I own a Trek 4500. To sort out a clicking noise that was coming from the bottom bracket while I pedalled, I took it to the local repair shop.

They clamped the seat post of the bike onto a bike repair stand, lifted the wheels of ground and proceeded to tighten the crank and pedal posts. The clicking noise disappeared subsequently, but I'm worried that unnecessay stress was placed on the seat post and bike frame because it was lifted off the ground (while the adjustments to the crank and pedal posts were being made).

Is this the correct way to tighten the crank and pedal post? Or should bike have been on the ground while the adjustments took place.