Recent　advances　in　continuous-flow　microfluidics　have　enabled　highly　integrated　lab-on-a-chip　biochips.　These　chips　can　execute　complex　biochemical　applications　precisely　and　efficiently　within　a　tiny　area,　but　they　require　a　large　number　of　control　ports　and　the　corresponding　control　logic　to　generate　required　pressure　patterns　for　flow　control,　which,　consequently,　offset　their　advantages　and　prevent　their　wide　adoption.　In　this　paper,　we　propose　the　first　synthesis　flow　called　MiniControl,　for　continuous-flow　microfluidic　biochips　(CFMBs)　under　strict　constraints　for　control　ports,　incorporating　high-level　synthesis　and　physical　design　simultaneously,　which　has　never　been　considered　in　previous　work.　With　the　maximum　number　of　allowed　control　ports　specified　in　advance,　this　synthesis　flow　generates　a　biochip　architecture　with　high　execution　efficiency.　Moreover,　the　overall　cost　of　a　CFMB　can　be　reduced　and　the　tradeoff　between　control　logic　and　execution　efficiency　of　biochemical　applications　can　be　evaluated　for　the　first　time.　Experimental　results　demonstrate　that　MiniControl　leads　to　high　execution　efficiency　and　low　overall　platform　cost,　while　satisfying　the　given　control　port　constraint　strictly.