makefile.in

EM算法的改进

# Makefile.in generated by automake 1.6.3 from Makefile.am.
# @configure_input@

# Copyright 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002
# Free Software Foundation, Inc.
# This Makefile.in is free software; the Free Software Foundation
# gives unlimited permission to copy and/or distribute it,
# with or without modifications, as long as this notice is preserved.

# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
# PARTICULAR PURPOSE.

@SET_MAKE@
SHELL = @SHELL@

srcdir = @srcdir@
top_srcdir = @top_srcdir@
VPATH = @srcdir@
prefix = @prefix@
exec_prefix = @exec_prefix@

bindir = @bindir@
sbindir = @sbindir@
libexecdir = @libexecdir@
datadir = @datadir@
sysconfdir = @sysconfdir@
sharedstatedir = @sharedstatedir@
localstatedir = @localstatedir@
libdir = @libdir@
infodir = @infodir@
mandir = @mandir@
includedir = @includedir@
oldincludedir = /usr/include
pkgdatadir = $(datadir)/@PACKAGE@
pkglibdir = $(libdir)/@PACKAGE@
pkgincludedir = $(includedir)/@PACKAGE@
top_builddir = ../..

ACLOCAL = @ACLOCAL@
AUTOCONF = @AUTOCONF@
AUTOMAKE = @AUTOMAKE@
AUTOHEADER = @AUTOHEADER@

am__cd = CDPATH="$${ZSH_VERSION+.}$(PATH_SEPARATOR)" && cd
INSTALL = @INSTALL@
INSTALL_PROGRAM = @INSTALL_PROGRAM@
INSTALL_DATA = @INSTALL_DATA@
install_sh_DATA = $(install_sh) -c -m 644
install_sh_PROGRAM = $(install_sh) -c
install_sh_SCRIPT = $(install_sh) -c
INSTALL_SCRIPT = @INSTALL_SCRIPT@
INSTALL_HEADER = $(INSTALL_DATA)
transform = @program_transform_name@
NORMAL_INSTALL = :
PRE_INSTALL = :
POST_INSTALL = :
NORMAL_UNINSTALL = :
PRE_UNINSTALL = :
POST_UNINSTALL = :
host_alias = @host_alias@
host_triplet = @host@

EXEEXT = @EXEEXT@
OBJEXT = @OBJEXT@
PATH_SEPARATOR = @PATH_SEPARATOR@
AMTAR = @AMTAR@
AWK = @AWK@

# redefine make macros 
CC = $(MPICC)
CONTACT = @CONTACT@
DEBUG_FLAGS = @DEBUG_FLAGS@
DEPDIR = @DEPDIR@
HOSTNAME = @HOSTNAME@
INSTALL_STRIP_PROGRAM = @INSTALL_STRIP_PROGRAM@
LAMBIN = @LAMBIN@
LD = @LD@
LIBS = @LIBS@
MACHID = @MACHID@
MAIL = @MAIL@
MAST_PORT = @MAST_PORT@
MAXTIME = @MAXTIME@
MEME_DB = @MEME_DB@
MEME_DIRECTORY = @MEME_DIRECTORY@
MEME_LOGS = @MEME_LOGS@
MEME_PORT = @MEME_PORT@
MEME_USER = @MEME_USER@
MPICC = @MPICC@
MPIFLAGS = @MPIFLAGS@
MPIINC = @MPIINC@
MPILIBDIR = @MPILIBDIR@
MPITYPE = @MPITYPE@
MPI_CMD = @MPI_CMD@
NPROCS = @NPROCS@
OPT_FLAGS = @OPT_FLAGS@
PACKAGE = @PACKAGE@
PERL = @PERL@
QNAME = @QNAME@
QSTAT = @QSTAT@
QTYPE = @QTYPE@
RANLIB = @RANLIB@
SED = @SED@
SENDMAIL = @SENDMAIL@
SERVER = @SERVER@
STRIP = @STRIP@
URL = @URL@
VERSION = @VERSION@
WEBDIR = @WEBDIR@
am__include = @am__include@
am__quote = @am__quote@
install_sh = @install_sh@

