https://github.com/stamatak/standard-RAxML
Tip revision: 9f2378a3b0d26922ca1a6dca382ab5d1f6824fb2 authored by stamatak on 05 March 2014, 15:54:28 UTC
added some additional checks for the base frequency range to prevent potential numerical problems.
added some additional checks for the base frequency range to prevent potential numerical problems.
Tip revision: 9f2378a
Makefile.AVX.PTHREADS.gcc
# Makefile August 2006 by Alexandros Stamatakis
# Makefile cleanup October 2006, Courtesy of Peter Cordes <peter@cordes.ca>
CC = gcc
CFLAGS = -D_USE_PTHREADS -D__SIM_SSE3 -O2 -D_GNU_SOURCE -msse3 -fomit-frame-pointer -funroll-loops -D__AVX #-Wall -pedantic -Wunused-parameter -Wredundant-decls -Wreturn-type -Wswitch-default -Wunused-value -Wimplicit -Wimplicit-function-declaration -Wimplicit-int -Wimport -Wunused -Wunused-function -Wunused-label -Wno-int-to-pointer-cast -Wbad-function-cast -Wmissing-declarations -Wmissing-prototypes -Wnested-externs -Wold-style-definition -Wstrict-prototypes -Wdeclaration-after-statement -Wpointer-sign -Wextra -Wredundant-decls -Wunused -Wunused-function -Wunused-parameter -Wunused-value -Wunused-variable -Wformat -Wformat-nonliteral -Wparentheses -Wsequence-point -Wuninitialized -Wundef -Wbad-function-cast
LIBRARIES = -lm -pthread
RM = rm -f
objs = axml.o optimizeModel.o multiple.o searchAlgo.o topologies.o parsePartitions.o treeIO.o models.o bipartitionList.o rapidBootstrap.o evaluatePartialGenericSpecial.o evaluateGenericSpecial.o newviewGenericSpecial.o makenewzGenericSpecial.o classify.o fastDNAparsimony.o fastSearch.o leaveDropping.o rmqs.o rogueEPA.o ancestralStates.o avxLikelihood.o mem_alloc.o eigen.o
all : raxmlHPC
GLOBAL_DEPS = axml.h globalVariables.h rmq.h rmqs.h #mem_alloc.h compiler.h gcc.h ll_asm.h ll_list.h
raxmlHPC : $(objs)
$(CC) -o raxmlHPC-PTHREADS-AVX $(objs) $(LIBRARIES)
avxLikelihood.o : avxLikelihood.c $(GLOBAL_DEPS)
$(CC) $(CFLAGS) -mavx -c -o avxLikelihood.o avxLikelihood.c
fastDNAparsimony.o : fastDNAparsimony.c $(GLOBAL_DEPS)
$(CC) $(CFLAGS) -mavx -c -o fastDNAparsimony.o fastDNAparsimony.c
#rev_functions.o : rev_functions.c $(GLOBAL_DEPS)
rmqs.o : rmqs.c $(GLOBAL_DEPS)
classify.o : classify.c $(GLOBAL_DEPS)
evaluatePartialSpecialGeneric.o : evaluatePartialSpecialGeneric.c $(GLOBAL_DEPS)
bipartitionList.o : bipartitionList.c $(GLOBAL_DEPS)
optimizeModel.o : optimizeModel.c $(GLOBAL_DEPS)
multiple.o : multiple.c $(GLOBAL_DEPS)
axml.o : axml.c $(GLOBAL_DEPS)
searchAlgo.o : searchAlgo.c $(GLOBAL_DEPS)
topologies.o : topologies.c $(GLOBAL_DEPS)
parsePartitions.o : parsePartitions.c $(GLOBAL_DEPS)
treeIO.o : treeIO.c $(GLOBAL_DEPS)
models.o : models.c $(GLOBAL_DEPS)
rapidBootstrap.o : rapidBootstrap.c $(GLOBAL_DEPS)
evaluatePartialGenericSpecial.o : evaluatePartialGenericSpecial.c $(GLOBAL_DEPS)
evaluateGenericSpecial.o : evaluateGenericSpecial.c $(GLOBAL_DEPS)
newviewGenericSpecial.o : newviewGenericSpecial.c $(GLOBAL_DEPS)
makenewzGenericSpecial.o : makenewzGenericSpecial.c $(GLOBAL_DEPS)
fastSearch.o : fastSearch.c $(GLOBAL_DEPS)
leaveDropping.o : leaveDropping.c $(GLOBAL_DEPS)
ancestralStates.o : ancestralStates.c $(GLOBAL_DEPS)
mem_alloc.o eigen.o : mem_alloc.c $(GLOBAL_DEPS)
eigen.o : eigen.c $(GLOBAL_DEPS)
$(CC) -c -o eigen.o eigen.c
clean :
$(RM) *.o raxmlHPC-PTHREADS-AVX