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On SCCS, RCS, CVS, and other early version control systems (and also in SRC), version control operations are file-based: each file has its own comment and revision history separate from that of all other files. Newer systems, beginning with Subversion, are changeset-based: a commit may include changes to several files, and the entire set of changes is handled as a unit. Any comment associated with the change does not belong to a single file, but to the changeset itself.
Changeset-based version control is more flexible and powerful than file-based version control; usually, when a change to multiple files has to be reversed, it's good to be able to easily identify and remove all of it.