/
Makefile
105 lines (82 loc) · 2.08 KB
/
Makefile
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CC?=gcc
#WFLAGS= -Wall -Wextra -DNDEBUG -Wno-ignored-qualifiers
WFLAGS= -Wall -Wno-unused-function #-Werror
OPT_FLAGS= -O3 -ffast-math -funroll-loops -m64 -fomit-frame-pointer -D_FILE_OFFSET_BITS=64
CFLAGS = $(WFLAGS) $(OPT_FLAGS)
SYSTEM?=$(shell uname -s)
#valgrind
#CFLAGS += -g -O0
##
MALLOC_COUNT=
MALLOC_COUNT64=
ifeq ($(SYSTEM),Darwin)
LDFLAGS= -mpopcnt
else
MALLOC_COUNT=external/malloc_count/malloc_count.o
MALLOC_COUNT64=external/malloc_count/malloc_count.64.o
LDFLAGS= -lm -ldl -mpopcnt
endif
LIBOBJ = \
lib/file.o\
lib/utils.o\
lib/rankbv.o\
external/gsacak.o ${MALLOC_COUNT}
LIBOBJ_64 = \
lib/file.64.o\
lib/utils.64.o\
lib/rankbv.64.o\
external/gsacak.64.o ${MALLOC_COUNT}
TARGETS=gsufsort gsufsort-64
##
DEBUG = 0
M64 = 0
DNA = 0
TERMINATOR = 1
DEFINES = -DDEBUG=$(DEBUG)
ifeq ($(DNA),1)
DEFINES += -DDNA=$(DNA)
endif
DEFINES += -DTERMINATOR=$(TERMINATOR)
GZ = 1
CFLAGS += $(DEFINES) -DGZ=$(GZ)
ifeq ($(GZ),1)
LDFLAGS += -lz
endif
##
DIR = dataset/
INPUT = input.txt
DOCS = 3
##
all:${TARGETS}
clean:
@${RM} *.o external/*.o lib/*o external/malloc_count/*.o ${TARGETS}
remove:
@for directory in . dataset; do\
echo $$directory; \
for suffix in lcp str bwt gsa sa da gesa str qs ibwt iqs; do \
${RM} $$directory/*.$$suffix;\
done \
done
###
%.o:%.c
$(CC) $(CFLAGS) -c -o $@ $< -DM64=0
%.64.o:%.c
$(CC) $(CFLAGS) -c -o $@ $< -DM64=1
##
gsufsort:main.c ${LIBOBJ}
$(CC) -o $@ main.c ${LIBOBJ} $(CFLAGS) $(LDFLAGS) $(CCLIB) -DM64=0
gsufsort-64:main.c ${LIBOBJ_64}
$(CC) -o $@ main.c ${LIBOBJ_64} $(CFLAGS) $(LDFLAGS) $(CCLIB) -DM64=1
run:${TARGETS}
./gsufsort $(DIR)$(INPUT) -v --sa
./gsufsort-64 $(DIR)$(INPUT) -v --sa
run_all:${TARGETS}
@for directory in dataset; do\
for filename in `ls $$directory/*.txt $$directory/*.fasta $$directory/*.fastq`; do\
for prog in ${TARGETS}; do\
./$$prog $$filename --sa --lcp --da --gsa --gesa --bwt --str;\
done \
done \
done
valgrind:
valgrind -q --tool=memcheck --leak-check=full --track-origins=yes --show-leak-kinds=all ./gsufsort $(DIR)$(INPUT) --sa -d 100