Go to the easy setup. Clip advanced options or something like that (small checkbox in upper right)
Select Advanced Pulldown Removal.
You'll also have to set Firewire NDF (non-drop frame) and mark it as anamorphic
I haven't dealt directly with the anamorphic lens yet but you probably have to select Advance Pulldown in Capture settings and click Edit.
Set the anamorphic checkbox and save it as your own preset.
You can make the clips after capture but shoudl be easier just having them labeled correctly when imported.
Do a short test in any case to make sure everything is working before doign a full shoot.