Remove circular dependencies

[diehuxx]

We ran into a circular dependency issue when trying to update dwn-sdk-js version in dwn-sql-store. decentralized-identity/dwn-sql-store#9. I was able to resolve it quickly with #598.

But, we have plenty of other circular dependencies in dwn-sdk-js. They don't seem to be causing immediate problems, but we should resolve them soon since they are hard to debug. Consider using a tool like madge to detect circ dependencies.

[thehenrytsai]

This should be done now.