Rename modules when duplicating instances

Change the behavior of EliminateTargetPaths to generate ModuleTarget
renames when instances are duplicated. Previously, only InstanceTarget
renames would be generated.

In effect, annotations targeting a duplicated module when be
duplicated to point at the original and duplicated module.

Signed-off-by: Schuyler Eldridge <schuyler.eldridge@ibm.com>