DragonFly has a page on updating pkgsrc, and so does NetBSD. I don’t think I linked to the latter before, but even if I didn’t, it’s still useful.
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So at least 6 options how to update packages and probably only one or two consistent (but not 100%) in the mean that it will update binary and/or ports/pkgsrc.
Come one. It’s 21st century. We will be repeating same problems as in Linux with number of tools and any of them proper?
Oh, there’s more options out there. It’s almost a reflex. “Hey, these built-in options don’t work reliably. I’ll invent my own package management tools!”, repeatedly.
And here we have real example http://leaf.dragonflybsd.org/mailarchive/users/2012-06/msg00008.html . Not sure why there must be need for reinventing wheel as one BSD has functional package system and comes from same roots as all other BSD packaging systems.