ID:171166 Ignoring secured region assignments - Engineering Change Order (ECO) changes are incompatible with secured regions in this release of the Quartus Prime software
CAUSE: The Fitter is being run in the check and save netlist compilation flow, which is incompatible with secured region assignments. The results of the compilation are not secured and should be used only for debugging purposes.
ACTION: Perform a normal compilation if you want to use secured region assignments.