diff --git a/scripts/upgrade b/scripts/upgrade
index d79a599..0eca8f9 100644
--- a/scripts/upgrade
+++ b/scripts/upgrade
@@ -33,16 +33,20 @@ db_name=$app
 CHECK_MD5_CONFIG "connect.php" "$final_path/config/connect.php"	# Created a backup of the config file if it was changed.
 
 # Modify Nginx configuration file and copy it to Nginx conf directory
-sed -i "s@__PATHTOCHANGE__@$app@g" ../conf/nginx.conf*
-sed -i "s@__FINALPATH__@$final_path/@g" ../conf/nginx.conf*
+sudo sed -i "s@__PATHTOCHANGE__@$path@g" /etc/nginx/conf.d/$domain.d/$app.conf
+sudo sed -i "s@__FINALPATH__@$final_path@g" /etc/nginx/conf.d/$domain.d/$app.conf
+sudo sed -i "s@__NAMETOCHANGE__@$app@g" /etc/nginx/conf.d/$domain.d/$app.conf
 
-# If app is public, add url to SSOWat conf as skipped_uris
-if [ $is_public = "Yes" ];
+if [ "$is_public" = "Yes" ];
 then
-	ynh_app_setting_set "$app" unprotected_uris "/"
-	sudo cp ../conf/nginx.conf /etc/nginx/conf.d/$domain.d/$app.conf
-else
-	sudo cp ../conf/nginx.conf /etc/nginx/conf.d/$domain.d/$app.conf
+	sudo sed -i "s@#--PRIVATE--@@g" /etc/nginx/conf.d/$domain.d/$app.conf
+fi
+
+# Setup SSOwat
+ynh_app_setting_set "$app" is_public "$is_public"
+if [ "$is_public" = "Yes" ];
+then
+  ynh_app_setting_set "$app" unprotected_uris "/"
 fi
 
 # Reload Nginx