Added bedGraphFile's Makefile.

src/utils/bedGraphFile/Makefile

+OBJ_DIR = ../../../obj/
+BIN_DIR = ../../../bin/
+UTILITIES_DIR = ../../utils/
+# -------------------
+# define our includes
+# -------------------
+INCLUDES =  -I$(UTILITIES_DIR)/lineFileUtilities/ \
+            -I$(UTILITIES_DIR)/gzstream/ \
+            -I$(UTILITIES_DIR)/fileType/
+
+# ----------------------------------
+# define our source and object files
+# ----------------------------------
+SOURCES= bedGraphFile.cpp
+OBJECTS= $(SOURCES:.cpp=.o)
+_EXT_OBJECTS=lineFileUtilities.o gzstream.o fileType.o
+EXT_OBJECTS=$(patsubst %,$(OBJ_DIR)/%,$(_EXT_OBJECTS))
+BUILT_OBJECTS= $(patsubst %,$(OBJ_DIR)/%,$(OBJECTS))
+
+$(BUILT_OBJECTS): $(SOURCES)
+	@echo "  * compiling" $(*F).cpp
+	@$(CXX) -c -o $@ $(*F).cpp $(LDFLAGS) $(CXXFLAGS) $(INCLUDES)
+
+$(EXT_OBJECTS):
+	@$(MAKE) --no-print-directory -C -W $(INCLUDES)
+
+clean:
+	@echo "Cleaning up."
+	@rm -f $(OBJ_DIR)/* $(BIN_DIR)/*
+
+.PHONY: clean