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Add new MetaDataSvc::prepareOutput(stream) and remove IgnoreInputFileBoundary flag

Marcin Nowak requested to merge mnowak/athena:metaSvc.prepareOutput into master

Remove IgnoreInputFileBoundary flag had no use and no future plans for use.

MetaDataSvc::prepareOutput(stream) is a new version of prepareOutput() that should work for parallel streams (metadata tools need to be adapted still)

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