This is a ‘would be nice to have’ feature. We know about it, but it’s not in our pipeline.
The general workaround is to implement the Eclipse project descriptor generation as a custom task, which would be automatically executed upon project synchronization. The latter is yet to be implemented, although we have it as an open-source opportunity proposal.
For the task execution there might be an immediate workaround. I haven’t used it yet, but all the fixtures are available. First you’d have to set up a custom project builder executing the Gradle task as an external command. Then this builder could be defined in the project’s configuration.