Sounds fine to me, leave them in there for about 45 minutes then put them back in the run, arm yourself with a water soary and if it gets to full on a little spritz shoudl stop them in their tracks.
If they look to be getting a little stressed then just give them a 20 minute 'time out' in the carrier.
If they look to be getting a little stressed then just give them a 20 minute 'time out' in the carrier.