A bit slow when adding refs from a moderate (2k) bib file about citr HOT 12 CLOSED

Great and YES I've discovered it's faster after the first one. A decent fix, awesome software.

from citr.

from citr.

P.s. that was with

packageVersion("citr")
[1] ‘0.2.0.9047’

from citr.

Just tested on latest version and having the same issue. Still using it though as it's a great package. Should I use a smaller .bib file?

from citr.

Hi Robin, thanks for the report. That's definitely an undesirably slow response. Could you send me the bib-file to play with (either via e-mail or by uploading it here)? I'll try exploring what's causing the delay and how to make the code more efficient.

from citr.

Here you go (removed now).

from citr.

Also: I'm running Zotero and I think that may be part of it - it's not just a bib file it's interactive with as far as I can tell (loads of files like LDJHPOAPOIJJDOIJVLA.bib appear ephemerally in the repo when I run citr).

from citr.

Yes, these temporary files are currently necessary because the functions I rely on to read the .bib-files fail when the files get too large. Hence, I need to split them before reading and merging them. This may be part of the issue. However, insert_citation() should only read your Zotero library once (and cache it) unless you click "Reload database". I suspect the slow response is related to the .bib-file that is updated if necessary every time a new citation is inserted from Zotero.

P.S.: I've downloaded the file, you can delete it, if you want.

from citr.

OK that makes sense. Can you reproduce this lethargic snail-like speed of citation delivery?

from citr.

Just an unrelated update I thought you might like: just discovered the tidy_bib_file() function and am absolutely stoked at how well it works. I've been looking for this functionality for literally years. Awesome work there!

> citr::tidy_bib_file(rmd_file = "README.Rmd", messy_bibliography = "~/allrefs.bib", "who.bib")
Removing 1999 unneeded bibliography entries.
Writing 6 Bibtex entries ... OK
Results written to file 'who.bib'
Warning message:
In do_read_bib(file, encoding = .Encoding, srcfile) :
  encoding 'native.enc' will be ignored

from citr.

Sorry, I haven't found the time to take a closer look at your original issue but I'm glad to hear you like that function! I think I will add this as another addin for the next release.

from citr.

Hi Robin, as I suspected, this was due to the fact that the addin updates the bibliography file when inserting citations form Zotero. This can take a little while when the file is large. I have now added a progress indicator to call attention to this fact. Also, the contents of the file should now be cached so the addin should only have to read the file once. The second time you insert a citation should be much faster. Let me know if it works.

from citr.