JGR on Linux

Although we do not provide JGR binaries for Linux distributions, we are testing some of them. This page shows hints and tips for the most common distributions.

Debian (etch)
Ubuntu 6 (Dapper)
Ubuntu 7 (Faisty Fawn)
OpenSUSE 10.2

In general installing JGR on any unix system is simple, you need

R with shared library (libR.so) and developer files
JDK 1.4 or higher (>=1.5 recommended)

Then simply run as root:

R CMD javareconf
R

install.packages('JGR') library(JGR) JGR()

Debian (etch)

Install the most recent R version
Follow instruction from CRAN Debian page, in a nutshell add:
```
deb http://cran.r-project.org/bin/linux/debian etch/
```
to the file /etc/apt/source.list (if it's not there already) and run
```
apt-get update
apt-get install r-base-dev r-recommended
```
Install Java Development Kit
This one is quite easy (make sure you have enabled non-free package in Debian):
```
apt-get install sun-java5-jdk
```
If you have more than one Java version installed, set the Sun version as default, e.g.:
```
update-java-alternatives -s java-1.5.0-sun
```
Enable Java support in R
As root run:
```
R CMD javareconf
```
Install JGR
In R as root (e.g. via sudo R) type:
install.packages('JGR') library(JGR) JGR()

Ubuntu Dapper (6.x)

The instructions are pretty much the same as for Debian etch, except that in step 1) you have to add the following line to sources.list instead:

deb http://cran.r-project.org/bin/linux/ubuntu dapper/

and also make sure your main deb entry for ubuntu contains multiverse (do NOT uncomment the backport list, just add one more word in the main ubuntu line - see Ubuntu Java page for details).

Ubuntu Feisty Fawn (7.x)

Install the most recent R version
Follow instruction from CRAN Ubuntu page, in a nutshell add:
```
deb http://cran.r-project.org/bin/linux/ubuntu feisty/
```
to the file /etc/apt/source.list (if it's not there already) and add multiverse to the main ubuntu faisty deb line (NOT the backports!). Then run
```
sudo apt-get update
sudo apt-get install r-base-dev r-recommended
```
Install Java Development Kit
Make sure you have enabled the multiverse above (run sudo apt-get update if necessary) and run:
```
sudo apt-get install sun-java6-jdk
```
If you have more than one Java version installed, set the Sun version as default, e.g.:
```
sudo update-java-alternatives -s java-1.6.0-sun
```
Enable Java support in R
Run:
```
sudo R CMD javareconf
```
Install JGR
Run R as root via sudo R and type:
install.packages('JGR') library(JGR) JGR()

Open SuSE 10.2

The package management system in SuSE is really .. let's say suboptimal, so the installation is quite complicated compared to Debian-based systems, but this should guide you through it:

Install the most recent R version
Read SuSE on CRAN info for details - it's a bit of a pain as you have to install it manually (don't forget to install blas and libgfortran using yast first!).
Install Java Development Kit
Add non-oss repository to your Installation Sources (if you didn't already). Then search for "Sun" in Software Management and install java-1_5_0-sun and java-1_5_0-devel. On a clean 10.2 system I also had to run sudo update-alternatives --auto java, because the java link was broken. Make sure both java and javac work. If you get stuck along the way, read the SuSE Java page.
Enable Java support in R
Run:
```
sudo R CMD javareconf
```
Install JGR
This is a bit more tricky in SuSE than other unices as their idea of sudo is strange (to put it mildly). One should not be running X11 as root, so I'm assuming a regular user here. First, you need to allow root to use your X11, then start R as root and install JGR. This is an example how you can do it:
```
xhost +  # enable X11 access
sudo bash # start a root shell
DISPLAY=:0 R # run R as root with DISPLAY set
```
install.packages('JGR') library(JGR) JGR()
After this you can run the run script as a regular user.

JGR Version 1.5 was successfully tested with all the distributions above exactly as shown.