Thomas Cook (and Mytravel) have operated to Canada for a number of years for an independant tour operator called Canadian Affair. The flights TCX flew were TCX scheduled flights.
Last year, Canadian Affair was bought by Air Transat.
Just seems like a natural progression, Air Transat don't have enough seats in their fleet, so have continued with TCX and MYT to provide capacity. Interesting that MYT were not mentioned in the Code share. . . .