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I never had libraries with names 00,01,02 but I do have views from the View Manager plugin called 00-xxx, 01-yyy, 02-zzz. I mention this as I've got messages form CALM referring to View Manager as the current Target Library.
I deleted the View Manager plugin but could not find its preference file (I have to re-index my hard disk, but this will take some time).
Whenever I start from scratch (without View Manager this time) I will get the same situation as I have already described. I should add that those two libraries (from my six libraries) which I am interested to consolidate metadata do not appear in the automatic load up with the CALM tab. I added theses paths manually and deleted all paths form libraries I am not interested and clicked save. Again the result was screenshot #6 from my previous message.
I removed all libraries from calibre created a new directory without spaces in its name ("Meine_Calibre-Books" instead of "Meine Calibre-Books) moved the calibre libraries into this new directory and attached them to calibre again. It didn't help.
Whenever I click on "Extract a Fresh Copy of the Target Library" CALM is referring to "View Manager" as the supposed library and I get the attached sequence of CALM messages.
Any idea what I can try out next?
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