If you are trying to use the same database. You really need to fix your current installation first, before you upgrade. Upgrading will not clear out problems in a modified database due to the malware.
Make sure you follow all the recommended steps. I will re-post links to them if you do not know them.
--------------- Added 07 Nov 2013 at 03:18 ---------------
Quote:
will i be able to restore my back up of the data base to the new install?
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No, you cannot restore your database to a new install.