Thanks for the reply Mr. Eddelbuettel. However I somehow couldn't manage to solve the problem completely.
So I cleaned the sources.list file so taht the output is this: sudo apt-get update Hit:1 http://tr.archive.ubuntu.com/ubuntu xenial InRelease Hit:2 http://tr.archive.ubuntu.com/ubuntu xenial-updates InRelease Hit:3 http://tr.archive.ubuntu.com/ubuntu xenial-backports InRelease Hit:4 http://security.ubuntu.com/ubuntu xenial-security InRelease Hit:5 http://cran.rstudio.com/bin/linux/ubuntu xenial/ InRelease Reading package lists... Done So after that: sudo gedit /etc/apt/sources.list [sudo] password for atakan: (gedit:7094): Gtk-WARNING **: Calling Inhibit failed: GDBus.Error:org.freedesktop.DBus.Error.ServiceUnknown: The name org.gnome.SessionManager was not provided by any .service files ** (gedit:7094): WARNING **: Set document metadata failed: Setting attribute metadata::gedit-spell-enabled not supported ** (gedit:7094): WARNING **: Set document metadata failed: Setting attribute metadata::gedit-encoding not supported ** (gedit:7094): WARNING **: Set document metadata failed: Setting attribute metadata::gedit-position not supported And then I check the /etc/apt/sources.list.d/ directory and it was empty, so I tried to create a cran.list file wth gedit and when I tried to save it, it raised an error "Could not save the file, you do not have the permissions necessary....". I am logged in as the administrator, I am not sure how to fix this. cat /etc/apt/sources.list.d/cran.list cat: /etc/apt/sources.list.d/cran.list: No such file or directory ---------------------------------------- > Date: Thu, 12 May 2016 07:11:39 -0500 > To: atakano...@outlook.com > CC: r-sig-debian@r-project.org > Subject: Re: [R-sig-Debian] Problem with Install R on Linux Ubuntu 16.04 > Xenial Xerus > From: e...@debian.org > > > On 12 May 2016 at 15:00, Atakan Okan wrote: > | Any help is appreciated, thanks. > > 1) Clean up sources.list as suggested in the error messages you quoted. > > 2) Do that until 'sudo apt-get update' no longer complains. > > 3) Then re-read the README at https://cloud.r-project.org/bin/linux/ubuntu/ > and add one line. I have this __one line__ in the directory meant for this: > > edd@bud:~$ cat /etc/apt/sources.list.d/cran.list > deb https://cran.rstudio.com/bin/linux/ubuntu xenial/ # disabled on upgrade > to xenial > edd@bud:~$ > > and I have been using the CRAN repos maintained by Michael for years on > multiple machines. It. Just. Works. > > Dirk > > -- > http://dirk.eddelbuettel.com | @eddelbuettel | e...@debian.org _______________________________________________ R-SIG-Debian mailing list R-SIG-Debian@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-debian