Exactly the same problem on Ubuntu 16.04:
~$ update-manager --debug
/usr/bin/update-manager:28: PyGIWarning: Gtk was imported without specifying a
version first. Use gi.require_version('Gtk', '3.0') before import to ensure
that the right version gets loaded.
from gi.repository import Gtk
/usr/lib/python3/dist-packages/UpdateManager/UnitySupport.py:29: PyGIWarning:
Dbusmenu was imported without specifying a version first. Use
gi.require_version('Dbusmenu', '0.4') before import to ensure that the right
version gets loaded.
from gi.repository import Dbusmenu, Unity
/usr/lib/python3/dist-packages/UpdateManager/UnitySupport.py:29: PyGIWarning:
Unity was imported without specifying a version first. Use
gi.require_version('Unity', '7.0') before import to ensure that the right
version gets loaded.
from gi.repository import Dbusmenu, Unity
DEBUG:AptClient.DebconfProxy:debconf socket:
/tmp/aptdaemon-jvmcnfew/debconf.socket
DEBUG:root:debconf.start()
DEBUG:root:debconf.stop()
INFO:root:holding back phased update grub-common (20 < 46)
INFO:root:holding back phased update grub-pc (20 < 46)
INFO:root:holding back phased update grub-pc-bin (20 < 46)
INFO:root:holding back phased update grub2-common (20 < 46)
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https://bugs.launchpad.net/bugs/1586492
Title:
update-manager does not update all available packages
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