# PHYML 2.4.5 Makefile # modified for ARB by Ralf Westram (Jun 2006) .SUFFIXES: .o .c .h .depend LIBS = -lm PROG = PHYML DFLAG = -DUNIX -D$(PROG) OBJS = main.o utilities.o optimiz.o lk.o bionj.o models.o free.o options.o simu.o eigen.o ifndef ARB # ---------------------------------------- # original compilation CC = gcc #cc CFLAGS = -O4 -fomit-frame-pointer -Wall # CFLAGS = -Wall # CFLAGS = -g -Wall # CFLAGS = -pg -Wall -fprofile-arcs -static EXEC = phyml else # ---------------------------------------- # compilation together with ARB CC = $(A_CC) CFLAGS = $(cflags) $(onlyC_flags) -fomit-frame-pointer EXEC = $(ARBHOME)/bin/phyml ifeq ($(DARWIN),1) CFLAGS += -fPIC endif # ARBs standard target $(MAIN) : $(EXEC) endif $(EXEC) : $(OBJS) $(CC) -o $(EXEC) $(OBJS) $(LIBS) $(CFLAGS) clean : rm -f $(OBJS) $(EXEC) .c.o: $(CC) $(CFLAGS) $(DFLAG) -c -o $@ $< ###################################################################################################### DEPENDS = $(OBJS:.o=.depend) depends: $(DEPENDS) @cat $(DEPENDS) | grep -v '^#' >>Makefile @rm $(DEPENDS) $(DEPENDS): depend.init depend.init: $(MAKEDEPEND) $(MAKEDEPENDFLAGS) 2>/dev/null # remove dependencies .c.depend: $(MAKEDEPEND) -f- $(MAKEDEPENDFLAGS) $< 2>/dev/null >$@ # DO NOT DELETE # Do not add dependencies manually - use 'make depend' in $ARBHOME # For formatting issues see SOURCE_TOOLS/fix_depends.pl (from GDE) bionj.o: bionj.h bionj.o: optimiz.h bionj.o: utilities.h eigen.o: eigen.h eigen.o: utilities.h free.o: free.h free.o: utilities.h lk.o: free.h lk.o: lk.h lk.o: models.h lk.o: optimiz.h lk.o: utilities.h main.o: bionj.h main.o: free.h main.o: lk.h main.o: models.h main.o: optimiz.h main.o: options.h main.o: simu.h main.o: utilities.h models.o: eigen.h models.o: free.h models.o: models.h models.o: utilities.h optimiz.o: free.h optimiz.o: lk.h optimiz.o: optimiz.h optimiz.o: utilities.h options.o: free.h options.o: models.h options.o: options.h options.o: utilities.h simu.o: free.h simu.o: lk.h simu.o: models.h simu.o: optimiz.h simu.o: simu.h simu.o: utilities.h utilities.o: bionj.h utilities.o: free.h utilities.o: lk.h utilities.o: models.h utilities.o: optimiz.h utilities.o: simu.h utilities.o: utilities.h