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LinkChecker tries to check links he finds inside <script> tags. In general it's a normal operation but it could be broken with following code: <script type='text/javascript'>(function(){var d=document;d.write('<iframe src="'+'http://some.site.com/"></iframe>');})();</script> In this situation LinkChecker will try to resolve following URL: '+'http://some.site.com/ That's incorrect and should be skipped.
That's right, in XHTML mode it does but doesn't in HTML mode, and that's the correct behavior. There's a good writeup on the subject at http://dorward.me.uk/www/comments-cdata/ See also http://www.w3.org/TR/xhtml1/#C_4