Hmm, I forgot about --arch. As Simon said, you should be able to do it by
R --arch=x86_64 --no-multiarch CMD INSTALL
My guess is that you need --no-multiarch, but I cannot experiment with this
where I sit.
Kasper
On Jan 26, 2010, at 15:57 PM, Kasper Daniel Hansen wrote:
> On Jan 26, 2010, at 15:24 PM, cstrato wrote:
>
>> Dear Simon,
>>
>> Meanwhile I have tried to install xps:
>> $ R CMD INSTALL -l ~/Library/R/2.10/library xps_1.7.4.tar.gz
>> * installing *source* package 'xps' ...
>> checking for gcc... gcc-4.2 -arch i386 -std=gnu99
>> checking for C compiler default output file name... a.out
>> checking whether the C compiler works... yes
>> checking whether we are cross compiling... no
>> checking for suffix of executables...
>> checking for suffix of object files... o
>> checking whether we are using the GNU C compiler... yes
>> checking whether gcc-4.2 -arch i386 -std=gnu99 accepts -g... yes
>> checking for gcc-4.2 -arch i386 -std=gnu99 option to accept ANSI C... none
>> needed
>> checking how to run the C preprocessor... gcc-4.2 -arch i386 -std=gnu99 -E
>> checking for gcc... (cached) gcc-4.2 -arch i386 -std=gnu99
>> checking whether we are using the GNU C compiler... (cached) yes
>> checking whether gcc-4.2 -arch i386 -std=gnu99 accepts -g... (cached) yes
>> checking for gcc-4.2 -arch i386 -std=gnu99 option to accept ANSI C...
>> (cached) none needed
>> found ROOT version 5.24/00 in directory /Users/rabbitus/ROOT/root
>> ** libs
>> ** arch - i386
>>
>> As you can see it compiles using the wrong architecture:
>>> library(xps)
>> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>> unable to load shared library
>> '/Users/rabbitus/Library/R/2.10/library/xps/libs/i386/xps.so':
>> dlopen(/Users/rabbitus/Library/R/2.10/library/xps/libs/i386/xps.so, 6): no
>> suitable image found. Did find:
>> /Users/rabbitus/Library/R/2.10/library/xps/libs/i386/xps.so: mach-o,
>> but wrong architecture
>> Error: package/namespace load failed for 'xps'
>>>
>>
>> In my file "config.in" I have the following lines:
>> # See "Writing R Extensions"
>> : ${R_HOME=`R RHOME`}
>> if test -z "${R_HOME}"; then
>> echo "could not determine R_HOME"
>> exit 1
>> fi
>> CC=`"${R_HOME}/bin/R" CMD config CC`
>> CFLAGS=`"${R_HOME}/bin/R" CMD config CFLAGS`
>> AC_PROG_CPP
>> AC_PROG_CC
>>
>> Thus I assume that I need to use 64 bit R so that the flags are set
>> correctly. Is this correct?
>
> This is probably because you are using the CRAN binary which is a universal
> binary. Specifically this means that it will try to compile the package for
> all architectures, which will fail because ROOT is only installed for one of
> the architectures. This will happen for any package with C code you install
> from source, try picking your favorite R package with C code (say,
> preprocessCore), set options(pkgType = "source") and install it using
> biocLite. You will see several compilation runs.
>
> There are a hack to fix this, and there may be an official way to compile a
> package only for a specific architecture, which I don't know about.
>
> The hack: inside (this is for 2.11)
> /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/exec/
> you will see a list of subdirectories describing what architecture you have R
> compiled for. If you remove all the other architectures aside from x86_64 it
> might work. This might mess up your R.app though.
>
> Alternatively you could compile R from source, only for one architecture.
> This is what I do.
>
> Kasper
>
>
>> If yes, can I use:
>> http://r.research.att.com/R-GUI-5548-2.10-leopard-Leopard64.dmg
>> or do I need to build 64 bit R from source?
>>
>> Best regards
>> Christian
>>
>>
>> Simon Urbanek wrote:
>>> On Jan 25, 2010, at 5:34 PM, cstrato wrote:
>>>
>>>
>>>> Dear Simon,
>>>>
>>>> Thank you, with this version I could finally compile ROOT as 64 bit.
