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PREFIX = /usr/local
LIBDIR = $(PREFIX)/libexec/mafft
BINDIR = $(PREFIX)/bin
MANDIR = $(PREFIX)/share/man/man1
DESTDIR =
#CC := mpicc -cc=gcc
CC := mpicc
#CC := /u33/app/openmpi/bin/mpicc
#CFLAGS := -O3 -ipo -no-prec-div -xHost -std=c99
#CFLAGS := -O3 -std=c99
CFLAGS := -O3
#CFLAGS = -O0 -fPIC -pedantic -Wall -std=c99 -g -DMALLOC_CHECK_=3 # for shark, valgrind
# CFLAGS := -O0 -g -ipo -no-prec-div -xHost -std=c99
TARGET_ARCH :=
LDLIBS := -lm -lrt -lpthread # -lrt?
ENABLE_MULTITHREAD := -Denablemultithread
#ENABLE_ATOMIC := -Denableatomic
VPATH := ../core
ifdef ENABLE_ATOMIC
STDF = -std=c11
else
STDF = -std=c99
endif
MYCFLAGS := $(ENABLE_MULTITHREAD) $(ENABLE_ATOMIC) $(STDF) $(CFLAGS) -I../core -MMD -MP
OBJDIR := ./obj
ifeq "$(strip $(OBJDIR))" ""
OBJDIR := .
endif
INSTALL = install
PROGS := nodepair_mpi
SCRIPTS := mpiscript
OBJNODPAIR := mtxutl.o io.o mltaln9_mpi.o tddis.o constants.o MSalignmm.o partSalignmm.o Lalignmm.o rna.o Salignmm.o Dalignmm.o \
Falign.o Falign_localhom.o Galign11.o Lalign11.o genalign11.o SAalignmm.o \
nodepair_mpi.o defs.o fft.o fftFunctions.o addfunctions.o \
pairlocalalign_mpi.o MSalign11.o
OBJNODPAIR := $(addprefix $(OBJDIR)/, $(OBJNODPAIR))
DEPSNODPAIR := $(OBJNODPAIR:%.o=%.d)
all : $(PROGS) $(SCRIPTS)
cp $(PROGS) $(SCRIPTS) ../binaries
chmod 755 ../binaries/*
@echo done.
install : all
mkdir -p $(DESTDIR)$(LIBDIR)
chmod 755 $(DESTDIR)$(LIBDIR)
chmod 755 $(PROGS) ||: # in MinGW, it's ok if this fails
$(INSTALL) -s $(PROGS) $(DESTDIR)$(LIBDIR)
$(INSTALL) $(SCRIPTS) $(DESTDIR)$(LIBDIR)
@echo done.
nodepair_mpi : $(OBJNODPAIR)
$(CC) $(LDFLAGS) $(TARGET_ARCH) $^ $(LOADLIBES) $(LDLIBS) -o $@
shmclear : shmclear.c
$(CC) $(LDFLAGS) $(TARGET_ARCH) $^ $(LOADLIBES) $(LDLIBS) -o $@
mpiscript : mpiscript.tmpl
cp mpiscript.tmpl mpiscript
$(OBJDIR)/%.o : %.c
-@mkdir -p $(OBJDIR)
@[ -d $(OBJDIR) ]
$(CC) $(MYCFLAGS) $(CPPFLAGS) $(TARGET_ARCH) -o $@ -c $<
clean :
rm -f $(OBJNODPAIR) $(DEPSNODPAIR) $(PROGS) $(SCRIPTS) *.o *.a *.exe *~
rm -rf obj/
-include $(DEPSNODPAIR)
|
