I would like to know what can be done about my employer not paying me for all the time I am in the clock

If you are a non-exempt employee, the employer must pay you for all time worked.  You do have a right to file with the Department of Labor.  However, it may be a better course of action to complain to HR or management that you are not being paid for all hours worked.  If you are an exempt employee, then it doesn't matter and the employer is not required to pay you for all hours.