release 2.3.0

Not all links to a node come from another node.  Persisting OLP data
allows us to build backlinks with information about these non-node
headings.

Revert: db4170a459.

.dir-locals.el

@@ -0,0 +1,16 @@
+((emacs-lisp-mode
+  (fill-column . 110)
+  (indent-tabs-mode . nil)
+  (elisp-lint-ignored-validators . ("byte-compile" "package-lint"))
+  (elisp-lint-indent-specs . ((describe . 1)
+                              (it . 1)
+                              (thread-first . 0)
+                              (cl-flet . 1)
+                              (cl-flet* . 1)
+                              (org-element-map . defun)
+                              (org-roam-dolist-with-progress . 2)
+                              (org-roam-with-temp-buffer . 1)
+                              (org-with-point-at . 1)
+                              (magit-insert-section . defun)
+                              (magit-section-case . 0)
+                              (org-roam-with-file . 2)))))

.github/CONTRIBUTING.md

@@ -0,0 +1,34 @@
+# Contributing
+
+If you discover issues, have ideas for improvements or new features, please
+report them to the [issue tracker][1] of the repository or submit a pull
+request. Please, try to follow these guidelines when you do so.
+
+## Issue reporting
+
+* Check that the issue has not already been reported.
+* Check that the issue has not already been fixed in the latest code
+  (a.k.a. `develop`).
+* Be clear, concise and precise in your description of the problem.
+* Open an issue with a descriptive title and a summary in grammatically correct,
+  complete sentences.
+* Include any relevant code to the issue summary.
+* If you're reporting performance issues it'd be nice if you added some profiling data (Emacs has a built-in profiler).
+
+## Pull requests
+
+* Read [how to properly contribute to open source projects on Github][2].
+* Use a topic branch to easily amend a pull request later, if necessary.
+* Write [good commit messages][3].
+* Mention related tickets in the commit messages (e.g. `[Fix #N] Add missing autoload cookies`)
+* Update the [changelog][5].
+* Use the same coding conventions as the rest of the project.
+* Verify your Emacs Lisp code with `checkdoc` (<kbd>C-c ? d</kbd>).
+* Open a [pull request][4] that relates to *only* one subject with a clear title
+  and description in grammatically correct, complete sentences.
+
+[1]: https://github.com/jethrokuan/org-roam/issues
+[2]: http://gun.io/blog/how-to-github-fork-branch-and-pull-request
+[3]: http://tbaggery.com/2008/04/19/a-note-about-git-commit-messages.html
+[4]: https://help.github.com/articles/using-pull-requests
+[5]: https://github.com/jethrokuan/org-roam/blob/master/CHANGELOG.md

.github/FUNDING.yml

@@ -0,0 +1,12 @@
+# These are supported funding model platforms
+
+github: [jethrokuan]
+patreon: # Replace with a single Patreon username
+open_collective: # Replace with a single Open Collective username
+ko_fi: # Replace with a single Ko-fi username
+tidelift: # Replace with a single Tidelift platform-name/package-name e.g., npm/babel
+community_bridge: # Replace with a single Community Bridge project-name e.g., cloud-foundry
+liberapay: # Replace with a single Liberapay username
+issuehunt: # Replace with a single IssueHunt username
+otechie: # Replace with a single Otechie username
+custom: # Replace with up to 4 custom sponsorship URLs e.g., ['link1', 'link2']

.github/ISSUE_TEMPLATE/bug_report.md

@@ -0,0 +1,41 @@
+---
+name: Bug Report
+about: Something's not working.
+title: ""
+labels: ""
+assignees: ""
+---
+
+### Description
+
+#### Steps to Reproduce
+
+<!--
+Example:
+
+1. Load Emacs
+2. Run `org-roam--build-cache-async`
+3. Run `org-roam-find-file`
+...
+-->
+
+#### Backtrace
+<!--
+   Will help us track and understand issues faster.
+   How to provide a backtrace:
+   1. M-x toggle-debug-on-error
+   2. Trigger error. The debugger buffer should pop up.
+   3. Copy the contents of the debugger buffer and paste here
+-->
+
+#### Expected Results
+
+<!-- Example: File A is there -->
+
+#### Actual Results
+
+<!-- Example: File A is missing -->
+
+### Environment
+
+<!-- Please M-x org-roam-diagnostics and paste results here -->

.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,17 @@
+---
+name: Feature Request
+about: Create a feature request to improve Org-roam
+title: ""
+labels: "enhancement"
+assignees: ""
+---
+
+### Brief Abstract
+
+### Long Description
+
+### Proposed Implementation (if any)
+
+### Please check the following:
+
+- [ ] No similar feature requests

.github/PULL_REQUEST_TEMPLATE.md

@@ -0,0 +1 @@
+###### Motivation for this change

.github/workflows/docs.yml

@@ -0,0 +1,31 @@
+# * docs.yml --- Build the documentation and publish to Github Pages
+
+name: "Docs"
+on:
+  push:
+    branches:
+      - main
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: true
+    steps:
+    - uses: actions/checkout@v2
+
+    - name: Install deps
+      run: |
+        sudo apt-get install texinfo
+
+    - name: Build docs
+      continue-on-error: false
+      run: make html
+
+    - name: Deploy 🚀
+      uses: JamesIves/github-pages-deploy-action@releases/v3
+      with:
+        ACCESS_TOKEN: ${{ secrets.ACCESS_TOKEN }}
+        BRANCH: gh-pages # The branch the action should deploy to.
+        FOLDER: doc # The folder the action should deploy.
+        CLEAN: true

.github/workflows/test.yml

@@ -0,0 +1,65 @@
+# * test.yml --- Test Emacs packages using makem.sh on GitHub Actions
+
+# https://github.com/alphapapa/makem.sh
+
+# Based on Steve Purcell's examples at
+# <https://github.com/purcell/setup-emacs/blob/master/.github/workflows/test.yml>,
+# <https://github.com/purcell/package-lint/blob/master/.github/workflows/test.yml>.
+
+# * License:
+
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation, either version 3 of the License, or
+# (at your option) any later version.
+
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+# GNU General Public License for more details.
+
+# You should have received a copy of the GNU General Public License
+# along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+# * Code:
+
+name: "CI"
+on:
+  pull_request:
+  push:
+    branches:
+      - main
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        emacs_version:
+          # REVIEW: we do not yet have the bootstrapping in place to test
+          #         versions of emacs without built-in sqlite (pre 29.1)
+          # - 27.2
+          # - 28.2
+          - 29.4
+          - snapshot
+    steps:
+      - uses: purcell/setup-emacs@master
+        with:
+          version: ${{ matrix.emacs_version }}
+
+      - uses: actions/checkout@v2
+
+      - name: Install Eldev
+        run: curl -fsSL https://raw.github.com/org-roam/org-roam/master/github-eldev | sh
+
+      - name: Install dependencies
+        run: make prepare
+
+      - name: Lint
+        run: make lint
+
+      - name: Test
+        run: make test
+# Local Variables:
+# eval: (outline-minor-mode)
+# End:

