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I am afraid the calibre structure is not variable. Calibre2opds catalogs merely act as pointers into it.
The Minimize Changes option was also available in 3.1 (in fact I think it came in at 3.0). All pages are ALWAYS currently generated in a temp folder. The Minimise Changes avoids copying any that are identical to last time to the actual live catalog area which is particularly important for catalogs that need syncing to the Cloud.
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