1.2.0

src/Makefile.lin

@@ -0,0 +1,65 @@
+# Makefile for selscan
+
+#debugging
+#G++FLAG = -g -Wall -Werror
+#For dynamic linking
+#LINK_OPTS = -L$(L_PATH) -lgsl -lgslcblas
+
+#for osx systems
+#CC = g++
+#G++FLAG = -fast -m64 -mmmx -msse -msse2
+#LINK_OPTS2 = -pthread -lz
+#I_PATH = -I../include
+#L_PATH = ../lib/osx
+
+#for linux systems
+CC = g++
+G++FLAG = -O3 -m64 -mmmx -msse -msse2
+LINK_OPTS2 = -pthread -lz
+I_PATH = -I../include
+L_PATH = ../lib/linux
+
+#for windows, using MinGW build environment
+#CC = g++.exe
+#G++FLAG = -DPTW32_STATIC_LIB -O3 -static-libgcc -static-libstdc++
+#LINK_OPTS2 = ../lib/win32/libpthreadGC2.a ../lib/win32/libz.a 
+#I_PATH = -I../include -I../include/win32 
+#L_PATH = ../lib/win32
+
+#For static linking of norm program to gsl libs
+LINK_OPTS = $(L_PATH)/libgsl.a $(L_PATH)/libgslcblas.a
+
+all : selscan norm
+
+selscan : selscan-main.o selscan-data.o binom.o selscan-pbar.o param_t.o gzstream.o hamming_t.o
+	$(CC) $(G++FLAG) -o selscan selscan-main.o selscan-data.o binom.o selscan-pbar.o param_t.o gzstream.o hamming_t.o $(LINK_OPTS2)
+
+selscan-main.o : selscan-main.cpp
+	$(CC) $(G++FLAG) -c selscan-main.cpp $(I_PATH)
+
+selscan-data.o : selscan-data.cpp selscan-data.h
+	$(CC) $(G++FLAG) -c selscan-data.cpp $(I_PATH)
+
+selscan-pbar.o : selscan-pbar.cpp selscan-pbar.h
+	$(CC) $(G++FLAG) -c selscan-pbar.cpp $(I_PATH)
+
+binom.o : binom.cpp binom.h
+	$(CC) $(G++FLAG) -c binom.cpp
+
+norm : norm.o param_t.o
+	$(CC) $(G++FLAG) -o norm norm.o param_t.o $(LINK_OPTS)
+
+norm.o : norm.cpp
+	$(CC) $(G++FLAG) -c norm.cpp $(I_PATH)
+
+param_t.o : param_t.cpp param_t.h
+	$(CC) $(G++FLAG) -c param_t.cpp
+
+gzstream.o : gzstream.cpp gzstream.h
+	$(CC) $(G++FLAG) -c gzstream.cpp $(I_PATH)
+
+hamming_t.o : hamming_t.cpp hamming_t.h
+	$(CC) $(G++FLAG) -c hamming_t.cpp $(I_PATH)
+
+clean :
+	rm *.o