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I would recommend using the pbapply package for this. It is lightweight (only a handful of functions), and implements a progress bar automatically. Plus if you pass a parallel cluster object to it then it does parallelization automatically (including with a progress bar!), so it would be easy to add parallel functionality later. I use it for almost everything now it is so handy. If you like I can have a crack at implementing it for RTS.
I don't know how I hadn't seen this before, but that sounds fantastic! That'd be good for a lot of the other tests too; many times we're doing hundreds of replicates, and it'd be nice to let people know where they are in the process.
And maybe add some data/predictor bootstrapping options too?
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