Migrate All Dependencies To api/implementation Configurations

[dmdashenkov]

Recently, we've started the migration of the Spine modules to java-library Gradle plugin and api/implementation dependency configurations instead of the deprecated compile.

Though, the only known way to link .proto dependencies from one module to another is with the compile configuration.

It is required to migrate to all the dependencies which still use compile as soon as the Protobuf Gradle plugin supports that.

See this issue for the status updates.