All I did after installing it, was create a crontab entry for the directory I wanted to be indexed and then stuck the swish-e cgi program in the relevant cgi-bin folder.

My crontab entry goes like this:

0,9,12,17 * * * root /usr/local/lib/swish-e/DirTree.pl /mysambashare |
+ swish-e -S prog -i stdin -f /srv/www/index.swish-e >> /var/log/swish
+-e.log 2>&1
[download]

HTH.

Of course reading the docs is the best way to get to grips with swish-e