[R] Advice requested: installation failing for foreign_0.8-7, mgcv_1.2-4, rpart_3.1-23, VR_7.2-15

[Michael Kubovy]

I'm running R Version 2.1.0  (2005-04-18), ISBN 3-900051-07-0

on Machine Model:	Power Mac G5
   CPU Type:	PowerPC 970  (2.2)
   Number Of CPUs:	2
   CPU Speed:	2 GHz
   L2 Cache (per CPU):	512 KB
   Memory:	2 GB

  with software:  System Version:	Mac OS X 10.3.9 (7W98)
   Kernel Version:	Darwin 7.9.0

Here is what happened when I tried to update the "foreign"  package  
(similar failures for the other packages in the Subject line).

* Installing *source* package 'foreign' ...
checking for gcc... gcc
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 accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking whether gcc accepts -Wno-long-long... yes
checking how to run the C preprocessor... gcc -E
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking byteswap.h usability... no
checking byteswap.h presence... no
checking for byteswap.h... no
checking for double... yes
checking size of double... 8
checking for int... yes
checking size of int... 4
checking for long... yes
checking size of long... 4
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating src/swap_bytes.h
config.status: creating src/var.h
** libs
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c R_systat.c  
-o R_systat.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c Rdbfread.c  
-o Rdbfread.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c  
Rdbfwrite.c -o Rdbfwrite.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c SASxport.c  
-o SASxport.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c avl.c -o  
avl.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c dbfopen.c  
-o dbfopen.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c  
file-handle.c -o file-handle.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c format.c  
-o format.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c minitab.c  
-o minitab.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c pfm-read.c  
-o pfm-read.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c sfm-read.c  
-o sfm-read.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c spss.c -o  
spss.o
gcc -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include  
  -I/usr/local/include  -Wno-long-long -fno-common  -g -O2 -c  
stataread.c -o stataread.o
gcc -bundle -flat_namespace -undefined suppress -L/usr/local/lib -o  
foreign.so R_systat.o Rdbfread.o Rdbfwrite.o SASxport.o avl.o dbfopen.o  
file-handle.o format.o minitab.o pfm-read.o sfm-read.o spss.o  
stataread.o  -lcc_dynamic -framework R
ld: warning multiple definitions of symbol _xerbla_
/Library/Frameworks/R.framework/R(print.lo) definition of _xerbla_
/System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/ 
vecLib.framework/Versions/A/libBLAS.dylib(single module) definition of  
_xerbla_
ld: warning multiple definitions of symbol _BC
/Library/Frameworks/R.framework/Versions/2.1.0/Resources/lib/ 
libreadline.5.0.dylib(terminal.so) definition of _BC
/usr/lib/libncurses.5.dylib(lib_termcap.o) definition of _BC
ld: warning multiple definitions of symbol _UP
/Library/Frameworks/R.framework/Versions/2.1.0/Resources/lib/ 
libreadline.5.0.dylib(terminal.so) definition of _UP
/usr/lib/libncurses.5.dylib(lib_termcap.o) definition of _UP
ld: warning multiple definitions of symbol _PC
/Library/Frameworks/R.framework/Versions/2.1.0/Resources/lib/ 
libreadline.5.0.dylib(terminal.so) definition of _PC
/usr/lib/libncurses.5.dylib(lib_tputs.o) definition of _PC
** R
** inst
** preparing package for lazy loading
Error in dyn.load(x, as.logical(local), as.logical(now)) :
	unable to load shared library  
'/Library/Frameworks/R.framework/Resources/library/grDevices/libs/ 
grDevices.so':
   dlcompat: dyld: /Library/Frameworks/R.framework/Resources/bin/exec/R  
version mismatch for library: /usr/local/lib/libxml2.2.dylib  
(compatibility version of user: 9.0.0 greater than library's version:  
8.0.0)
Loading required package: grDevices
Error in dyn.load(x, as.logical(local), as.logical(now)) :
	unable to load shared library  
'/Library/Frameworks/R.framework/Resources/library/grDevices/libs/ 
grDevices.so':
   dlcompat: dyld: /Library/Frameworks/R.framework/Resources/bin/exec/R  
version mismatch for library: /usr/local/lib/libxml2.2.dylib  
(compatibility version of user: 9.0.0 greater than library's version:  
8.0.0)
In addition: Warning message:
package grDevices in options("defaultPackages") was not found
Error: package 'grDevices' could not be loaded
Execution halted
ERROR: lazy loading failed for package 'foreign'
** Removing  
'/Library/Frameworks/R.framework/Versions/2.1.0/Resources/library/ 
foreign'
** Restoring previous  
'/Library/Frameworks/R.framework/Versions/2.1.0/Resources/library/ 
foreign'