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First, be sure to have the CDT edition and don't do it in your ROS workspace. The best is to have you ROS ws and Eclipse ws folders in the same folder Precise your source folder and use this:

catkin_make --force-cmake -G"Eclipse CDT4 - Unix Makefiles" --source $source_folder -DCMAKE_BUILD_TYPE=Debug

You also can add this argument, depending on your version and how powerful your computer is

-DCMAKE_ECLIPSE_MAKE_ARGUMENTS=-j2

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