R devel - Mar 2010 - libgfortran misplaced in Mac OS X R install (PR#14226)

Full_Name: Timothy Brick
Version: 2.10
OS: Mac OS X (seen on both 10.6 and 10.5)
Submission from: (NULL) (63.255.24.5)


When using install.packages in R on Mac OS X, packages that require gfortran
throws an error (Example below from installation of OpenMx package):

Loading required package: OpenMx
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared library
'/Library/Frameworks/R.framework/Resources/library/OpenMx/libs/i386/OpenMx.so':
dlopen(/Library/Frameworks/R.framework/Resources/library/OpenMx/libs/i386/OpenMx.so,
6): Library not loaded: /usr/local/lib/libgfortran.2.dylib
Referenced from:
/Library/Frameworks/R.framework/Resources/library/OpenMx/libs/i386/OpenMx.so
Reason: image not found

libgfortran.2.dylib does exist, but in
/Library/Frameworks/R.framework/Versions/2.10/Resouces/lib/libgfortran.2.dylib
(or /2.9/, depending on version installed).

A workaround at present involves creating a symbolic link from the above file to
/usr/local/lib/libgfortran.2.dylib, however this requires sudo access and is
confusing for novice users.

There is more discussion of this bug as it relates to OpenMx at:
http://openmx.psyc.virginia.edu/thread/316

Posts on other forums indicate a similar issue with other packages including
vegan and lme4:
http://r-forge.r-project.org/forum/forum.php?thread_id=728&forum_id=194
https://stat.ethz.ch/pipermail/r-sig-mac/2009-May/006210.html

This is not an R bug so please don't abuse R-bugs. It is likely a bug  
in the way OpenMx binaries are distributed by someone (you didn't even  
say where you got them from) - OpenMx is not even on CRAN so take that  
to whoever gave you the binaries. On CRAN we use the correct paths.

Cheers,
Simon


On Mar 2, 2010, at 11:45 , tbrick at virginia.edu wrote:
> Full_Name: Timothy Brick
> Version: 2.10
> OS: Mac OS X (seen on both 10.6 and 10.5)
> Submission from: (NULL) (63.255.24.5)
>
>
> When using install.packages in R on Mac OS X, packages that require  
> gfortran
> throws an error (Example below from installation of OpenMx package):
>
> Loading required package: OpenMx
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
> unable to load shared library
> '/Library/Frameworks/R.framework/Resources/library/OpenMx/libs/i386/ 
> OpenMx.so':
> dlopen(/Library/Frameworks/R.framework/Resources/library/OpenMx/libs/ 
> i386/OpenMx.so,
> 6): Library not loaded: /usr/local/lib/libgfortran.2.dylib
> Referenced from: /Library/Frameworks/R.framework/Resources/library/ 
> OpenMx/libs/i386/OpenMx.so
> Reason: image not found
>
> libgfortran.2.dylib does exist, but in
> /Library/Frameworks/R.framework/Versions/2.10/Resouces/lib/ 
> libgfortran.2.dylib
> (or /2.9/, depending on version installed).
>
> A workaround at present involves creating a symbolic link from the  
> above file to
> /usr/local/lib/libgfortran.2.dylib, however this requires sudo  
> access and is
> confusing for novice users.
>
> There is more discussion of this bug as it relates to OpenMx at:
> http://openmx.psyc.virginia.edu/thread/316
>
> Posts on other forums indicate a similar issue with other packages  
> including
> vegan and lme4:
> http://r-forge.r-project.org/forum/forum.php? 
> thread_id=728&forum_id=194
> https://stat.ethz.ch/pipermail/r-sig-mac/2009-May/006210.html
>
Those are very old posts and those were temporary issues in the CRAN  
build system that have been promptly resolved.