[TASK] Add an option to skip warnings

This patch enables a configuration option to skip certain warnings
in the extensions settings.yaml (based on the error code)
It also removes the global advancedConfiguration flag

Resolves: #58443
Releases: 6.2
Change-Id: I791a0f03bed82a84a9dfcc0b38fdc8f6963e7130
Reviewed-on: https://review.typo3.org/29794
Reviewed-by: Nico de Haen
Tested-by: Nico de Haen