How do I publish multiple DB contexts to azure using new publish web tool?

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Visual-Studio

Azure

migration

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I'm trying to publish a MVC6 EF7 project to Azure using VS2015. The project contains 2 DB Contexts: ApplicationDbContext (containing Identity info) and BaseDbContext (containing my project specific schema). I've used the dnx ef migrations tool to enable data scripting. Package Manager Console enable-migrations no longer works? When I publish the project to Azure using the new Publish Web tool, I don't see the Databases section on the wizard. How do I tell the system to point to an existing Azure database? After publishing the site comes up but when I hit a page that uses BaseDbContext, I get an error. I am able to register using ApplicationDbContext. My questions:

How to I tell the system to run script to instantiate BaseDbContext data structure?

How do I change the Azure database the system points to?

What happened to the old Package Manager Console "enable-migrations"? Is there something I need to do to reenable?

What I have tried:

My original project did not specify an azure database element. I don't know where I specify this information after the project is created. I built a new project to troubleshoot, this time creating the Azure database at creation. But only the default ApplicationDbContext publishes, not BaseDbContext.