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	-test -z "$(bin_PROGRAMS)" || rm -f $(bin_PROGRAMS)

clean-noinstPROGRAMS:
	-test -z "$(noinst_PROGRAMS)" || rm -f $(noinst_PROGRAMS)

fa2fq$(EXEEXT): $(fa2fq_OBJECTS) $(fa2fq_DEPENDENCIES) $(EXTRA_fa2fq_DEPENDENCIES) 
	@rm -f fa2fq$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(fa2fq_OBJECTS) $(fa2fq_LDADD) $(LIBS)

filter_blat$(EXEEXT): $(filter_blat_OBJECTS) $(filter_blat_DEPENDENCIES) $(EXTRA_filter_blat_DEPENDENCIES) 
	@rm -f filter_blat$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(filter_blat_OBJECTS) $(filter_blat_LDADD) $(LIBS)

filter_contigs$(EXEEXT): $(filter_contigs_OBJECTS) $(filter_contigs_DEPENDENCIES) $(EXTRA_filter_contigs_DEPENDENCIES) 
	@rm -f filter_contigs$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(filter_contigs_OBJECTS) $(filter_contigs_LDADD) $(LIBS)

filterfa$(EXEEXT): $(filterfa_OBJECTS) $(filterfa_DEPENDENCIES) $(EXTRA_filterfa_DEPENDENCIES) 
	@rm -f filterfa$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(filterfa_OBJECTS) $(filterfa_LDADD) $(LIBS)

fq2fa$(EXEEXT): $(fq2fa_OBJECTS) $(fq2fa_DEPENDENCIES) $(EXTRA_fq2fa_DEPENDENCIES) 
	@rm -f fq2fa$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(fq2fa_OBJECTS) $(fq2fa_LDADD) $(LIBS)

idba$(EXEEXT): $(idba_OBJECTS) $(idba_DEPENDENCIES) $(EXTRA_idba_DEPENDENCIES) 
	@rm -f idba$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(idba_OBJECTS) $(idba_LDADD) $(LIBS)

idba_hybrid$(EXEEXT): $(idba_hybrid_OBJECTS) $(idba_hybrid_DEPENDENCIES) $(EXTRA_idba_hybrid_DEPENDENCIES) 
	@rm -f idba_hybrid$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(idba_hybrid_OBJECTS) $(idba_hybrid_LDADD) $(LIBS)

idba_tran$(EXEEXT): $(idba_tran_OBJECTS) $(idba_tran_DEPENDENCIES) $(EXTRA_idba_tran_DEPENDENCIES) 
	@rm -f idba_tran$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(idba_tran_OBJECTS) $(idba_tran_LDADD) $(LIBS)

idba_tran_test$(EXEEXT): $(idba_tran_test_OBJECTS) $(idba_tran_test_DEPENDENCIES) $(EXTRA_idba_tran_test_DEPENDENCIES) 
	@rm -f idba_tran_test$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(idba_tran_test_OBJECTS) $(idba_tran_test_LDADD) $(LIBS)

idba_ud$(EXEEXT): $(idba_ud_OBJECTS) $(idba_ud_DEPENDENCIES) $(EXTRA_idba_ud_DEPENDENCIES) 
	@rm -f idba_ud$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(idba_ud_OBJECTS) $(idba_ud_LDADD) $(LIBS)

parallel_blat$(EXEEXT): $(parallel_blat_OBJECTS) $(parallel_blat_DEPENDENCIES) $(EXTRA_parallel_blat_DEPENDENCIES) 
	@rm -f parallel_blat$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(parallel_blat_OBJECTS) $(parallel_blat_LDADD) $(LIBS)

parallel_rna_blat$(EXEEXT): $(parallel_rna_blat_OBJECTS) $(parallel_rna_blat_DEPENDENCIES) $(EXTRA_parallel_rna_blat_DEPENDENCIES) 
	@rm -f parallel_rna_blat$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(parallel_rna_blat_OBJECTS) $(parallel_rna_blat_LDADD) $(LIBS)

print_graph$(EXEEXT): $(print_graph_OBJECTS) $(print_graph_DEPENDENCIES) $(EXTRA_print_graph_DEPENDENCIES) 
	@rm -f print_graph$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(print_graph_OBJECTS) $(print_graph_LDADD) $(LIBS)

raw_n50$(EXEEXT): $(raw_n50_OBJECTS) $(raw_n50_DEPENDENCIES) $(EXTRA_raw_n50_DEPENDENCIES) 
	@rm -f raw_n50$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(raw_n50_OBJECTS) $(raw_n50_LDADD) $(LIBS)

