Re^3: Passing parameters to R script

That works fine, but there's a slightly neater way to do it; if you provide a TRUE value to the commandArgs function, it ignores any commandline parameters before (and including) --args.
So with Args <- commandArgs(TRUE), Args[1] is "100", and is the only element of the vector.

It's also possible to use a simpler syntax to call the script on the command line, which implicitly assumes that any arguments are given after the script name:
Rscript test.R 100

Cheers,
Julio

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Re^4: Passing parameters to R script by Anonymous Monk on Jan 09, 2011 at 14:28 UTC
In Bash shell `# a=1 # b=10 # Rscript -e "args<-commandArgs(TRUE);x=args[1]:args[2];x;mean(x);sd(x +)" $a $b [1] 1 2 3 4 5 6 7 8 9 10 [1] 5.5 [1] 3.027650` [download] So you can control variables on the command line R script and you can feed these variables into R itself using commandArgs(TRUE), and manipulate the variables as args1 and args2. So if I imagine if you are doing a system call in perl, you can also construct a similar Rscript on the command line, and get the output accordingly, which you can manipulate further within perl (or any other script).	[reply] [d/l]
Re^4: Passing parameters to R script by Anonymous Monk on Jan 06, 2011 at 03:53 UTC
Here is simple function to parse unix way of parsing argument from R. `# # # EXAMPLE: # R --test=mydata.csv #> getopt('test') #[1] "mydata.csv" # getting numeric argument # R --N=123 #> getopt('N',numeric=T) #[1] 123 # getopt <- function(argname, numeric = F) { args <- commandArgs() argexp = sprintf('^--%s=',argname) idx <- regexpr(argexp, args); ret <- NA if ( any(idx > 0) ) { # found matching argument found <- args[idx > 0] value <- strsplit(found,"=") ret <- unlist(value)[2] } if ( numeric ) ret <- as.numeric(ret) ret }` [download] cheers, c.okugami	[reply] [d/l]