Would be nice if you posted your solution, because someone else might find it interesting too.
I assume you've had your trades marked as new and you had start raws and start clicks parameters set. http://forum.tradeexpert.net/viewtopic.php?f=2&t=38
Of course, I use SmartThumbs skim and had the pattern set by comma. The reference is to be given under Outgoing Manual. After I skim the pattern set with a point had it running flawlessly.