.gitignore

@@ -0,0 +1,16 @@
+/.sandbox/
+**/*.elc
+/doc/dir
+/doc/*.info
+/doc/*.pdf
+/doc/*.epub
+/doc/META_INF/
+/doc/OEBPS/
+/doc/dir
+/doc/epub.xml
+/doc/org-roam/
+/doc/mimetype
+/doc/stats/
+/config.mk
+/doc/manual.html
+/.eldev/

.readthedocs.yml

@@ -1,8 +0,0 @@
-version: 2
-mkdocs:
- configuration: mkdocs.yml
-formats: all
-python:
-  version: 3.7
-  install:
-    - requirements: doc/requirements.txt

BACKERS.md

@@ -0,0 +1,8 @@
+# Backers
+
+Many thanks to the following backers, your contributions are greatly appreciated!
+
+- Nathan Tran
+- Burke Libbey
+- forkrul
+- Andreas Stuhlmüller

CHANGELOG.md

@@ -0,0 +1,558 @@
+# Changelog
+
+## 2.3.0 (2025-05-24)
+
+* (perf)node-read: filter before map to candidate by @russmatney in https://github.com/org-roam/org-roam/pull/2168
+* (chore): remove extraneous changelog line by @jethrokuan in https://github.com/org-roam/org-roam/pull/2172
+* (fix)org-roam-file-p: don't exclude org-roam-directory by @toregilhk in https://github.com/org-roam/org-roam/pull/2178
+* (chore) fix version numbers by @jethrokuan in https://github.com/org-roam/org-roam/pull/2182
+* (fix) org-roam-file-p handle opening a buffer with no path by @jethrokuan in https://github.com/org-roam/org-roam/pull/2185
+* (fix)db: update atime on file access by @jethrokuan in https://github.com/org-roam/org-roam/pull/2174
+* Fix org-roam-extract-subtree by @ralfdoering in https://github.com/org-roam/org-roam/pull/2191
+* (node): fix org-roam-node-at-point check by @jethrokuan in https://github.com/org-roam/org-roam/pull/2195
+* (chore): reapply #2178 by @jethrokuan in https://github.com/org-roam/org-roam/pull/2197
+* Solved issue #2192 (Respect blank lines in capture templates) by @alopezrivera in https://github.com/org-roam/org-roam/pull/2203
+* (chore)ci: /s/master/main by @jethrokuan in https://github.com/org-roam/org-roam/pull/2204
+* support custom minibuffer matching function by @cuttlefisch in https://github.com/org-roam/org-roam/pull/2177
+* (db)fix: org-roam-db-connector group by @jethrokuan in https://github.com/org-roam/org-roam/pull/2209
+* ensure unique candidates in `org-roam-ref-find` by @bdarcus in https://github.com/org-roam/org-roam/pull/2208
+* (db)fix: FOREIGN KEY error in narrowed buffer by @psii in https://github.com/org-roam/org-roam/pull/2215
+* (feat): org-roam-property-* code duplication removed (#2217) by @clanghans in https://github.com/org-roam/org-roam/pull/2218
+* (db)fix: file modification detection failing in some edge cases by @kisaragi-hiu in https://github.com/org-roam/org-roam/pull/2221
+* (fix): autoload org-roam-list-files by @jethrokuan in https://github.com/org-roam/org-roam/pull/2226
+* (fix): links not displayed properly in org-roam-buffer by @ntharim in https://github.com/org-roam/org-roam/pull/2236
+* (fix): remove use of deprecated org-font-lock-ensure by @jethrokuan in https://github.com/org-roam/org-roam/pull/2238
+* was missing the FULL parameter to `org-end-of-meta-data` - fixes #2242 by @jmay in https://github.com/org-roam/org-roam/pull/2246
+* (Docs): Fixed typos in the docs by @hnvy in https://github.com/org-roam/org-roam/pull/2256
+* Fix space chars in roam refs by @hwiorn in https://github.com/org-roam/org-roam/pull/2285
+* org-roam-tag-add: use tags separator as crm-separator by @Hugo-Heagren in https://github.com/org-roam/org-roam/pull/2282
+* Support multi-line org titles by @FelixBrendel in https://github.com/org-roam/org-roam/pull/2264
+* (Docs): orgmode.org/elpa has been shut down by @aviad in https://github.com/org-roam/org-roam/pull/2258
+* Minor typo in the commented text of the definition of `org-roam-refile` by @apc in https://github.com/org-roam/org-roam/pull/2263
+* fix outline of link in properties by @bhuztez in https://github.com/org-roam/org-roam/pull/2230
+* (fix): update `org-roam-unlinked-references-section` check by @Elilif in https://github.com/org-roam/org-roam/pull/2254
+* Add support for filtering backlinks. by @swflint in https://github.com/org-roam/org-roam/pull/2247
+* (docs): update documentation on database-connectors by @jethrokuan in https://github.com/org-roam/org-roam/pull/2298
+* (db): default to sqlite-builtin when possible by @jethrokuan in https://github.com/org-roam/org-roam/pull/2299
+* don't complete org-roam nodes in source blocks by @ParetoOptimalDev in https://github.com/org-roam/org-roam/pull/2292
+* (core): add org-roam-node-category by @jethrokuan in https://github.com/org-roam/org-roam/pull/2300
+* add discoverability support for age encrypted org files by @anticomputer in https://github.com/org-roam/org-roam/pull/2302
+* (minor): fix lints on main by @jethrokuan in https://github.com/org-roam/org-roam/pull/2320
+* utils: descendant-of-p: Defend against nils by @qzdl in https://github.com/org-roam/org-roam/pull/2319
+* Add customisable function for prompting when adding refs by @Hugo-Heagren in https://github.com/org-roam/org-roam/pull/2317
+* Fix org-fold-core-style in org-roam-buffer by @hwiorn in https://github.com/org-roam/org-roam/pull/2325
+* depend on snapshot of emacsql by @jethrokuan in https://github.com/org-roam/org-roam/pull/2327
+* (node): org-roam-node-at-point: don't error in non-org buffers by @Hugo-Heagren in https://github.com/org-roam/org-roam/pull/2329
+* (node) add optional NOCASE parameter to org-roam-node-from-title-or-alias by @nuthub in https://github.com/org-roam/org-roam/pull/2403
+* (docs): update org-protocol instructions by @benthamite in https://github.com/org-roam/org-roam/pull/2401
+* Fix some typos by @feltcat in https://github.com/org-roam/org-roam/pull/2430
+* (docs): fix name of my-org-roam-show-backlink-p by @Delapouite in https://github.com/org-roam/org-roam/pull/2447
+* Link Martin Edström's knowledge base by @meedstrom in https://github.com/org-roam/org-roam/pull/2394
+* Update org-roam.org by @marcosbodio in https://github.com/org-roam/org-roam/pull/2441
+* (chore): fix indent blocking ci lint execution by @Delapouite in https://github.com/org-roam/org-roam/pull/2448
+* Fix Issue #2410 - Unlinked References doesnt work if the org-roam-directory has a space in it.  by @vikram-mandyam in https://github.com/org-roam/org-roam/pull/2411
