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$(srcdir)/Makefile.am $(srcdir)/Makefile.in TODO \
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parameters_flexer.cc
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ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
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am__aclocal_m4_deps = $(top_srcdir)/config/m4/ax_boost_base.m4 \
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$(top_srcdir)/config/m4/ax_boost_filesystem.m4 \
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$(top_srcdir)/config/m4/ax_boost_iostreams.m4 \
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$(top_srcdir)/config/m4/ax_boost_regex.m4 \
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$(top_srcdir)/config/m4/ax_boost_system.m4 \
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$(top_srcdir)/config/m4/ax_boost_thread.m4 \
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$(top_srcdir)/config/m4/ax_check_zlib.m4 \
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$(top_srcdir)/config/m4/ax_cxx_have_std.m4 \
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$(top_srcdir)/config/m4/ax_cxx_have_stl.m4 \
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$(top_srcdir)/config/m4/ax_cxx_namespaces.m4 \
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$(top_srcdir)/config/m4/ax_lib_expat.m4 \
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$(top_srcdir)/config/m4/libtool.m4 \
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$(top_srcdir)/config/m4/ltoptions.m4 \
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$(top_srcdir)/config/m4/ltsugar.m4 \
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$(top_srcdir)/config/m4/ltversion.m4 \
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$(top_srcdir)/config/m4/lt~obsolete.m4 \
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am__aclocal_m4_deps = $(top_srcdir)/m4/ax_boost_base.m4 \
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$(top_srcdir)/m4/ax_boost_filesystem.m4 \
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$(top_srcdir)/m4/ax_boost_iostreams.m4 \
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$(top_srcdir)/m4/ax_boost_regex.m4 \
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$(top_srcdir)/m4/ax_boost_system.m4 \
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$(top_srcdir)/m4/ax_boost_thread.m4 \
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$(top_srcdir)/m4/ax_check_zlib.m4 \
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$(top_srcdir)/m4/ax_cxx_have_std.m4 \
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$(top_srcdir)/m4/ax_cxx_have_stl.m4 \
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$(top_srcdir)/m4/ax_cxx_namespaces.m4 \
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$(top_srcdir)/m4/ax_lib_expat.m4 $(top_srcdir)/m4/libtool.m4 \
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$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
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$(top_srcdir)/m4/ltversion.m4 $(top_srcdir)/m4/lt~obsolete.m4 \
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$(top_srcdir)/configure.ac
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am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
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64
libmira_a_AR = $(AR) $(ARFLAGS)
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am_libmira_a_OBJECTS = $(am__objects_1) preventinitfiasco.$(OBJEXT) \
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sam_collect.$(OBJEXT) read.$(OBJEXT) parameters.$(OBJEXT) \
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pcrcontainer.$(OBJEXT) ads.$(OBJEXT) adsfacts.$(OBJEXT) \
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align.$(OBJEXT) assembly_output.$(OBJEXT) \
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assembly_info.$(OBJEXT) contig_analysis.$(OBJEXT) \
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contig_consensus.$(OBJEXT) contig_covanalysis.$(OBJEXT) \
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contig_edit.$(OBJEXT) contig_featureinfo.$(OBJEXT) \
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contig_pairconsistency.$(OBJEXT) contig_output.$(OBJEXT) \
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am_libmira_a_OBJECTS = $(am__objects_1) assembly.$(OBJEXT) \
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contig.$(OBJEXT) read.$(OBJEXT) contig_analysis.$(OBJEXT) \
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ads.$(OBJEXT) skim.$(OBJEXT) adsfacts.$(OBJEXT) \
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align.$(OBJEXT) assembly_info.$(OBJEXT) assembly_io.$(OBJEXT) \
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assembly_misc.$(OBJEXT) assembly_output.$(OBJEXT) \
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assembly_reduceskimhits.$(OBJEXT) assembly_swalign.$(OBJEXT) \
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bloomfilter.$(OBJEXT) contig_consensus.$(OBJEXT) \
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contig_covanalysis.$(OBJEXT) contig_edit.$(OBJEXT) \
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contig_featureinfo.$(OBJEXT) contig_output.$(OBJEXT) \
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contig_pairconsistency.$(OBJEXT) dataprocessing.$(OBJEXT) \
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77
dynamic.$(OBJEXT) gbf_parse.$(OBJEXT) gff_parse.$(OBJEXT) \
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gff_save.$(OBJEXT) parameters_flexer.$(OBJEXT) \
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maf_parse.$(OBJEXT) multitag.$(OBJEXT) readgrouplib.$(OBJEXT) \
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contig.$(OBJEXT) readpool.$(OBJEXT) assembly.$(OBJEXT) \
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bloomfilter.$(OBJEXT) ppathfinder.$(OBJEXT) skim.$(OBJEXT) \
83
hashstats.$(OBJEXT) assembly_io.$(OBJEXT) \
84
assembly_reduceskimhits.$(OBJEXT) assembly_swalign.$(OBJEXT) \
85
assembly_misc.$(OBJEXT) dataprocessing.$(OBJEXT) \
86
manifest.$(OBJEXT) scaffolder.$(OBJEXT) seqtohash.$(OBJEXT) \
87
skim_farc.$(OBJEXT) skim_lowbph.$(OBJEXT)
78
gff_save.$(OBJEXT) hashstats.$(OBJEXT) maf_parse.$(OBJEXT) \
79
manifest.$(OBJEXT) multitag.$(OBJEXT) \
80
parameters_flexer.$(OBJEXT) parameters.$(OBJEXT) \
81
pcrcontainer.$(OBJEXT) ppathfinder.$(OBJEXT) \
82
preventinitfiasco.$(OBJEXT) readgrouplib.$(OBJEXT) \
83
readpool.$(OBJEXT) sam_collect.$(OBJEXT) scaffolder.$(OBJEXT) \
84
seqtohash.$(OBJEXT) skim_farc.$(OBJEXT) skim_lowbph.$(OBJEXT) \
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nodist_libmira_a_OBJECTS = $(am__objects_1)
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libmira_a_OBJECTS = $(am_libmira_a_OBJECTS) \
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$(nodist_libmira_a_OBJECTS)
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nodist_libmira_a_SOURCES = $(libmira_a_XXDSRC:.xxd=.xxd.H)
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dist_pkgdata_DATA = demoparam.prm
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# put read and contig in front: with make -j .... they'll get made first
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# put assembly, read, contig, etc. in front: with make -j .... they'll get made first
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# and won't block the rest.
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libmira_a_SOURCES = \
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$(libmira_a_XXDSRC) \
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assembly_output.C\
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assembly_reduceskimhits.C\
321
325
contig_consensus.C\
322
326
contig_covanalysis.C\
324
328
contig_featureinfo.C\
325
330
contig_pairconsistency.C\
331
parameters_flexer.ll\
340
parameters_flexer.ll\
343
assembly_reduceskimhits.C\
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354
noinst_HEADERS = adsfacts.H\
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@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/skim.Po@am__quote@
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@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/skim_farc.Po@am__quote@
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@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/skim_lowbph.Po@am__quote@
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@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/warnings.Po@am__quote@
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@am__fastdepCXX_TRUE@ $(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<