I suggest that you start your handling after they've gone to bed at dusk - you can then pick them up easily to check over or just hold for a cuddle.
During the day, I found that if the girls saw humans as the source of food, they very quickly learned to hang around right under my feet so they became easy to stroke or pick up. Every time you go near the run, have some treats - a little grain, a bit of sweetcorn, lettuce or whatever - in your hand and sit still, scattering treats gradually closer to your feet so they see that the scattered food is from your hand. You'll be astounded by how quickly they'll see you as a good friend!
I can't advise about how long before you let them out, as my girls are limited to an area of the garden, not freely ranging. However, it doesn't take them long to remember where they go to bed at night.