>>>>
>>>> Now I have one more question:
>>>> When I do "R CMD Install xps.tar.gz" which now depends on 64 bit ROOT, do
>>>> I need to install the 64 bit version of R or can I use the current R
>>>> version?
>>>>
>>>>
>>>
>>> I have no idea since I don't know your package. If you *link* to ROOT then
>>> yes, you have to use 64-bit R to load 64-bit code. (Linking in itself can
>>> be quite interesting given the flags ROOT uses, so your journey may not end
>>> there ;)).
>>>
>>> Cheers,
>>> Simon
>>>
>>>
>>>
>>>
>>>> Best regards
>>>> Christian
>>>>
>>>>
>>>> Simon Urbanek wrote:
>>>>
>>>>> On Jan 25, 2010, at 15:03 , cstrato wrote:
>>>>>
>>>>>
>>>>>> Dear Simon,
>>>>>>
>>>>>> Thank you for your suggestions, which I have just tried. Sadly the error
>>>>>> remains the same.
>>>>>>
>>>>>> The problem seems to be that for some reason
>>>>>> "gfortran-4.2-5564-darwin9.tar.gz" does not have a
>>>>>> "/usr/lib/gcc/i686-apple-darwin9/4.2.1/x86_64" directory containing
>>>>>> libgfortranbegin.a. For this reason the 64 bit version of
>>>>>> libgfortranbegin.a is not installed in the corresponding directory
>>>>>> x86_64 which contains only libgcc.a etc.
>>>>>>
>>>>>>
>>>>> Oh ... that's a surprise - it should be there, sorry. Ok, so please use
>>>>> the more recent 5566 build:
>>>>> http://r.research.att.com/tools/gfortran-4.2-5566-darwin9.tar.gz
>>>>>
>>>>> that one has the x86_64 files - I checked:
>>>>> ginaz:~$ curl -s -S
>>>>> http://r.research.att.com/tools/gfortran-4.2-5566-darwin9.tar.gz | tar
>>>>> fvtz - | grep gfortran.a
>>>>> -rw-r--r-- root/wheel 3592608 2008-12-24 14:51:33
>>>>> usr/lib/gcc/i686-apple-darwin9/4.2.1/libgfortran.a
>>>>> -rw-r--r-- root/wheel 3870032 2008-12-24 14:51:33
>>>>> usr/lib/gcc/powerpc-apple-darwin9/4.2.1/libgfortran.a
>>>>> -rw-r--r-- root/wheel 5002152 2008-12-24 14:51:33
>>>>> usr/lib/gcc/i686-apple-darwin9/4.2.1/x86_64/libgfortran.a
>>>>>
>>>>> (Ideally you should install Xcode 3.1.2 for this since that is where the
>>>>> 5566 build comes from, but it will probably work even if the builds don't
>>>>> match perfectly).
>>>>>
>>>>> Cheers,
>>>>> Simon
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>> You can see this by double-clicking on
>>>>>> "gfortran-4.2-5564-darwin9.tar.gz" when located in some directory.
>>>>>>
>>>>>> In contrast, "gfortran-4.2.3.dmg" did install libgfortranbegin.a in the
>>>>>> "/usr/local/lib/gcc/i686-apple-darwin9/4.2.1/x86_64" directory.
>>>>>>
>>>>>> Could you please check or tell me what the reason might be?
>>>>>>
>>>>>> I have installed it using:
>>>>>> $ gunzip gfortran-4.2-5564-darwin9.tar.gz
>>>>>> $ sudo tar -xvf gfortran-4.2-5564-darwin9.tar -C /
>>>>>>
>>>>>> Best regards
>>>>>> Christian
>>>>>>
>>>>>>
>>>>>> Simon Urbanek wrote:
>>>>>>
>>>>>>> On Jan 24, 2010, at 3:28 PM, cstrato wrote:
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> Dear Kasper,
>>>>>>>>
>>>>>>>> You are right. Since ROOT supports the CC, CXX, F77 and LD flags I did:
>>>>>>>> ./configure macosx64 --with-cxx="/usr/bin/g++-4.2 -arch x86_64"
>>>>>>>> --with-f77="/usr/bin/gfortran-4.2 -arch x86_64"
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>> You don't really need the override - it works without and they add -m64
>>>>>>> anyway so the -arch gets essentially ignored.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> The error was still the same:
>>>>>>>> i686-apple-darwin9-g++-4.2.1: libgfortran.dylib: No such file or
>>>>>>>> directory
>>>>>>>>
>>>>>>>> However, when I replaced in the Makefile.macosx64:
>>>>>>>> F77LIBS := $(shell $(F77) -m64 -print-file-name=libgfortran.dylib)
>>>>>>>> F77LIBS += $(shell $(F77) -m64
>>>>>>>> -print-file-name=libgfortranbegin.a)
>>>>>>>> with:
>>>>>>>> F77LIBS := $(shell $(F77) -m64
>>>>>>>> -print-file-name=libgfortranbegin.a)
>>>>>>>>
>>>>>>>>
>>>>>>> You found the right spot but your fix is wrong - just remove the two
>>>>>>> lines, they are superfluous and only cause trouble.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> the error disappeared, and I could finish the compilation.
