Add processing of output level flags to Sim_tf skeletons

Without that one can not change the output level of any components using CA flags

Simulation/SimuJobTransforms/python/HITtoRDO_Skeleton.py

-# Copyright (C) 2002-2023 CERN for the benefit of the ATLAS collaboration
+# Copyright (C) 2002-2024 CERN for the benefit of the ATLAS collaboration
 
 import sys
 
@@ -110,6 +110,9 @@ def fromRunArgs(runArgs):
     # Post-exec
     processPostExec(runArgs, flags, cfg)
 
+    from AthenaConfiguration.Utils import setupLoggingLevels
+    setupLoggingLevels(flags, cfg)
+
     # Write AMI tag into in-file metadata
     from PyUtils.AMITagHelperConfig import AMITagCfg
     cfg.merge(AMITagCfg(flags, runArgs))