Handy tip: When moving lots of small files on Linux (between filesystems), use `rsync` instead of `cp` or your file manager. Yes, rsync. For local filesystems. You'll be amazed at just how much faster it is. 10-100x speedups are not uncommon.
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I don't know specifically what part of rsync's design makes this so fast, but the algorithm is described here: https://rsync.samba.org/tech_report/
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