AUTOMAKE_OPTIONS = no-dependencies
AM_CFLAGS = $(MPIFLAGS)
INCLUDES = -I../include $(MPIINC)
COMPILE = $(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(AM_CFLAGS)
LINK = $(CCLD) $(AM_CFLAGS) $(AM_LDFLAGS) $(LDFLAGS) -o $@

bin_PROGRAMS = meme_p
meme_p_SOURCES = \
        ../background.c \
        ../banner.c \
        ../clock.c \
        ../display.c \
        ../discretize.c \
        ../dpalign.c \
        ../em.c  \
        ../gamma.c \
        ../hash.c \
        ../hash_alph.c \
        ../init.c  \
        ../io.c \
        ../justlike.c \
        ../likelihood.c \
        ../llr.c \
        ../logs.c \
        ../logodds.c \
        ../mast-util.c \
        ../meme.c \
        ../meme_util.c \
        ../message.c \
        ../motifs.c \
        ../mp.c \
        ../oops.c \
        ../prior.c  \
        ../pssm-distr.c  \
        ../read_seq_file.c \
        ../regress.c \
        ../seq2theta.c \
        ../starts.c \
        ../subseq7.c \
        ../tcm.c


# need this rule for making object files with mpicc
COMPILE_RULE = $(COMPILE) -c `test -f $? || echo '$(srcdir)/'`$?
subdir = src/parallel
mkinstalldirs = $(SHELL) $(top_srcdir)/config/mkinstalldirs
CONFIG_HEADER = $(top_builddir)/config.h
CONFIG_CLEAN_FILES =
bin_PROGRAMS = meme_p$(EXEEXT)
PROGRAMS = $(bin_PROGRAMS)

am_meme_p_OBJECTS = background.$(OBJEXT) banner.$(OBJEXT) \
	clock.$(OBJEXT) display.$(OBJEXT) discretize.$(OBJEXT) \
	dpalign.$(OBJEXT) em.$(OBJEXT) gamma.$(OBJEXT) hash.$(OBJEXT) \
	hash_alph.$(OBJEXT) init.$(OBJEXT) io.$(OBJEXT) \
	justlike.$(OBJEXT) likelihood.$(OBJEXT) llr.$(OBJEXT) \
	logs.$(OBJEXT) logodds.$(OBJEXT) mast-util.$(OBJEXT) \
	meme.$(OBJEXT) meme_util.$(OBJEXT) message.$(OBJEXT) \
	motifs.$(OBJEXT) mp.$(OBJEXT) oops.$(OBJEXT) prior.$(OBJEXT) \
	pssm-distr.$(OBJEXT) read_seq_file.$(OBJEXT) regress.$(OBJEXT) \
	seq2theta.$(OBJEXT) starts.$(OBJEXT) subseq7.$(OBJEXT) \
	tcm.$(OBJEXT)
meme_p_OBJECTS = $(am_meme_p_OBJECTS)
meme_p_LDADD = $(LDADD)
meme_p_DEPENDENCIES =
meme_p_LDFLAGS =

DEFS = @DEFS@
DEFAULT_INCLUDES =  -I. -I$(srcdir) -I$(top_builddir)
CPPFLAGS = @CPPFLAGS@
LDFLAGS = @LDFLAGS@
depcomp =
am__depfiles_maybe =
CCLD = $(CC)
CFLAGS = @CFLAGS@
DIST_SOURCES = $(meme_p_SOURCES)
DIST_COMMON = Makefile.am Makefile.in
SOURCES = $(meme_p_SOURCES)

all: all-am

.SUFFIXES:
.SUFFIXES: .c .o .obj
$(srcdir)/Makefile.in:  Makefile.am  $(top_srcdir)/configure.ac $(ACLOCAL_M4)
	cd $(top_srcdir) && \
	  $(AUTOMAKE) --gnu  src/parallel/Makefile
Makefile:  $(srcdir)/Makefile.in  $(top_builddir)/config.status
	cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)
binPROGRAMS_INSTALL = $(INSTALL_PROGRAM)
install-binPROGRAMS: $(bin_PROGRAMS)
	@$(NORMAL_INSTALL)
	$(mkinstalldirs) $(DESTDIR)$(bindir)
	@list='$(bin_PROGRAMS)'; for p in $$list; do \
	  p1=`echo $$p|sed 's/$(EXEEXT)$$//'`; \
	  if test -f $$p \
	  ; then \
	    f=`echo "$$p1" | sed 's,^.*/,,;$(transform);s/$$/$(EXEEXT)/'`; \
	   echo " $(INSTALL_PROGRAM_ENV) $(binPROGRAMS_INSTALL) $$p $(DESTDIR)$(bindir)/$$f"; \
	   $(INSTALL_PROGRAM_ENV) $(binPROGRAMS_INSTALL) $$p $(DESTDIR)$(bindir)/$$f; \
	  else :; fi; \
	done

