samr download formula

[LouisGil]

I think that R is trying to compile the package using gfortran, but its looking at the wrong directory. I use a mac and my gcc is from the brew formula gcc which contains gfortan. I fixed this by downloading the gfortran as specified here https://gcc.gnu.org/wiki/GFortranBinaries.

install.packages("samr")
  --- Please select a CRAN mirror for use in this session ---
  Package which is only available in source form, and may need
    compilation of C/C++/Fortran: ‘samr’
  Do you want to attempt to install these from sources?
  y/n: y
  installing the source package ‘samr’
  
  trying URL 'https://cloud.r-project.org/src/contrib/samr_2.0.tar.gz'
  Content type 'application/x-gzip' length 36702 bytes (35 KB)
  ==================================================
  downloaded 35 KB

  * installing *source* package ‘samr’ ...
  ** libs
  gfortran   -fPIC  -g -O2  -c rankcol.f -o rankcol.o
  clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o samr.so rankcol.o -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
  ld: warning: directory not found for option '-L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0'
  ld: warning: directory not found for option '-L/usr/local/gfortran/lib'
  ld: library not found for -lgfortran
  clang: error: linker command failed with exit code 1 (use -v to see invocation)
  make: *** [samr.so] Error 1
  ERROR: compilation failed for package ‘samr’
  * removing ‘/Library/Frameworks/R.framework/Versions/3.4/Resources/library/samr’

  The downloaded source packages are in
  	‘/private/var/folders/v_/n5nqr5812074ct0zkldqhg500000gn/T/RtmpBn8P5n/downloaded_packages’
  Warning message:
  In install.packages("samr") :
    installation of package ‘samr’ had non-zero exit status

[MikeJSeo]

Hmm.. thanks for sharing. I'm not sure why in my computer it works without install gfortran. I just checked running this GUI in R version 3.4.0 and it works!

[PabloDomizi]

I had the same problem Louis
I had a macOS High Sierra and R 3.5.0
I found the following tutorial to solve it:
thttps://thecoatlessprofessor.com/programming/rcpp-rcpparmadillo-and-os-x-mavericks--lgfortran-and--lquadmath-error/
Briefly, in gcc@8 from Homebrew the gfortran version is the number 5.
So to compile SAMR I need to install gfortran6.1.0:
http://coudert.name/software/gfortran-6.1-ElCapitan.dmg
After installation, I could run samr without any problem
Hope this is still useful for you
Best