[R] BATCH processing in R

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Laura Drake (ladrake@ece.nwu.edu)
Wed, 01 Sep 1999 08:18:54 -0500 




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@ece.nwu.edu


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