SeqRuler

This update adds a fix for command line users who use the "pairs" input format through the "stdin" input method. Users who use this format usually use SeqRuler as part of larger, automated pipelines.

This input format reads pairs from stdin in batches, and previously, it wasn't processing the last batch, nor inputs smaller than the batch size. This led to missing distances in the output. The fix included in this update ensures the last batch is processed as well.