_}\n";' \
+-e 'chmod(oct($(PERM_RW)), $$m{$$_}) or warn "chmod $(PERM_RW) $$m{$$_}: $$!\n";}'
+
+manifypods : pure_all Pairwise.pm
+ @$(POD2MAN) \
+ Pairwise.pm \
+ $(INST_MAN3DIR)/Pairwise.$(MAN3EXT)
+
+# --- MakeMaker processPL section:
+
+
+# --- MakeMaker installbin section:
+
+
+# --- MakeMaker subdirs section:
+
+# none
+
+# --- MakeMaker clean section:
+
+# Delete temporary files but do not touch installed files. We don't delete
+# the Makefile here so a later make realclean still has a makefile to use.
+
+clean ::
+ -rm -rf Pairwise.c ./blib $(MAKE_APERL_FILE) $(INST_ARCHAUTODIR)/extralibs.all perlmain.c tmon.out mon.out so_locations pm_to_blib *$(OBJ_EXT) *$(LIB_EXT) perl.exe perl perl$(EXE_EXT) $(BOOTSTRAP) $(BASEEXT).bso $(BASEEXT).def lib$(BASEEXT).def $(BASEEXT).exp $(BASEEXT).x core core.*perl.*.? *perl.core
+ -mv Makefile Makefile.old $(DEV_NULL)
+
+
+# --- MakeMaker realclean section:
+
+# Delete temporary files (via clean) and also delete installed files
+realclean purge :: clean
+ rm -rf $(INST_AUTODIR) $(INST_ARCHAUTODIR)
+ rm -rf $(DISTVNAME)
+ rm -f $(INST_DYNAMIC) $(INST_BOOT)
+ rm -f $(INST_STATIC)
+ rm -f blib/lib/foo.pl blib/lib/Pairwise.pm
+ rm -rf Makefile Makefile.old
+
+
+# --- MakeMaker dist_basics section:
+distclean :: realclean distcheck
+ $(NOECHO) $(NOOP)
+
+distcheck :
+ $(PERLRUN) "-MExtUtils::Manifest=fullcheck" -e fullcheck
+
+skipcheck :
+ $(PERLRUN) "-MExtUtils::Manifest=skipcheck" -e skipcheck
+
+manifest :
+ $(PERLRUN) "-MExtUtils::Manifest=mkmanifest" -e mkmanifest
+
+veryclean : realclean
+ $(RM_F) *~ *.orig */*~ */*.orig
+
+
+
+# --- MakeMaker dist_core section:
+
+dist : $(DIST_DEFAULT)
+ @$(PERL) -le 'print "Warning: Makefile possibly out of date with $$vf" if ' \
+ -e '-e ($$vf="$(VERSION_FROM)") and -M $$vf < -M "Makefile";'
+
+tardist : $(DISTVNAME).tar$(SUFFIX)
+
+zipdist : $(DISTVNAME).zip
+
+$(DISTVNAME).tar$(SUFFIX) : distdir
+ $(PREOP)
+ $(TO_UNIX)
+ $(TAR) $(TARFLAGS) $(DISTVNAME).tar $(DISTVNAME)
+ $(RM_RF) $(DISTVNAME)
+ $(COMPRESS) $(DISTVNAME).tar
+ $(POSTOP)
+
+$(DISTVNAME).zip : distdir
+ $(PREOP)
+ $(ZIP) $(ZIPFLAGS) $(DISTVNAME).zip $(DISTVNAME)
+ $(RM_RF) $(DISTVNAME)
+ $(POSTOP)
+
+uutardist : $(DISTVNAME).tar$(SUFFIX)
+ uuencode $(DISTVNAME).tar$(SUFFIX) \
+ $(DISTVNAME).tar$(SUFFIX) > \
+ $(DISTVNAME).tar$(SUFFIX)_uu
+
+shdist : distdir
+ $(PREOP)
+ $(SHAR) $(DISTVNAME) > $(DISTVNAME).shar
+ $(RM_RF) $(DISTVNAME)
+ $(POSTOP)
+
+
+# --- MakeMaker dist_dir section:
+distdir :
+ $(RM_RF) $(DISTVNAME)
+ $(PERLRUN) "-MExtUtils::Manifest=manicopy,maniread" \
+ -e "manicopy(maniread(),'$(DISTVNAME)', '$(DIST_CP)');"
+
+
+
+# --- MakeMaker dist_test section:
+
+disttest : distdir
+ cd $(DISTVNAME) && $(ABSPERLRUN) Makefile.PL
+ cd $(DISTVNAME) && $(MAKE) $(PASTHRU)
+ cd $(DISTVNAME) && $(MAKE) test $(PASTHRU)
+
+
+# --- MakeMaker dist_ci section:
+
+ci :
+ $(PERLRUN) "-MExtUtils::Manifest=maniread" \
