HowToInstallRJava - Revision history

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2011-10-26T06:15:41Z

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← Older revision	Revision as of 08:15, 26 October 2011
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imported>StefanAlbaum at 10:29, 29 November 2010

2010-11-29T10:29:35Z

← Older revision		Revision as of 12:29, 29 November 2010
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	* R >= 2.11.x		* R >= 2.11.x

	R should be configured with <code><nowiki>--enable-R-shlib</nowiki></code> switch (which is the case by default). Please make sure that compiler and linker flags are set up appropriately (see [HowToBuildR_ForSolaris] for further details).		R should be configured with <code><nowiki>--enable-R-shlib</nowiki></code> switch (which is the case by default). Please make sure that compiler and linker flags are set up appropriately (see [[HowToBuildR_ForSolaris]] for further details).

	== Obtaining the Sources ==		== Obtaining the Sources ==
Line 51:		Line 51:

	(replace x.y-z with the actual version)		(replace x.y-z with the actual version)
	to install the default version of the library which is probably the 32bit/x86 version ~~of the library~~.		to install the default version of the library which is probably the 32bit/x86 version.

	To compile a 64bit/amd64 version of rJava make sure that the following environment variables are set up correctly (please adjust):		To compile a 64bit/amd64 version of rJava make sure that the following environment variables are set up correctly (please adjust):

imported>StefanAlbaum at 10:27, 29 November 2010

2010-11-29T10:27:11Z

@@ Line 51: / Line 51: @@
 (replace x.y-z with the actual version)
-and
+to install the default version of the library which is probably the 32bit/x86 version of the library.
 <pre><nowiki>
-azteca# R --arch amd64 CMD INSTALL --libs-only rJava_0.8-7.tar.gz
+azteca# R --arch amd64 CMD INSTALL --libs-only rJava_x.y-z.tar.gz
 </nowiki></pre>
-to install the amd64 version of rJava.
+to install the amd64 version of the rJava libraries. This will not (should not) replace any shared resources.
 == Setting up the Environment ==

imported>StefanAlbaum at 10:09, 29 November 2010

2010-11-29T10:09:46Z

New page

__NOTOC__
= Short Installation Instructions for rJava =

== NOTE ==
rJava is a simple R-to-Java interface. It is comparable to the .C/.Call C interface. rJava provides a low-level bridge between R and Java (via JNI). It allows to create objects, call methods and access fields of Java objects from R.

First, have a look at the RForge.net homepage and the instructions provided on the homepage:
http://www.rforge.net/rJava/index.html

Make sure that R was configured with Java support. If not, try to re-configure R by using R CMD javareconf (in any case it should not harm):

<pre><nowiki>
azteca# R CMD javareconf
</nowiki></pre>

'''Try to install rJava from within R:'''

<pre><nowiki>
> install.packages('rJava')
</nowiki></pre>

'''Only if this does not work, install rJava using the instructions provided below.'''

-----

<span style="font-size: x-large; color: red">!</span> '''The following information is meant for internal use at the CeBiTec. Any information in this document is provided without any warranty.''' <span style="font-size: x-large; color: red">!</span>

-----

== Prerequisites ==

* Java >= 1.6.x
* R >= 2.11.x

R should be configured with <code><nowiki>--enable-R-shlib</nowiki></code> switch (which is the case by default). Please make sure that compiler and linker flags are set up appropriately (see [HowToBuildR_ForSolaris] for further details).

== Obtaining the Sources ==

Download the newest version (Attention! check compatibility with installed R version) from RForge.net: http://www.rforge.net/rJava/files/

== Installation ==

You need to be a privileged user to install rJava in the standard location of R libraries and Perl modules.
At the console, type:

<pre><nowiki>
azteca# R CMD INSTALL rJava_x.y-z.tar.gz
</nowiki></pre>

(replace x.y-z with the actual version)
and

<pre><nowiki>
azteca# R --arch amd64 CMD INSTALL --libs-only rJava_0.8-7.tar.gz
</nowiki></pre>

to install the amd64 version of rJava.

== Setting up the Environment ==

For java applications to execute R commands from within compiled java you have to set <code><nowiki>LD_LIBRARY_PATH</nowiki></code>, and <code><nowiki>R_HOME</nowiki></code>:

<pre><nowiki>
R_HOME=/vol/r-2.11/lib/R # please adjust!
export R_HOME

R_JAVA_LIB=$R_HOME/library/rJava/jri

LD_LIBRARY_PATH=$R_HOME/lib:$R_JAVA_LIB:$LD_LIBRARY_PATH
export LD_LIBRARY_PATH
</nowiki></pre>