[R-SIG-Mac] Rcpp 0.8.3 on Mac OS X 10.5.8

Ken Knoblauch ken.knoblauch at inserm.fr
Tue Jul 13 18:04:36 CEST 2010 

Hi Simon,

The information wasn't in the mail that he forwarded but
I had communicated it in a previous mail. Sorry.

[Macintosh-83:~] knoblauch% gcc --version
i686-apple-darwin9-gcc-4.2.1 (GCC) 4.2.1 (Apple Inc. build 5577)

[Macintosh-83:~] knoblauch% uname -r
9.8.0


I'm currently working with Mac OS X 10.5.8 and have Xcode 3.1.4.

Also,

Macintosh-83:~] knoblauch% gfortran --version
GNU Fortran (GCC) 4.2.3
Copyright (C) 2007 Free Software Foundation, Inc.

if that is of use.

I'll give reinstalling Xcode a try.  I hadn't thought of
that.  Thanks.

Ken

Quoting Simon Urbanek <simon.urbanek at r-project.org>:

>
> On Jul 13, 2010, at 8:13 AM, Ken Knoblauch wrote:
>
>> Thanks.  I'm in mode d'attente...
>>
>
> I did not see the exact OS version mentioned anywhere but as Romain   
> pointed out it's working just fine on OS X 10.5.8 with gcc 5577:
>
> hagal:~$ gcc --version
> i686-apple-darwin9-gcc-4.2.1 (GCC) 4.2.1 (Apple Inc. build 5577)
> Copyright (C) 2007 Free Software Foundation, Inc.
> This is free software; see the source for copying conditions.  There is NO
> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>
> hagal:~$ uname -r
> 9.8.0
>
>
> [...]
> * installing *source* package 'Rcpp' ...
> ** libs
> *** arch - i386
> g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include   
> -I/Library/Frameworks/R.framework/Resources/include/i386   
> -I../inst/include/ -I/usr/local/include    -fPIC  -g -O2 -c Date.cpp  
>  -o Date.o
> g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include   
> -I/Library/Frameworks/R.framework/Resources/include/i386   
> -I../inst/include/ -I/usr/local/include    -fPIC  -g -O2 -c   
> DateVector.cpp -o DateVector.o
> g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include   
> -I/Library/Frameworks/R.framework/Resources/include/i386   
> -I../inst/include/ -I/usr/local/include    -fPIC  -g -O2 -c   
> Datetime.cpp -o Datetime.o
> [...]
>
> So my only advice really is to re-install Xcode...
>
> Cheers,
> Simon
>
>
>>
>> Quoting Romain Francois <romain.francois at dbmail.com>:
>>
>>>
>>> Le 13/07/10 13:59, Ken Knoblauch a écrit :
>>>> Salut Romain,
>>>>
>>>> Thanks for your rapid response. Toujours pas de chance.
>>>>
>>>> Just for verification, my gcc
>>>>
>>>> [Macintosh-83:~] knoblauch% gcc --version
>>>> i686-apple-darwin9-gcc-4.2.1 (GCC) 4.2.1 (Apple Inc. build 5577)
>>>> Copyright (C) 2007 Free Software Foundation, Inc.
>>>> This is free software; see the source for copying conditions. There is NO
>>>> warranty; not even for MERCHANTABILITY or FITNESS FOR A   
>>>> PARTICULAR PURPOSE.
>>>
>>> IIRC, this is the version (both OS and compiler version) that is used
>>> on CRAN so there is nothing fundamentally wrong about these.
>>>
>>> I'm cc'ing the r-sig-mac mailing list where people might have more
>>> clues, as I am afraid I'm short :-(
>>>
>>> Romain
>>>
>>>> [Macintosh-83:~] knoblauch% svn checkout
>>>> svn://svn.r-forge.r-project.org/svnroot/rcpp/pkg
>>>> A pkg/RcppExamples
>>>> ...
>>>>
>>>> [Macintosh-83:~] knoblauch% cd pkg
>>>> [Macintosh-83:~/pkg] knoblauch% R CMD INSTALL -l
>>>> ~/Library/R/2.11/library/ Rcpp
>>>> * installing *source* package ‘Rcpp’ ...
>>>> ** libs
>>>> *** arch - i386
>>>> g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include
>>>> -I/Library/Frameworks/R.framework/Resources/include/i386
>>>> -I../inst/include/ -I/usr/local/include -fPIC -g -O2 -c Date.cpp -o Date.o
>>>> ../inst/include/Rcpp/internal/export.h: In function 'void
>>>> Rcpp::internal::export_range__dispatch(SEXPREC*, InputIterator,
>>>> Rcpp::traits::r_type_primitive_tag)':
>>>> ../inst/include/Rcpp/internal/export.h:56: internal compiler error: Bus
>>>> error
>>>> Please submit a full bug report,
>>>> with preprocessed source if appropriate.
>>>> See <URL:http://developer.apple.com/bugreporter> for instructions.
>>>> make: *** [Date.o] Error 1
>>>> ERROR: compilation failed for package ‘Rcpp’
>>>> * removing ‘/Users/knoblauch/Library/R/2.11/library/Rcpp’
>>>> * restoring previous ‘/Users/knoblauch/Library/R/2.11/library/Rcpp’
>>>>
>>>> So, still the same problem. Could this be a Leopard vs Snow Leopard
>>>> problem?
>>>>
>>>> Thanks.
>>>>
>>>> best,
>>>>
>>>> Ken
>>>>
>>>> PS, I'll subscribe shortly, but went ahead and tried your
