"The specified base path "/home/rui/catkin_ws" contains a package but "catkin_make" must be invoked in the root of workspace" how can I fix it?

edit

It seems like you have a problem with your workspace structure.

As the message tells, you should run catkin_make in workspace root folder. Your workspace should have a tree like this:

/home
  /rui
    /catkin_ws
      /build
      /devel
      /src
         /your_ros_package
         /your_other_rospackage

And in this tree you should run catkin_make in catkin_ws folder.

If problem persists you can try recreating your workspace following the guide: http://wiki.ros.org/catkin/Tutorials/...