+ -e "@all = keys %{ maniread() };" \
+ -e 'print("Executing $(CI) @all\n"); system("$(CI) @all");' \
+ -e 'print("Executing $(RCS_LABEL) ...\n"); system("$(RCS_LABEL) @all");'
+
+
+# --- MakeMaker install section:
+
+install :: all pure_install doc_install
+
+install_perl :: all pure_perl_install doc_perl_install
+
+install_site :: all pure_site_install doc_site_install
+
+install_vendor :: all pure_vendor_install doc_vendor_install
+
+pure_install :: pure_$(INSTALLDIRS)_install
+
+doc_install :: doc_$(INSTALLDIRS)_install
+
+pure__install : pure_site_install
+ @echo INSTALLDIRS not defined, defaulting to INSTALLDIRS=site
+
+doc__install : doc_site_install
+ @echo INSTALLDIRS not defined, defaulting to INSTALLDIRS=site
+
+pure_perl_install ::
+ @umask 022; $(MOD_INSTALL) \
+ read $(PERL_ARCHLIB)/auto/$(FULLEXT)/.packlist \
+ write $(INSTALLARCHLIB)/auto/$(FULLEXT)/.packlist \
+ $(INST_LIB) $(INSTALLPRIVLIB) \
+ $(INST_ARCHLIB) $(INSTALLARCHLIB) \
+ $(INST_BIN) $(INSTALLBIN) \
+ $(INST_SCRIPT) $(INSTALLSCRIPT) \
+ $(INST_MAN1DIR) $(INSTALLMAN1DIR) \
+ $(INST_MAN3DIR) $(INSTALLMAN3DIR)
+ @$(WARN_IF_OLD_PACKLIST) \
+ $(SITEARCHEXP)/auto/$(FULLEXT)
+
+
+pure_site_install ::
+ @umask 02; $(MOD_INSTALL) \
+ read $(SITEARCHEXP)/auto/$(FULLEXT)/.packlist \
+ write $(INSTALLSITEARCH)/auto/$(FULLEXT)/.packlist \
+ $(INST_LIB) $(INSTALLSITELIB) \
+ $(INST_ARCHLIB) $(INSTALLSITEARCH) \
+ $(INST_BIN) $(INSTALLSITEBIN) \
+ $(INST_SCRIPT) $(INSTALLSCRIPT) \
+ $(INST_MAN1DIR) $(INSTALLSITEMAN1DIR) \
+ $(INST_MAN3DIR) $(INSTALLSITEMAN3DIR)
+ @$(WARN_IF_OLD_PACKLIST) \
+ $(PERL_ARCHLIB)/auto/$(FULLEXT)
+
+pure_vendor_install ::
+ @umask 022; $(MOD_INSTALL) \
+ $(INST_LIB) $(INSTALLVENDORLIB) \
+ $(INST_ARCHLIB) $(INSTALLVENDORARCH) \
+ $(INST_BIN) $(INSTALLVENDORBIN) \
+ $(INST_SCRIPT) $(INSTALLSCRIPT) \
+ $(INST_MAN1DIR) $(INSTALLVENDORMAN1DIR) \
+ $(INST_MAN3DIR) $(INSTALLVENDORMAN3DIR)
+
+doc_perl_install ::
+ @echo Appending installation info to $(INSTALLARCHLIB)/perllocal.pod
+ -@umask 022; $(MKPATH) $(INSTALLARCHLIB)
+ -@umask 022; $(DOC_INSTALL) \
+ "Module" "$(NAME)" \
+ "installed into" "$(INSTALLPRIVLIB)" \
+ LINKTYPE "$(LINKTYPE)" \
+ VERSION "$(VERSION)" \
+ EXE_FILES "$(EXE_FILES)" \
+ >> $(INSTALLARCHLIB)/perllocal.pod
+
+doc_site_install ::
+ @echo Appending installation info to $(INSTALLSITEARCH)/perllocal.pod
+ -@umask 02; $(MKPATH) $(INSTALLSITEARCH)
+ -@umask 02; $(DOC_INSTALL) \
+ "Module" "$(NAME)" \
+ "installed into" "$(INSTALLSITELIB)" \
+ LINKTYPE "$(LINKTYPE)" \
+ VERSION "$(VERSION)" \
+ EXE_FILES "$(EXE_FILES)" \
+ >> $(INSTALLSITEARCH)/perllocal.pod
+
+doc_vendor_install ::
+
+
+uninstall :: uninstall_from_$(INSTALLDIRS)dirs
+
+uninstall_from_perldirs ::
+ @$(UNINSTALL) $(PERL_ARCHLIB)/auto/$(FULLEXT)/.packlist
+
+uninstall_from_sitedirs ::
+ @$(UNINSTALL) $(SITEARCHEXP)/auto/$(FULLEXT)/.packlist
+
+
+# --- MakeMaker force section:
+# Phony target to force checking subdirectories.
