[R] BATCH processing in R

[Laura Drake]

Dear List,

My question is whether it is possible (and if so, how) to enter values
into R vectors (R_OUTFILE, and R_INFILE in my example below) from the
command line.  In particular, I would like to run R, as a BATCH job,
from a shell script, such as the following:

	while read inputfile_name outputfile_name; do
	  R_OUTFILE=$outputfile_name
	  R_INFILE=$inputfile_name

	  R BATCH infile.R
	done

with, for example, the following infile.R able to use the variables,
R_OUTFILE, and R_INFILE.

	sink(R_OUTFILE)

	x<-read.table(R_INFILE)
	mode(x)="numeric"
	library(cluster)

	a<-agnes(x,T)
	a$order
	a$height

	sink()
	q("no")

I suppose I could write a different infile.R for each pass through the
shell script while-loop, but I don't want to do that if it's avoidable.


Thank You for Any Help You are Able to Provide,

	Laura Drake
	ladrake at ece.nwu.edu
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