Re: [Fedora-r-devel-list] R-java and R-java-devel

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On Mon, 2009-04-06 at 17:26 +0200, Pierre-Yves wrote:
> On Mon, 2009-04-06 at 16:09 +0200, Martyn Plummer wrote:
> > This is using the JRI interface to call the R engine from within java.
> > If you want to do this then you should write a wrapper script that sets
> > all the necessary environment variables, the class path and so on.
> > 
> > The rJava package contains two examples "rtest" and "rtest2", both of
> > which are installed, along with a wrapper script called "run".
> Yes and their first step is:
> > #!/bin/sh
> > 
> > R_HOME=/usr/lib64/R
> even before running anything
> > A more extensive example is the JGR package which provides a Java GUI
> > for R. The GUI can be launched from the shell by running a wrapper
> > script - again called "run" - which is installed with the JGR package.
> > This script also works perfectly for me. 
> > 
> > This is not a reason to set R_HOME globally,
> I see two points, either we help the user by setting the R_HOME ourself
> directly within R and rjava works directly or we do not and let set
> R_HOME which he will do anyway to make rjava working...

How does it help the user to set R_HOME? 

The rJava package does two things:
1) It allows the R user to call java functions from within R.
2) It allows applications written in java to start an instance of the R
engine and pass data and commands back and forth.

It is the second use (the JRI interface) that concerns us.  There are
three parties in this situation:
1) R
2) The user
3) A third party java application.

The responsibility for setting R_HOME lies firmly with the third-party
application, which should launch from within its own shell, within which
R_HOME is set to the appropriate value.  This value should be determined
when the application is configured.  The user should never have to set

> Is there not a way for the testing suite of the development version to
> test if R_HOME is already set ?

Setting R_HOME in the environment before launching R is the wrong
thing to do. That is why the R shell script prints a warning, and it is
the presence of this warning that is causing the test suite to fail.

> Another solution could be to add the R_HOME only on the rjava package.
> If nothing is acceptable then we should roll back, I don't want to break
> R :)
> Best regards,
> Pierre

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