If it helps at all I had the exact same error installing Rcpp v0.8.1 (the
package from CRAN).  My setup: gcc 4.3 (g++-mp-4.3 macports version), os
10.5.8, using R 2.11 (macports version).  The solution was to reinstall
macports, use v0.8.3 and everything worked fine.





On Tue, Jul 13, 2010 at 12:04 PM, Ken Knoblauch <ken.knoblauch@inserm.fr>wrote:

> 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@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@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@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@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
>
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac@stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>



-- 
Conrad Stack
-----------------------
PSU Department of Biology
208 Mueller Lab
University Park, PA 16802
cell: 814.409.8310
email: conrad.stack@gmail.com

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