`cv.glmnet` works in RStudio but not RScript

Question

The following commands work fine in RStudio, but not RScript:

require(glmnet)
calibdata = read.csv(\"calibrationfile.csv\")

xs = model.matrix(as.formula(\"t         


        

Answer 1

I ran into same issue, and found two possible workaround (just for a complement of @Dirk Eddelbuettel's answer):

Well, I read somewhere that --default-packages=methods,utils needs to be passed to Rscript to work around this: https://github.com/stan-dev/rstan/issues/190

OR,

Also, it seems, Rscript being missing the load of the methods package. This can also be fixed by calling library('methods') at the beginning of your script: https://github.com/dhimmel/elevcan/issues/1.

Hope this helps.

Answer 2

RScript has this "lovely" feature of not loading the (base package) methods for you.

So all you need here is an additional

  require(methods)

or

  suppressMessages(library(methods))

For what it is worth, the littler command-line and scripting front-end to R that Jeff Horner and I wrote defaults to loading methods for you...