max3000 GCLK, GCLR, OE pins use

Even though an LPM_COUNTER has "lots" of ports, you do not need to use them all, or connect them all to the top-level pins on the part.

Typically your top-level pins would include; clock and reset (or resetN), and board-level I/O.

The LPM_COUNTER has an active high reset (aclr), whereas some of your other components may have active low reset (rstN). If your top-level reset was active-low too, eg., ext_rstN, then you can use an inverter to create your active high reset for the LPM_COUNTER.

I'd recommend getting your design complete first, and then worry about the top-level pin assignments. You can synthesize the design using Quartus and look at its warning messages to see if there are problems.

Cheers,

Dave