+* (test): add "org-roam--list-files-search-globs" by @Delapouite in https://github.com/org-roam/org-roam/pull/2449
+* Backlink heading by @toregilhk in https://github.com/org-roam/org-roam/pull/2333
+* (test): add org-roam-id-find by @Delapouite in https://github.com/org-roam/org-roam/pull/2450
+* (test): add org-roam-id-at-point by @Delapouite in https://github.com/org-roam/org-roam/pull/2451
+* (test): add org-roam--buffer-promoteable-p by @Delapouite in https://github.com/org-roam/org-roam/pull/2452
+* (test): add org-roam--get-titles by @Delapouite in https://github.com/org-roam/org-roam/pull/2453
+* (test): add org-roam-node-from-{id|title-or-alias} by @Delapouite in https://github.com/org-roam/org-roam/pull/2454
+* (test): add org-roam-alias-{add|remove} by @Delapouite in https://github.com/org-roam/org-roam/pull/2455
+* (docs): add missing versions dates and obsolete notice by @Delapouite in https://github.com/org-roam/org-roam/pull/2456
+* (docs): explain org-roam-file-exclude-regexp by @adamoudad in https://github.com/org-roam/org-roam/pull/2458
+* (test): add org-roam-demote-entire-buffer by @Delapouite in https://github.com/org-roam/org-roam/pull/2459
+* (test): add org-roam-file-p by @Delapouite in https://github.com/org-roam/org-roam/pull/2460
+* (test): add org-roam-buffer-p by @Delapouite in https://github.com/org-roam/org-roam/pull/2461
+* (fix): remove dead-code about org-roam-shield feature by @Delapouite in https://github.com/org-roam/org-roam/pull/2462
+* (test): add org-roam-db--file-hash by @Delapouite in https://github.com/org-roam/org-roam/pull/2464
+* (test): add org-roam-db-get-{scheduled|deadline}-time by @Delapouite in https://github.com/org-roam/org-roam/pull/2465
+* Doc formatting: 2 fixes by @kevinrineer in https://github.com/org-roam/org-roam/pull/2475
+* Take org-roam-node as argument to #'org-roam-refile by @pestctrl in https://github.com/org-roam/org-roam/pull/2388
+* Compatibility with latest org-id version: advise org-id-find rather than overwriting id link by @ricklupton in https://github.com/org-roam/org-roam/pull/2432
+* Depend on emacsql 4.0.0 by @bcc32 in https://github.com/org-roam/org-roam/pull/2466
+* Use regexp match to replace hard-coded path equal test by @manphiz in https://github.com/org-roam/org-roam/pull/2497
+* Align sqlite integration with emacsql 4.0 by @dustinfarris in https://github.com/org-roam/org-roam/pull/2503
+* fix #2425 Prevent data loss when user has called org-roam-extract-subtree on folded org headline by @akashpal-21 in https://github.com/org-roam/org-roam/pull/2444
+* Rely on emacsql-sqlite-open to pick the best available back-end by @tarsius in https://github.com/org-roam/org-roam/pull/2486
+* Set org-roam-directory to a non-existent path to ensure robust test by @manphiz in https://github.com/org-roam/org-roam/pull/2499
+* (perf): Deprecate link :outline properties by @meedstrom in https://github.com/org-roam/org-roam/pull/2509
+* Bump DB version to avoid error by @meedstrom in https://github.com/org-roam/org-roam/pull/2514
+
+
+## 2.2.2 (2022-04-25)
+
+### Breaking
+### Added
+- [#2138](https://github.com/org-roam/org-roam/pull/2138) export: add new module
+- [#2170](https://github.com/org-roam/org-roam/pull/2170) log: add new module for working with org logs
+- [#2158](https://github.com/org-roam/org-roam/pull/2158) db: support emacsql-sqlite-builtin and emacsql-sqlite-module
+- [#2160](https://github.com/org-roam/org-roam/pull/2160) core: support a list of `org-roam-file-exclude-regexp`
+
+### Removed
+### Fixed
+- [#2091](https://github.com/org-roam/org-roam/pull/2091) node: fix org-roam-promote-entire-buffer structural errors
+- [#2130](https://github.com/org-roam/org-roam/pull/2130) buffer: unlinked-references section now also searches within symlinked directories
+- [#2152](https://github.com/org-roam/org-roam/pull/2152) org-roam-preview-default-function: doesn't copy copy content of next heading node when current node's content is empty
+- [#2159](https://github.com/org-roam/org-roam/pull/2159) db: fix db syncs on narrowed buffers
+- [#2156](https://github.com/org-roam/org-roam/pull/2157) capture: templates with functions are handled correctly to avoid signaling `char-or-string-p`
+
+### Changed
+- [#2160](https://github.com/org-roam/org-roam/pull/2160) core: ignore files in `org-attach-id-dir` by default
+
+## 2.2.1 (2022-03-15)
+
+### Breaking
+- [#2054](https://github.com/org-roam/org-roam/pull/2054) node: simplify default `org-roam-node-display-template`.
+  This was done so completions work fine by default on all completion systems. To restore the tabular vertical completion interface, set this in your configuration:
+
+  ```emacs-lisp
+  (setq org-roam-node-display-template
+        (concat "${title:*} "
+                (propertize "${tags:10}" 'face 'org-tag)))
+  ```
+
+### Added
+- [#2042](https://github.com/org-roam/org-roam/pull/2042) db: add `org-roam-db-extra-links-elements` and `org-roam-db-extra-links-exclude-keys` for fine-grained control over additional link parsing
+- [#2049](https://github.com/org-roam/org-roam/pull/2049) capture: allow ID to be used as part of `org-roam-capture-templates`
+- [#2050](https://github.com/org-roam/org-roam/pull/2050) core: add `FILTER-FN` to `org-roam-node-random`
+- [#2065](https://github.com/org-roam/org-roam/pull/2065) dailies: add `keys` argument to the remaining dailies functions `org-roam-dailies-goto-yesterday`/`-today`/`-tomorrow`/`-date` and `org-roam-dailies-capture-yesterday`/`-tomorrow`/`-date` to give the abilty to get into a capture buffer bypassing the selection screen in all dailies commands. Extension of #2055
+- [#2079](https://github.com/org-roam/org-roam/pull/2079) capture: ensure that `:ref` info captured in all cases.
+- [#2121](https://github.com/org-roam/org-roam/pull/2121) buffer: add unique option to `org-roam-backlinks-section`
+
+### Removed
+### Fixed
+- [#2086](https://github.com/org-roam/org-roam/pull/2086) capture: correctly update org-id-locations on capture
+- [#2082](https://github.com/org-roam/org-roam/pull/2082) buffer: don't destroy window if `org-roam-node-toggle` reuses window
+- [#2080](https://github.com/org-roam/org-roam/pull/2080) dailies: prevent multiple "dailies/" subdir expansions