+FORCE:
+ @$(NOOP)
+
+
+# --- MakeMaker perldepend section:
+
+PERL_HDRS = \
+ $(PERL_INC)/EXTERN.h \
+ $(PERL_INC)/INTERN.h \
+ $(PERL_INC)/XSUB.h \
+ $(PERL_INC)/av.h \
+ $(PERL_INC)/cc_runtime.h \
+ $(PERL_INC)/config.h \
+ $(PERL_INC)/cop.h \
+ $(PERL_INC)/cv.h \
+ $(PERL_INC)/dosish.h \
+ $(PERL_INC)/embed.h \
+ $(PERL_INC)/embedvar.h \
+ $(PERL_INC)/fakethr.h \
+ $(PERL_INC)/form.h \
+ $(PERL_INC)/gv.h \
+ $(PERL_INC)/handy.h \
+ $(PERL_INC)/hv.h \
+ $(PERL_INC)/intrpvar.h \
+ $(PERL_INC)/iperlsys.h \
+ $(PERL_INC)/keywords.h \
+ $(PERL_INC)/mg.h \
+ $(PERL_INC)/nostdio.h \
+ $(PERL_INC)/op.h \
+ $(PERL_INC)/opcode.h \
+ $(PERL_INC)/opnames.h \
+ $(PERL_INC)/patchlevel.h \
+ $(PERL_INC)/perl.h \
+ $(PERL_INC)/perlapi.h \
+ $(PERL_INC)/perlio.h \
+ $(PERL_INC)/perlsdio.h \
+ $(PERL_INC)/perlsfio.h \
+ $(PERL_INC)/perlvars.h \
+ $(PERL_INC)/perly.h \
+ $(PERL_INC)/pp.h \
+ $(PERL_INC)/pp_proto.h \
+ $(PERL_INC)/proto.h \
+ $(PERL_INC)/regcomp.h \
+ $(PERL_INC)/regexp.h \
+ $(PERL_INC)/regnodes.h \
+ $(PERL_INC)/scope.h \
+ $(PERL_INC)/sv.h \
+ $(PERL_INC)/thrdvar.h \
+ $(PERL_INC)/thread.h \
+ $(PERL_INC)/unixish.h \
+ $(PERL_INC)/utf8.h \
+ $(PERL_INC)/util.h \
+ $(PERL_INC)/warnings.h
+
+$(OBJECT) : $(PERL_HDRS)
+
+Pairwise.c : $(XSUBPPDEPS)
+
+
+# --- MakeMaker makefile section:
+
+$(OBJECT) : $(FIRST_MAKEFILE)
+
+# We take a very conservative approach here, but it\'s worth it.
+# We move Makefile to Makefile.old here to avoid gnu make looping.
+Makefile : Makefile.PL $(CONFIGDEP)
+ @echo "Makefile out-of-date with respect to $?"
+ @echo "Cleaning current config before rebuilding Makefile..."
