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Clean up the repo for new readers: remove refactor scaffolding, bundle the paper, rewrite the reproduction guide - #1

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adowling2 merged 7 commits into
mainfrom
cleanup-fresh-eyes
Aug 6, 2026
Merged

Clean up the repo for new readers: remove refactor scaffolding, bundle the paper, rewrite the reproduction guide#1
adowling2 merged 7 commits into
mainfrom
cleanup-fresh-eyes

Remove the last refactor-phase names and a dangling class reference

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