I've already tried this. I got this error:

installing to /home/tannaz/R/x86_64-pc-linux-gnu-library/3.4/affy/libs * R * data * demo * inst ** preparing package for lazy loading Error : object ‘@<-’ is not exported by 'namespace:methods' ERROR: lazy loading failed for package ‘affy’ * removing ‘/home/tannaz/R/x86_64-pc-linux-gnu-library/3.4/affy’ Warning in install.packages : installation of package ‘/home/tannaz/R/x86_64-pc-linux-gnu-library/3.4/affy_1.36.1.tar.gz’ had non-zero exit status

yeah! you're right! it seems BioC 2.12 is installed! but this is the command that I used and as you see I typed "2.11" !!

install.packages("BiocInstaller", repos="http://bioconductor.org/packages/2.11/bioc")

Your BioC install method is not correct. First you need to install the corresponding version of R, then use

source("http://bioconductor.org/biocLite.R")
biocLite()

This will get the right version of BioC.

You may also try installing right version of affy by src https://www.bioconductor.org/packages/2.11/bioc/src/contrib/affy_1.36.1.tar.gz

install.packages(path_to_file, repos = NULL, type="source")

However, I am afraid that there is something changed in the Base R, that is why you are getting this error [ object ‘@<-’ is not exported by 'namespace:methods' ]. So your last and only solution might be the re installation of a lower version of R locally

https://unix.stackexchange.com/questions/149451/install-r-in-my-own-directory