I have transfered to a Linux system (previous OSX user) and I am trying to get my R packages installed.
The first issue I ran across was:
Warning in install.packages("stringi") : 'lib = "/usr/local/lib/R/site-library"' is not writable Would you like to use a personal library instead? (y/n)
but I got around that by launching R using:
$ sudo R
If someone has a more permanent solution to using ‘sudo’ (because I will be using RStudio in the future), I would be interested to know!
But for now, I have an issue that I cannot find a solution to. When I try to install ‘stringi’, I get the following:
* installing *source* package ‘stringi’ ... ** package ‘stringi’ successfully unpacked and MD5 sums checked checking for local ICUDT_DIR... icu55/data checking for R_HOME... /usr/lib/R checking for R... /usr/lib/R/bin/R checking for R >= 3.1.0... yes checking for cat... /bin/cat checking for gcc... gcc -std=gnu99 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ISO C89... none needed checking how to run the C preprocessor... g++ -E configure: error: in `/tmp/Rtmplf58Ya/R.INSTALL2d1959f5fc41/stringi': configure: error: C preprocessor "g++ -E" fails sanity check See `config.log' for more details ERROR: configuration failed for package ‘stringi’ * removing ‘/usr/local/lib/R/site-library/stringi’
What does the line:
configure: error: C preprocessor "g++ -E" fails sanity check
refer to? Im fairly certain my C compiler works based on this line:
checking whether the C compiler works... yes
and this line:
checking whether we are using the GNU C compiler... yes
but like I said, I am just now starting to delve into the inner workings of the Linux system, so I could be totally wrong here.
Any and all assistance is greatly appreciated!
Edit: I am using Linux Mint 17.1 (MATE) and R version 3.2.1
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Answer
Try installing g++:
sudo apt-get install g++
The GNU C Compiler (GCC) may be installed, but g++ isn’t always installed by default.
As for having to sudo
into R Studio, that’s the equivalent of having to type your password in when installing a program in OS X – it’s just one of the little intricacies of Linux systems (incidentally, OS X is based on BSD Linux). I imagine you won’t necessarily need to use sudo
when you’re not installing a package though (not sure, haven’t really used R Studio to be honest).