How do I format partition as NTFS?

I'm trying to install Windows Vista on my Mac Pro, second hard drive. I printed out the instructions for the Bootcamp process. I'm using a single partition drive and letting Bootcamp set up a second partition for Windows. Everything works okay, but it won't install. I get this error message: "Disk 1 Partition 3 Bootcamp. Windows cannot be installed to this disk space. Wiondows must be installed to a partition formatted as NTFS.
What I should I do to correct this problem. I thought this would be a pretty easy process using Bootcamp on Leopard.
Thanks for the help.

I have the exact same problem, I got a new 8 core Mac Pro with 2 HD. I was planning to install Windows on the second drive but kept getting the "Windows cannot find system volume..." message. I tried every combination and workaround I could find (including those in this thread) and the ones on the various Windows support sites but nothing worked.
I finally gave up and tried to install on the HD in Bay 1 (drive 0), so I used bootcamp assistant to split the disk 0 (bay 1) that has my mac partition with a Windows Partition, followed the instructions for bootcamp and it worked as expected! No more errors.
So I wonder if there is something about those secondary drives that Windows does not like (I read somewhere it could be a problem with the SATA driver)
Since I still want to have my windows and mac on the 2 separate drives, I wonder if swaping them - putting disk in bay 2 in bay 1 and the one in bay 1 in bay 2 and putting Leopard on what was the drive 1 instead of drive 0 and windows on the old drive 0 - could help. I have not tried it yet since I'll have to re-install Leopard from the disks and need to backup the system first. If I try I'll post back the results to this thread.
For now it looks like your only option is to split your primary HD with a windows partition and not use the separate internal drive.

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    Free Clusters  :                  0x0000000005e48694
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    Bytes Per Physical Sector :       512
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    Mft2 Start Lcn :                  0x0000000000000002
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    Free Clusters  :                  0x0000000004cd1d59
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    Mft Start Lcn  :                  0x00000000000c0000
    Mft2 Start Lcn :                  0x0000000003d33dff
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    Total Clusters :                  0x000000001d1b8fff
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