sample_reads$(EXEEXT): $(sample_reads_OBJECTS) $(sample_reads_DEPENDENCIES) $(EXTRA_sample_reads_DEPENDENCIES) 
	@rm -f sample_reads$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(sample_reads_OBJECTS) $(sample_reads_LDADD) $(LIBS)

scaffold$(EXEEXT): $(scaffold_OBJECTS) $(scaffold_DEPENDENCIES) $(EXTRA_scaffold_DEPENDENCIES) 
	@rm -f scaffold$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(scaffold_OBJECTS) $(scaffold_LDADD) $(LIBS)

shuffle_reads$(EXEEXT): $(shuffle_reads_OBJECTS) $(shuffle_reads_DEPENDENCIES) $(EXTRA_shuffle_reads_DEPENDENCIES) 
	@rm -f shuffle_reads$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(shuffle_reads_OBJECTS) $(shuffle_reads_LDADD) $(LIBS)

sim_reads$(EXEEXT): $(sim_reads_OBJECTS) $(sim_reads_DEPENDENCIES) $(EXTRA_sim_reads_DEPENDENCIES) 
	@rm -f sim_reads$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(sim_reads_OBJECTS) $(sim_reads_LDADD) $(LIBS)

sim_reads_tran$(EXEEXT): $(sim_reads_tran_OBJECTS) $(sim_reads_tran_DEPENDENCIES) $(EXTRA_sim_reads_tran_DEPENDENCIES) 
	@rm -f sim_reads_tran$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(sim_reads_tran_OBJECTS) $(sim_reads_tran_LDADD) $(LIBS)

sort_psl$(EXEEXT): $(sort_psl_OBJECTS) $(sort_psl_DEPENDENCIES) $(EXTRA_sort_psl_DEPENDENCIES) 
	@rm -f sort_psl$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(sort_psl_OBJECTS) $(sort_psl_LDADD) $(LIBS)

sort_reads$(EXEEXT): $(sort_reads_OBJECTS) $(sort_reads_DEPENDENCIES) $(EXTRA_sort_reads_DEPENDENCIES) 
	@rm -f sort_reads$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(sort_reads_OBJECTS) $(sort_reads_LDADD) $(LIBS)

split_fa$(EXEEXT): $(split_fa_OBJECTS) $(split_fa_DEPENDENCIES) $(EXTRA_split_fa_DEPENDENCIES) 
	@rm -f split_fa$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(split_fa_OBJECTS) $(split_fa_LDADD) $(LIBS)

split_fq$(EXEEXT): $(split_fq_OBJECTS) $(split_fq_DEPENDENCIES) $(EXTRA_split_fq_DEPENDENCIES) 
	@rm -f split_fq$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(split_fq_OBJECTS) $(split_fq_LDADD) $(LIBS)

split_scaffold$(EXEEXT): $(split_scaffold_OBJECTS) $(split_scaffold_DEPENDENCIES) $(EXTRA_split_scaffold_DEPENDENCIES) 
	@rm -f split_scaffold$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(split_scaffold_OBJECTS) $(split_scaffold_LDADD) $(LIBS)

test$(EXEEXT): $(test_OBJECTS) $(test_DEPENDENCIES) $(EXTRA_test_DEPENDENCIES) 
	@rm -f test$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(test_OBJECTS) $(test_LDADD) $(LIBS)

validate_component$(EXEEXT): $(validate_component_OBJECTS) $(validate_component_DEPENDENCIES) $(EXTRA_validate_component_DEPENDENCIES) 
	@rm -f validate_component$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(validate_component_OBJECTS) $(validate_component_LDADD) $(LIBS)

validate_contigs_blat$(EXEEXT): $(validate_contigs_blat_OBJECTS) $(validate_contigs_blat_DEPENDENCIES) $(EXTRA_validate_contigs_blat_DEPENDENCIES) 
	@rm -f validate_contigs_blat$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(validate_contigs_blat_OBJECTS) $(validate_contigs_blat_LDADD) $(LIBS)

validate_contigs_mummer$(EXEEXT): $(validate_contigs_mummer_OBJECTS) $(validate_contigs_mummer_DEPENDENCIES) $(EXTRA_validate_contigs_mummer_DEPENDENCIES) 
	@rm -f validate_contigs_mummer$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(validate_contigs_mummer_OBJECTS) $(validate_contigs_mummer_LDADD) $(LIBS)

validate_reads_blat$(EXEEXT): $(validate_reads_blat_OBJECTS) $(validate_reads_blat_DEPENDENCIES) $(EXTRA_validate_reads_blat_DEPENDENCIES) 
	@rm -f validate_reads_blat$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(validate_reads_blat_OBJECTS) $(validate_reads_blat_LDADD) $(LIBS)

