Adding targets for ccub, debug mode, unit tests

cpp/Makefile

 all:
-	g++ -c Vihgo.cpp -O3
+	g++ -c Vihgo.cpp -O3 -I /usr/local/src/htslib-develop
 	g++ -c utils.cpp -O3
-	g++ -c main.cpp
-	g++ main.o Vihgo.o utils.o -o vihgo -lboost_program_options
+	g++ -c main.cpp -O3
+	g++ main.o Vihgo.o utils.o -o vihgo -lhts -lboost_program_options -L/usr/local/src/htslib-develop
+
+ccub:
+	g++ -c Vihgo.cpp -O3 -I /usr/local/src/htslib-develop -I /work/gad/shared/bin/htslib-1.9
+	g++ -c utils.cpp -O3
+	g++ -c main.cpp -O3 -I /work/gad/shared/bin/htslib-1.9
+	g++ main.o Vihgo.o utils.o -o vihgo -lhts -lboost_program_options -L /work/gad/shared/bin/htslib-1.9
+
+ccubdebug:
+	g++ -c Vihgo.cpp -g -O3 -I /usr/local/src/htslib-develop -I /work/gad/shared/bin/htslib-1.9
+	g++ -c utils.cpp -g -O3
+	g++ -c main.cpp -g -O3 -I /work/gad/shared/bin/htslib-1.9
+	g++ main.o Vihgo.o utils.o -o vihgo -lhts -lboost_program_options -L /work/gad/shared/bin/htslib-1.9
+
+
+test:
+	g++ -c utils.cpp -O3
+	g++ -c unittest.cpp -O3
+	g++ unittest.o utils.o -o test -lboost_program_options
+
+clean:
+	rm *.o
+	rm test
+	rm vihgo