Hi:
I'm using RSPerl_0.6-3 calling R from Perl under UNIX system. My perl programs
with the RSPerl work well in my computer. If submitting these programs to a
UNIX system by 'ssh' or to GNQS system by 'qsub', these programs do not work
even though both systems can run R. Details are following. Any suggestion
will be highly appreciated.
Xiao
My perl program 'tt.pl'
#!/usr/bin/perl -w
use R;
use RReferences;
&R::initR("--silent");
&R::setDebug(0);
&R::library("RSPerl");
@t = &R::call("min", (1,2));
I have a script 'doRSPerltt' for the perl program
#!/bin/csh
setenv LD_LIBRARY_PATH /usr/lib/R/lib
setenv R_HOME /usr/lib/R
perl -I/usr/lib/R/site-library/RSPerl/examples/../share/blib/arch
-I/usr/lib/R/site-library/RSPerl/examples/../share/blib/lib
-I/usr/lib/R/site-library/RSPerl/scripts t
t.pl
I used ssh to submit my job to machine 'queen'
ssh queen 'cd /nfs/fs/clarke/xiaoliu && ./doRSPerltt'
An error message returns
Fatal error: you must specify `--save', `--no-save' or `--vanilla'
If using 'qsub' to submit my job to a GNQS system
qsub
doRSPerltt
An error message returns
Warning: no access to tty (Bad file descriptor).
Thus no job control in this shell.
Fatal error: you must specify `--save', `--no-save' or `--vanilla'
XIAO LIU wrote:
> Hi:
>
> I'm using RSPerl_0.6-3 calling R from Perl under UNIX system. My perl
> programs with the RSPerl work well in my computer. However, if submitting to
> GNQS system, these programs do not work. It requires defining '--vanilla'.
> Can anyone tell me what I should do?
>
Are you certain this has something to do with RSPerl.
Specifically, have you tried running an R program on a GNQS system
and ensuring that works without --vanilla (as part of the command line
arguments)?
If it is only for RSPerl, perhaps you would do well to post the
error message that is generated.
> Thank in advance
>
> Xiao
>
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