[R] Some install package fixes for Ubuntu Hardy

Dirk Eddelbuettel edd at debian.org
Fri Mar 27 04:11:31 CET 2009

On 26 March 2009 at 09:45, John C Nash wrote:
| I encountered some failures in using install.packages() to install rgl 
| and rJava in some of my (multiple) Ubuntu Hardy systems. A quick search 
| of the 'Net did not show any debian packages for these. The 
| install.packages messages said header or other files were missing, 
| suggesting path and related woes. Email with Duncan Murdoch (thanks!) 
| pointed the way with rgl and led to a fix for rJava in similar fashion. 
| It may save others some frustration to know my resolution. See below.
| However, I do have a question which a brief rummage of r-project did not 
| answer. Where should information like this be put? My opinion is that it 

Maybe on the r-sig-debian list that is dedicated to Debian / Ubuntu and R?

| should go on the wiki, but possibly there is a better solution if we can 
| get the right messages into the package installers, though I recognize 
| the load that puts on maintainers.
| Cheers, JN
| Ubuntu Hardy rgl install fix:
| The headers gl.h and glu.h are installed with the "dev" packages 
| libgl1-mesa-dev and libglu1-mesa-dev. So the fix is to run (in at 
| terminal as root)
| apt-get install libgl1-mesa-dev
| apt-get install libglu1-mesa-dev

Yes, which is why the r-cran-rgl package (available in Debian for over five
years now, and hence in Ubuntu for probably 4 1/2) has the following
Build-Depends (with my manual indentation here):

  Build-Depends: debhelper (>= 5.0.0), r-base-dev (>= 2.8.1), cdbs, \
  	      libgl1-mesa-dev | libgl-dev, libglu1-mesa-dev | libglu-dev, \
	      libpng12-dev, libx11-dev, libxt-dev, x11proto-core-dev 
| then
| R
| .....
| install.packages("rgl")
| etc.

Let's not forget the 'sudo apt-get install r-cran-rgl' alternative.
| Ubuntu Hardy rJava install fix:
| Needed to get Sun JDK (not JRE)
| Then add new
| ln -s /usr/java/jdkxxxxx/bin/java java
| and
| ln -s /usr/java/jdkxxxxx/bin/javac javac
| where xxxxxx is the version information on the jdk directory name -- in 
| my case 1.6.0_13 (see below)
| Then
| R CMD javareconf
| still fails to find the java compiler.
| Seems $JAVA_HOME may not be defined.
| Try
| export JAVA_HOME="/usr/java/jdk1.6.0_13/"
| Then (as root)
| R CMD javareconf
| seems to work.
| Then rJava installed OK. I was then able to install RWeka (my original 
| objective) and it seems to run OK.

Likewise, the r-cran-rjava package has 

   Build-Depends: debhelper (>= 7.0.0), r-base-dev (>= 2.8.1), cdbs, \
   		  openjdk-6-jdk, automake

and R is now configured for this Java version at the built.

Again, questions on the r-sig-debian list may have been of help.

Hope this helps,  Dirk

Three out of two people have difficulties with fractions.

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