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#               National Center for Biotechnology Information
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add_compile_definitions( __mod__="tools/sra-pileup" )

# External
set( SRA_PILEUP_SRC
	dyn_string
	cmdline_cmn
	out_redir
	perf_log
	reref
	cg_tools
	report_deletes
	ref_regions
	4na_ascii
	ref_walker_0
	ref_walker
	walk_debug
	pileup_counters
	pileup_index
	pileup_indels
	pileup_varcount
	pileup_stat
	pileup_v2
	sra-pileup
)
GenerateExecutableWithDefs( sra-pileup "${SRA_PILEUP_SRC}" "" "" "${COMMON_LINK_LIBRARIES};${COMMON_LIBS_READ}" )
MakeLinksExe( sra-pileup true )

set( SAM_DUMP_SRC
	inputfiles
	perf_log
	rna_splice_log
	sam-dump-opts
	out_redir
	sam-hdr
	sam-hdr1
	matecache
	read_fkt
	sam-aligned
	sam-unaligned
	md_flag
	cg_tools
	sam-dump
	sam-dump3
	dyn_string
)
GenerateExecutableWithDefs( sam-dump "${SAM_DUMP_SRC}" "" "" "${COMMON_LINK_LIBRARIES};${COMMON_LIBS_READ}" )
MakeLinksExe( sam-dump true )
