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Dear Scott,
please find attached to this email a more recent Makefile (to be put in
the src directory of the SPM5 distribution) that should handle R2008a
Beta for 64-bit Intel-Based Mac.
To compile, you need to type the following:
export MACI64=1
make && make install
Best regards,
Guillaume.
Scott Ziegler wrote:
> Has anyone had any success compiling the SPM5 tool set on the Intel MAC
> using Matlab 64 Beta?
--
Guillaume Flandin, PhD
Wellcome Trust Centre for Neuroimaging
University College London
12 Queen Square
London WC1N 3BG
#!/usr/bin/env make -f
# General Makefile to compile SPM C-MEX files
#
# Copyright (C) 2005 Wellcome Department of Imaging Neuroscience
#
# $Id: Makefile 1962 2008-07-28 15:40:56Z guillaume $
#
###############################################################################
#
# This Makefile has been tested under Linux, SunOS and Windows (at the FIL).
#
# If you have to tweak this Makefile to compile the SPM mex-files for your
# platform, please send the details to <[log in to unmask]> so they
# can be included here.
#
# You can specify a particular platform with the following syntax:
# make PLATFORM=Your_Platform
# The standard targets are 'all', 'clean', 'distclean' and 'install'.
#
# For a list of compatible compilers, see
# http://www.mathworks.com/support/tech-notes/1600/1601.html
#
###############################################################################
SHELL = /bin/sh
MEX_BIN = mex
MEXOPTS = -O
MEXEND =
CC = cc
CFLAGS =
MOSUF = o # mex output object suffix
CHMODIT = chmod 644
ADDED_OBS =
AR = ar rcs
RANLIB = ranlib
COPY = cp -f
DEL = rm -f
MOVE = mv -f
ifndef SUF
ifndef PLATFORM
PLATFORM = $(shell uname)
endif
ifeq (SunOS,$(PLATFORM))
SUF = mexsol
CFLAGS = -xO5 -DBIGENDIAN
MEXOPTS = COPTIMFLAGS='-xO5 -DBIGENDIAN'
endif
ifeq (SunOS.gcc,$(PLATFORM))
# See http://en.wikibooks.org/wiki/SPM-Installation_on_SunOS
SUF = mexsol
CC = gcc
CFLAGS = -O3 -funroll-loops -DBIGENDIAN -fPIC
MEXOPTS = COPTIMFLAGS='-O3 -funroll-loops -DBIGENDIAN'
endif
ifeq (SunOS64.gcc,$(PLATFORM))
# Added mexs64 filename extension (as R2007a requires) and -m64 compiler option
SUF = mexs64
CC = gcc
CFLAGS = -m64 -O3 -funroll-loops -DBIGENDIAN -fPIC
MEXOPTS = COPTIMFLAGS='-O3 -funroll-loops -DBIGENDIAN'
endif
ifeq (Linux,$(PLATFORM))
# 'uname -i' may not work
HARDWARE = $(shell uname -m)
ifeq (i386,$(HARDWARE))
SUF = mexglx
CC = gcc
CFLAGS = -O3 -funroll-loops -fPIC -fexceptions
MEXOPTS = COPTIMFLAGS='-O3 -funroll-loops -fexceptions'
endif
ifeq (i686,$(HARDWARE))
SUF = mexglx
CC = gcc
CFLAGS = -O3 -funroll-loops -fPIC -fexceptions
MEXOPTS = COPTIMFLAGS='-O3 -funroll-loops -fexceptions'
endif
ifeq (x86_64,$(HARDWARE))
