Fix security and setup warnings

The administration settings show some security and setup warnings.

There are some errors regarding your setup.

    Some files have not passed the integrity check. Further information on how to resolve this issue can be found in the documentation ↗. (List of invalid files… / Rescan…)

    Some app directories are owned by a different user than the web server one. This may be the case if apps have been installed manually. Check the permissions of the following app directories:
        /var/www/html/custom_apps/calendar
        /var/www/html/custom_apps/contacts
        /var/www/html/custom_apps/external
        /var/www/html/custom_apps/extract
        /var/www/html/custom_apps/forms
        /var/www/html/custom_apps/groupfolders
        /var/www/html/custom_apps/metadata
        /var/www/html/custom_apps/onlyoffice
        /var/www/html/custom_apps/polls
        /var/www/html/custom_apps/sociallogin

    Your installation has no default phone region set. This is required to validate phone numbers in the profile settings without a country code. To allow numbers without a country code, please add "default_phone_region" with the respective ISO 3166-1 code ↗ of the region to your config file.

Technical information
=====================
The following list covers which files have failed the integrity check. Please read
the previous linked documentation to learn more about the errors and how to fix
them.

Results
=======
- core
	- EXTRA_FILE
		- config.json

Raw output
==========
Array
(
    [core] => Array
        (
            [EXTRA_FILE] => Array
                (
                    [config.json] => Array
                        (
                            [expected] => 
                            [current] => 7f762aa6c6134050a9e82b55abd7ad44c1244aa847a34c615f5f4c4980e5abe5dd1013614863751448abb9b5a386937310f2d3b8dae3ddba0b6aba3afb7218eb
                        )

                )

        )

)