white rot

some of my garlic was looking yellow and sickly and I've just pulled some up to discover what appears to be white rot. Is it worth leaving the rest in the ground or should I pull it all up? Some of it looks ok still, foliage-wise. It is in a raised bed with shallots - which still look ok - and leeks that I have recently planted out. Not sure what to do with these - should I leave them and just hope for the best? From what I have read I am doomed if it's white rot as it will survive indefinitely. Do people just avoid growing any aliums for evermore or do you keep trying?
Also, at first white rot didn't occur to me and I've put all the rotten bits I pulled off them into the compost - so now I'm worried that I'm going to make the problem worse and spread it around the garden and all the raised beds 

I have grown my Garlic. ,Onions Leeks in Marshalls grow  bags 32ins x 21ins x12ins deep ,I have used these for 5yrs  covered with fine mesh and had no trouble . Each year I take a big bucket full of compost out and replace with rotted horse manure .

Harvested mine as soon as I found a few with the rot lost 8 I think of my soft neck Solent white, The elephant garlic managed to escape it and it was only a foot away.