Finish the user settings jsonb, also fix references throughout app

Closes SCI-1475.

app/controllers/users/invitations_controller.rb

@@ -180,7 +180,7 @@ module Users
         message: sanitize_input(message)
       )
 
-      if target_user.assignments_notification
+      if target_user.settings[:notifications][:assignments]
         UserNotification.create(notification: notification, user: target_user)
       end
     end

app/controllers/users/settings/account/preferences_controller.rb

@@ -77,15 +77,15 @@ module Users
         end
 
         def notifications_settings
-          @user.assignments_notification =
+          @user.settings[:notifications][:assignments] =
             params[:assignments_notification] ? true : false
-          @user.recent_notification =
+          @user.settings[:notifications][:recent] =
             params[:recent_notification] ? true : false
-          @user.recent_notification_email =
+          @user.settings[:notifications][:recent_email] =
             params[:recent_notification_email] ? true : false
-          @user.assignments_notification_email =
+          @user.settings[:notifications][:assignments_email] =
             params[:assignments_notification_email] ? true : false
-          @user.system_message_notification_email =
+          @user.settings[:notifications][:system_message_email] =
             params[:system_message_notification_email] ? true : false
 
           if @user.save
@@ -115,7 +115,7 @@ module Users
 
         def update_params
           params.require(:user).permit(
-            settings: :time_zone
+            :time_zone
           )
         end
       end

app/helpers/application_helper.rb

@@ -100,7 +100,7 @@ module ApplicationHelper
       title: sanitize_input(title),
       message: sanitize_input(message)
     )
-    if target_user.assignments_notification
+    if target_user.settings[:notifications][:assignments]
       UserNotification.create(notification: notification, user: target_user)
     end
   end

app/helpers/notifications_helper.rb

@@ -44,7 +44,7 @@ module NotificationsHelper
       message: sanitize_input(message)
     )
 
-    if target_user.assignments_notification
+    if target_user.settings[:notifications][:assignments]
       UserNotification.create(notification: notification, user: target_user)
     end
   end

app/models/activity.rb

@@ -118,9 +118,9 @@ class Activity < ApplicationRecord
 
     project.users.each do |project_user|
       next if project_user == user
-      next if !project_user.assignments_notification &&
+      next if !project_user.settings[:notifications][:assignments] &&
               notification.type_of == 'assignment'
-      next if !project_user.recent_notification &&
+      next if !project_user.settings[:notifications][:recent] &&
               notification.type_of == 'recent_changes'
       UserNotification.create(notification: notification, user: project_user)
     end

app/models/user.rb

@@ -36,6 +36,8 @@ class User < ApplicationRecord
     size: { less_than: Constants::AVATAR_MAX_SIZE_MB.megabytes }
   validate :time_zone_check
 
+  store_accessor :settings, :time_zone
+
   default_settings(
     time_zone: 'UTC',
     notifications: {

app/models/user_notification.rb

@@ -40,17 +40,17 @@ class UserNotification < ApplicationRecord
       send_email_notification(
         user,
         notification
-      ) if user.system_message_notification_email
+      ) if user.settings[:notifications][:system_message_email]
     when 'assignment'
       send_email_notification(
         user,
         notification
-      ) if user.assignments_notification_email
+      ) if user.settings[:notifications][:assignments_email]
     when 'recent_changes'
       send_email_notification(
         user,
         notification
-      ) if user.recent_notification_email
+      ) if user.settings[:notifications][:recent_email]
     when 'deliver'
       send_email_notification(
         user,

app/views/users/settings/account/preferences/index.html.erb

@@ -12,7 +12,11 @@
         <%= form_for(@user,
                      url: update_preferences_path(format: :json),
                      remote: true,
-                     html: { method: :put, 'data-for' => 'settings[time_zone]' }) do |f| %>
+                     html: {
+                      method: :put,
+                      'data-for' => 'settings[time_zone]',
+                      'data-turbolinks' => false
+                    }) do |f| %>
           <div data-part="view">
             <div class="form-group">
               <%= f.label t("users.settings.account.preferences.edit.time_zone_label") %>
@@ -75,7 +79,7 @@
                   <%=t 'notifications.form.notification_scinote' %>
                 </div>
                 <div class="col-sm-8">
-                  <%= check_box_tag :assignments_notification, @user.assignments_notification %>
+                  <%= check_box_tag :assignments_notification, @user.settings[:notifications][:assignments] %>
                 </div>
               </div>
               <div class="row">
@@ -83,7 +87,7 @@
                   <%=t 'notifications.form.notification_email' %>
                 </div>
                 <div class="col-sm-8">
-                  <%= check_box_tag :assignments_notification_email, @user.assignments_notification_email %>
+                  <%= check_box_tag :assignments_notification_email, @user.settings[:notifications][:assignments_email] %>
                 </div>
               </div>
             </div>
@@ -100,7 +104,7 @@
                     <%=t 'notifications.form.notification_scinote' %>
                   </div>
                   <div class="col-sm-8">
-                    <%= check_box_tag :recent_notification, @user.recent_notification %>
+                    <%= check_box_tag :recent_notification, @user.settings[:notifications][:recent] %>
                   </div>
                 </div>
                 <div class="row">
@@ -108,7 +112,7 @@
                     <%=t 'notifications.form.notification_email' %>
                   </div>
                   <div class="col-sm-8">
-                    <%= check_box_tag :recent_notification_email, @user.recent_notification_email %>
+                    <%= check_box_tag :recent_notification_email, @user.settings[:notifications][:recent_email] %>
                   </div>
                 </div>
             </div>
@@ -133,7 +137,7 @@
                   <%=t 'notifications.form.notification_email' %>
                 </div>
                 <div class="col-sm-8">
-                  <%= check_box_tag :system_message_notification_email, @user.system_message_notification_email %>
+                  <%= check_box_tag :system_message_notification_email, @user.settings[:notifications][:system_message_email] %>
                 </div>
               </div>
             </div>