R help - Dec 2011 - Compilation error of R-2.14.0 on Mac OS 10.7.2

Dear R gurus,

I attempt to install the latest version of R from source on my MacBook Pro,
using latest versions of Xcode and gfortran for Lion and configure options:

./configure --with-libintl-prefix=/sw --enable-R-shlib (this last option
necessary to further install the Rpy Python package)

I got the following unreduced compilation error:

gcc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined
dynamic_lookup -single_module -multiply_defined suppress -L/sw/lib
-L/usr/local/lib -o tools.so text.o init.o Rmd5.o md5.o signals.o
-L../../../../lib -lR -dylib_file libRblas.dylib:../../../../lib/libRblas.dylib
-lintl -Wl,-framework -Wl,CoreFoundation
make[6]: `Makedeps' is up to date.
mkdir ../../../../library/tools/libs
Error in dyn.load(file, DLLpath = DLLpath, ...) : 
  unable to load shared object
'/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so':
  dlopen(/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so, 6):
Symbol not found: _libintl_dgettext
  Referenced from:
/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
  Expected in: /Users/marquett/Downloads/R-2.14.0/lib/libR.dylib
 in /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
Error: impossible de charger le code R depuis le package ?tools?
Execution halted
make[3]: *** [all] Error 1
make[2]: *** [R] Error 1
make[1]: *** [R] Error 1
make: *** [R] Error 1

However the binary file matches the unresolved symbol:

grep _libintl_dgettext
/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
Binary file /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
matches

Any help welcome.

Cheers
Jean-Baptiste

On Dec 8, 2011, at 11:37 AM, Jean-Baptiste Marquette wrote:
> Dear R gurus,
> 
> I attempt to install the latest version of R from source on my MacBook Pro,
using latest versions of Xcode and gfortran for Lion and configure options:
> 
> ./configure --with-libintl-prefix=/sw --enable-R-shlib (this last option
necessary to further install the Rpy Python package)
> 
> I got the following unreduced compilation error:
> 
> gcc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined
dynamic_lookup -single_module -multiply_defined suppress -L/sw/lib
-L/usr/local/lib -o tools.so text.o init.o Rmd5.o md5.o signals.o
-L../../../../lib -lR -dylib_file libRblas.dylib:../../../../lib/libRblas.dylib
-lintl -Wl,-framework -Wl,CoreFoundation
> make[6]: `Makedeps' is up to date.
> mkdir ../../../../library/tools/libs
> Error in dyn.load(file, DLLpath = DLLpath, ...) : 
>  unable to load shared object
'/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so':
>  dlopen(/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so, 6):
Symbol not found: _libintl_dgettext
>  Referenced from:
/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
>  Expected in: /Users/marquett/Downloads/R-2.14.0/lib/libR.dylib
> in /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
> Error: impossible de charger le code R depuis le package ?tools?
> Execution halted
> make[3]: *** [all] Error 1
> make[2]: *** [R] Error 1
> make[1]: *** [R] Error 1
> make: *** [R] Error 1
> 
> However the binary file matches the unresolved symbol:
> 
> grep _libintl_dgettext
/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
> Binary file /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
matches
> 
> Any help welcome.
> 
> Cheers
> Jean-Baptiste

First, this query is best posted to R-SIG-MAC, not R-Help. More info here:

  https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Second, the pre-built R binary for OSX that Simon creates already uses
--enable-R-shilb, so that there is no reason to build from source if that is
your only issue.

Third, on OSX, there is no /sw by default and it is not clear why you are using
that configure option, which is the likely source of the error you are getting.

If you really want to build from source, there is information in the R for OSX
FAQ:

  http://cran.r-project.org/bin/macosx/RMacOSX-FAQ.html

The R Installation and Admin Manual:

 
http://cran.r-project.org/doc/manuals/R-admin.html#Building-from-source-on-_0028Mac_0029-OS-X

and Simon's page:

  http://R.research.att.com/building.html

HTH,

Marc Schwartz

Although I didn't try it, generally adding Fink to the mix is WRONG.
Don't try to mix Fink and anything else.


On 12/8/11 11:37 AM, "Jean-Baptiste Marquette" <marquett at
iap.fr> wrote:
> Dear R gurus,
> 
> I attempt to install the latest version of R from source on my MacBook Pro,
> using latest versions of Xcode and gfortran for Lion and configure options:
> 
> ./configure --with-libintl-prefix=/sw --enable-R-shlib (this last option
> necessary to further install the Rpy Python package)
> 
> I got the following unreduced compilation error:
> 
> gcc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined
> dynamic_lookup -single_module -multiply_defined suppress -L/sw/lib
> -L/usr/local/lib -o tools.so text.o init.o Rmd5.o md5.o signals.o
> -L../../../../lib -lR -dylib_file
> libRblas.dylib:../../../../lib/libRblas.dylib -lintl -Wl,-framework
> -Wl,CoreFoundation
> make[6]: `Makedeps' is up to date.
> mkdir ../../../../library/tools/libs
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>   unable to load shared object
> '/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so':
>   dlopen(/Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so,
6):
> Symbol not found: _libintl_dgettext
>   Referenced from:
> /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
>   Expected in: /Users/marquett/Downloads/R-2.14.0/lib/libR.dylib
>  in /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
> Error: impossible de charger le code R depuis le package ?tools?
> Execution halted
> make[3]: *** [all] Error 1
> make[2]: *** [R] Error 1
> make[1]: *** [R] Error 1
> make: *** [R] Error 1
> 
> However the binary file matches the unresolved symbol:
> 
> grep _libintl_dgettext
> /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
> Binary file /Users/marquett/Downloads/R-2.14.0/library/tools/libs/tools.so
> matches
> 
> Any help welcome.
> 
> Cheers
> Jean-Baptiste
> ______________________________________________
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