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I encountered the same problem today using Eclipse Juno and ROS Fuerte on a Ubuntu system. I tried the solutions by dgossow and snorri, neither worked.

After reading some more about eclipse it hit me. The problem was that my eclipse juno install started with a workspace of ~/workspace but my ROS project was located in ~/ros_workspace. Once I restarted eclipse with a workspace of ros_workspace I was able to successfully build my project.

I believe this problem is unique to Eclipse Juno and ROS Fuerte, as I have another computer running Eclipse Indigo and ROS Electric without this problem.

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