Ask HN: How do you organise your book notes?

I read on the Kindle, as I'm reading I'm highlighting or making notes in the book.

After I'm done reading, or sometimes if the book is long or complex, when I'm done reading a chapter, I make an outline using the table of contents in Bear using Markdown. I then go through all my highlights and notes to fill in the outline. If the outline is longer than a page or 2, I take the key ideas and summarize them into a single page "Summary" file linking to specific section in the master outline to make it easy to get more details on something.