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--- Makefile.orig Thu Jan 25 13:59:21 2007
+++ Makefile Thu Jan 25 14:02:58 2007
@@ -1,11 +1,6 @@
LIBS = -lm
BINDIR = ./bin
-#CFLAGS = -Wall -Wshadow -g
-CFLAGS = -O -Wall -Wshadow -g
-#CFLAGS = -fast -inline speed
-#CFLAGS = -O3 -arch host -fast
-CC = gcc $(CFLAGS)
-#CC = cc $(CFLAGS)
+CFLAGS += -g
DCC = gcc -g -Wall -DDMALLOC_FUNC_CHECK -ansi -pedantic
PLUSCC = g++ $(CFLAGS)
LIBS = -lm -L/usr/local/lib
@@ -18,29 +13,29 @@
# The big banana
recombine : recombine.o jdrop.o rec_modellike.o jworld.o getdata.o \
traitlike.o getmsatdata.o
- $(CC) -o recombine recombine.o jdrop.o rec_modellike.o \
+ $(CC) $(CFLAGS) -o recombine recombine.o jdrop.o rec_modellike.o \
jworld.o getdata.o traitlike.o getmsatdata.o $(LIBS)
jworld.o : jworld.c
- $(CC) -c jworld.c
+ $(CC) $(CFLAGS) -c jworld.c
jdrop.o : jdrop.c
- $(CC) -c jdrop.c
+ $(CC) $(CFLAGS) -c jdrop.c
rec_modellike.o : rec_modellike.c
- $(CC) -c rec_modellike.c
+ $(CC) $(CFLAGS) -c rec_modellike.c
recombine.o : recombine.c
- $(CC) -c recombine.c
+ $(CC) $(CFLAGS) -c recombine.c
getdata.o : getdata.c
- $(CC) -c getdata.c
+ $(CC) $(CFLAGS) -c getdata.c
getmsatdata.o : getmsatdata.c
- $(CC) -c getmsatdata.c
+ $(CC) $(CFLAGS) -c getmsatdata.c
traitlike.o : traitlike.c
- $(CC) -c traitlike.c
+ $(CC) $(CFLAGS) -c traitlike.c
rectreedna : rectreedna.c
$(CC) -o rectreedna rectreedna.c $(LIBS)
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