Jones did not travel to the south coast to face his former club, while Whelan continued to miss out through a groin injury.
"We kept Kenwyne and Glenn away because of that distraction," Pulis said.
"We didn't want to bring any distraction on the players, we wanted to focus on the game. I think we've done that.
"I've spoken to the two lads, they understand. I've had a good chat with them. It was a prank and everybody knows that.
"I think it's been a week of the lads getting at it in lots of respects.
"We'll deal with it in house and then the club will let you know. I have to say the disappointing thing is some coverage has been poor.
"One newspaper said it was about religion. That had absolutely nothing to do with it whatsoever.
"You have to accept it and get on with it. I'll speak to Peter and the family and let you know. As soon as we've sorted it all out we'll let you know next week."