[R-SIG-Mac] Trouble compiling packages under Mavericks

[Simon Urbanek]

On Mar 6, 2014, at 1:03 PM, Andy Jacobson <andy.jacobson at noaa.gov> wrote:

> Howdy,
> 
> I experienced some hiccups trying to use R CMD INSTALL to compile/install packages, on Mavericks (OS X 10.9.2) with R-3.0.2 from CRAN.  I think I resolved them using a ~/.R/Makevars fix and I thought I'd report on that.
> 

Please consider reading the archives before posting - this has been discussed do often that it should be almost a FAQ.
This has been already addressed in recent R builds. The best advice is to update your R.

Cheers,
Simon


> The symptom I would get is complaints about "cc1" not understanding the "-arch" argument, as in:
> 
>>> R CMD INSTALL png_0.1-7.tar.gz 
>> 
>> * installing to library ‘/private/nfs/ct/lib/R-3.0/x86_64-apple-darwin10.8.0’
>> * installing *source* package ‘png’ ...
>> ** package ‘png’ successfully unpacked and MD5 sums checked
>> ** libs
>> llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    `libpng-config --cflags` -fPIC  -mtune=core2 -g -O2  -c read.c -o read.o
>> cc1: error: unrecognized command line option "-arch"
>> make: *** [read.o] Error 1
>> ERROR: compilation failed for package ‘png’
> 
> llvm-gcc-4.2 is not the up-to-date XCode compiler.  That rather is "Apple LLVM version 5.0 (clang-500.2.79) (based on LLVM 3.3svn)".
> 
> Section C.3.4 ("Mavericks") of the R-admin guide suggests a "config.site" file with the following:
> 
> CC=clang
> CXX=clang++
> F77="gfortran-4.2 -arch x86_64"
> FC=$F77
> OBJC=clang
> 
> I put these definitions in my ~/.R/Makevars file and all packages compiled correctly after that.  I'm not sure this is correct.
> 
> Regards,
> 
> Andy
> 
> 
> -- 
> Andy Jacobson
> andy.jacobson at noaa.gov
> 
> NOAA Earth System Research Lab
> Global Monitoring Division
> 325 Broadway R/GMD1
> Boulder, Colorado 80305
> 
> 303/578-2237
> 
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