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Steve,
Near and Far has been gone for sometime. I used to have a copy that worked great for SGML (must be smart to inclusions/exclusions and tag omission control), however no longer works on recent versions ofWindows.
I have a manual process, probably no different than anyone else, so it's tedious. However, just as someone already mentioned, you have to add the human factor for errors.
I've gone to the link that Gareth provided and you end up 'registering' on their site (in Germany) with a minimum of your last name, e-mail address and whether or not you want to participate in their e-mail listing. Then, they send you a link to the zip file so you can download it. So far, I'm onboard, but I have to wait until I get home to try it out since I'm not putting any 'free' software on my company's computer/network.
I've also seen (through searches) some references to a program run through Perl, but could never get it to work.
Assuming you still use the cut-back version of CPA, you know how many fragments the DTD sets are broken upinto. The initial 25 for CPA are now about 44 for me, all based on the 38784 (or variation to it). I am constantly flattening the DTD's and it takes me about a hour or so to get one done. A pain to say the least. I use a tool called "Search & Replace" by Funduc Software that does a lot of the work, followed by using TextPad to finish it up. The output is fairly decent for reading.
Take care, and hope this helps some,
Bob