In Ace Payroll you can use multiple pay frequencies. Each of these frequencies are processed as different pay runs.
In other words, you process your weekly pays and file them, and this does not affect your fortnightly pays - they are completely separate.
Each time you do your fortnightly pays, you need to file them as well.
Filing the pays for one frequency does not file the pays for the other frequency.
Note the dialog in step 3 only shows frequencies that are being used by your employees.
In other words, before selecting for example a monthly pay date, you must have at least one employee being paid monthly.