only cleanUp the remaining keys if the migration really finished succesfully

apps/encryption/command/migratekeys.php

@@ -115,5 +115,7 @@ class MigrateKeys extends Command {
 			}
 		}
 
+		$migration->finalCleanUp();
+
 	}
 }

apps/encryption/lib/migration.php

@@ -50,7 +50,7 @@ class Migration {
 		$this->config = $config;
 	}
 
-	public function __destruct() {
+	public function finalCleanUp() {
 		$this->view->deleteAll('files_encryption/public_keys');
 		$this->updateFileCache();
 		$this->config->deleteAppValue('files_encryption', 'installed_version');

settings/controller/encryptioncontroller.php

@@ -102,6 +102,8 @@ class EncryptionController extends Controller {
 				} while (count($users) >= $limit);
 			}
 
+			$migration->finalCleanUp();
+
 		} catch (\Exception $e) {
 			return array(
 				'data' => array(