To get WOL to work, you'll need to edit some hex values, and assign your 'true' machine MAC address, rather than the spoofed one that the XPEnology image is loading by default.
Follow instructions here: http://xpenology.com/forum/viewtopic.php?f=2&t=1353
Alternatively you could install "Advanced Power Manager" as suggested by DHD here: http://xpenology.com/forum/viewtopic.php?f=2&t=1789 -- this is what I'm using, and it's working without issues.
Login to your web interface, "Control Panel" - "DSM Settings" - "Security" tab - Change logout timer.
Use rsync together with cron. Here's a guide.