If you've already used BitTorrent (I mean the protocol, not the software), you'll know that you need to download the .torrent file from a "normal" webserver, then use it to download the files in the torrent. If you want links to your .torrent files in the tracker, give the URL in the "Torrent's URL" field.
Does it reply to your question or do you need more details ?
PS : here is our sample tracker :
http://mpam.myftp.biz:8081/phpbttracker/