[R-SIG-Mac] In install.packages(), C compiler cannot create executables

[Luis Puerto]

Install R from cask, as James suggested will provide all the capabilities since it's downloaded from CRAN. The one that does't provide all the capabilities is Homebrew core. 

Seth's one will provide all the capabilities too, but you are going to need to build it and then build all the packages you install. 

Other think is you want to use OpenBLAS and OpenMP. You should be able to use those libraries with CRAN version —either directly or through brew cask— but I'm not sure since I use Seth's version. 

Best Regards
Luis Puerto
luispuerto.net

> On 28 Jul, 2019, at 19:07, Naresh Gurbuxani <naresh_gurbuxani using hotmail.com> wrote:
> 
> JJB,
> 
> I installed R using instructions given here.  
> 
> https://github.com/sethrfore/homebrew-r-srf
> 
> It seems that installing R using brew cask will not provide all capabilities.  In any case, I want to use R with Emacs.  
> 
> I will try to reinstall and see if the problem goes away.
> 
> Thanks,
> Naresh
> 
> 
> 
> 
> 
> 
> From: R-SIG-Mac <r-sig-mac-bounces using r-project.org> on behalf of Balamuta, James Joseph <balamut2 using illinois.edu>
> 
> Sent: Sunday, July 28, 2019 6:34 PM
> 
> To: r-sig-mac using r-project.org <r-sig-mac using r-project.org>
> 
> Subject: Re: [R-SIG-Mac] In install.packages(), C compiler cannot create executables
> 
>  
> 
> 
> Greetings and Salutations Naresh Gurbuxani,
> 
> 
> 
> Don't use homebrew to install R. If you must use homebrew, install R via the brew cask project to obtain the CRAN binary vs. the homebrew compiled variant.
> 
> 
> 
> Sincerely,
> 
> 
> 
> JJB
> 
> 
> 
> On 7/28/19, 5:28 PM, "R-SIG-Mac on behalf of Naresh Gurbuxani" <r-sig-mac-bounces using r-project.org on behalf of naresh_gurbuxani using hotmail.com> wrote:
> 
> 
> 
>     Hello,
> 
>     
> 
>     On my Mac, everything is installed using brew.  I am not able to install some R packages which look for C compiler.  Below is an example session on the terminal. 
> 
> 
>     
> 
>     I will be thankful for any suggestions.  If this question does not belong to this group, can you suggest where to look?
> 
>     
> 
>     Naresh
> 
>     
> 
>     > install.packages('stringi', repos='https://cran.r-project.org')
> 
>     Installing package into ‘/usr/local/lib/R/3.6/site-library’
> 
>     (as ‘lib’ is unspecified)
> 
>     trying URL 'https://cran.r-project.org/src/contrib/stringi_1.4.3.tar.gz'
> 
>     Content type 'application/x-gzip' length 7290890 bytes (7.0 MB)
> 
>     ==================================================
> 
>     downloaded 7.0 MB
> 
>     
> 
>     * installing *source* package ‘stringi’ ...
> 
>     ** package ‘stringi’ successfully unpacked and MD5 sums checked
> 
>     ** using staged installation
> 
>     checking for R_HOME... /usr/local/Cellar/r/3.6.1/lib/R
> 
>     checking for R... /usr/local/Cellar/r/3.6.1/lib/R/bin/R
> 
>     checking for endianness... little
> 
>     checking for R >= 3.1.0 for C++11 use... yes
> 
>     checking for R < 3.4.0 for CXX1X flag use... no
> 
>     checking for cat... /bin/cat
> 
>     checking for local ICUDT_DIR... icu61/data
> 
>     checking for gcc... /usr/local/opt/llvm/bin/clang -fopenmp
> 
>     checking whether the C compiler works... no
> 
>     configure: error: in `/private/var/folders/nv/778l86d50jx2_wlzdw6m16l40000gn/T/Rtmp3KDSQ5/R.INSTALL87262e900de6/stringi':
> 
>     configure: error: C compiler cannot create executables
> 
>     See `config.log' for more details
> 
>     ERROR: configuration failed for package ‘stringi’
> 
>     * removing ‘/usr/local/lib/R/3.6/site-library/stringi’
> 
>     
> 
>     The downloaded source packages are in
> 
>          ‘/private/var/folders/nv/778l86d50jx2_wlzdw6m16l40000gn/T/Rtmp3hnR8I/downloaded_packages’
> 
>     Warning message:
> 
>     In install.packages("stringi", repos = "https://cran.r-project.org") :
> 
>       installation of package ‘stringi’ had non-zero exit status
> 
>     > R.Version()
> 
>     $platform
> 
>     [1] "x86_64-apple-darwin17.7.0"
> 
>     
> 
>     $arch
> 
>     [1] "x86_64"
> 
>     
> 
>     $os
> 
>     [1] "darwin17.7.0"
> 
>     
> 
>     $system
> 
>     [1] "x86_64, darwin17.7.0"
> 
>     
> 
>     $status
> 
>     [1] ""
> 
>     
> 
>     $major
> 
>     [1] "3"
> 
>     
> 
>     $minor
> 
>     [1] "6.1"
> 
>     
> 
>     $year
> 
>     [1] "2019"
> 
>     
> 
>     $month
> 
>     [1] "07"
> 
>     
> 
>     $day
> 
>     [1] "05"
> 
>     
> 
>     $`svn rev`
> 
>     [1] "76782"
> 
>     
> 
>     $language
> 
>     [1] "R"
> 
>     
> 
>     $version.string
> 
>     [1] "R version 3.6.1 (2019-07-05)"
> 
>     
> 
>     $nickname
> 
>     [1] "Action of the Toes"
> 
>     
> 
>     > capabilities()
> 
>            jpeg         png        tiff       tcltk         X11        aqua 
> 
>            TRUE        TRUE        TRUE        TRUE        TRUE        TRUE 
> 
>        http/ftp     sockets      libxml        fifo      cledit       iconv 
> 
>            TRUE        TRUE        TRUE        TRUE        TRUE        TRUE 
> 
>             NLS     profmem       cairo         ICU long.double     libcurl 
> 
>            TRUE        TRUE        TRUE        TRUE        TRUE        TRUE 
> 
>     > system('gcc --version')
> 
>     Configured with: --prefix=/Library/Developer/CommandLineTools/usr --with-gxx-include-dir=/usr/include/c++/4.2.1
> 
>     Apple LLVM version 10.0.0 (clang-1000.10.44.4)
> 
>     Target: x86_64-apple-darwin17.7.0
> 
>     Thread model: posix
> 
>     InstalledDir: /Library/Developer/CommandLineTools/usr/bin
> 
>     > system('which gcc')
> 
>     /usr/bin/gcc
> 
>     > system('brew doctor')
> 
>     Your system is ready to brew.
> 
>     > 
> 
>     
> 
>     
> 
>     
> 
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