apt upgrade mysqlserver freezes and will not upgrade (ubuntu server 20.04) - mysql

Question

I had to kill the session and then the databases are inaccessible until I reboot the server.
When I log back in and issue ‘apt upgrade’ i get the following error.
E: dpkg was interrupted, you must manually run 'dpkg --configure -a' to correct the problem.
I run ‘dpkg --configure -a’ and get the following and then it just freezes
Setting up mysql-server-8.0 (8.0.22-0ubuntu0.20.04.3) ...
mysqld will log errors to /var/log/mysql/error.log
mysqld is running as pid 86150
On another tty
journalctl -xe gives this when the upgrade freezes.
-- The unit mysql.service has successfully entered the 'dead' state.
Jan 13 22:18:12 arpradio systemd[1]: Stopped MySQL Community Server.
-- Subject: A stop job for unit mysql.service has finished
-- Defined-By: systemd
-- Support: http://www.ubuntu.com/support
--
-- A stop job for unit mysql.service has finished.
--
-- The job identifier is 582 and the job result is done.
Jan 13 22:18:13 arpradio audit[6057]: AVC apparmor="STATUS" operation="profile_replace" info="same as current profile, skipping" profile="unconfined" name="/usr/sbin/mysqld" pid>
Jan 13 22:18:13 arpradio kernel: audit: type=1400 audit(1610572693.036:16): apparmor="STATUS" operation="profile_replace" info="same as current profile, skipping" profile="uncon>
When I reboot and login mysqld is running
I have tried the following.
# cp -r /etc/mysql /etc/mysql_old
# apt autoremove
E: dpkg was interrupted, you must manually run 'dpkg --configure -a' to correct the problem.
# dpkg --configure -a
Setting up mysql-server-8.0 (8.0.22-0ubuntu0.20.04.3) ...
mysqld will log errors to /var/log/mysql/error.log
mysqld is running as pid 7451
And we are back here with the freeze.
If I check the mysql processes I find no process 7451 but this is the output.
# ps aux | grep mysql
root 1679 0.0 0.0 8644 4688 ? Ssl 22:23 0:00 dockerize -template /tmp/db.cnf.tmpl:/etc/mysql/conf.d/db.cnf /usr/local/bin/docker-entrypoint.sh mysqld
systemd+ 2526 0.3 0.1 2446780 99836 ? Sl 22:23 0:03 mysqld
root 7370 0.3 0.0 27940 19836 pts/0 S+ 22:38 0:00 /usr/bin/perl -w /usr/share/debconf/frontend /var/lib/dpkg/info/mysql-server-8.0.postinst configure 8.0.22-0ubuntu0.20.04.2
root 7379 0.0 0.0 9756 3772 pts/0 S+ 22:38 0:00 /bin/bash /var/lib/dpkg/info/mysql-server-8.0.postinst configure 8.0.22-0ubuntu0.20.04.2
mysql 7657 1.9 0.5 1869164 358336 pts/0 Sl+ 22:39 0:01 mysqld --user=mysql --init-file=/var/lib/mysql-files/tmp.gQukBE7GtT --socket=/tmp/tmp.KUFQmDDseF/mysqld.sock --pid-file=/tmp/tmp.KUFQmDDseF/mysqld.pid
root 7759 0.0 0.0 9032 724 pts/1 S+ 22:39 0:00 grep --color=auto mysql
I checked the status of mysql.service
# systemctl status mysql.service
● mysql.service - MySQL Community Server
Loaded: loaded (/lib/systemd/system/mysql.service; enabled; vendor preset: enabled)
Active: inactive (dead) since Wed 2021-01-13 22:38:59 CET; 17min ago
Process: 649 ExecStart=/usr/sbin/mysqld (code=exited, status=0/SUCCESS)
Main PID: 649 (code=exited, status=0/SUCCESS)
Status: "Server shutdown complete"
Jan 13 22:21:43 arpradio systemd[1]: Starting MySQL Community Server...
Jan 13 22:21:45 arpradio systemd[1]: Started MySQL Community Server.
Jan 13 22:38:57 arpradio systemd[1]: Stopping MySQL Community Server...
Jan 13 22:38:59 arpradio systemd[1]: mysql.service: Succeeded.
Jan 13 22:38:59 arpradio systemd[1]: Stopped MySQL Community Server.

Answer 1

I fixed it, what I did was while the upgrade was hanging I ran
apt update && apt upgrade
on another tty and it upgraded everything, rebooted, I checked again after reboot and everything looks good.
# apt update
Hit:1 http://asi-fs-n.contabo.net/ubuntu focal InRelease
Hit:2 http://asi-fs-n.contabo.net/ubuntu focal-updates InRelease
Hit:3 http://archive.ubuntu.com/ubuntu focal InRelease
Hit:4 https://download.docker.com/linux/ubuntu focal InRelease
Hit:5 http://asi-fs-n.contabo.net/ubuntu focal-backports InRelease
Get:6 http://security.ubuntu.com/ubuntu focal-security InRelease [109 kB]
Fetched 109 kB in 1s (112 kB/s)
Reading package lists... Done
Building dependency tree
Reading state information... Done
All packages are up to date.
root#arpradio:~# apt upgrade
Reading package lists... Done
Building dependency tree
Reading state information... Done
Calculating upgrade... Done
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
root#arpradio:~# ps aux | grep mysql
mysql 657 1.2 0.6 2067208 378684 ? Ssl 23:09 0:02 /usr/sbin/mysqld
root 2148 0.1 0.0 9796 4784 ? Ssl 23:11 0:00 dockerize -template /tmp/db.cnf.tmpl:/etc/mysql/conf.d/db.cnf /usr/local/bin/docker-entrypoint.sh mysqld
systemd+ 2930 0.8 0.1 2380944 99508 ? Sl 23:11 0:00 mysqld
root 5507 0.0 0.0 9032 732 pts/0 S+ 23:12 0:00 grep --color=auto mysql
root#arpradio:~# systemctl status mysql.service
● mysql.service - MySQL Community Server
Loaded: loaded (/lib/systemd/system/mysql.service; enabled; vendor preset: enabled)
Active: active (running) since Wed 2021-01-13 23:09:06 CET; 3min 26s ago
Process: 560 ExecStartPre=/usr/share/mysql/mysql-systemd-start pre (code=exited, status=0/SUCCESS)
Main PID: 657 (mysqld)
Status: "Server is operational"
Tasks: 38 (limit: 72284)
Memory: 419.9M
CGroup: /system.slice/mysql.service
└─657 /usr/sbin/mysqld
Jan 13 23:09:04 arpradio systemd[1]: Starting MySQL Community Server...
Jan 13 23:09:06 arpradio systemd[1]: Started MySQL Community Server.