Upgrade R

upgrade-r.sh

#!/bin/bash

# Remove existing R installation.
#
sudo apt-get purge -y r-base-core

# Add keys.
#
# sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys 40976EAF437D05B5
sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys 51716619E084DAB9
#
# If you're behind a firewall you can try something like this:
#
# gpg --keyserver hkp://keyserver.ubuntu.com:80 --recv-key E084DAB9
# gpg -a --export E084DAB9 | sudo apt-key add --

# Add CRAN repository.
#
OSNAME=$(. /etc/os-release; echo "$ID")
OSVERS=$(lsb_release -cs)
sudo add-apt-repository "deb http://cran.rstudio.com/bin/linux/$OSNAME $OSVERS-cran35/"

# Update the package list.
#
sudo apt-get -y update

# Install new R.
#
sudo apt-get -y install r-base

# Install some other things that are required for building various R packages.
#
sudo apt-get -y install \
  htop \
  libcurl4-openssl-dev \
  libssl-dev \
  libgeos-dev \
  libgdal-dev \
  libproj-dev \
  libxml2-dev \
  libudunits2-dev \
  libsodium-dev \
  pandoc \
  openjdk-8-jdk \
  openjdk-8-jre \
  cargo \
  libcairo2-dev \
  libfreetype6-dev \
  libclang-dev

# Where does R expect to find Java?
#
sudo R CMD javareconf