From: Jamie Matthews <jdm204@cam.ac.uk>
To: "emacs-orgmode@gnu.org" <emacs-orgmode@gnu.org>
Subject: [BUG] org-cite: 10 second hang opening a ~4k org file with 10MB bibtex library [9.5.2 (9.5.2-g91681f @ /home/jdm204/.config/emacs/straight/build/org/)]
Date: Mon, 14 Mar 2022 14:45:47 +0000 [thread overview]
Message-ID: <LO2P265MB1758831E96E6508FC98A8745DC0F9@LO2P265MB1758.GBRP265.PROD.OUTLOOK.COM> (raw)
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# Issue
Starting emacs with emacs -Q, then navigating to a minimal example org file with C-x C-f yields a ~10 second hang on an 8-core/16GB RAM machine with nothing else running. Also, scrolling commands like C-v are often laggy after the initial hang.
The minimal org file begins:
"""
#+bibliography: ~/cloud/library/lib.bib
[cite:@tillyPrimaryAnaplasticLargeCell1997]
"""
with another 80 citations afterwards, one-by-line, but nothing else. As mentioned in the title, the lib.bib file is ~10MB - if I swap this out for a non-existent or tiny bibtex file the problem goes away, and the in-buffer citations are rendered in a red face. Clearly from this and the below profile the issue is something to do with checking etc the citations for fontification purposes.
# profile
## cpu
1,542,884,496 99% - redisplay_internal (C function)
1,542,860,504 99% - jit-lock-function
1,542,860,504 99% - jit-lock-fontify-now
1,542,860,504 99% - jit-lock--run-functions
1,542,860,504 99% - run-hook-wrapped
1,542,860,504 99% - #<compiled 0x19ba3bad288bcf3d>
1,542,860,504 99% - font-lock-fontify-region
1,542,860,504 99% - font-lock-default-fontify-region
1,542,792,728 99% - font-lock-fontify-keywords-region
1,542,661,211 99% - org-cite-activate
1,542,542,267 99% - org-cite-basic-activate
787,037,416 50% - org-cite-basic--get-entry
4,065,194 0% + org-cite-basic--parse-bibliography
754,769,872 48% - org-cite-basic--all-keys
6,151,200 0% + seq-mapcat
3,850,126 0% + org-cite-basic--parse-bibliography
481,332 0% + org-element-interpret-data
129,376 0% + org-cite-basic--print-entry
109,615 0% + org-cite-get-references
87,264 0% org-element-citation-parser
5,988 0% org-activate-links
5,677 0% org-do-emphasis-faces
3,524 0% org-fontify-meta-lines-and-blocks
3,072 0% + org-activate-footnote-links
3,072 0% org-do-latex-and-related
7,392 0% - eval
7,392 0% if
3,072 0% kill-this-buffer-enabled-p
2,112 0% - tool-bar-make-keymap
2,112 0% - tool-bar-make-keymap-1
2,112 0% - mapcar
2,112 0% #<compiled 0x1dd4863a123beee7>
1,176 0% menu-bar-update-buffers
6,219,935 0% + command-execute
1,280 0% + timer-event-handler
24 0% + eldoc-schedule-timer
21 0% + #<compiled -0xa96583997f59b99>
0 0% ...
## memory
5778 95% - redisplay_internal (C function)
5778 95% - jit-lock-function
5778 95% - jit-lock-fontify-now
5778 95% - jit-lock--run-functions
5778 95% - run-hook-wrapped
5778 95% - #<compiled 0x19ba3bad288bcf3d>
5778 95% - font-lock-fontify-region
5778 95% - font-lock-default-fontify-region
5778 95% - font-lock-fontify-keywords-region
5774 95% - org-cite-activate
5762 95% - org-cite-basic-activate
2939 48% - org-cite-basic--get-entry
1631 26% - org-cite-basic--parse-bibliography
400 6% - set-auto-coding
400 6% find-auto-coding
20 0% + org-cite-list-bibliography-files
4 0% + #<compiled -0x1c8cad8ab65dbcdf>
4 0% after-insert-file-set-coding
2819 46% - org-cite-basic--all-keys
1515 25% - org-cite-basic--parse-bibliography
364 6% - set-auto-coding
364 6% find-auto-coding
16 0% - org-cite-list-bibliography-files
8 0% + org-collect-keywords
4 0% #<subr F616e6f6e796d6f75732d6c616d626461_anonymous_lambda_23>
32 0% + seq-mapcat
4 0% + org-cite-basic--print-entry
4 0% org-element-citation-parser
4 0% org-activate-links
233 3% - command-execute
218 3% - byte-code
149 2% + read-extended-command
69 1% - find-file-read-args
69 1% - read-file-name
69 1% - read-file-name-default
15 0% - completing-read-default
1 0% - command-execute
1 0% - funcall-interactively
1 0% - minibuffer-complete
1 0% - completion-in-region
1 0% - completion--in-region
1 0% + #<compiled -0xf4b91251a4f5a2>
15 0% - funcall-interactively
6 0% + find-file
5 0% + execute-extended-command
4 0% scroll-up-command
26 0% + ...
4 0% + timer-event-handler
4 0% + #<compiled -0xa96583997f59b99>
# Version info:
Emacs : GNU Emacs 29.0.50 (build 3, x86_64-pc-linux-gnu, GTK+ Version 3.24.30, cairo version 1.16.0)
of 2022-03-11
Package: Org mode version 9.5.2 (9.5.2-g91681f @ /home/jdm204/.config/emacs/straight/build/org/)
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next reply other threads:[~2022-03-15 17:01 UTC|newest]
Thread overview: 20+ messages / expand[flat|nested] mbox.gz Atom feed top
2022-03-14 14:45 Jamie Matthews [this message]
2022-03-16 13:01 ` [BUG] org-cite: 10 second hang opening a ~4k org file with 10MB bibtex library [9.5.2 (9.5.2-g91681f @ /home/jdm204/.config/emacs/straight/build/org/)] Bruce D'Arcus
2022-03-19 8:28 ` Ihor Radchenko
2022-03-19 8:57 ` Jamie Matthews
2022-03-19 9:23 ` Ihor Radchenko
2022-03-19 9:25 ` Jamie Matthews
2022-03-19 9:57 ` Ihor Radchenko
2022-03-19 10:12 ` Jamie Matthews
2022-03-19 10:28 ` Ihor Radchenko
2022-03-19 11:17 ` Jamie Matthews
2022-03-19 11:47 ` [PATCH] Re: [BUG] org-cite: 10 second hang opening a ~4k org file with 10MB bibtex library Ihor Radchenko
2022-03-19 12:01 ` Jamie Matthews
2022-03-19 12:12 ` Ihor Radchenko
2022-03-19 20:13 ` psychosis
2022-03-20 4:20 ` Ihor Radchenko
2022-03-21 16:51 ` psychosis
2022-03-22 12:27 ` Ihor Radchenko
2022-03-22 16:42 ` psychosis
2022-03-23 11:07 ` Ihor Radchenko
2022-04-16 10:11 ` Ihor Radchenko
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