Milestone 6: Idea project files get other dependencies than shown in gradle dependencies

I have encountered a problem with Milestone 6. I have a dependency to solr-core 3.5, which apparently depends transitively to jcl-over-slf4j version 1.6.1; now I have manually configured to use jcl-over-slf4j version 1.6.4 (since I am using SLF4J 1.6.4), and “gradle dependencies” does not show any dependency to version 1.6.1. But if I create my IDE configuration using “gradle idea”, both versions 1.6.1 and 1.6.4 are downloaded and added to the classpath.

Any chance you could construct a simple gradle project demonstrating this behaviour?