>>>>>>>>
>>>>>>>> However, now I got a link-error:
>>>>>>>> ld warning: in
>>>>>>>> /usr/lib/gcc/i686-apple-darwin9/4.2.1/libgfortranbegin.a, file is not
>>>>>>>> of required architecture
>>>>>>>> Undefined symbols:
>>>>>>>> "_main", referenced from:
>>>>>>>> start in crt1.10.5.o
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>> Your'e getting the 32-bit version (of the wrong file - see above). It
>>>>>>> should really be ../4.2.1/x86_64/lib...
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> I am not sure what this error means since Makefile.macosx64 contains:
>>>>>>>> F77FLAGS = -m64 -std=legacy
>>>>>>>>
>>>>>>>> Could it be that libgfortranbegin.a can only be used for 32bit
>>>>>>>> compilation?
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>> No, you're picking the wrong one - there is one for each architecture.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> Furthermore, I still have the question (and hopefully Simon will
>>>>>>>> answer it):
>>>>>>>> Why does gfortran-4.2-5564-darwin9.tar.gz not contain any
>>>>>>>> libgfortran.dylib files?
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>> Because it's using a static library.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> Interestingly, when googling "/usr/lib/libgfortran.dylib" I get the
>>>>>>>> answer that NO results were found, while googling
>>>>>>>> "/usr/local/lib/libgfortran.dylib" gives many results. Thus it seems
>>>>>>>> that there will never be any libgfortran.dylib in "/usr/lib/"!?
>>>>>>>>
>>>>>>>>
>>>>>>> Nope - OS X has no Fortran by default.
>>>>>>>
>>>>>>> Cheers,
>>>>>>> Simon
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> I must admit that I do not understand this issue.
>>>>>>>>
>>>>>>>> Best regards
>>>>>>>> Christian
>>>>>>>>
>>>>>>>>
>>>>>>>> Kasper Daniel Hansen wrote:
>>>>>>>>
>>>>>>>>
>>>>>>>>> On Jan 23, 2010, at 8:37 AM, cstrato wrote:
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> Dear Kasper,
>>>>>>>>>>
>>>>>>>>>> Thank you for your suggestion, I did indeed use gcc 4.0.
>>>>>>>>>> Since gcc_select does no longer exist on Leopard I had to do:
>>>>>>>>>> cd /usr/bin
>>>>>>>>>> sudo ln -s gcc-4.2 gcc
>>>>>>>>>> sudo ln -s g++-4.2 g++
>>>>>>>>>> sudo ln -s gcov-4.2 gcov
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>> I am not sure this is advisable in general. When I compile stuff
>>>>>>>>> with gcc-4.2 I usually explicitly set
>>>>>>>>> CC=/usr/bin/gcc-4.2
>>>>>>>>> when I run configure. For example, my entire configure line for R on
>>>>>>>>> my macbook is
>>>>>>>>> ../${SRCDIR}/configure SHELL='/bin/bash' \
>>>>>>>>> CC="/usr/bin/gcc-4.2 -arch x86_64 -std=gnu99" \
>>>>>>>>> CFLAGS="-g -O2 -std=gnu99 -march=nocona" \
>>>>>>>>> CXX="/usr/bin/g++-4.2 -arch x86_64" \
>>>>>>>>> CXXFLAGS="-g -O2 -march=nocona" \
>>>>>>>>> OBJC="/usr/bin/gcc-4.2 -arch x86_64" \
>>>>>>>>> F77="/usr/bin/gfortran-4.2 -arch x86_64" \
>>>>>>>>> FFLAGS="-g -O2 -march=nocona" \
>>>>>>>>> FC="/usr/bin/gfortran-4.2 -arch x86_64" \
>>>>>>>>> FCFLAGS="-g -O2 -march=nocona" \
>>>>>>>>> --x-includes=/usr/X11/include --x-libraries=/usr/X11/lib \
>>>>>>>>> --with-system-zlib \
>>>>>>>>> --with-blas='-framework vecLib' --with-lapack
>>>>>>>>> Of course this requires that ROOT uses the CC/CFLAGS macros, but that
>>>>>>>>> should be pretty standard if it uses autoconf.
