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# Useful directories |
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|
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THISCODEDIR := . |
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GCLDIR := ../gclib |
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# Directory where libz.a can be found |
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# (please build that first before making this package) |
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# ZDIR := ../zlib |
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# Directories to search for header files |
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#SEARCHDIRS := -I${ZDIR} -I${THISCODEDIR} -I${GCLDIR} |
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SEARCHDIRS := -I${THISCODEDIR} -I${GCLDIR} |
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|
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SYSTYPE := $(shell uname) |
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|
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# C compiler |
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|
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MACHTYPE := $(shell uname -m) |
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ifeq ($(MACHTYPE), i686) |
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MARCH = -march=i686 |
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else |
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MARCH = |
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endif |
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|
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# CVS checked in |
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CC := g++ |
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BASEFLAGS = -Wall -Wextra -Wuninitialized ${SEARCHDIRS} $(MARCH) -D_FILE_OFFSET_BITS=64 \ |
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-D_LARGEFILE_SOURCE -fno-exceptions -fno-rtti -fno-strict-aliasing \ |
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-D_REENTRANT |
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|
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|
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ifeq ($(findstring debug,$(MAKECMDGOALS)),) |
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CFLAGS = -DNDEBUG -O2 $(BASEFLAGS) |
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LDFLAGS = |
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else |
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CFLAGS = -g -DGDEBUG -DDEBUG $(BASEFLAGS) |
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LDFLAGS = -g |
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endif |
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|
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%.o : %.c |
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${CC} ${CFLAGS} -c $< -o $@ |
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|
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%.o : %.cc |
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${CC} ${CFLAGS} -c $< -o $@ |
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|
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%.o : %.C |
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${CC} ${CFLAGS} -c $< -o $@ |
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|
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%.o : %.cpp |
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${CC} ${CFLAGS} -c $< -o $@ |
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|
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%.o : %.cxx |
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${CC} ${CFLAGS} -c $< -o $@ |
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|
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# C/C++ linker |
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|
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LINKER := g++ |
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LIBS = |
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|
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#OBJS = ${GCLDIR}/gdna.o ${GCLDIR}/codons.o ${GCLDIR}/GArgs.o \ |
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# ${GCLDIR}/GBase.o ${GCLDIR}/GStr.o |
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OBJS = ${GCLDIR}/GBase.o ${GCLDIR}/gdna.o ${GCLDIR}/GArgs.o ${GCLDIR}/GStr.o \ |
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${GCLDIR}/GAlnExtend.o |
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|
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.PHONY : all |
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all: fqtrim |
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debug: all |
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fqtrim.o ${GCLDIR}/gdna.o ${GCLDIR}/GAlnExtend.o: ${GCLDIR}/GAlnExtend.h ${GCLDIR}/gdna.h |
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|
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fqtrim: ${OBJS} ./fqtrim.o |
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${LINKER} ${LDFLAGS} -o $@ ${filter-out %.a %.so, $^} ${LIBS} |
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# target for removing all object files |
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|
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.PHONY : clean |
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clean:: |
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@${RM} core core.* fqtrim.exe fqtrim ${OBJS} *.o* *.~* |
