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# 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 \