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When using Fisheye nodes, the fisheye figure should be removed before changing the graph layout. Otherwise, this may result in a fisheye figure floating while the graph changes under it. Note that this does not happen for dynamic graphs. Possible solution would be to add something like fishEyeLayer.removeAll(); At the begining of the applyLayoutInternal() of the Graph class.
Re-assigning back to inbox, as Ian is no longer active committer.