+- [#2055](https://github.com/org-roam/org-roam/pull/2055) dailies: removed stray f require, which was causing require and compilation errors
+- [#2117](https://github.com/org-roam/org-roam/pull/2117) capture: preserve trailing whitespace content in capture templates
+
+### Changed
+- [#2060](https://github.com/org-roam/org-roam/pull/2060) node: added double acute accent normalization for Unicode characters in titles
+- [#2040](https://github.com/org-roam/org-roam/pull/2040) completions: fix completions display-width for Helm users
+- [#2025](https://github.com/org-roam/org-roam/pull/2025) chore: removed the dependencies on f.el and s.el
+- [#2109](https://github.com/org-roam/org-roam/pull/2109) capture: `org-roam-node-insert` places cursor after inserted link where appropriate
+- [#2123](https://github.com/org-roam/org-roam/pull/2123), [#2124](https://github.com/org-roam/org-roam/pull/2124) buffer: `org-roam-mode-section-functions` renamed to `org-roam-mode-sections`, supports passing args into the section-rendering function
+
+## 2.2.0 (2022-01-14)
+
+### Added
+- [#1806](https://github.com/org-roam/org-roam/pull/1806), [#2017](https://github.com/org-roam/org-roam/pull/2017) db: support caching and usage of Org 9.5's in-built citations
+- [#1963](https://github.com/org-roam/org-roam/pull/1963) db: cache file title into files table
+- [#1977](https://github.com/org-roam/org-roam/pull/1977) db: support Org-ref v3 citations
+- [#1907](https://github.com/org-roam/org-roam/pull/1907), [#2009](https://github.com/org-roam/org-roam/pull/2009), [#2018](https://github.com/org-roam/org-roam/pull/2018) db: support sqlite3
+- [#2028](https://github.com/org-roam/org-roam/pull/2028) dailies: add `keys` argument to `org-roam-dailies-capture-today` and `org-roam-dailies--capture` functions to give the abilty to get into a capture buffer bypassing the selection screen
+
+### Removed
+### Changed
+- [#1795](https://github.com/org-roam/org-roam/pull/1795) buffer: optimized reflinks fetch
+- [#1809](https://github.com/org-roam/org-roam/pull/1809) capture: the mandatory `:if-new` property of each capture template is now renamed to `:target`
+- [#1829](https://github.com/org-roam/org-roam/pull/1829) perf: file sql updates are now wrapped in a transaction
+- [#1877](https://github.com/org-roam/org-roam/pull/1877) dailies: stop asking for time, only date
+- [#1949](https://github.com/org-roam/org-roam/pull/1949) db: check for property drawers are now case-insensitive
+
+### Fixed
+- [#1798](https://github.com/org-roam/org-roam/pull/1798) org-roam-node-at-point: do not skip invisible headings
+- [#1807](https://github.com/org-roam/org-roam/pull/1807) capture: always trigger `:if-new` template for existing nodes
+- [#1813](https://github.com/org-roam/org-roam/pull/1813) db: prevent empty ROAM_ALIASES from crashing db updates
+- [#1816](https://github.com/org-roam/org-roam/pull/1816) db: prevent invalid ROAM_REFS from crashing db updates
+- [#1893](https://github.com/org-roam/org-roam/pull/1893), [#1896](https://github.com/org-roam/org-roam/pull/1896), [#1901](https://github.com/org-roam/org-roam/pull/1901), [#1895](https://github.com/org-roam/org-roam/pull/1895), [#1904](https://github.com/org-roam/org-roam/pull/1904) completions: various mini-buffer related completion fixes
+- [#1931](https://github.com/org-roam/org-roam/pull/1931) utils: org-roam-set-keyword now skips over all drawers
+- [#1947](https://github.com/org-roam/org-roam/pull/1947) db: links in ROAM_REFS are no longer considered as links
+- [#1948](https://github.com/org-roam/org-roam/pull/1948) completions: fix same-line completions
+- [#1953](https://github.com/org-roam/org-roam/pull/1953) db: refresh CATEGORY before writing to db
+- [#1946](https://github.com/org-roam/org-roam/pull/1946), [#1946](https://github.com/org-roam/org-roam/pull/1946), [#1958](https://github.com/org-roam/org-roam/pull/1958) various performance improvements
+- [#1980](https://github.com/org-roam/org-roam/pull/1980) utils: fix org-roam-with-file changing the minor-mode
+- [#2016](https://github.com/org-roam/org-roam/pull/2016) db: fix node caching being affected by agenda variables
+- [#2033](https://github.com/org-roam/org-roam/pull/2023) db: respect local variables during db parsing
+
+## 2.1.0 (2021-08-20)
+
+### Added
+- [#1693](https://github.com/org-roam/org-roam/pull/1693) added `filter-fn` and `templates` parameter to `org-roam-capture`, `org-roam-node-find`, and `org-roam-node-insert`
+- [#1709](https://github.com/org-roam/org-roam/pull/1709) added ability to specify default value in org-roam capture templates
+- [#1710](https://github.com/org-roam/org-roam/pull/1710) added `org-roam-extract-subtree`
+- [#1720](https://github.com/org-roam/org-roam/pull/1720) added `org-roam-db-update-on-save`
+- [#1758](https://github.com/org-roam/org-roam/pull/1758) added `org-roam-db-autosync-mode`, replacing `org-roam-setup` and `org-roam-teardown`
+
+### Removed
+- [#1716](https://github.com/org-roam/org-roam/pull/1716) helper function `org-roam-get-keyword` is now obsolete: prefer `org-collect-keywords`
+
+### Changed
+- [#1595](https://github.com/org-roam/org-roam/pull/1595), [#1724](https://github.com/org-roam/org-roam/pull/1724) Major refactoring and restructuring of the codebase
+- [#1655](https://github.com/org-roam/org-roam/pull/1655) improved org-roam contents preview
+- [#1741](https://github.com/org-roam/org-roam/pull/1741) expose `org-roam-capture-` keys in interactive commands
+- [#1786](https://github.com/org-roam/org-roam/pull/1786) org-roam-version now outputs commit hash if found
+- [#1788](https://github.com/org-roam/org-roam/pull/1788) the point is not moved if the node is already visited
+
+### Fixed
+- [#1608](https://github.com/org-roam/org-roam/pull/1608) migration: empty ROAM_REFS are now removed
+- [#1609](https://github.com/org-roam/org-roam/pull/1609) migration: fixed file-link replacement
+- [#1653](https://github.com/org-roam/org-roam/pull/1653) migration: fixed tags migration
+- [#1694](https://github.com/org-roam/org-roam/pull/1694) core: nodes with no title are now skipped
+- [#1637](https://github.com/org-roam/org-roam/pull/1637) core: fix org-ref multi-cite links not being split
