Quartus Prime Lite Edition Clock

Check some of the report files generated by Quartus. In your project folder you should have an 'output_files' folder (depending on what version of Quartus you're using *). In there are files showing what Quartus has done with your design. Look at the *.pin file. This tells you about ALL the pins on your device, including which pins Quartus has used for the signals in your design. Check the clock input (and other signals) have been placed on the pins you're expecting.