Getting R/igraph installed

From a new linux-mint 17.2 install on my home computer:

R was missing, so I installed it using apt-get. The version that was installed by apt-get was 3.0.2, somewhat dated relative to the R-3.2.1 release that is currently available for download. So I deleted the apt-get installed version, and installed R-3.2.1. This required that x11 dev libraries and java7 dev kit were both available (they weren't to begin with). For completion, I wanted to create the R manuals and so had to install a few tex/latex things.

R
# The program 'R' is currently not installed. You can install it by typing:
# sudo apt-get install r-base-core

sudo apt-get install r-base-core 

Recommended packages:

sudo apt-get install r-recommended r-base-dev r-doc-html

Suggested packages:

sudo apt-get install ess r-doc-info r-doc-pdf r-mathlib \

    r-base-html tcl-tclreadline

R

# R is version 3.0.2

We remove R:

sudo apt-get remove r-base-core r-recommended r-base-dev \

    r-doc-html r-doc-info r-doc-pdf r-mathlib r-base-html

We download the latest version of R (R3.2.1) and install it

mkdir ~/Tools

cd ~/Tools

wget https://www.stats.bris.ac.uk/R/src/base/R-3/R-3.2.1.tar.gz

tar -xzvf R-3.2.1.tar.gz  

cd R-3.2.1/

./configure

# configure: error: --with-x=yes (default) and X11 headers/libs are not available

# installed x11 libraries

sudo apt-get install xorg-dev

./configure

# configure: WARNING: you cannot build info or HTML versions of the R manuals

# configure: WARNING: you cannot build PDF versions of the R manuals

# configure: WARNING: you cannot build PDF versions of vignettes and help pages

# installed texi2any etc

sudo apt-get install texinfo

./configure

# configure: WARNING: you cannot build PDF versions of the R manuals

# configure: WARNING: you cannot build PDF versions of vignettes and help pages

# install pdftex

sudo apt-get install texlive

./configure

# configure: WARNING: neither inconsolata.sty nor zi4.sty found: \

# PDF vignettes and package manuals will not be rendered optimally

# installed further texlive styles

# inconsolata and zi4 are present in texlive-fonts-extra

sudo apt-get install texlive-fonts-extra \

                     texlive-fonts-recommended

# install R

./configure

sudo make

# Failed:

# trying to compile and link a JNI program 

# detected JNI cpp flags    : 

# detected JNI linker flags : -L$(JAVA_HOME)/lib/i386/client -ljvm

# make[2]: Entering directory `/tmp/Rjavareconf.EIravR'

# gcc -std=gnu99 -I/home/russ/Tools/R-3.2.1/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c conftest.c -o conftest.o

# conftest.c:1:17: fatal error: jni.h: No such file or directory

#  #include <jni.h>

                 ^

# compilation terminated.

# make[2]: *** [conftest.o] Error 1

# make[2]: Leaving directory `/tmp/Rjavareconf.EIravR'

# Unable to compile a JNI program

# JAVA_HOME        : /usr/lib/jvm/java-7-openjdk-i386/jre

# Java library path: 

# JNI cpp flags    : 

# JNI linker flags : 

# Updating Java configuration in /home/russ/Tools/R-3.2.1

# Done.

# installed java7 dev kit:

sudo apt-get install openjdk-7-jdk

./configure

sudo make

# 

make check

make pdf

make info

sudo make install

sudo make install-info

sudo make install-pdf

# in a new terminal tab:

R

> install.packages('igraph')

Warning in install.packages("igraph") :

  'lib = "/usr/local/lib/R/library"' is not writable

Would you like to use a personal library instead?  (y/n) y

Would you like to create a personal library

~/R/i686-pc-linux-gnu-library/3.2

to install packages into?  (y/n) y

# use http version of UK::Bristol

library(igraph)