Refactor code to directly use Doctrine's ManagerRegistry

Replaced most of the invocations of getDoctrine()->getManager() with ManagerRegistry->getManager(), and added ManagerRegistry injection to controllers where needed. This is part of an ongoing effort to improve code clarity, and avoid unnecessary method chaining in various parts of the codebase.

docs/source/development/useful-snippets/controller-secured-for-person.php

@@ -18,6 +18,9 @@ use Symfony\Component\Security\Core\Role\Role;
 
 class ConsultationController extends \Symfony\Bundle\FrameworkBundle\Controller\AbstractController
 {
+    public function __construct(private readonly \Doctrine\Persistence\ManagerRegistry $managerRegistry)
+    {
+    }
     /**
      * @param int $id personId
      *
@@ -48,7 +51,7 @@ class ConsultationController extends \Symfony\Bundle\FrameworkBundle\Controller\
         );
 
         // create a query which take circles into account
-        $consultations = $this->getDoctrine()->getManager()
+        $consultations = $this->managerRegistry->getManager()
             ->createQuery('SELECT c FROM ChillHealthBundle:Consultation c '
                 . 'WHERE c.patient = :person AND c.circle IN(:circles) '
                 . 'ORDER BY c.date DESC')