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This is a similar question to my previous one.

I now am trying to get Backtrack5 onto a separate partition of my main hard drive with windows but the site says that I need a clean hard drive. Is there anyway around this?

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Just to clarify, the seperate partition is empty and windows is installed on a different partition on that hard drive? – Anthon Jun 13 '13 at 5:36
yes i have my hard drive split into two partitions that way i can choose which os to boot from each time i start my machine @Anthon – cmd Jun 13 '13 at 5:38
Then you should update your question main hard drive with windows could mean there is only windows on it, and all partitions belong to it. – Anthon Jun 13 '13 at 5:40

You probably looked at the How to install to a harddisc documentation, you should be using use the dual boot option (assuming your separate partition is not used by Windows, see comment).

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