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> Sadly, compiling ROOT resulted still in the same error:
>>>>>>>>>> i686-apple-darwin9-g++-4.2.1: libgfortran.dylib: No such file or
>>>>>>>>>> directory
>>>>>>>>>>
>>>>>>>>>> When I check the location for gfortran-4.2.3.dmg I get:
>>>>>>>>>> $ cd /usr/local/lib/gcc/i686-apple-darwin8/4.2.3/../../../x86_64
>>>>>>>>>> $ ls -al
>>>>>>>>>> total 32
>>>>>>>>>> drwxrwxr-x 6 root wheel 204 Jan 21 20:26 .
>>>>>>>>>> drwxr-xr-x 35 root wheel 1190 Jan 21 20:26 ..
>>>>>>>>>> lrwxr-xr-x 1 root wheel 26 Jan 21 20:26
>>>>>>>>>> libgfortran.2.0.0.dylib -> ../libgfortran.2.0.0.dylib
>>>>>>>>>> lrwxr-xr-x 1 root wheel 23 Jan 21 20:26 libgfortran.2.dylib ->
>>>>>>>>>> libgfortran.2.0.0.dylib
>>>>>>>>>> lrwxr-xr-x 1 root wheel 16 Jan 21 20:26 libgfortran.a ->
>>>>>>>>>> ../libgfortran.a
>>>>>>>>>> lrwxr-xr-x 1 root wheel 23 Jan 21 20:26 libgfortran.dylib ->
>>>>>>>>>> libgfortran.2.0.0.dylib
>>>>>>>>>>
>>>>>>>>>> This means that /usr/local/bin does contain libgfortran.dylib
>>>>>>>>>> whereas /usr/bin does not contain any of these files or links.
>>>>>>>>>> Does this mean that gfortran-4.2.3.dmg does contain these file for
>>>>>>>>>> libgfortran.dylib while gfortran-4.2-5564-darwin9.tar.gz does not
>>>>>>>>>> contain these files?
>>>>>>>>>> How do I get libgfortran.dylib?
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>> Simon might be able to answer this better, but the general idea is
>>>>>>>>> that the
>>>>>>>>>
>>>>>>>>>> gfortran-4.2-5564-darwin9.tar.gz
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>> installs into /usr/bin
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> gfortran-4.2.3.dmg
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>> installs into /usr/local/bin. There is some logic here, the way I
>>>>>>>>> think about it is that the former is a direct extension of the Apple
>>>>>>>>> build.
>>>>>>>>>
>>>>>>>>> I would start from scratch, which means remove all traces of both
>>>>>>>>> gfortrans, install the 5564-tarball and then set the various macros
>>>>>>>>> as I have set it above for R (your exact values may of course be
>>>>>>>>> different depending on what machine etc. you are using).
>>>>>>>>>
>>>>>>>>> Kasper
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> BTW, I must apologize to Simon. On his website he lists the commands
>>>>>>>>>> how to install gfortran.tar.gz, but in the Tiger section, so I did
>>>>>>>>>> miss it. Nevertheless it would still be helpful for Mac users to
>>>>>>>>>> know how to uninstall it:
>>>>>>>>>> $ tar -tf gfortran.tar | sort -r | (cd /; xargs -p -n 1 rm -d)
>>>>>>>>>>
>>>>>>>>>> Best regards
>>>>>>>>>> Christian
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> Kasper Daniel Hansen wrote:
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>> Remember that Apple has two version of GCC on Leopard: 4.0 and 4.2.
