@Adela, @nobiot , I might be misunderstanding what @nobiot is saying, but I think that the behavior reported by @Adela is not the expected behavior (at least, when everything is properly configured —in particular, the paths where noter has to store and search for notes).
In other words, the usual workflow can be:
- Open pdf for the first time
-
M-x org-noter: you will be given a choice of where to store the notes (which can include multiple different directories, if you have set several inorg-noter-notes-search-path). - Take notes, etc. Save org buffer (and, possibly, the pdf if you highlighted, etc).
Now, whenever you open the pdf again (i.e., steps 4 to infinity), if you M-x org-noter in the pdf buffer the org file with the notes will be opened again (i.e., you will not be prompted for a new file). In other words, you can (should, indeed) use the same org files for all the notes of that pdf, and can open and add notes as many times as you want.
@Adela says “dragged and dropped”: I have no idea what that does. I open pdfs by directly C-x C-f (i.e., find-file), or clicking on them from Zotero (I have configured xdg-open to use emacsclient to open pdfs —I’m on Linux), or from helm-bibtex (which I uses find-file too) or from dired: the procedure above works reliably regardless.
(Indeed, this long explanation is what I understand is meant by the quoted part of the README in @nobiot’s answer).