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After you do the set from above:

rosws set --git --version=groovy-devel rosjava_core 'git://github.com/rosjava/rosjava_core.git'

remember to run 'rosws update rosjava_core' to update the folder from git

Explicitly specify the workspace that you want to update rosjava_core

I had this problem once... I then accidentally figured out the solution and forgot the solution. Now I've run into the problem again and couldn't remember how I solved it. But after fiddling around a bit... I recalled that this was the problem.