Config fixings

- Delete now really overwrites static default/setting.config.php keys
- Delete now really overwrites static default/setting.config.php categories
- The Update::check() routine is added to different places
- Merge the given config file with the new config before writing
- Remove ConfigTransaction::get() because it's no more reliable

bin/daemon.php

@@ -33,6 +33,7 @@ if (php_sapi_name() !== 'cli') {
 use Dice\Dice;
 use Friendica\App\Mode;
 use Friendica\Core\Logger;
+use Friendica\Core\Update;
 use Friendica\Core\Worker;
 use Friendica\Database\DBA;
 use Friendica\DI;
@@ -63,7 +64,9 @@ $dice = $dice->addRule(LoggerInterface::class,['constructParams' => ['daemon']])
 
 DI::init($dice);
 \Friendica\Core\Logger\Handler\ErrorHandler::register($dice->create(\Psr\Log\LoggerInterface::class));
-$a = DI::app();
+
+// Check the database structure and possibly fixes it
+Update::check(DI::basePath(), true, DI::mode());
 
 if (DI::mode()->isInstall()) {
 	die("Friendica isn't properly installed yet.\n");