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Copy pathMakefile.am
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Makefile.am
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#EXTRA_DIST = batman.ini
AM_CFLAGS = -w -O3 -funroll-loops -maccumulate-outgoing-args -msse2 -lm
#AM_CFLAGS = -O0 -g -msse2 -lm
#AM_CXXFLAGS = -O0 -g -msse2 -lm
AM_CXXFLAGS = -w -O3 -funroll-loops -maccumulate-outgoing-args -msse2 -lm
RANLIB=ranlib
#AM_CPPFLAGS = -O3 -funroll-loops -maccumulate-outgoing-args -msse2 -lm
noinst_LIBRARIES = libz.a
libz_a_SOURCES = adler32.c compress.c crc32.c gzio.c uncompr.c deflate.c trees.c \
zutil.c inflate.c infback.c inftrees.c inffast.c\
zlib.h zconf.h crc32.h deflate.h zutil.h inftrees.h inflate.h inffast.h trees.h inffixed.h
bin_PROGRAMS = index rnaseq reverse
index_SOURCES= bfix.cpp index.cpp BWT.c MiscUtilities.c MemManager.c TextConverter.c r250.c QSufSort.c\
iniparser.c inistrlib.c dictionary.c DNACount.c Timing.c Socket.c HSP.c HSPstatistic.c karlin.c\
BWT.h TypeNLimit.h MemManager.h TextConverter.h HSP.h MiscUtilities.h DNACount.h r250.h HSPstatistic.h\
BWTConstruct.h QSufSort.h r250.h dictionary.h inistrlib.h iniparser.h Timing.h Socket.h karlin.h\
bfix.h
rnaseq_SOURCES = rnaseq.cpp \
batlib.cpp rqindex.cpp Indexes.cpp file.cpp Cmdline.cpp Hash.cpp extend.cpp bfix.cpp BWT.c MiscUtilities.c MemManager.c TextConverter.c r250.c QSufSort.c\
iniparser.c inistrlib.c dictionary.c DNACount.c Timing.c Socket.c HSP.c HSPstatistic.c karlin.c\
print.cpp init.cpp\
BWT.h TypeNLimit.h MemManager.h TextConverter.h HSP.h MiscUtilities.h DNACount.h r250.h HSPstatistic.h\
BWTConstruct.h QSufSort.h r250.h dictionary.h inistrlib.h iniparser.h Timing.h Socket.h karlin.h\
Indexes.h file.h bfix.h extend.h Hash.h Cmdline.h rqindex.h batlib.h common.h const.h Print.h init.h
#bwtformatdb_SOURCES= bwtformatdb.c BWT.c BWTConstruct.c MiscUtilities.c MemManager.c TextConverter.c r250.c QSufSort.c\
# iniparser.c inistrlib.c dictionary.c DNACount.c Timing.c Socket.c HSP.c HSPstatistic.c karlin.c\
# BWT.h TypeNLimit.h MemManager.h TextConverter.h HSP.h MiscUtilities.h DNACount.h r250.h HSPstatistic.h\
# BWTConstruct.h QSufSort.h r250.h dictionary.h inistrlib.h iniparser.h Timing.h Socket.h karlin.h
#batman_SOURCES= batman.cpp BWT.c BWTConstruct.c MiscUtilities.c MemManager.c TextConverter.c r250.c QSufSort.c\
# iniparser.c inistrlib.c dictionary.c DNACount.c Timing.c Socket.c HSP.c HSPstatistic.c karlin.c
rnaseq_LDADD = libz.a
#decode_SOURCES= decode.cpp BWT.c BWTConstruct.c MiscUtilities.c MemManager.c TextConverter.c r250.c QSufSort.c\
# iniparser.c inistrlib.c dictionary.c DNACount.c Timing.c Socket.c HSP.c HSPstatistic.c karlin.c
#decode_LDADD = libz.a
reverse_SOURCES = reverse.cpp
copy:
cp bwtformatdb ../bin
cp reverse ../bin
cp rnaseq ../bin
cp index ../bin