Well as you probably know you are going to have to format the HD again to FAT or FAT32 (preferably the later). I'm pretty sure you can do a quick format.
As far as the CD not booting. Try going into the bios and puting the CD before the HD and save and exit. Or if you don't want to change anything permanant you could just press F12 when the computer is booting up to select which drive you would like to boot up on. Hope that helps.
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