You probably went into the apartment part of the building - The Parking Garage for Wholefoods gives two hours free - make sure you have your voucher stamped by the cashier when you checkout and take your receipt also. The garage is on SE 3rd St.
The parking is to the north of the building on SE 2nd street. At the time of me writing this, parking was free.
The free parking is located at the 2nd Street. You just need to validate the ticket with the cashier inside the whole foods.
I haven't use there parking so I wouldn't know how much the charge an hr for parking. But I do know you can get your parking validated at the register.
The parking garage for Whole Foods is actually on SE 2 St.
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