# See http://en.wikibooks.org/wiki/SPM-Installation_on_64bit_Linux
SUF = mexa64
CC = gcc
# The '-fPIC' option is necessary to allow the linking process to complete.
# '-march=x86-64' provides generic optimisations for both Opteron and 64bit Xeon.
# If the code is running on a 64bit Xeon you can change '-march=x86-64' to
# '-march=nocona', when running on an Opteron, change it to '-march=opteron'.
# Also possibly use '-march=k8' for 64 bit Athlon.
CFLAGS = -O3 -funroll-loops -fPIC -march=x86-64 -mfpmath=sse
MEXOPTS = COPTIMFLAGS='-O3 -funroll-loops -fPIC -march=x86-64 -mfpmath=sse'
endif
ifndef SUF
$(error Unknowm platform $(PLATFORM)-$(HARDWARE))
endif
endif
ifeq (HP-UX,$(PLATFORM))
SUF = mexphux
CFLAGS = -O +z -Ae +DAportable -DBIGENDIAN
MEXOPTS = -O -DBIGENDIAN
endif
ifeq (Darwin,$(PLATFORM))
# See http://en.wikibooks.org/wiki/SPM-Installation_on_Mac_OS
#
# Patch for gcc 3.x with Matlab 6.5 and 6.5.1 on Mac OS X:
# http://www.mathworks.com/support/solutions/data/1-1BEIS.html?solution=1-1BEIS
HARDWARE = $(shell uname -p)
ifeq (i386,$(HARDWARE))
ifeq (1,$(MACI64))
SUF = mexmaci64
CFLAGS = -O3 -funroll-loops -fPIC -m64
MEXOPTS = COPTIMFLAGS='-O3 -funroll-loops -fPIC -m64'
else
SUF = mexmaci
CFLAGS =
MEXOPTS = -O
endif
endif
ifeq (powerpc,$(HARDWARE))
SUF = mexmac
CFLAGS = -DBIGENDIAN
MEXOPTS = -O -DBIGENDIAN
endif
endif
# See Matthew Brett's web page on mex files for Windows:
# http://gnumex.sourceforge.net/
#
# New extension .mexw32 for MEX-files on 32-bit versions of Windows in Matlab 7.1:
# http://www.mathworks.com/access/helpdesk/help/techdoc/rn/r14sp3_external_upgrade.html
ifeq (windows,$(PLATFORM))
# Assume a Cygwin/MinGW Windows compilation
override PLATFORM = CYGWIN
endif
ifeq (MINGW32,$(word 1,$(subst _, ,$(PLATFORM))))
# MinGW (Minimalist GNU for Windows) can be obtained from:
# http://www.mingw.org/
# Packages required are mingw-runtime, w32api, binutils, gcc-core and mingw32-make
SUF = dll
SUF = mexw32
CC = gcc
CFLAGS = -O3 -funroll-loops -DSPM_WIN32
MEX_BIN = cmd /c "mex.bat
MEXOPTS = -O -DSPM_WIN32
MEXEND = "
MOSUF = obj
CHMODIT = chmod 755
endif
ifeq (CYGWIN,$(word 1,$(subst _, ,$(PLATFORM))))
# Cygwin packages can be obtained from:
# http://www.cygwin.com/
# (install the Default configuration, along with the gcc C compiler,
# and make from the "Devel" options)
SUF = dll
SUF = mexw32
CC = gcc
# Consider adding either of the following, depending on your platform:
# -march=pentium3
# -march=pentium4
# Consider also: -mfpmath=sse and: -mno-cygwin
CFLAGS = -mno-cygwin -O3 -funroll-loops -DSPM_WIN32
MEX_BIN = mex.bat
MEXOPTS = -O -DSPM_WIN32
MOSUF = obj
CHMODIT = chmod 755
endif
ifndef SUF
$(error Unknowm platform $(PLATFORM))
endif
endif
MEX = $(MEX_BIN) $(MEXOPTS)
###############################################################################
# Objects to go in the archive and mexfiles
###############################################################################
OBS =\
utils_uchar.$(SUF).o utils_short.$(SUF).o utils_int.$(SUF).o \
utils_schar.$(SUF).o utils_ushort.$(SUF).o utils_uint.$(SUF).o\
utils_float.$(SUF).o utils_double.$(SUF).o\
utils_short_s.$(SUF).o utils_int_s.$(SUF).o\
utils_ushort_s.$(SUF).o utils_uint_s.$(SUF).o\
utils_float_s.$(SUF).o utils_double_s.$(SUF).o\
spm_make_lookup.$(SUF).o spm_getdata.$(SUF).o spm_vol_access.$(SUF).o\
spm_mapping.$(SUF).o $(ADDED_OBS)
SPMMEX =\
spm_sample_vol.$(SUF) spm_slice_vol.$(SUF) spm_brainwarp.$(SUF)\
spm_add.$(SUF) spm_conv_vol.$(SUF) spm_render_vol.$(SUF)\
spm_global.$(SUF) spm_resels_vol.$(SUF)\
spm_bsplinc.$(SUF) spm_bsplins.$(SUF) spm_bias_mex.$(SUF)\
spm_atranspa.$(SUF) spm_unlink.$(SUF) spm_hist.$(SUF)\
spm_krutil.$(SUF) spm_project.$(SUF) spm_hist2.$(SUF)\
spm_dilate_erode.$(SUF) spm_bwlabel.$(SUF) spm_get_lm.$(SUF)\
spm_digamma.$(SUF) mat2file.$(SUF) file2mat.$(SUF)\
spm_invdef.$(SUF)
###############################################################################
# The main ways to run make
###############################################################################
all: verb.$(SUF) $(SPMMEX)
