1) My application is using ~600 meg of memory (according to windows task manager). I start yourkit and take a memory capure. The memory usage of the total machine climbs from ~800 meg (my application and the OS and other junk) to ~1.8 Gig of memory. I had to increase the VM setting on my machine because I only have 1 GB of physical RAM! Also, the capture took maybe 30 minutes, I would guess in large part because of the disk swapping that occurred.
2) Examining that memory capure required passing yourkit an -Xmx1024m (I tried 768m but that was not enough). This is not too bad, but smaller would be better.
The real problem here is that expanding the memory usage tree takes _much_ too long. Opening the package where 95% of the memory usage was, which has ~55 classes took between 5 and 10 minutes!