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Sorry jgoguen, I didn't make myself clear: I'm not complaining, I'm really grateful for your work, even if it's not perfect and can't be perfect because of copyright issues, and because of the lack of information how the kobo-renderer works. I just wanted to say that the highlight-not-working issue solved for me when I put the js in the book. I know it violates some rights, and I don't ask you to do anything with it.
The "hyphenated paragraphs appears left-aligned" happens in books with no javascript in it, so it's not caused by the js. I understood that the plugin just inserts soft hyphens, but I thought it's worth mentioning, it does not work properly on some books (actually all the books I tried). Maybe it's something about the css files (I didn't use the kobo's), I don't know, but it makes this feature unusable to me. (I tried to replace the unicode soft hyphens to html-code (& #173 ; ), it just gotten worse: the paragraphs contain hyphenated words simply did not appear.)
And I found it interesting that these two things (highlighting and aligning/justification) are not completely unrelated.
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