Hey Dennis, first of all I'm not a coach or a doctor... Always remember the A,B,C's of archery, Always Be Comfortable. If something is hurting you, don't force it. It sounds that your body doesn't agree with your new form, or your bow is too heavy for your new form. Either way, at the very least take a break.
Years back I had a bad shoulder injury, the doc told me I could get surgery or try working out with light weights to build the muscles around my shoulder. Well I went with the work out program. Today my shoulder is the least of my shooting problems.
Good luck my friend and go see the doc if your pain continues.