[R-sig-Debian] Issue w/JGR after 2.10 upgrade: Error: could not find function...

[Doug Holton]

Appreciate your help.
After moving /usr/lib/R/site-library and and deleting any objects in the 
session and re-installing JGR the errors appear to have gone away now. 
Perhaps it was an old rJava or something, I don't know.
The object browser and so forth still were not working.  But I just 
tried it again from the script launcher and now the object browser works.
Weird,
anyway, thanks,
-Doug


Paul Johnson wrote:
> On Mon, Mar 15, 2010 at 3:05 PM, Doug Holton <doug.holton at gmail.com> wrote:
>> After upgrading to R 2.10 and upgrading and testing JGR 1.7, I and other
>> Ubuntu users are getting repeated error messages in JGR that look like this:
>>
>>> Error: could not find function ".getModels"
>> Error: could not find function ".getDataObjects"
>> Error: could not find function ".getOtherObjects"
>> Error: could not find function ".getFunctionsInWS"
>>
>> The object browser and package manager also do not work.
>>
> 
> Hmm.  I have Ubuntu with JGR 1.7, and i don't see any of those messages.
> 
> I see only:
>> library(JGR)
> Loading required package: rJava
> Loading required package: JavaGD
> Loading required package: iplots
> 
> Please use the corresponding JGR launcher to start JGR.
> Run JGR() for details. You can also use JGR(update=TRUE) to update JGR.
>> JGR()
> Please consider running JGR() as root to create a start script in
> /home/pauljohn/R/i486-pc-linux-gnu-library/2.10/JGR/scripts/run
> automatically.
> Starting JGR ...
> Warning message:
> In file(con, "w") :
>   cannot open file
> '/home/pauljohn/R/i486-pc-linux-gnu-library/2.10/JGR/scripts/run':
> Permission denied
> 
> I need to track down that "Permission denied" in my home directory,
> but JGR still seems to run. I can load datasets, do ordinary stuff.
> 
> What commands do you run to make the bad things happen.?
> 
> 
> I wonder if you have more than one java development environment
> installed.  It could be you have openjdk, which is the default, as
> well as the Sun packages.  I suppose if your /etc/alternatives links
> are not proper, it could confuse a lot of things.
> 
> The only *flashing warning* thing I noted about your post that might
> be a sign of trouble is this comment:
> 
> "I'm using sun-java6 (jre and jdk)."
> 
> If you install the Sun JDK, it includes the JRE within it, and
> installing both the jdk and the jre could cause the problem you see.
> If R CMD javareconf finds the JRE (which you installed separately from
> the JDK), then it has runtime stuff but no access to the devel
> libraries.
> 
>