+ -@$(RM_F) Makefile.old
+ -@$(MV) Makefile Makefile.old
+ -$(MAKE) -f Makefile.old clean $(DEV_NULL) || $(NOOP)
+ $(PERLRUN) Makefile.PL
+ @echo "==> Your Makefile has been rebuilt. <=="
+ @echo "==> Please rerun the make command. <=="
+ false
+
+
+
+# --- MakeMaker staticmake section:
+
+# --- MakeMaker makeaperl section ---
+MAP_TARGET = perl
+FULLPERL = /usr/bin/perl
+
+$(MAP_TARGET) :: static $(MAKE_APERL_FILE)
+ $(MAKE) -f $(MAKE_APERL_FILE) $@
+
+$(MAKE_APERL_FILE) : $(FIRST_MAKEFILE)
+ @echo Writing \"$(MAKE_APERL_FILE)\" for this $(MAP_TARGET)
+ @$(PERLRUNINST) \
+ Makefile.PL DIR= \
+ MAKEFILE=$(MAKE_APERL_FILE) LINKTYPE=static \
+ MAKEAPERL=1 NORECURS=1 CCCDLFLAGS=
+
+
+# --- MakeMaker test section:
+
+TEST_VERBOSE=0
+TEST_TYPE=test_$(LINKTYPE)
+TEST_FILE = test.pl
+TEST_FILES = t/*.t
+TESTDB_SW = -d
+
+testdb :: testdb_$(LINKTYPE)
+
+test :: $(TEST_TYPE)
+
+test_dynamic :: pure_all
+ PERL_DL_NONLAZY=1 $(FULLPERLRUN) "-MExtUtils::Command::MM" "-e" "test_harness($(TEST_VERBOSE), '$(INST_LIB)', '$(INST_ARCHLIB)')" $(TEST_FILES)
+
+testdb_dynamic :: pure_all
+ PERL_DL_NONLAZY=1 $(FULLPERLRUN) $(TESTDB_SW) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
+
+test_ : test_dynamic
+
+test_static :: pure_all $(MAP_TARGET)
+ PERL_DL_NONLAZY=1 ./$(MAP_TARGET) "-MExtUtils::Command::MM" "-e" "test_harness($(TEST_VERBOSE), '$(INST_LIB)', '$(INST_ARCHLIB)')" $(TEST_FILES)
+
+testdb_static :: pure_all $(MAP_TARGET)
+ PERL_DL_NONLAZY=1 ./$(MAP_TARGET) $(TESTDB_SW) "-I$(INST_LIB)" "-I$(INST_ARCHLIB)" $(TEST_FILE)
+
+
+
+# --- MakeMaker ppd section:
+# Creates a PPD (Perl Package Description) for a binary distribution.
+ppd:
+ @$(PERL) -e "print qq{<SOFTPKG NAME=\"$(DISTNAME)\" VERSION=\"0,01,0,0\">\n\t<TITLE>$(DISTNAME)</TITLE>\n\t<ABSTRACT>Perl extension for doing pairwise comparisons of sequences</ABSTRACT>\n\t<AUTHOR>Jonathan Barber <jon\@compbio.dundee.ac.uk></AUTHOR>\n}" > $(DISTNAME).ppd
+ @$(PERL) -e "print qq{\t<IMPLEMENTATION>\n}" >> $(DISTNAME).ppd
+ @$(PERL) -e "print qq{\t\t<OS NAME=\"$(OSNAME)\" />\n\t\t<ARCHITECTURE NAME=\"i386-linux-thread-multi\" />\n\t\t<CODEBASE HREF=\"\" />\n\t</IMPLEMENTATION>\n</SOFTPKG>\n}" >> $(DISTNAME).ppd
+
+# --- MakeMaker pm_to_blib section:
+
+pm_to_blib: $(TO_INST_PM)
+ @$(PERLRUNINST) "-MExtUtils::Install" \
+ -e "pm_to_blib({qw{foo.pl blib/lib/foo.pl Pairwise.pm blib/lib/Pairwise.pm}},'$(INST_LIB)/auto','$(PM_FILTER)')"
+ @$(TOUCH) $@
+
+# --- MakeMaker selfdocument section:
+
+
+# --- MakeMaker postamble section:
+
+
+# End.
git://source.jalview.org / jpred.git / blobdiff