From time to time, it makes sense to not re-invent the wheel by building something in R that is already available in another program, like Cube Voyager.

This is incredibly easy:

system("voyager.exe script.S /Start /CloseWhenDone")

That’s it!  BUT…

If you want the output from a matrix available to R, the last line of your Cube script should include something like:

*cube2omxw output.mat

This will convert the output matrix to an omx file.  The star runs it from the command prompt.

Important requirements: voyager.exe and cube2omxw.exe must be in your path.