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If you have loads of old kill files, you may want to convert them into score files. If they are “regular”, you can use the gnus-kill-to-score.el package; if not, you'll have to do it by hand.
The kill to score conversion package isn't included in Gnus by default. You can fetch it from http://www.stud.ifi.uio.no/~larsi/ding-various/gnus-kill-to-score.el.
If your old kill files are very complex—if they contain more
non-gnus-kill forms than not, you'll have to convert them by
hand. Or just let them be as they are. Gnus will still use them as
before.