Fixed compile script to not use ifinstalled anymore.
HACK Fixed compile script to correctly pass through output targets to
RMarkdown, through the implementation is very rough currently.
It will look for additional arguments passed through and run RMarkdown
rendering once for each target. It would presumably be faster (and at
the very least more elegant) to pass all arguments through at once, but
I am not sure how to pass arguments through shell surrounded with
quotes.
