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Hi Ruben.
We have seen that there seems to be some weird interaction with the ROS overlays.
In your workspace there should be our version of the ros_control repository, which includes among other the controller_manager package.
But from your log, it looks like it's using the version in /opt. (/opt/ros/kinetic/include/controller_manager/controller_manager.h)
While we look deeper into the issue you can remove the installed version.
Or since the failure is in a test, you could build with:
catkin build -DCATKIN_ENABLE_TESTING=0