One way is for when you are learning a new kata and that is to go through it with abbreviated stances while learning the pattern. And only for learning the pattern, after that you should practise the second way.
The other way has two ways of doing it (lol). One of these is to do the kata properly with timing, breathing, stance, technique etc. --MUST do it this way UNLESS you are doing the following way! --
The second way (sub-way if you like) is to slow it all down, try to keep the timing for different parts in proportion to each other but do the whole thing S..L..O..W..L..Y. This allows you time to concentrate specifically on stance, individual techniques, or to pay extra attention to parts you know (or have been told) you need to work on.
Get it right slowly and it will be better at normal speed.
As long as you don't just switch on the auto-pilot.
And don't neglect the earlier kata so you can get straight onto the latest one(s).
Mick