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AthenaPython: Fix to work with new-style configuration.

Scott Snyder requested to merge ssnyder/athena:newConfig.AthenaPython-20190621 into master

With the new-style configuration, we use the Gaudi AppMgr directly rather than the Atlas version. This breaks the OutputLevel special case that was trying to access MessageSvc. Don't crash is MessageSvc can't be found.

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