I ran the updates manually last night.
So I could prevent the configuration files from being overwritten and answer the questions with NO. With the automatic update, the same questions are answered with YES and that then triggers the “error”.
As eris has already described, the “local settings” must be preserved.
Otherwise, the following configuration will be overwritten:
‘/etc/apache2/apache2.conf’
‘/etc/apache2/ports.conf’
and
‘/etc/logrotate.d/apache2’