Anyway, I suspect from your error message that you are using 10.6-i386. The R
environment, on the other hand, is making calls to gcc with no arch flag so it
defaults to x86_64, and your libraries are not compatible with that...
-- Dave
On Sep 27, 2010, at 9:43 PM, David R. Morrison wrote:
> Are you using the i386 or x86_64 architecture of fink?
>
> On Sep 27, 2010, at 9:35 PM, BABA Yoshihiko wrote:
>
>> Hi all,
>>
>> I installed r-base, then tried to install its packages inside R environment,
>> with the error below. The binary version of R didn't have such error. Would
>> it be Fink's problem?
>>
>>
>>
>>
>> R version 2.11.0 (2010-04-22)
>> Copyright (C) 2010 The R Foundation for Statistical Computing
>> ISBN 3-900051-07-0
>>
>> R is free software and comes with ABSOLUTELY NO WARRANTY.
>> You are welcome to redistribute it under certain conditions.
>> Type 'license()' or 'licence()' for distribution details.
>>
>> Natural language support but running in an English locale
>>
>> R is a collaborative project with many contributors.
>> Type 'contributors()' for more information and
>> 'citation()' on how to cite R or R packages in publications.
>>
>> Type 'demo()' for some demos, 'help()' for on-line help, or
>> 'help.start()' for an HTML browser interface to help.
>> Type 'q()' to quit R.
>>
>> > install.packages("sp")
>> --- Please select a CRAN mirror for use in this session ---
>> Loading Tcl/Tk interface ... done
>> trying URL 'http://essrc.hyogo-u.ac.jp/cran/src/contrib/sp_0.9-69.tar.gz'
>> Content type 'application/x-gzip' length 536637 bytes (524 Kb)
>> opened URL
>> ==================================================
>> downloaded 524 Kb
>>
>> * installing *source* package ‘sp’ ...
>> ** libs
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c Rcentroid.c -o Rcentroid.o
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c gcdist.c -o gcdist.o
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c init.c -o init.o
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c pip.c -o pip.o
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c pip2.c -o pip2.o
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c sp_xports.c -o sp_xports.o
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c surfaceArea.c -o surfaceArea.o
>> gcc -std=gnu99 -I/sw/Library/Frameworks/R.framework/Resources/include
>> -I/sw/include -fPIC -g -O2 -c zerodist.c -o zerodist.o
>> gcc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined
>> dynamic_lookup -single_module -multiply_defined suppress -L/sw/lib -o sp.so
>> Rcentroid.o gcdist.o init.o pip.o pip2.o sp_xports.o surfaceArea.o
>> zerodist.o -F/sw/Library/Frameworks/R.framework/.. -framework R -lintl
>> -Wl,-framework -Wl,CoreFoundation
>> ld: warning: in /sw/Library/Frameworks/R.framework/R, file was built for
>> i386 which is not the architecture being linked (x86_64)
>> ld: warning: in /sw/lib/libintl.dylib, file was built for i386 which is not
>> the architecture being linked (x86_64)
>> installing to
>> /sw/Library/Frameworks/R.framework/Versions/2.11/Resources/library/sp/libs
>> ** R
>> ** data
>> ** demo
>> ** inst
>> ** preparing package for lazy loading
>> ** help
>> *** installing help indices
>> ** building package indices ...
>> ** testing if installed package can be loaded
>> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>> unable to load shared library
>> '/sw/Library/Frameworks/R.framework/Versions/2.11/Resources/library/sp/libs/sp.so':
>>
>> dlopen(/sw/Library/Frameworks/R.framework/Versions/2.11/Resources/library/sp/libs/sp.so,
>> 6): no suitable image found. Did find:
>>
>> /sw/Library/Frameworks/R.framework/Versions/2.11/Resources/library/sp/libs/sp.so:
>> mach-o, but wrong architecture
>> ERROR: loading failed
>> * removing
>> ‘/sw/Library/Frameworks/R.framework/Versions/2.11/Resources/library/sp’
>>
>> The downloaded packages are in
>>
>> ‘/private/var/folders/FF/FFUvwZUMHNy0Shp4TusaJk+++TI/-Tmp-/RtmpRd78TR/downloaded_packages’
>> Updating HTML index of packages in '.Library'
>> Warning message:
>> In install.packages("sp") :
>> installation of package 'sp' had non-zero exit status
>> >
>>
>>
>> --
>> BABA Yoshihiko
>> http://homepage.mac.com/babayoshihiko
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