Can you read the InDesign layouts for hints? Certainly use the raw assets, but guide placement from the existing finished product. I'd code toward something like that with human eyeballs for tuning. Maybe even rendering the PDF pages as background to assist the human. Depending on InDesign's file format and allowances it could become fairly automated.
This'll be an ongoing process?
I haven't used InDesign but in a previous life worked on PS & RIP coding. Uh oh, flashbacks. 
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There are a vast number of people who are uninformed and heavily propagandized, but fundamentally decent. The propaganda that inundates them is effective when unchallenged, but much of it goes only skin deep. If they can be brought to raise questions and apply their decent instincts and basic intelligence, many people quickly escape the confines of the doctrinal system and are willing to do something to help others who are really suffering and oppressed." -Manufacturing Consent: Noam Chomsky and the Media, p. 195
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