Deprecate PersistentResourceDefinition.Parameters, remove all uses

PersistentResourceDefinition.Parameters extends SimpleResourceDefinition.Parameters but doesn't add anything to it, it just overrides and delegates to some superclass methods. But it's a builder kind of API so for every method it doesn't override, the superclass is not returning the subclass type, making it hard to use.

The PersistentResourceDefinition can just accept the superclass Parameters.