>>>>>>>>>>> You are using 4.0, you might want to switch to 4.2. In Tiger
>>>>>>>>>>> there used to be gcc_select (or select_gcc) that let you choose
>>>>>>>>>>> between 3.x and 4.0, I don't remember if that is still around on
>>>>>>>>>>> Leopard.
>>>>>>>>>>>
>>>>>>>>>>> The error seems to indicate that you need 4.2 in order to use
>>>>>>>>>>> Simon's gfortran.
>>>>>>>>>>>
>>>>>>>>>>> Kasper
>>>>>>>>>>>
>>>>>>>>>>> On Jan 22, 2010, at 16:04 PM, cstrato wrote:
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>> Dear Simon,
>>>>>>>>>>>>
>>>>>>>>>>>> Thank you for this information.
>>>>>>>>>>>>
>>>>>>>>>>>> Now I have installed gfortran-4.2-5564-darwin9.tar.gz on Leopard
>>>>>>>>>>>> and tried to compile ROOT again, but this time I got the following
>>>>>>>>>>>> error:
>>>>>>>>>>>> g++ -dynamiclib -single_module -undefined dynamic_lookup
>>>>>>>>>>>> -install_name @rpath/libminicern.so -O2 -m64 -o lib/libminicern.so
>>>>>>>>>>>> misc/minicern/src/cernlib.o -ldl misc/minicern/src/hbook.o
>>>>>>>>>>>> misc/minicern/src/kernlib.o misc/minicern/src/zebra.o
>>>>>>>>>>>> libgfortran.dylib
>>>>>>>>>>>> /usr/lib/gcc/i686-apple-darwin9/4.2.1/libgfortranbegin.a
>>>>>>>>>>>> i686-apple-darwin9-g++-4.0.1: libgfortran.dylib: No such file or
>>>>>>>>>>>> directory
>>>>>>>>>>>>
>>>>>>>>>>>> I know that this is not necessarily an R-related question but I
>>>>>>>>>>>> would greatly appreciate your help if possible (at least it is a
>>>>>>>>>>>> Mac- and somehow a BioC-related question).
>>>>>>>>>>>>
>>>>>>>>>>>> When I have tried to compile ROOT with gfortran-4.2.3.dmg I got
>>>>>>>>>>>> the following error:
>>>>>>>>>>>> gfortran -O2 -m64 -o bin/g2root main/src/g2root.o -Llib
>>>>>>>>>>>> lib/libminicern.so
>>>>>>>>>>>> /usr/local/lib/gcc/i686-apple-darwin8/4.2.3/../../../x86_64/libgfortran.dylib
>>>>>>>>>>>>
>>>>>>>>>>>> /usr/local/lib/gcc/i686-apple-darwin8/4.2.3/x86_64/libgfortranbegin.a
>>>>>>>>>>>> -lm -Wl,-rpath,@loader_path/../lib -pthread -ldl
>>>>>>>>>>>> ld: -rpath can only be used when targeting Mac OS X 10.5 or later
>>>>>>>>>>>>
>>>>>>>>>>>> As you can see gfortran-4.2.3 could find libgfortran.dylib at:
>>>>>>>>>>>> /usr/local/lib/gcc/i686-apple-darwin8/4.2.3/../../../x86_64/libgfortran.dylib
>>>>>>>>>>>> while gfortran-4.2.4 could not find libgfortran.dylib.
>>>>>>>>>>>>
>>>>>>>>>>>> Thus maybe I did make a mistake when installing gfortran-4.2.4.
>>>>>>>>>>>> Here is what I did:
>>>>>>>>>>>> $ gunzip gfortran-4.2-5564-darwin9.tar.gz
>>>>>>>>>>>> $ sudo tar -xvf gfortran-4.2-5564-darwin9.tar -C /
>>>>>>>>>>>> $ sudo ln -s /usr/bin/gfortran-4.2 /usr/bin/gfortran
>>>>>>>>>>>>
>>>>>>>>>>>> Do you know what I need to do so that libgfortran.dylib can be
>>>>>>>>>>>> found?
>>>>>>>>>>>>
>>>>>>>>>>>> P.S.:Since many Mac users are no Unix experts please allow me to
>>>>>>>>>>>> suggest to place on your website the commands to install/uninstall
>>>>>>>>>>>> gfortran. I have found the following website, which told me how to
>>>>>>>>>>>> install gfortran and how I could uninstall it:
>>>>>>>>>>>> http://www.webmo.net/support/fortran_osx.html
>>>>>>>>>>>>
>>>>>>>>>>>> Thank you in advance.
