Package: mysql-server-5.6 Version: 5.6.27-2 Severity: important cqrlog's bug #801755: "cqrlog: prompting due to modified conffiles which were not modified by the user: /etc/apparmor.d/usr.sbin.mysqld" was just fixed by using /etc/apparmor.d/local/usr.sbin.mysqld for its additions instead of modifying the conffile owned by mysql-server-5.6.
It needs a little cooperation from mysql-server-5.6 to ensure cqrlog gets upgraded first (it will undo the conffile modifications on upgrades) and mysql afterwards (with an again pristine usr.sbin.mysqld). Please add a versioned Conflicts: cqrlog (<< 1.9.0-5~) to mysql-server-5.6. Yes, this must be a versioned Conflicts, you may add a lintian override for this. A Breaks is not sufficient since it would allow to just deconfigure the cqrlog package, but we must ensure that it is either removed or upgraded (the conffile modifications will be undone in both cases) before mysql gets upgraded. I verified in piuparts with a patched mysql-server that this actually fixes the upgrade path of cqrlog. Andreas