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 ""