>>>>>>>>>>>> Best regards
>>>>>>>>>>>> Christian
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> Simon Urbanek wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>> On Jan 21, 2010, at 15:56 , cstrato wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>> Dear Simon,
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> One more question:
>>>>>>>>>>>>>> I have just unzipped gfortran-4.2-5564-darwin9.tar.gz. The
>>>>>>>>>>>>>> version gives:
>>>>>>>>>>>>>> Using built-in specs.
>>>>>>>>>>>>>> Target: i686-apple-darwin9
>>>>>>>>>>>>>> Configured with: /Builds/gcc/gcc_42-5564/build/obj/src/configure
>>>>>>>>>>>>>> --disable-checking --enable-werror --prefix=/usr
>>>>>>>>>>>>>> --mandir=/usr/share/man
>>>>>>>>>>>>>> --enable-languages=c,objc,c++,obj-c++,fortran
>>>>>>>>>>>>>> --program-transform-name=/^[cg][^.-]*$/s/$/-4.2/
>>>>>>>>>>>>>> --with-gxx-include-dir=/usr/include/c++/4.0.0
>>>>>>>>>>>>>> --with-slibdir=/usr/lib --build=i686-apple-darwin9
>>>>>>>>>>>>>> --host=i686-apple-darwin9 --target=i686-apple-darwin9
>>>>>>>>>>>>>> Thread model: posix
>>>>>>>>>>>>>> gcc version 4.2.1 (Apple Inc. build 5564)
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> This means that this version seems to be older than the one I am
>>>>>>>>>>>>>> using now?
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>> No, that is GNU Fortran 4.2.4 that I was referring to. The "gcc
>>>>>>>>>>>>> version 4.2.1" comes from Apple's Xcode 3.1 gcc-4.2 branch since
>>>>>>>>>>>>> that is what they define - it just adds Fortran support to the
>>>>>>>>>>>>> existing gcc 4.2.1 branch of Apple that you installed as Xcode.
>>>>>>>>>>>>> However, the Fortran part is merged from the GNU Fortran 4.2.4
>>>>>>>>>>>>> release - hence I refer to it as 4.2.4.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Cheers,
>>>>>>>>>>>>> Simon
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>> Simon Urbanek wrote:
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> On Jan 21, 2010, at 14:47 , cstrato wrote:
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> Dear all,
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> I have the following problem:
>>>>>>>>>>>>>>>> My Bioconductor package xps requires both R and ROOT, whereby
>>>>>>>>>>>>>>>> I compile ROOT usually from source. Until now this has not
>>>>>>>>>>>>>>>> been a problem since I do all my development on Tiger.
>>>>>>>>>>>>>>>> However, now I wanted to compile ROOT on Leopard but failed
>>>>>>>>>>>>>>>> since my gfortran compiler is too old, see:
>>>>>>>>>>>>>>>> http://root.cern.ch/phpBB2/viewtopic.php?t=9721&sid=003b01ddb64f33dbe0c74651ee089c34
>>>>>>>>>>>>>>>> To solve the problem I should upgrade to the latest version
>>>>>>>>>>>>>>>> coming with gcc-4.4 in Fink.
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> I would advise against that - using gcc from Fink usually calls
>>>>>>>>>>>>>>> for a disaster. The real solution is to fix their flags, but
>>>>>>>>>>>>>>> that's another story ...
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> Thus my question is:
>>>>>>>>>>>>>>>> Can I also use this version for R or do I need to use the
>>>>>>>>>>>>>>>> version downloaded from att?
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> I would recommend using the Leopard gfortran 4.2.4 for Xcode
>>>>>>>>>>>>>>> 3.1.x from the Mac devel page
>>>>>>>>>>>>>>> http://r.research.att.com/tools/
>>>>>>>>>>>>>>> which I assume is what you meant by the latter.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Cheers,
>>>>>>>>>>>>>>> Simon
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>> R-SIG-Mac mailing list
>>>>>>>>>>>> R-SIG-Mac@stat.math.ethz.ch
>>>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>
>>>>>
>>>>
>>>
>>>
>>>
>
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