Flyway: non-empty schema without metadata table

The title is somewhat contradictory, as the database is indeed not virgin as you installed, through the PostGIS extension, a number of objects in the public schema.

You can either

• set flyway.schemas to a new schema, say my_app, which will then be created automatically by Flyway. Your application should then use this one instead of public (recommended)
• set flyway.baselineOnMigrate to true or invoke flyway.baseline() against the public schema. This will work, but public will then contain a mix of both your application objects and the PostGIS objects