>From the log:
2016-12-03T09:19:21.069388Z 0 [Note] InnoDB: Loading buffer pool(s) from 
/var/lib/mysql/ib_buffer_pool
2016-12-03T09:19:21.069453Z 0 [ERROR] InnoDB: Cannot open 
'/var/lib/mysql/ib_buffer_pool' for reading: No such file or directory

>From that and all around it it appers to me that on upgrade it has to upgrade 
>the database to be compatible with the new version.
That seemed to have failed for your custom installation/configuration/database, 
but I failed to find a particular reason in the logs that were submitted.

I happened to find https://bugs.mysql.com/bug.php?id=73952 - a 5.6 to 5.7 
change causing that depending on your ocnfig.
Which might hold a workaround to fix up your system to get into a working state 
again.
>From there everything should be fine again.

** Bug watch added: MySQL Bug System #73952
   http://bugs.mysql.com/bug.php?id=73952

** Changed in: mysql-5.7 (Ubuntu)
       Status: New => Incomplete

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https://bugs.launchpad.net/bugs/1647028

Title:
  package mysql-server-5.7 5.7.16-0ubuntu0.16.04.1 failed to
  install/upgrade: subprocess installed post-installation script
  returned error exit status 1

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