1) How can I search all fields at the same time? The QueryParser seems to only search one specific field.
The common thing I've done and seen others do is glue all the fields together into a master searchable field named something like "contents" or "keywords" (be sure to put a space in between text so it can be tokenized properly).
2) How can I automatically default all searches into fuzzy mode? I don't want my users to have to know that they must add a "~" at the end of all their terms.
Your description of searches for "cancer" finding "cancerous" isn't really what the fuzzy query is about. What you're after, I think, is more the stemming algorithms used during the analysis phase. Have a look at the SnowballAnalyzer in the Lucene sandbox. There is a little bit about it in the article I wrote for java.net: http://today.java.net/pub/a/today/2003/07/30/LuceneIntro.html - it definitely sounds like more work in the analysis phase is what you're after.
Erik
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