validate_rna$(EXEEXT): $(validate_rna_OBJECTS) $(validate_rna_DEPENDENCIES) $(EXTRA_validate_rna_DEPENDENCIES) 
	@rm -f validate_rna$(EXEEXT)
	$(AM_V_CXXLD)$(CXXLINK) $(validate_rna_OBJECTS) $(validate_rna_LDADD) $(LIBS)

mostlyclean-compile:
	-rm -f *.$(OBJEXT)

distclean-compile:
	-rm -f *.tab.c

include ./$(DEPDIR)/fa2fq.Po
include ./$(DEPDIR)/filter_blat.Po
include ./$(DEPDIR)/filter_contigs.Po
include ./$(DEPDIR)/filterfa.Po
include ./$(DEPDIR)/fq2fa.Po
include ./$(DEPDIR)/idba.Po
include ./$(DEPDIR)/idba_hybrid.Po
include ./$(DEPDIR)/idba_tran.Po
include ./$(DEPDIR)/idba_tran_test.Po
include ./$(DEPDIR)/idba_ud.Po
include ./$(DEPDIR)/parallel_blat.Po
include ./$(DEPDIR)/parallel_rna_blat.Po
include ./$(DEPDIR)/print_graph.Po
include ./$(DEPDIR)/raw_n50.Po
include ./$(DEPDIR)/sample_reads.Po
include ./$(DEPDIR)/scaffold.Po
include ./$(DEPDIR)/shuffle_reads.Po
include ./$(DEPDIR)/sim_reads.Po
include ./$(DEPDIR)/sim_reads_tran.Po
include ./$(DEPDIR)/sort_psl.Po
include ./$(DEPDIR)/sort_reads.Po
include ./$(DEPDIR)/split_fa.Po
include ./$(DEPDIR)/split_fq.Po
include ./$(DEPDIR)/split_scaffold.Po
include ./$(DEPDIR)/test.Po
include ./$(DEPDIR)/validate_component.Po
include ./$(DEPDIR)/validate_contigs_blat.Po
include ./$(DEPDIR)/validate_contigs_mummer.Po
include ./$(DEPDIR)/validate_reads_blat.Po
include ./$(DEPDIR)/validate_rna.Po

.cpp.o:
	$(AM_V_CXX)$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
	$(AM_V_at)$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
#	$(AM_V_CXX)source='$<' object='$@' libtool=no \
#	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) \
#	$(AM_V_CXX_no)$(CXXCOMPILE) -c -o $@ $<

.cpp.obj:
	$(AM_V_CXX)$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ `$(CYGPATH_W) '$<'`
	$(AM_V_at)$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
#	$(AM_V_CXX)source='$<' object='$@' libtool=no \
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#	$(AM_V_CXX_no)$(CXXCOMPILE) -c -o $@ `$(CYGPATH_W) '$<'`

