Updating Website

Do you have a virus scanner on your machine?

If you don't go out and spend the money for Symantec or McAfee on Windows or
something like VirusBarrier on the Mac.

See where the virus is. It could be on the computer you are building on or
the server. Hard to tell where the root is so scan your computer first to see
if you can find the file. If your website is the only thing affected, contact
your host. If your computer is infected, delete everything from your website
and the remake any infected files.