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Name: Maxime
Subject: Re: Limiting search to subdirectories of document root

Probably, you need use tags, see 
http://www.dataparksearch.org/dpsearch-subsections.en.html#tags

For example, you may modify your indexer.conf something like that:

Tag d1
Server http://intranet.domain.com/department1/

Tag d2
Server http://intranet.domain.com/department2/

Tag d3
Server http://intranet.domain.com/department3/

...

# strip tag for the rest
Tag
Server http://intranet.domain.com/

Then you select part to search trough by &t= CGI-parameter:
http://intranet.domain.com/cgi-bin/search.cgi?q=term&t=d2

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