fa2fq.o: $(top_srcdir)/src/tools/fa2fq.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT fa2fq.o -MD -MP -MF $(DEPDIR)/fa2fq.Tpo -c -o fa2fq.o `test -f '$(top_srcdir)/src/tools/fa2fq.cpp' || echo '$(srcdir)/'`$(top_srcdir)/src/tools/fa2fq.cpp
	$(AM_V_at)$(am__mv) $(DEPDIR)/fa2fq.Tpo $(DEPDIR)/fa2fq.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/tools/fa2fq.cpp' object='fa2fq.o' libtool=no \
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fa2fq.obj: $(top_srcdir)/src/tools/fa2fq.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT fa2fq.obj -MD -MP -MF $(DEPDIR)/fa2fq.Tpo -c -o fa2fq.obj `if test -f '$(top_srcdir)/src/tools/fa2fq.cpp'; then $(CYGPATH_W) '$(top_srcdir)/src/tools/fa2fq.cpp'; else $(CYGPATH_W) '$(srcdir)/$(top_srcdir)/src/tools/fa2fq.cpp'; fi`
	$(AM_V_at)$(am__mv) $(DEPDIR)/fa2fq.Tpo $(DEPDIR)/fa2fq.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/tools/fa2fq.cpp' object='fa2fq.obj' libtool=no \
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filter_blat.o: $(top_srcdir)/src/tools/filter_blat.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT filter_blat.o -MD -MP -MF $(DEPDIR)/filter_blat.Tpo -c -o filter_blat.o `test -f '$(top_srcdir)/src/tools/filter_blat.cpp' || echo '$(srcdir)/'`$(top_srcdir)/src/tools/filter_blat.cpp
	$(AM_V_at)$(am__mv) $(DEPDIR)/filter_blat.Tpo $(DEPDIR)/filter_blat.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/tools/filter_blat.cpp' object='filter_blat.o' libtool=no \
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filter_blat.obj: $(top_srcdir)/src/tools/filter_blat.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT filter_blat.obj -MD -MP -MF $(DEPDIR)/filter_blat.Tpo -c -o filter_blat.obj `if test -f '$(top_srcdir)/src/tools/filter_blat.cpp'; then $(CYGPATH_W) '$(top_srcdir)/src/tools/filter_blat.cpp'; else $(CYGPATH_W) '$(srcdir)/$(top_srcdir)/src/tools/filter_blat.cpp'; fi`
	$(AM_V_at)$(am__mv) $(DEPDIR)/filter_blat.Tpo $(DEPDIR)/filter_blat.Po
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filter_contigs.o: $(top_srcdir)/src/tools/filter_contigs.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT filter_contigs.o -MD -MP -MF $(DEPDIR)/filter_contigs.Tpo -c -o filter_contigs.o `test -f '$(top_srcdir)/src/tools/filter_contigs.cpp' || echo '$(srcdir)/'`$(top_srcdir)/src/tools/filter_contigs.cpp
	$(AM_V_at)$(am__mv) $(DEPDIR)/filter_contigs.Tpo $(DEPDIR)/filter_contigs.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/tools/filter_contigs.cpp' object='filter_contigs.o' libtool=no \
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filter_contigs.obj: $(top_srcdir)/src/tools/filter_contigs.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT filter_contigs.obj -MD -MP -MF $(DEPDIR)/filter_contigs.Tpo -c -o filter_contigs.obj `if test -f '$(top_srcdir)/src/tools/filter_contigs.cpp'; then $(CYGPATH_W) '$(top_srcdir)/src/tools/filter_contigs.cpp'; else $(CYGPATH_W) '$(srcdir)/$(top_srcdir)/src/tools/filter_contigs.cpp'; fi`
	$(AM_V_at)$(am__mv) $(DEPDIR)/filter_contigs.Tpo $(DEPDIR)/filter_contigs.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/tools/filter_contigs.cpp' object='filter_contigs.obj' libtool=no \
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filterfa.o: $(top_srcdir)/src/release/filterfa.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT filterfa.o -MD -MP -MF $(DEPDIR)/filterfa.Tpo -c -o filterfa.o `test -f '$(top_srcdir)/src/release/filterfa.cpp' || echo '$(srcdir)/'`$(top_srcdir)/src/release/filterfa.cpp
	$(AM_V_at)$(am__mv) $(DEPDIR)/filterfa.Tpo $(DEPDIR)/filterfa.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/release/filterfa.cpp' object='filterfa.o' libtool=no \
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filterfa.obj: $(top_srcdir)/src/release/filterfa.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT filterfa.obj -MD -MP -MF $(DEPDIR)/filterfa.Tpo -c -o filterfa.obj `if test -f '$(top_srcdir)/src/release/filterfa.cpp'; then $(CYGPATH_W) '$(top_srcdir)/src/release/filterfa.cpp'; else $(CYGPATH_W) '$(srcdir)/$(top_srcdir)/src/release/filterfa.cpp'; fi`
	$(AM_V_at)$(am__mv) $(DEPDIR)/filterfa.Tpo $(DEPDIR)/filterfa.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/release/filterfa.cpp' object='filterfa.obj' libtool=no \
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fq2fa.o: $(top_srcdir)/src/release/fq2fa.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT fq2fa.o -MD -MP -MF $(DEPDIR)/fq2fa.Tpo -c -o fq2fa.o `test -f '$(top_srcdir)/src/release/fq2fa.cpp' || echo '$(srcdir)/'`$(top_srcdir)/src/release/fq2fa.cpp
	$(AM_V_at)$(am__mv) $(DEPDIR)/fq2fa.Tpo $(DEPDIR)/fq2fa.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/release/fq2fa.cpp' object='fq2fa.o' libtool=no \
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fq2fa.obj: $(top_srcdir)/src/release/fq2fa.cpp
	$(AM_V_CXX)$(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS) -MT fq2fa.obj -MD -MP -MF $(DEPDIR)/fq2fa.Tpo -c -o fq2fa.obj `if test -f '$(top_srcdir)/src/release/fq2fa.cpp'; then $(CYGPATH_W) '$(top_srcdir)/src/release/fq2fa.cpp'; else $(CYGPATH_W) '$(srcdir)/$(top_srcdir)/src/release/fq2fa.cpp'; fi`
	$(AM_V_at)$(am__mv) $(DEPDIR)/fq2fa.Tpo $(DEPDIR)/fq2fa.Po
#	$(AM_V_CXX)source='$(top_srcdir)/src/release/fq2fa.cpp' object='fq2fa.obj' libtool=no \
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