I run ubuntu linux and I have just bought a new ipod touch
You need itunes to set it up, which is, as usual, only available for Windows and mac (stupid apple for forgetting linux!!!).
How can I set up my ipod?
this is a long route but might work!
you could install 'wine' (windows emulator) into linux and then try itunes in 'wine', you may have to install a version of windows as well!
Try RhythmBox from here http://projects.gnome.org/rhythmbox/
you could also try amarok, it's available for both the gnome and kde desktop environment.