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You should save the joint angles into a rosbag http://wiki.ros.org/rosbag/Commandline#record then load the bag into matlab https://www.mathworks.com/help/robotics/ref/rosbag.html .

If you really want to save the QwtPlot as an image you could screen grab it into a ros image with https://github.com/lucasw/screen_grab but the underlying plot data would not be easily recoverable for usage any other tool, it would just be a series of images.

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