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Is there really any alternative? Data migrations are always going to be terrible. You need to slowly roll out the incremental changes so that everything is backwards compatible until you the threshold point where you can finally delete the historical route.

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With an API, you can often create facades and other patterns to avoid having to migrate the underlying data

You can often also accomplish this with a database view.

In a sensible approach schema migrations are totally decoupled from the API.

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