[R-SIG-Mac] [Fwd: Re: [Rd] R 2.5.0 MAC OS X version]

[Recai Yucel]

Dear All,

I, unkowingly, posted the following message to R-devel mailing list. 
Please let me know if there is any quick solution to the following.

I just installed the latest version of R 2.5.0 on my mac book pro. I am 
having a lot of difficulty with installing R packages.  Below I provide 
a specific example and the error messages I get from R.

*************

When I try to install a package called lmm (which was installed with no 
problem with the previous versions of R), I get the following messages, 
specifically on the make, chmod, etc.

*************************************
trying URL 'http://cran.us.r-project.org/src/contrib/lmm_0.3-4.tar.gz'
Content type 'application/x-tar' length 31471 bytes
opened URL
==================================================
downloaded 30Kb

WARNING: ignoring environment value of R_HOME
tar: Read 4096 bytes from -
* Installing *source* package 'lmm' ...
** libs
** arch - i386
gfortran-4.0 -arch i386  -isysroot /Developer/SDKs/MacOSX10.4u.sdk   
-fPIC  -g -O2 -march=nocona -c lmm.f -o lmm.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -dynamiclib 
-Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup 
-single_module -multiply_defined suppress -L/usr/local/lib -o lmm.so 
lmm.o  -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.0 -lgfortran 
-lgcc_s.10.4 -F/Library/Frameworks/R.framework/.. -framework R
/usr/bin/libtool: for architecture cputype (16777223) cpusubtype (3) 
object: /usr/local/lib/libgfortran.dylib malformed object (unknown load 
command 4)
/usr/bin/libtool: for architecture cputype (16777223) cpusubtype (3) 
object: /usr/local/lib/libgcc_s.10.4.dylib malformed object (unknown 
load command 4)
** arch - ppc
gfortran-4.0 -arch ppc  -isysroot /Developer/SDKs/MacOSX10.4u.sdk   
-fPIC  -g -O2 -c lmm.f -o lmm.o
make: *** [lmm.so] Error 1
chmod: 
/Library/Frameworks/R.framework/Versions/2.5/Resources/library/lmm/libs/i386/*: 
No such file or directory
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 
-dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup 
-single_module -multiply_defined suppress -L/usr/local/lib -o lmm.so 
lmm.o  -L/usr/local/lib/gcc/powerpc-apple-darwin8/4.2.0 -lgfortran 
-lgcc_s.10.4 -lSystemStubs -F/Library/Frameworks/R.framework/.. 
-framework R

The downloaded packages are in
   /private/tmp/Rtmpe4c9Of/downloaded_packages
** Removing 
'/Library/Frameworks/R.framework/Versions/2.5/Resources/library/lmm'
** Restoring previous 
'/Library/Frameworks/R.framework/Versions/2.5/Resources/library/lmm'
/usr/bin/libtool: for architecture cputype (16777223) cpusubtype (3) 
object: /usr/local/lib/libgfortran.dylib malformed object (unknown load 
command 4)
/usr/bin/libtool: for architecture cputype (16777223) cpusubtype (3) 
object: /usr/local/lib/libgcc_s.10.4.dylib malformed object (unknown 
load command 4)
make: *** [lmm.so] Error 1
chmod: 
/Library/Frameworks/R.framework/Versions/2.5/Resources/library/lmm/libs/ppc/*: 
No such file or directory
ERROR: compilation failed for package 'lmm'
*************************************





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From: Recai Yucel <yucel at schoolph.umass.edu>
Subject: Re: [Rd] R 2.5.0 MAC OS X version
Date: Wed, 30 May 2007 10:44:53 -0400
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