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    my $build = shift;
    my @copy  = qw(muscle_dist_type);
    @{$build->runtime_prop}{@copy} = @{$build->meta_prop}{@copy};
  };
};

sub _pick_dist_type {
  return 'binary' if $ENV{ALIEN_MUSCLE_FORCE_BINARY};
  return 'binary' unless ExtUtils::CBuilder->new->have_cplusplus;
  return 'binary' if _win;
  return 'source';
}

sub _write_makefile {
  my $build  = shift;
  my $class  = __PACKAGE__;
  my $handle = do { no strict 'refs'; \*{"${class}::DATA"} };
  return {} unless fileno $handle;
  seek $handle, 0, 0;
  my $data = join '', <$handle>;
  $data =~ s/^.*\n__DATA__\r?\n/\n/s;
  my $prefix = $build->install_prop->{prefix};
  my $cxx = $build->meta_prop->{muscle_compiler};
  log("PREFIX = $prefix");
  log("CXX = $cxx");
  log("Writing src/Makefile");
  Path::Tiny->new('src/Makefile')
      ->spew_utf8("PREFIX = $prefix\nCXX = $cxx\n$data");
}

__DATA__
# PREFIX and CXX should be added above
CXXFLAGS=
LDFLAGS=

# do not want gatest.cpp
# objects = $(patsubst %.cpp,%.o,$(wildcard *.cpp))
objects = aligngivenpath.o aligngivenpathsw.o aligntwomsas.o aligntwoprofs.o \
  aln.o alpha.o anchors.o bittraceback.o blosum62.o blosumla.o clust.o cluster.o \
  clwwt.o color.o cons.o diaglist.o diffobjscore.o diffpaths.o difftrees.o \
  difftreese.o distcalc.o distfunc.o distpwkimura.o domuscle.o dosp.o dpreglist.o \
  drawtree.o edgelist.o enumopts.o enumtostr.o estring.o fasta.o fasta2.o \
  fastclust.o fastdist.o fastdistjones.o fastdistkbit.o fastdistkmer.o \
  fastdistmafft.o fastdistnuc.o fastscorepath2.o finddiags.o finddiagsn.o \
  glbalign.o glbalign352.o glbaligndiag.o glbalignle.o glbalignsimple.o \
  glbalignsp.o glbalignspn.o glbalignss.o glbalndimer.o globals.o globalslinux.o \
  globalsosx.o globalsother.o globalswin32.o gonnet.o henikoffweight.o \
  henikoffweightpb.o html.o hydro.o intmath.o local.o main.o makerootmsa.o \
  makerootmsab.o maketree.o mhack.o mpam200.o msa.o msa2.o msadistkimura.o msf.o \
  muscle.o muscleout.o nucmx.o nwdasimple.o nwdasimple2.o nwdasmall.o nwrec.o \
  nwsmall.o objscore.o objscore2.o objscoreda.o onexception.o options.o \
  outweights.o pam200mafft.o params.o phy.o phy2.o phy3.o phy4.o phyfromclust.o \
  phyfromfile.o physeq.o phytofile.o posgap.o ppscore.o profdb.o profile.o \
  profilefrommsa.o progalign.o progress.o progressivealign.o pwpath.o readmx.o \
  realigndiffs.o realigndiffse.o refine.o refinehoriz.o refinesubfams.o \
  refinetree.o refinetreee.o refinevert.o refinew.o savebest.o scoredist.o \
  scoregaps.o scorehistory.o scorepp.o seq.o seqvect.o setblosumweights.o \
  setgscweights.o setnewhandler.o spfast.o sptest.o stabilize.o subfam.o \
  subfams.o sw.o termgaps.o textfile.o threewaywt.o tomhydro.o traceback.o \
  tracebackopt.o tracebacksw.o treefrommsa.o typetostr.o upgma2.o usage.o \
  validateids.o vtml2.o writescorefile.o

.SUFFIXES: .cpp .o

.cpp.o:
	@echo Compiling $<
	@$(CXX) $(CXXFLAGS) -c -O3 -msse2 -mfpmath=sse -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -o $@ $<

muscle: $(objects)
	@echo Linking $@
	@$(CXX) $(LDFLAGS) -g -o $@ $(objects)

all: muscle

.PHONY: clean install

install: muscle
	@echo Installing $(DESTDIR)
	@install -d $(DESTDIR)$(PREFIX)/bin
	@install -s muscle $(DESTDIR)$(PREFIX)/bin

clean:
	rm -f *.o *~