@ echo "_____________________________________________________________"
@ echo ""
@ echo " FINISHED"
@ echo "_____________________________________________________________"
@ echo ""
clean:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Deleting object (.o) files"
@ echo "_____________________________________________________________"
@ echo ""
$(DEL) $(OBS)
distclean: clean
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Deleting mex and archive (.a) files"
@ echo "_____________________________________________________________"
@ echo ""
$(DEL) $(SPMMEX) spm_vol_utils.$(SUF).a
archive: spm_vol_utils.$(SUF).a
install: $(SPMMEX)
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Installing mex files"
@ echo "_____________________________________________________________"
@ echo ""
$(COPY) $(SPMMEX) ..
###############################################################################
# Compile spm_vol_utils.c with various flags
###############################################################################
spm_vol_utils.$(SUF).a: $(OBS)
$(DEL) $@
$(AR) $@ $(OBS)
@ $(CHMODIT) $@
UTILS = spm_vol_utils.c spm_make_lookup.h spm_getdata.h
utils_uchar.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_UNSIGNED_CHAR
@ $(CHMODIT) $@
utils_short.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_SIGNED_SHORT
@ $(CHMODIT) $@
utils_int.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_SIGNED_INT
@ $(CHMODIT) $@
utils_schar.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_SIGNED_CHAR
@ $(CHMODIT) $@
utils_ushort.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_UNSIGNED_SHORT
@ $(CHMODIT) $@
utils_uint.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_UNSIGNED_INT
@ $(CHMODIT) $@
utils_float.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_FLOAT
@ $(CHMODIT) $@
utils_double.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_DOUBLE
@ $(CHMODIT) $@
utils_short_s.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_SIGNED_SHORT -DSPM_BYTESWAP
@ $(CHMODIT) $@
utils_int_s.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_SIGNED_INT -DSPM_BYTESWAP
@ $(CHMODIT) $@
utils_ushort_s.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_UNSIGNED_SHORT -DSPM_BYTESWAP
@ $(CHMODIT) $@
utils_uint_s.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_UNSIGNED_INT -DSPM_BYTESWAP
@ $(CHMODIT) $@
utils_float_s.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_FLOAT -DSPM_BYTESWAP
@ $(CHMODIT) $@
utils_double_s.$(SUF).o: $(UTILS)
$(CC) -c $(CFLAGS) -o $@ spm_vol_utils.c -DSPM_DOUBLE -DSPM_BYTESWAP
@ $(CHMODIT) $@
###############################################################################
# Compile a few additional C routines for linking
###############################################################################
%.$(SUF).o : %.c
$(CC) -c $(CFLAGS) -o $@ $<
@ $(CHMODIT) $@
spm_getdata.$(SUF).o: spm_getdata.c spm_getdata.h
$(CC) -c $(CFLAGS) -o $@ spm_getdata.c
@ $(CHMODIT) $@
spm_vol_access.$(SUF).o: spm_vol_access.c spm_vol_access.h spm_datatypes.h
$(CC) -c $(CFLAGS) -o $@ spm_vol_access.c
@ $(CHMODIT) $@
spm_make_lookup.$(SUF).o: spm_make_lookup.c spm_make_lookup.h
$(CC) -c $(CFLAGS) -o $@ spm_make_lookup.c
@ $(CHMODIT) $@
spm_mapping.$(SUF).o: spm_mapping.c spm_mapping.h spm_vol_access.h spm_datatypes.h
$(MEX) -c spm_mapping.c $(MEXEND)
$(MOVE) spm_mapping.$(MOSUF) $@
@ $(CHMODIT) $@
###############################################################################
# Compile the mex files themselves
###############################################################################
%.$(SUF) : %.c
$(MEX) $< $(MEXEND)
@ $(CHMODIT) $@
spm_add.$(SUF): spm_add.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_add.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_bias_mex.$(SUF): spm_bias_mex.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_datatypes.h
$(MEX) spm_bias_mex.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_brainwarp.$(SUF): spm_brainwarp.c spm_matfuns.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_brainwarp.c spm_vol_utils.$(SUF).a spm_matfuns.c $(MEXEND)