>>>> suggestion first.
>>>>
>>>>
>>>>
>>>>
>>>> Quoting Romain Francois <romain at r-enthusiasts.com>:
>>>>
>>>>> Bonjour Ken,
>>>>>
>>>>> We usually encourage people to use the mailing list (cc'ed) rather than
>>>>> the maintainer address (you would need to subsribe first)
>>>>> http://lists.r-forge.r-project.org/mailman/listinfo/rcpp-devel
>>>>>
>>>>> I think this was fixed and the version 0.8.4 is on CRAN incoming.
>>>>>
>>>>> Could you try the svn version and let us know if it compiles fine, it
>>>>> certainly does for me on Snow Leopard.
>>>>>
>>>>> $ svn checkout svn://svn.r-forge.r-project.org/svnroot/rcpp/pkg
>>>>> $ R CMD INSTALL Rcpp
>>>>>
>>>>> Thanks for your interest in Rcpp.
>>>>>
>>>>> FWIW, my version of gcc (on snow leopard) is:
>>>>>
>>>>> $ gcc --version
>>>>> i686-apple-darwin10-gcc-4.2.1 (GCC) 4.2.1 (Apple Inc. build 5659)
>>>>> Copyright (C) 2007 Free Software Foundation, Inc.
>>>>> This is free software; see the source for copying conditions. There is NO
>>>>> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR
>>>>> PURPOSE.
>>>>>
>>>>> ... time passes ...
>>>>>
>>>>> Now this does sound familiar and I think we have seen some similar
>>>>> errors when Rcpp was inadvertently built with gcc 4.0 on CRAN
>>>>>
>>>>> Romain
>>>>>
>>>>> Le 13/07/10 13:38, Ken Knoblauch a écrit :
>>>>>> Hi,
>>>>>>
>>>>>> I'm wondering if you can provide any suggestions for installing
>>>>>> Rcpp on Mac or whether I should await the appearance of a binary?
>>>>>>
>>>>>> This is the error message that I get:
>>>>>>
>>>>>> R CMD INSTALL --no-multiarch -l ~/Library/R/2.11/library/
>>>>>> Rcpp_0.8.3.tar.gz
>>>>>> * installing *source* package ‘Rcpp’ ...
>>>>>> ** libs
>>>>>> *** arch - i386
>>>>>> g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include
>>>>>> -I/Library/Frameworks/R.framework/Resources/include/i386
>>>>>> -I../inst/include/ -I/usr/local/include -fPIC -g -O2 -c Date.cpp -o
>>>>>> Date.o
>>>>>> ../inst/include/Rcpp/internal/export.h: In function 'void
>>>>>> Rcpp::internal::export_range__dispatch(SEXPREC*, InputIterator,
>>>>>> Rcpp::traits::r_type_primitive_tag)':
>>>>>> ../inst/include/Rcpp/internal/export.h:56: internal compiler error: Bus
>>>>>> error
>>>>>> Please submit a full bug report,
>>>>>> with preprocessed source if appropriate.
>>>>>> See <URL:http://developer.apple.com/bugreporter> for instructions.
>>>>>> make: *** [Date.o] Error 1
>>>>>> ERROR: compilation failed for package ‘Rcpp’
>>>>>> * removing ‘/Users/knoblauch/Library/R/2.11/library/Rcpp’
>>>>>> * restoring previous ‘/Users/knoblauch/Library/R/2.11/library/Rcpp’
>>>>>>
>>>>>> Is this a question of having the right compiler or ???
>>>>>>
>>>>>> I did this from the command line but my sessionInfo is:
>>>>>> R version 2.11.1 Patched (2010-07-09 r52501)
>>>>>> i386-apple-darwin9.8.0
>>>>>>
>>>>>> locale:
>>>>>> [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>>>>>>
>>>>>> attached base packages:
>>>>>> [1] stats graphics grDevices utils datasets methods
>>>>>> [7] base
>>>>>>
>>>>>> I don't have problems compiling any other packages from source except
>>>>>> lme4a, so I would be greatful for any guidance.
>>>>>>
>>>>>> Thanks.
>>>>>>
>>>>>> Best,
>>>>>>
>>>>>> Ken
>>>
>>>
>>>
>>> --
>>> Romain Francois
>>> Professional R Enthusiast
>>> +33(0) 6 28 91 30 30
>>> http://romainfrancois.blog.free.fr
>>> |- http://bit.ly/bc8jNi : Rcpp 0.8.4
>>> |- http://bit.ly/dz0RlX : bibtex 0.2-1
>>> `- http://bit.ly/a5CK2h : Les estivales 2010
>>
>>
>>
>> --
>> Ken Knoblauch
>> Inserm U846
>> Stem-cell and Brain Research Institute
>> Department of Integrative Neurosciences
>> 18 avenue du Doyen Lépine
>> 69500 Bron
>> France
>> tel: +33 (0)4 72 91 34 77
>> fax: +33 (0)4 72 91 34 61
>> portable: +33 (0)6 84 10 64 10
>> http://www.sbri.fr/members/kenneth-knoblauch.html
>>
>> _______________________________________________
>> R-SIG-Mac mailing list
>> R-SIG-Mac at stat.math.ethz.ch
>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
>



-- 
Ken Knoblauch
Inserm U846
Stem-cell and Brain Research Institute
Department of Integrative Neurosciences
18 avenue du Doyen Lépine
69500 Bron
France
tel: +33 (0)4 72 91 34 77
fax: +33 (0)4 72 91 34 61
portable: +33 (0)6 84 10 64 10
http://www.sbri.fr/members/kenneth-knoblauch.html

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