+- [#1651](https://github.com/org-roam/org-roam/pull/1651) core: fix org-roam-file-p crashing when there is no corresponding file
+- [#1705](https://github.com/org-roam/org-roam/pull/1705) core: fix for add/remove of file-level tags
+- [#1769](https://github.com/org-roam/org-roam/pull/1769) core: gracefully handle absence of `org-id-locations-file`
+- [#1713](https://github.com/org-roam/org-roam/pull/1713) capture: check for file-existence before template insertion
+- [#1725](https://github.com/org-roam/org-roam/pull/1725) db: always compute hash of encrypted file to prevent re-processing of encrypted files
+
+## 2.0.0 (2021-07-17)
+
+A few symbols have been marked as obsolete. Have a look at the content of [org-roam-compat.el](https://github.com/org-roam/org-roam/blob/f819720c510185af713522c592833ec9f2934251/org-roam-compat.el#L159)
+
+### Added
+- [#1396](https://github.com/org-roam/org-roam/pull/1396) add option to choose between prepending, appending, and omitting `roam_tags` in file completion
+- [#1270](https://github.com/org-roam/org-roam/pull/1270) capture: create OLP if it does not exist. Removes need for OLP setup in `:head`.
+- [#1353](https://github.com/org-roam/org-roam/pull/1353) support file-level property drawers
+
+### Changed
+
+- [#1352](https://github.com/org-roam/org-roam/pull/1352) prefer lower-case for roam_tag and roam_alias in interactive commands
+- [#1513](https://github.com/org-roam/org-roam/pull/1513) replaced hardcoded "svg" with defcustom org-roam-graph-filetype
+- [#1540](https://github.com/org-roam/org-roam/pull/1540) allow `roam_tag` and `roam_alias` to be specified on multiple lines
+
+### Fixed
+
+- [#1281](https://github.com/org-roam/org-roam/pull/1281) fixed idle-timer not instantiated on `org-roam-mode`
+- [#1308](https://github.com/org-roam/org-roam/pull/1308) fixed file renames corrupting database
+- [#1325](https://github.com/org-roam/org-roam/pull/1325) make titles and tags extracted unique per note
+- [#1327](https://github.com/org-roam/org-roam/pull/1327) preserve existing link description during automatic replacement
+- [#1346](https://github.com/org-roam/org-roam/pull/1346) prevent malformed path to `org-roam-index-file`
+- [#1347](https://github.com/org-roam/org-roam/pull/1347) allow use of `%a` element in regular Org-roam captures
+- [#1352](https://github.com/org-roam/org-roam/pull/1352) fixed org-roam-{tag/alias}-{add/delete} altering the original case of the Org property
+- [#1374](https://github.com/org-roam/org-roam/pull/1374) fix headline completions erroring out
+- [#1375](https://github.com/org-roam/org-roam/pull/1375) fix org-roam-protocol to use existing ref file
+- [#1403](https://github.com/org-roam/org-roam/issues/1403) fixed inconsistency between how we write and read props like alias and tags
+- [#1409](https://github.com/org-roam/org-roam/issues/1398) prevent inclusion of non-org-roam files in `org-roam-dailies--list-files`
+- [#1542](https://github.com/org-roam/org-roam/issues/1542) fix files not excluded when `org-roam-list-files-commands` is nil
+
+## 1.2.3 (2020-11-13)
+
+Primarily a stabilization and bug-fix release.
+
+Org-roam-dailies has also been revamped to include new features, see [this video](https://www.youtube.com/watch?v=1q9x2aZCJJ4) for a quick overview.
+
+### Added
+
+- [#978](https://github.com/org-roam/org-roam/pull/978) Revamp org-roam-dailies
+- [#1183](https://github.com/org-roam/org-roam/pull/1183) Interactive functions for managing aliases and tags in Org-roam file, namely `org-roam-alias-add`, `org-roam-alias-delete`, `org-roam-tag-add`, and `org-roam-tag-delete`.
+- [#1215](https://github.com/org-roam/org-roam/pull/1215) Multiple `ROAM_KEY` keywords can now be specified in one file. This allows bibliographical entries to share the same note file.
+- [#1238](https://github.com/org-roam/org-roam/pull/1238) Add `org-roam-prefer-id-links` variable to select linking method
+- [#1239](https://github.com/org-roam/org-roam/pull/1239) Allow `org-roam-protocol` to capture the webpage's selection, and add a toggle for storing the links to the pages
+- [#1264](https://github.com/org-roam/org-roam/pull/1264) add `org-roam-db-update-method` to control when the cache is rebuilt.
+
+### Changed
+
+- [#1264](https://github.com/org-roam/org-roam/pull/1264) renamed `org-roam-update-db-idle-seconds` to `org-roam-db-idle-idle-seconds`
+
+### Fixed
+
+- [#1074](https://github.com/org-roam/org-roam/issues/1074) fix `org-roam--extract-links` to handle content boundaries.
+- [#1193](https://github.com/org-roam/org-roam/issues/1193) fix `org-roam-db-build-cache` by not killing temporary buffer in `org-roam--extract-links`.
+- [#1195](https://github.com/org-roam/org-roam/issues/1195) fix ID face showing as invalid if within Org ID files, but not Org-roam's.
+- [#1199](https://github.com/org-roam/org-roam/issues/1199) make Org-roam link insertions respect `org-roam-link-title-format` everywhere.
+- [#1201](https://github.com/org-roam/org-roam/issues/1201) fix `org-roam-db-build-cache` failing in scenarios involving duplicate IDs and deleted files.
+- [#1226](https://github.com/org-roam/org-roam/issues/1226) only update relative path of file links
+- [#1232](https://github.com/org-roam/org-roam/issues/1232) fix incorrect title extractions from narrowed buffers
+- [#1233](https://github.com/org-roam/org-roam/issues/1233) fixes bug where descriptive file links become plain links during update for relative paths
+- [#1252](https://github.com/org-roam/org-roam/issues/1252) respect original link type during automatic replacement
+
+## 1.2.2 (2020-10-06)
+
+In this release we support fuzzy links of the form `[[roam:Title]]`, `[[roam:*Headline]]` and `[[roam:Title*Headline]]`. Completion for these fuzzy links is supported via `completion-at-point`.
+
+Org-roam now does not resolve symlinks. This significantly speeds up cache builds, but may result in some workflows breaking. In particular, Org-roam now cannot figure out if two distinct file paths in the Org-roam directory are the same file, and both files will be processed as if they were different files. This error seems to be unavoidable now that symlinks are not resolved, but this workflow is rare and should not affect most users.
