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The misplacement of the airport is the latest in a long line of errors found in the app, which has come in for heavy criticism since it took over from Google Maps in the recently released iOS 6 operating system, which runs on iPhones and iPads.
This has seen a farm labelled as an airport, highways that end in the middle of nowhere and towns in the wrong location.
Airport chief executive John McCall said he could see the funny side of the mistake and thought it would be "pretty obvious" to anyone looking at their iPhone that the airport could not be in the centre of the city.
However, it was important people were given accurate directions to the airport and he would ask a member of his staff to try to sort the problem out today.
"I do know that we are in the right place when it comes to Google Maps," he said.
Other errors in the app's New Zealand maps include Timaru Airport marked in a Christchurch suburb and the centre of Wanaka marked in a paddock beyond the town's golf course.