The Lilypads were probably not allowing them to 'breath' which creates a breeding ground for yeast and fungi.
Washing them with warm, soapy water, allowing them to air dry and using fresh clean pads(I preferred disposible) helps. Also, for sore nipples applying a dab of pur lanolin, allowing your body heat to melt, then rubbing on helps a little. Bumps on the areola are normal, if they are just the Montgomery's glands. But, the bumps all over, and outside the areola sound like you might have a yeast infection, and the baby could also get thrush. Diflucan will help if so, but in any case-have your Dr. check it out quickly since your in so much pain. If you're able to stand pumping go ahead, it shouldn't pass in milk.