Hmmmm...so unfortunately there doesn't really seem to be a decent workaround right now. The issue is that these metadata types converge on a single folder unlike all other Salesforce metadata types. So the
wave folder contains
*.wds,
*.wdash,
*.wapp, etc. When the IDE reconciles local metadata with server metadata, it does so through a filter based on the folder name and file extension associated with each metadata type. That well-defined coupling breaks down for these types. I've logged an issue for this:
but it's unlikely I'll be able to turn around a quick fix safely given that this is in the core of how metadata type/file matching works in the metadata retrieval engine. I'll take a look over the next few days and see if I can resolve this. I apologize that I can't provide a faster resolution that that. Please watch the referenced issue for progress.
Best regards,
Scott