R help - Nov 2009 - Mysterious R script behavior when called from webserver

Hi,

I am trying to transition a system based on dynamic image generation (via R) 
from our development system to a production environment. Our R script 
functions as expected when run by a regular user. However the script dies 
when calling the png() function, when started by the webserver user.

Here are some details
>sessionInfo()
R version 2.9.2 (2009-08-24)
i686-pc-linux-gnu
locale:
C 
attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

The script gets to this line:

png(file=filename, width=600, height=400)

and then dies. It leaves an empty PNG file where it should be, however it 
never finishes the file. If 

I replace png() with pdf() an output file is generated and closed by dev.off() 
as expected.

It seems like the environment is setup just as when started by a regular user, 
specifically the LD_LIBRARY_PATH variable.

This behavior suggests that R is encountering an error, and stopping. However 
there is no reporting of the error. Is there any way to get more verbose 
error reporting?

Cheers,
Dylan




-- 
Dylan Beaudette
Soil Resource Laboratory
http://casoilresource.lawr.ucdavis.edu/
University of California at Davis
530.754.7341

On Wed, Nov 25, 2009 at 8:15 PM, Dylan Beaudette
<debeaudette at ucdavis.edu> wrote:
> Hi,
>
> I am trying to transition a system based on dynamic image generation (via
R)
> from our development system to a production environment. Our R script
> functions as expected when run by a regular user. However the script dies
> when calling the png() function, when started by the webserver user.
>
> Here are some details
>
>>sessionInfo()
> R version 2.9.2 (2009-08-24)
> i686-pc-linux-gnu
> locale:
> C
> attached base packages:
> [1] stats ? ? graphics ?grDevices utils ? ? datasets ?methods ? base
>
> The script gets to this line:
>
> png(file=filename, width=600, height=400)
>
> and then dies. It leaves an empty PNG file where it should be, however it
> never finishes the file. If
>
> I replace png() with pdf() an output file is generated and closed by
dev.off()
> as expected.
>
> It seems like the environment is setup just as when started by a regular
user,
> specifically the LD_LIBRARY_PATH variable.
>
> This behavior suggests that R is encountering an error, and stopping.
However
> there is no reporting of the error. Is there any way to get more verbose
> error reporting?
 How is R run from your web server? Does it start a new R process or
is it an apache module thing with a dynamically linked R (if such a
thing even exists)? Can't figure out how you could get more error
reporting without knowing that - you need to see where stderr is
going, possibly to the apache error.log file - have you looked there?

 Have you tried a trivial png generating example, just a three liner:

png(file="/tmp/wherever/foo.png")
plot(1:10)
dev.off()

 just in case it's something else previous in your script that's
breaking things.

 In the old days of R you needed an X11 display connection to do PNG
graphics, but that was fixed before 2.9, I think. Try it interactively
but unset the DISPLAY variable first:

 export -n DISPLAY
 R
  > png(... etc etc)

 Does that work?

Barry