Painful upgrade

Just upgraded from 2.xx 12

Followed the upgrade guide. Get the following error

2018-12-25 18:26:27.290292 WARNING AppDaemon: Traceback (most recent call last):
  File "/srv/homeassistant/lib/python3.6/site-packages/appdaemon/appdaemon.py", line 1722, in check_config
    for file in latest["deleted"]:
KeyError: 'deleted'

Strangely enough i can’t find anywhere close the word deleted in my code

Ok as i wasn’t able to find an answer before posting i will leave it as is if somebody else stumbles upon

The cornerstone of the problem was located in the ordinary and not the error log

2018-12-25 19:13:21.367534 WARNING AppDaemon: apps.yaml in the Config directory is deprecated. Please move apps.yaml to the apps directory.
2018-12-25 19:13:22.391235 INFO AppDaemon: Reading config
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