Yes the error is definitely happening while running dada2 in R. One of the other admins pointed me towards this post, and it looks like this error has to do with a multi threading issue. Try reducing the number of threads you're using (all the way down to one if you have to) and see if that fixes it. If you're using more than one thread and you encounter an error a good rule of thumb is probably to try re-running the command with one thread and seeing if the error persists. Multi threading can be great when it works, but as we've seen here it can also cause some pretty difficult to track down errors.
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