> during my tests in a bionic VM, I also observed once that
> prepared-update file being created without interaction with
> gnome-software: I simply ran "sudo apt update" in a terminal window,
> then requested shutdown, and the dialog offered to install updates,
> so something else also triggered packagekit

I am able to reproduce that behaviour rather reliably in a cosmic VM,
and this doesn't happen if I kill gnome-software that's running as a
daemon, so it looks like gnome-software is the culprit in that case too.

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https://bugs.launchpad.net/bugs/1775226

Title:
  Gnome Software offers installation of updates on shutdown
  independently from update-manager and unattended-upgrades

Status in gnome-software package in Ubuntu:
  In Progress

Bug description:
  In Ubuntu the GUI for upgrading packages is update-manager allowing
  debconf questions to be answered when needed and Ubuntu also offers
  unattended-upgrades for upgrading packages in the background and it
  keeps back packages from upgrading when configuration-file changes
  would need user interaction during the upgrade. Unattended-upgrades
  can be configured to perform upgrades during system shutdown.

  Gnome Software in Bionic started offering performing upgrades during
  shutdown using PackageKit independently from update-manager and
  unattended-upgrades without offering all of the features of either
  one.

  Unless there is a decision to fully switch to Gnome Software I suggest
  disabling the "Install pending software updates" on the shutdown
  screen to avoid confusing users.

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