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mwdd: Fix sqlite (and other file issues) with umods & chmods

Addshore requested to merge umod-and-sqlite-permissions into main

This alters the location of the sqlite db files. It also sets a umod ALWAYS in install.php and also via LocalSettings.php which means we should have far less permission issues when juggling differnet things in different contexts.

It might make snense to set umods more too, for things such as running composer update as the wrong user etc..

https://phabricator.wikimedia.org/T287654

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