+
+This change requires you to set `org-roam-directory` to the resolved path of a folder. That is:
+
+```elisp
+(setq org-roam-directory (file-truename "/path/to/directory/"))
+```
+
+### Breaking Changes
+
+- [#1164](https://github.com/org-roam/org-roam/pull/1164) Org-roam now stores the database in the user's Emacs directory by default
+- [#910](https://github.com/org-roam/org-roam/pull/910) Deprecate `company-org-roam`, using `completion-at-point` instead. To use this with company, add the `company-capf` backend instead.
+- [#1109](https://github.com/org-roam/org-roam/pull/1109) Org-roam now does not resolve symlinks.
+
+### Features
+
+- [#1163](https://github.com/org-roam/org-roam/pull/1163) Support file-level IDs introduced in Org 9.4
+- [#1093](https://github.com/org-roam/org-roam/pull/1093) Add `vanilla` org-roam-tag-source to extract buffer Org tags
+- [#1079](https://github.com/org-roam/org-roam/pull/1079) Add `org-roam-tag-face` to customize appearance of tags in interactive commands
+- [#1073](https://github.com/org-roam/org-roam/pull/1073) Rename file on title change, when `org-roam-rename-file-on-title-change` is non-nil.
+- [#1071](https://github.com/org-roam/org-roam/pull/1071) Update link descriptions on title changes, and clean-up rename file advice
+- [#1061](https://github.com/org-roam/org-roam/pull/1061) Speed up the extraction of file properties, headlines, and titles
+- [#1046](https://github.com/org-roam/org-roam/pull/1046) New user option to exclude files from Org-roam
+- [#1032](https://github.com/org-roam/org-roam/pull/1032) File changes are now propagated to the database on idle timer. This prevents large wait times during file saves.
+- [#974](https://github.com/org-roam/org-roam/pull/974) Protect region targeted by `org-roam-insert`
+- [#994](https://github.com/org-roam/org-roam/pull/994) Simplify org-roam-store-link
+- [#1062](https://github.com/org-roam/org-roam/pull/1062) Variable `org-roam-completions-everywhere` allows for completions everywhere from word at point
+- [#910](https://github.com/org-roam/org-roam/pull/910), [#1105](https://github.com/org-roam/org-roam/pull/1105) Support fuzzy links of the form `[[roam:Title]]`, `[[roam:*Headline]]` and `[[roam:Title*Headline]]`
+
+### Bugfixes
+
+- [#1057](https://github.com/org-roam/org-roam/pull/1057) Improve performance of database builds by preventing generation of LaTeX and image previews.
+- [#1103](https://github.com/org-roam/org-roam/pull/1103) Fix long build-times for Windows on files with URL links
+
+## 1.2.1 (2020-07-27)
+
+This release consisted of a big deal of refactoring and bug fixes. Notably, we fixed several catastrophic failures on db builds with bad setups (#854), and modularized tag and title extractions.
+
+We also added some new features that had been a long time coming:
+
+1. We made the backlinks more outline-friendly by also showing the outline hierarchy for a backlink (#863)
+2. We now support nested captures, which is crucial for `org-roam-protocol` (#966)
+
+### Breaking Changes
+
+- [#908](https://github.com/org-roam/org-roam/pull/908) Normalized titles in database. May break external packages that rely on unnormalized titles.
+
+### Features
+
+- [#814](https://github.com/org-roam/org-roam/pull/814) Implement `org-roam-insert-immediate`
+- [#833](https://github.com/org-roam/org-roam/pull/833) Add customization of file titles with `org-roam-title-to-slug-function`.
+- [#839](https://github.com/org-roam/org-roam/pull/839) Return selected file from `org-roam-insert`
+- [#847](https://github.com/org-roam/org-roam/pull/847) Add GC threshold `org-roam-db-gc-threshold` to temporarily change the threshold on expensive operations.
+- [#847](https://github.com/org-roam/org-roam/pull/847) Use sqlite3 transactions instead of storing the values to be inserted.
+- [#851](https://github.com/org-roam/org-roam/pull/851) Add `'first-directory'` option for `org-roam-tag-sources`
+- [#863](https://github.com/org-roam/org-roam/pull/863) Display outline hierarchy in backlinks buffer
+- [#898](https://github.com/org-roam/org-roam/pull/898) Add `org-roam-random-note` to browse a random note.
+- [#900](https://github.com/org-roam/org-roam/pull/900) Support and index all valid org links
+- [#966](https://github.com/org-roam/org-roam/pull/966) Enable nested captures
+
+### Bugfixes
+
+- [#854](https://github.com/org-roam/org-roam/pull/854) Warn instead of fail when duplicate refs and IDs exist.
+- [#857](https://github.com/org-roam/org-roam/pull/857) Fix tag extraction for symlinked directories.
+- [#894](https://github.com/org-roam/org-roam/pull/894) Perform link fixes on all Org-roam files
+- [#952](https://github.com/org-roam/org-roam/pull/952) Cache `${foo}` template variables so they do not need to be re-entered twice
+
+## 1.2.0 (2020-06-12)
+
+In this release, we improved the linking process by achieving feature parity between links to files and links to headlines. Before, we used the `file:foo::*bar` format to link to the headline `bar` in file `foo`, but this was prone to breakage upon renaming the file or modifying the headline. This is not the case anymore. Now, we use `org-id` to create IDs for those headlines, which are then stored in our database to compute the relationships and jump around. Note that this will work even if you’re not using `org-id` in your global configuration for Org-mode.
+
+This is a major step forward. Supporting the in-file structure of Org-mode files means that we can interface with many of its core-features like TODOs, properties, priorities, etc. UX will have to be figured out, but this release ushers in a new age in terms of functionalities.
+
+We also add `org-roam-unlinked-references`, which naively finds text that could be references to the current Org-roam file.
+
+### Breaking Changes
+
+- [#701](https://github.com/org-roam/org-roam/pull/701) Use `emacsql-sqlite3` instead of `emacsql-sqlite` for better Windows compatibility. This requires the presence of the standard `sqlite3` binary on your machine.
+- [#750](https://github.com/org-roam/org-roam/pull/750) Deprecate `org-roam-buffer-no-delete-other-windows` in favour of `org-roam-buffer-window-parameters`.
