I am on a MACOS Sierra v. 10.12.4. Installed newest v. of R 3.4.0 GUI 1.70 El Capitan build and RStudio Version 1.0.143. I have successfully installed Bioconductor, BiocLite() and GEOquery. I am unable to download the affy package.
Command: biocLite("affy")
The errors generated are as follows:
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: *** [preprocessCore.so] Error 1
ERROR: compilation failed for package ‘preprocessCore’
* removing ‘/Library/Frameworks/R.framework/Versions/3.4/Resources/library/preprocessCore’
installation of package ‘preprocessCore’ had non-zero exit statusERROR: dependency ‘preprocessCore’ is not available for package ‘affy’
* removing ‘/Library/Frameworks/R.framework/Versions/3.4/Resources/library/affy’
installation of package ‘affy’ had non-zero exit status
Thank you,
CM Kiekhaefer
