Former council senior town planner Jonathan Barrett said the area was not suitable because of the industrial businesses being developed there.
"With more businesses being attracted to that area you would have more heavy traffic coming in and out, and more industrial noise and dust.
"Resource consent was rejected because of insufficient information addressing the impacts and how it would deal with the conflicts of other existing businesses," Mr Barrett said in June.
But on Friday the council made a U-turn.
"They have given us the consent with a few minor queries but that shouldn't be too difficult to answer," Dr Thadigiri said.
He was now waiting on the building permit, which he hoped to receive next week.
"We are looking to start construction by the end of September and aiming to complete by the end of the year ... that's the goal anyway."
Dr Thadigiri said the medical centre would not close during the transition of sites.