Had another guy take a look at the roof. He told me its better to leave the nails in place and just caulk them water tight with some special metal caulk (forgot already what he called it). Pulling the nails out would damage the panels. He offered to do the job for a couple of thousand...

Opinions?

At this point I have decided that I simply hate climbing to high places so much that I am going to let someone else to do the fixing.

Pete