+
+### Features
+
+- [#787](https://github.com/org-roam/org-roam/pull/787) Add `org-roam-unlinked-references`
+- [#783](https://github.com/org-roam/org-roam/pull/783) Add support for headlines
+- [#757](https://github.com/org-roam/org-roam/pull/757) Roam global properties are now case-insensitive
+- [#680](https://github.com/org-roam/org-roam/pull/680) , [#703](https://github.com/org-roam/org-roam/pull/703), [#708](https://github.com/org-roam/org-roam/pull/708) Add `org-roam-doctor` checkers for `ROAM_*` properties
+- [#664](https://github.com/org-roam/org-roam/pull/664) Add support for shelling out to `rg` and `find` in `org-roam--list-files`
+- [#679](https://github.com/org-roam/org-roam/pull/679), [#683](https://github.com/org-roam/org-roam/pull/683) Building of the graph now happens in a separate process
+
+### Bugfixes
+
+- [#714](https://github.com/org-roam/org-roam/pull/714) No longer print citelinks in backlinks buffer if there is no `ROAM_KEY` property or `org-ref` is not installed
+- [#759](https://github.com/org-roam/org-roam/pull/759), [#760](https://github.com/org-roam/org-roam/pull/760) Tags are only added to the tags table if there are actually tags present
+- [#700](https://github.com/org-roam/org-roam/pull/700), [#733](https://github.com/org-roam/org-roam/pull/733) Allow symlinks within the `org-roam` directory
+
+## 1.1.1 (2020-05-18)
+
+In this release, we added two new features:
+
+1. `org-roam-doctor`: a linting system that helps you discover possible problems with your Org-roam files. This is in the spirit of keeping notes in top quality.
+2. A tagging system: one can now use sub-directories, and the `#+roam_tags` key add additional meta data to notes. For more information, see [here](https://www.orgroam.com/manual/Tags.html#Tags).
+
+As usual, this release comes with a multitude of bug-fixes and refactorings.
+
+### Breaking Changes
+
+- [#523](https://github.com/org-roam/org-roam/pull/523) remove `org-roam-completion-fuzzy-match` in favor of using completion mechanism's configuration options directly
+- [#547](https://github.com/org-roam/org-roam/pull/547) Deprecate `org-roam-db--maybe-update`, in favour of `org-roam-db--update-maybe`
+- [#604](https://github.com/org-roam/org-roam/pull/604) Deprecate `org-roam-title-include-subdirs`, `org-roam-title-subdir-format` `org-roam-title-subdir-separator`, for a more general tagging system built on subdirectories
+
+### Bugfixes
+
+- [#509](https://github.com/org-roam/org-roam/pull/509) fix backup files being tracked in database
+- [#509](https://github.com/org-roam/org-roam/pull/509) fix external org files being tracked in database
+- [#537](https://github.com/org-roam/org-roam/pull/537) quote graphviz node and edge configuration options to allow multi-word configurations
+- [#545](https://github.com/org-roam/org-roam/pull/545) fix `org-roam--extract-links` to ensure that multiple citations (`cite:key1,key2`) are split correctly
+- [#547](https://github.com/org-roam/org-roam/pull/547) Fix unlinked citations
+- [#660](https://github.com/org-roam/org-roam/pull/660) fix rename-file advice not working for renaming to directories
+- [#660](https://github.com/org-roam/org-roam/pull/660) fix links breaking within file on file movement
+
+### Features
+
+- [#538](https://github.com/org-roam/org-roam/pull/538) Optionally use text in first headline as title
+- [#553](https://github.com/org-roam/org-roam/pull/553) Add prefix argument to `org-roam-db-build-cache` for forcing rebuilds
+- [#560](https://github.com/org-roam/org-roam/pull/560) Apply 'error face to distinguish broken links
+- [#570](https://github.com/org-roam/org-roam/pull/570) Add `org-roam-doctor` to diagnose org-roam files
+- [#625](https://github.com/org-roam/org-roam/pull/625) Add `org-roam-title-sources` to control how titles are retrieved within notes
+- [#604](https://github.com/org-roam/org-roam/pull/604) Add a tagging system. `org-roam-tag-sources` controls how tags are retrieved from notes
+
+### Internal Changes
+
+- [#547](https://github.com/org-roam/org-roam/pull/547) Added `type` column to the `refs` table
+- [#606](https://github.com/org-roam/org-roam/pull/606) Added `org-roam-dev.el` for developer coding standards
+- [#622](https://github.com/org-roam/org-roam/pull/622) Online documentation now points to the Org-based documentation
+
+## 1.1.0 (2020-04-21)
+
+To the average user, this release is mainly a bugfix release with additional options to customize. However, the changes made to the source is significant. Most notably, in this release:
+
+1. The codebase has been modularized into separate files, to ease future maintenance and adding of new features (mainly by [@progfolio](https://github.com/progfolio)). Because of these changes, we had to rename many functions and variables: the old names are kept for backwards compatibility, but you are encouraged to use the new function names. You'll receive a warning when you're calling the function with its obsolete name.
+2. [@kljohann](https://github.com/kljohann) did some fantastic work on graph generation: allowing building images for connected components within the graph up to a specified distance
+3. We also started supporting `org-ref` natively: cite links now show up in both the graph and the org-roam buffer.
+
+In the coming months, you can expect work on bigger projects (e.g. revamping the org-roam buffer).
+
+### Breaking Changes
+
+- [#385](https://github.com/org-roam/org-roam/pull/385) Deprecate `org-roam-graph-node-shape` in favour of `org-roam-graph-node-extra-config`.
+- [#473](https://github.com/org-roam/org-roam/pull/473) Deprecate `org-roam-date-filename-format` and `org-roam-date-title-format`, in favour of `org-roam-dailies-capture-templates`.
+
+### New Features
+
+- [#350](https://github.com/org-roam/org-roam/pull/350) Add `org-roam-db-location` to customize location of org-roam database.
+- [#359](https://github.com/org-roam/org-roam/pull/359) Add `org-roam-verbose` to allow or silence printing of information.
+- [#374](https://github.com/org-roam/org-roam/pull/374) Add support for `org-ref` `cite:` links
