Configure Multiple MongoDB repositories with Spring Data Mongo

The base idea is to separate the package hierarchy that contains your repositories into two different paths:

• com.whatever.repositories.main package for the main db repository interfaces
• com.whatever.repositories.secondary package for the other db repository interfaces

Your XML configuration should be something such as:

<mongo:repositories base-package="com.whatever.repositories.main" mongo-template-ref="mongoTemplate"/>
<mongo:repositories base-package="com.whatever.repositories.secondary" mongo-template-ref="mongoAppTemplate"/>

EDIT

@EnableMongoRepositories annotation is not @Repeatable, but you can have two @Configuration classes, each annotated with @EnableMongoRepositories in order to achieve the same using annotations:

@Configuration
@EnableMongoRepositories(basePackages = "com.whatever.repositories.main", mongoTemplateRef = "mongoTemplate")
public class MainMongoConfig {
    ....
}

@Configuration
@EnableMongoRepositories(basePackages = "com.whatever.repositories.secondary", mongoTemplateRef = "mongoAppTemplate")
public class SecondaryMongoConfig {
    ....
}

And a third @Configuration annotated class which @Import the other two.