@ $(CHMODIT) $@
spm_bsplinc.$(SUF): spm_bsplinc.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_bsplinc.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_conv_vol.$(SUF): spm_conv_vol.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h spm_datatypes.h
$(MEX) spm_conv_vol.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_global.$(SUF): spm_global.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_global.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_render_vol.$(SUF): spm_render_vol.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_render_vol.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_resels_vol.$(SUF): spm_resels_vol.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_resels_vol.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_sample_vol.$(SUF): spm_sample_vol.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_sample_vol.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
spm_slice_vol.$(SUF): spm_slice_vol.c spm_vol_utils.$(SUF).a\
spm_mapping.h spm_vol_access.h
$(MEX) spm_slice_vol.c spm_vol_utils.$(SUF).a $(MEXEND)
@ $(CHMODIT) $@
file2mat.$(SUF): file2mat.c
$(MEX) file2mat.c $(MEXEND)
@ $(CHMODIT) $@
mat2file.$(SUF): mat2file.c
$(MEX) mat2file.c $(MEXEND)
@ $(CHMODIT) $@
spm_atranspa.$(SUF): spm_atranspa.c
$(MEX) spm_atranspa.c $(MEXEND)
@ $(CHMODIT) $@
spm_bsplins.$(SUF): spm_bsplins.c
$(MEX) spm_bsplins.c $(MEXEND)
@ $(CHMODIT) $@
spm_bwlabel.$(SUF): spm_bwlabel.c
$(MEX) spm_bwlabel.c $(MEXEND)
@ $(CHMODIT) $@
spm_digamma.$(SUF): spm_digamma.c
$(MEX) spm_digamma.c $(MEXEND)
@ $(CHMODIT) $@
spm_dilate_erode.$(SUF): spm_dilate_erode.c
$(MEX) spm_dilate_erode.c $(MEXEND)
@ $(CHMODIT) $@
spm_get_lm.$(SUF): spm_get_lm.c
$(MEX) spm_get_lm.c $(MEXEND)
@ $(CHMODIT) $@
spm_hist.$(SUF): spm_hist.c
$(MEX) spm_hist.c $(MEXEND)
@ $(CHMODIT) $@
spm_hist2.$(SUF): spm_hist2.c
$(MEX) spm_hist2.c $(MEXEND)
@ $(CHMODIT) $@
spm_invdef.$(SUF): spm_invdef.c
$(MEX) spm_invdef.c $(MEXEND)
@ $(CHMODIT) $@
spm_krutil.$(SUF): spm_krutil.c
$(MEX) spm_krutil.c $(MEXEND)
@ $(CHMODIT) $@
spm_project.$(SUF): spm_project.c
$(MEX) spm_project.c $(MEXEND)
@ $(CHMODIT) $@
spm_unlink.$(SUF): spm_unlink.c
$(MEX) spm_unlink.c $(MEXEND)
@ $(CHMODIT) $@
###############################################################################
# Assorted architecture dependent messages
###############################################################################
verb.dll verb.mexw32:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Windows compilation - using $(CC)/`uname`"
@ echo " see http://gnumex.sourceforge.net/"
@ echo "_____________________________________________________________"
@ echo ""
verb.mexglx:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Linux compilation (x86-32) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
verb.mexa64:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Linux compilation (x86-64) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
verb.mexmac:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Unix compilation (MacOS X, PowerPC) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
verb.mexmaci:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Unix compilation (MacOS X, Intel) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
verb.mexmaci64:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Unix compilation (MacOS X, Intel 64 bit) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
verb.mexsol:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Unix compilation (Solaris) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
verb.mexs64:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Unix compilation (Solaris 64 bit) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
verb.hpux:
@ echo "_____________________________________________________________"
@ echo ""
@ echo " Unix compilation (HP-UX) - using $(CC)"
@ echo "_____________________________________________________________"
@ echo ""
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