I was using a raid system but swapped out a another disk and re-added it (quickly). DO NOT DO that!
Just an update. I am currently re-indexing the chain. My Lightning directory does seem intact but as a test I used chantools to compact the channel db file and it failed....  If everything fails, I plan on re-starting and opening channels to all nodes that were working well a couple of days ago
Was using LND 0.18.5