makefile

SHELL := /bin/bash
CPP_FLAG = -lpthread
CPP_FOLDER=cpp/src
CPP_FILE=${CPP_FOLDER}/*.cpp
OBJECT_FILE=${CPP_FOLDER}/*.o


all: hawk preProcess log_reg_case log_reg_control bonf_fasta\
     kmersearch kmersummary convertToFasta_bf_correction convertToFasta_bh_correction\
	 kmerStats

hawk: hawk.o ${OBJECT_FILE}
	g++ $^ ${CPP_FLAG} -o $@

preProcess: preProcess.o
	g++ $^ -o $@

log_reg_case: log_reg_case.o ${OBJECT_FILE}
	g++ $^  ${CPP_FLAG} -o $@

log_reg_control: log_reg_control.o ${OBJECT_FILE}
	g++ $^ ${CPP_FLAG} -o $@

bonf_fasta: bonf_fasta.o
	g++ $^ -o $@

kmersearch: kmersearch.o
	g++ $^ -o $@

kmersummary: kmersummary.o
	g++ $^ -o $@

convertToFasta_bf_correction: convertToFasta_bf_correction.o
	g++ $^ -o $@

convertToFasta_bh_correction: convertToFasta_bh_correction.o
	g++ $^ -o $@

kmerStats: kmerStats.o
	g++ $^ -o $@

hawk.o: hawk.cpp
	g++ $^ -c -o $@

preProcess.o: preProcess.cpp
	g++ $^ -c -o $@

log_reg_case.o: log_reg_case.cpp
	g++ $^ -c -o $@

log_reg_control.o: log_reg_control.cpp
	g++ $^  -c -o $@

bonf_fasta.o: bonf_fasta.cpp
	g++ $^ -c -o $@

kmersearch.o: kmersearch.cpp
	g++ $^ -c -o $@

kmersummary.o: kmersummary.cpp
	g++ $^ -c -o $@

convertToFasta_bf_correction.o: convertToFasta.cpp
	g++ $^ -c -o $@

convertToFasta_bh_correction.o: convertToFasta_bh_correction.cpp
	g++ $^ -c -o $@

kmerStats.o: kmerStats.cpp
	g++ $^ -c -o $@

${OBJECT_FILE}: ${CPP_FILE}
	for f in `ls ${CPP_FILE}`;do echo $$f;g++ $$f -c -o $$f.o; done

clean:
	rm *.o
	rm ${CPP_FOLDER}/*.o

#all:
#	g++ hawk.cpp cpp/src/*.cpp -lm -lpthread -o hawk
#	g++ bonf_fasta.cpp -o bonf_fasta
#	g++ kmersearch.cpp -o kmersearch
#	g++ kmersummary.cpp -o kmersummary
#	g++ preProcess.cpp -o preProcess
#	g++ convertToFasta.cpp -o convertToFasta