[R-SIG-Mac] Which gfortran for Leopard?

Simon Urbanek simon.urbanek at r-project.org
Tue Jan 26 21:53:32 CET 2010 

On Jan 26, 2010, at 15:24 , 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:

Well, you're running the wrong architecture ... As I said when you  
want to link, you have to use 64-bit.


> > 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?
>

You have to use 64-bit R if you want to link to a 64-bit program - as  
I said.


> 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?
>

Neither - just pick it from CRAN - it's the first download in the  
list. Note that you still have to run 64-bit R -- e.g. R --arch=x86_64

Cheers,
Simon



>
>
> 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, at 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 at stat.math.ethz.ch
>>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>
>>>>>>
>>>>>
>>>>
>>>
>>
>>
>>
>
>

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