In the bios you have to make sure they are set the same (I prefer AUTO). When I worked as a tech we would get people all the time saying they had a virus because one of their hard drives was showing gibberish. If the drive types in the bios don't match you will see the drive but the data will be scrambled (won't hurt the data but windows won't beable to read it.
Other than that just set the jumers and you're good to go.
Michael