File: Makefile

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jellyfish 2.3.1-5
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CC = g++
CXXFLAGS = $(shell pkg-config --cflags jellyfish-2.0) -std=c++0x -Wall -O3
LDFLAGS = -Wl,--rpath=$(shell pkg-config --libs-only-L jellyfish-2.0 | sed -e 's/ -L/ /g')
LDLIBS = $(shell pkg-config --libs jellyfish-2.0)

all: query_per_sequence
query_per_sequence: query_per_sequence.cc sequence_mers.hpp
clean:
	rm -f *.o query_per_sequence