Autopano is great, for most pano's but it does not do all well, I would or I do use, PTGuiPro and AutopanoPro, and believe it or not Photoshop to do pano's with.
Autopano has a great feature IMHO that checks a folder for pano's and then puts them together, or at least try to. I did one yesterday, well over the last few days, 180 images, or 160megapixel image, Autopano did a nice job, but PTGui did a better job. Granted I use a Panohead with an indent rotator, so I have reasonable overlab on my images.
Autopano is a great way to get into panorama making, but PTGui is probably better...when things gets hairy.
good luck and have fun
Henrik
PS: obviously heavily down sized...original is about 22000x7600 pixels