A good point in a comment earlier:

"A small warning dialog like "Warning: the package manager is working right 
now, it is strongly recommended to wait for it to finish." and the user's 
options could be like "proceed anyways / wait and proceed / cancel".
Of course this could also be a text-based dialog if you're going to call 
poweroff, reboot or pm-whatsoever from shell."

Unattended upgrades is often the update method of choice on the
computers of numerous non-computer-savvy desktop users - the more
informed friends/relatives turn it on to keep the security up-to-date
without user interaction, which may not be possible because the user
doesn't know the superuser password required for the upgrade.

In this case, a clear warning for the user would be useful, in order to
prevent the confused user from forcibly shutting down the computer (by
pulling the plug, for example). The easiest way to do this would
probably be a LOCALIZED uppercase message in the stdout. Something like
"ATTENTION! THE COMPUTER IS PERFORMING AUTOMATIC SECURITY UPDATES, AND
WILL SHUT DOWN AUTOMATICALLY AFTER HAVING FINISHED. PLEASE DON'T TURN
THE COMPUTER OFF MANUALLY!"

(For a possible more GUIly way of printing the message, see a deferred
Karmic spec:
https://wiki.ubuntu.com/FoundationsTeam/Specs/KarmicUpdatesOnShutdown )

-- 
Kernel upgrades may leave system unbootable when its hibernated during the 
upgrade
https://bugs.launchpad.net/bugs/191514
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