Newcastle are expected to pay up to £9 million for the 27-year-old, who scored 16 league goals for Lyon last season, Aulas told French paper Le Journal du Dimanche website.
"We agreed on Newcastle's offer. The club (Newcastle) has come to accept the player's salary claims," Aulas was quoted as saying.
"The deal is now subject to an agreement over the agents fees," he added.
"I understand there's a problem over the amount and the payment of the fees ... Hopefully, it would be settled within the next 24 or 48 hours."
Gomis, who has played 12 times for France, has been one of the most consistent players in the French league for years, scoring at least 10 goals in each of the last seven seasons.