uninstall-binPROGRAMS:
	@$(NORMAL_UNINSTALL)
	@list='$(bin_PROGRAMS)'; for p in $$list; do \
	  f=`echo "$$p" | sed 's,^.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/'`; \
	  echo " rm -f $(DESTDIR)$(bindir)/$$f"; \
	  rm -f $(DESTDIR)$(bindir)/$$f; \
	done

clean-binPROGRAMS:
	-test -z "$(bin_PROGRAMS)" || rm -f $(bin_PROGRAMS)
background.$(OBJEXT): ../background.c
banner.$(OBJEXT): ../banner.c
clock.$(OBJEXT): ../clock.c
display.$(OBJEXT): ../display.c
discretize.$(OBJEXT): ../discretize.c
dpalign.$(OBJEXT): ../dpalign.c
em.$(OBJEXT): ../em.c
gamma.$(OBJEXT): ../gamma.c
hash.$(OBJEXT): ../hash.c
hash_alph.$(OBJEXT): ../hash_alph.c
init.$(OBJEXT): ../init.c
io.$(OBJEXT): ../io.c
justlike.$(OBJEXT): ../justlike.c
likelihood.$(OBJEXT): ../likelihood.c
llr.$(OBJEXT): ../llr.c
logs.$(OBJEXT): ../logs.c
logodds.$(OBJEXT): ../logodds.c
mast-util.$(OBJEXT): ../mast-util.c
meme.$(OBJEXT): ../meme.c
meme_util.$(OBJEXT): ../meme_util.c
message.$(OBJEXT): ../message.c
motifs.$(OBJEXT): ../motifs.c
mp.$(OBJEXT): ../mp.c
oops.$(OBJEXT): ../oops.c
prior.$(OBJEXT): ../prior.c
pssm-distr.$(OBJEXT): ../pssm-distr.c
read_seq_file.$(OBJEXT): ../read_seq_file.c
regress.$(OBJEXT): ../regress.c
seq2theta.$(OBJEXT): ../seq2theta.c
starts.$(OBJEXT): ../starts.c
subseq7.$(OBJEXT): ../subseq7.c
tcm.$(OBJEXT): ../tcm.c
meme_p$(EXEEXT): $(meme_p_OBJECTS) $(meme_p_DEPENDENCIES) 
	@rm -f meme_p$(EXEEXT)
	$(LINK) $(meme_p_LDFLAGS) $(meme_p_OBJECTS) $(meme_p_LDADD) $(LIBS)

mostlyclean-compile:
	-rm -f *.$(OBJEXT) core *.core

distclean-compile:
	-rm -f *.tab.c

.c.o:
	$(COMPILE) -c `test -f '$<' || echo '$(srcdir)/'`$<

.c.obj:
	$(COMPILE) -c `cygpath -w $<`

background.o: ../background.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o background.o `test -f '../background.c' || echo '$(srcdir)/'`../background.c

background.obj: ../background.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o background.obj `cygpath -w ../background.c`

banner.o: ../banner.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o banner.o `test -f '../banner.c' || echo '$(srcdir)/'`../banner.c

banner.obj: ../banner.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o banner.obj `cygpath -w ../banner.c`

clock.o: ../clock.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o clock.o `test -f '../clock.c' || echo '$(srcdir)/'`../clock.c

clock.obj: ../clock.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o clock.obj `cygpath -w ../clock.c`

display.o: ../display.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o display.o `test -f '../display.c' || echo '$(srcdir)/'`../display.c

display.obj: ../display.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o display.obj `cygpath -w ../display.c`

discretize.o: ../discretize.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o discretize.o `test -f '../discretize.c' || echo '$(srcdir)/'`../discretize.c

discretize.obj: ../discretize.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o discretize.obj `cygpath -w ../discretize.c`

dpalign.o: ../dpalign.c
	$(CC) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) $(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CFLAGS) $(CFLAGS) -c -o dpalign.o `test -f '../dpalign.c' || echo '$(srcdir)/'`../dpalign.c