For Morison elements, the Aqwa solver automatically determines the waterline location from the instantaneous element position, and the water level (in a frequency domain analysis) or the wave surface elevation (in a time domain analysis). In other words, the 'split' is performed internally by the Aqwa solver, so you do not need to worry about splitting the line element in the geometry editor.
I hope this helps; please let me know if you have any other questions.
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