+- [#380](https://github.com/org-roam/org-roam/pull/380) Allow `org-roam-buffer-position` to also be `top` or `bottom`
+- [#385](https://github.com/org-roam/org-roam/pull/385) Add `org-roam-graph-node-extra-config` to configure Graphviz nodes
+- [#398](https://github.com/org-roam/org-roam/pull/398), [#418](https://github.com/org-roam/org-roam/pull/418) Add graph building for connected components
+- [#435](https://github.com/org-roam/org-roam/pull/435) Add `org-roam-graph-edge-extra-config` to configure Graphviz edges
+- [#439](https://github.com/org-roam/org-roam/pull/439) Add support for `org-ref` citations to display as edges in graph. Add `org-roam-graph-edge-cites-extra-config` to configure these edges
+- [#465](https://github.com/org-roam/org-roam/pull/465) Add `org-roam-file-extensions` to allow detection of org files with different file extensions
+- [#488](https://github.com/org-roam/org-roam/pull/488) Allow a function for `org-roam-graph-viewer`
+- [#491](https://github.com/org-roam/org-roam/pull/491) Use TITLE as description when linking before first heading
+
+### Bugfixes
+
+- [#470](https://github.com/org-roam/org-roam/pull/470) Add workaround for undocumented `file-truename` behaviour in `org-roam--org-roam-file-p`.
+
+### Internal Changes
+
+- [#363](https://github.com/org-roam/org-roam/pull/363), [#473](https://github.com/org-roam/org-roam/pull/473) Modularize org-roam features.
+- [#497](https://github.com/org-roam/org-roam/pull/497) Simplify `org-roam--list-files` implementation
+
+## 1.0.0 (2020-03-23)
+
+Org-roam is now on MELPA! We have squashed most of the bugs, and Org-roam has
+been stable for the most part.
+
+### New Features
+
+- [#269](https://github.com/org-roam/org-roam/pull/269) Add `org-roam-graphviz-extra-options`
+- [#257](https://github.com/org-roam/org-roam/pull/257) Add a company-backend `company-org-roam`
+- [#284](https://github.com/org-roam/org-roam/pull/284), [#289](https://github.com/org-roam/org-roam/pull/289) Configurable `org-roam-completion-system` with options `'default`, `'ido`, `'ivy` and `'helm`
+- [#289](https://github.com/org-roam/org-roam/pull/289) Add customizable `org-roam-fuzzy-match` to allow fuzzy-matching of candidates
+- [#290](https://github.com/org-roam/org-roam/pull/290) Add `org-roam-date-title-format` and `org-roam-date-filename-format` for customizing Org-roam's date files
+- [#296](https://github.com/org-roam/org-roam/pull/296) Allow multiple exclusion matchers in `org-roam-graph-exclude-matcher`
+
+### Bugfixes
+
+- [#293](https://github.com/org-roam/org-roam/pull/293) Fix capture templates not working as expected for `org-roam-find-file`
+- [#275](https://github.com/org-roam/org-roam/pull/275) Fix database rebuild when `org-roam-directory` is set locally
+
+## 1.0.0-rc1 (2020-03-06)
+
+This is a pre-release before the push to MELPA. It contains large
+internal changes, with little user-facing changes. Most notably, the
+backing storage has been changed to a SQLite database, and a
+templating system using `org-capture` is introduced.
+
+### Breaking Changes
+
+- [#200](https://github.com/org-roam/org-roam/pull/200) Move Org-roam cache into a SQLite database.
+- [#203](https://github.com/org-roam/org-roam/pull/203) Roam protocol is deprecated, in favour of extending org-roam-protocol.
+
+### New Features
+
+- [#182](https://github.com/org-roam/org-roam/pull/182) Support file name aliases via `#+ROAM_ALIAS`.
+- [#216](https://github.com/org-roam/org-roam/pull/216) Adds templating functionality by extending org-capture.
+- [#232](https://github.com/org-roam/org-roam/pull/232) Adds a prefix key to `org-roam-show-graph`, to generate graph without opening it.
+- [#233](https://github.com/org-roam/org-roam/pull/233) Adds `org-roam-graph-exclude-matcher`, which allows exclusion of nodes from graph.
+- [#247](https://github.com/org-roam/org-roam/pull/247) Add `org-roam-backlink` face, which allows customizing backlinks appearance
+- [#259](https://github.com/org-roam/org-roam/pull/259) Add optional initial-prompt to `org-roam-find-file`
+
+### Bugfixes
+
+- [#207](https://github.com/org-roam/org-roam/pull/207), [#221](https://github.com/org-roam/org-roam/pull/221) small bugfixes to Org-roam graph generation
+- [#230](https://github.com/org-roam/org-roam/pull/230) remove nonspacing marks from filenames, to prevent cross-platform errors
+
+### New Contributors
+
+- [@acowley][https://github.com/acowley]
+- [@teesloane][https://github.com/teesloane]
+
+## 0.1.2 (2020-02-21)
+
+### Breaking Changes
+
+- [#143](https://github.com/org-roam/org-roam/pull/143) `org-roam-mode` is now a global mode. The installation instructions have changed accordingly.
+- [#103](https://github.com/org-roam/org-roam/pull/103) Change `org-roam-file-format` to a function: `org-roam-file-name-function` to allow more flexible file name customizaton. Also changes `org-roam-use-timestamp-as-filename` to `org-roam-filename-noconfirm` to better describe what it does.
+
+### New Features
+
+- [#145](https://github.com/org-roam/org-roam/pull/145) `org-roam-show-graph`: Fallback to Emacs SVG viewer
+- [#141](https://github.com/org-roam/org-roam/pull/141) add variable `org-roam-new-file-directory` for new Org-roam files
+- [#138](https://github.com/org-roam/org-roam/pull/138) add `org-roam-switch-to-buffer`
+- [#124](https://github.com/org-roam/org-roam/pull/124), [#141](https://github.com/org-roam/org-roam/pull/141) Maintain cache consistency on file rename and delete
+- [#87](https://github.com/org-roam/org-roam/pull/87), [#90](https://github.com/org-roam/org-roam/pull/90) Support encrypted Org files
+- [#110](https://github.com/org-roam/org-roam/pull/110) Add prefix to `org-roam-insert`, for inserting titles down-cased
+- [#99](https://github.com/org-roam/org-roam/pull/99) Add keybinding so that `<return>` or `mouse-1` in the backlinks buffer visits the source file of the backlink at point
+
+### Changes
+
+- [#108](https://github.com/org-roam/org-roam/pull/108) Locally overwrite the link following behaviour in the org-roam-buffer to open files in the same window `org-roam` was called from
+
+### Bugfixes
+
+- [#86](https://github.com/org-roam/org-roam/pull/86) Fix `org-roam--parse-content` incorrect `:to` computation for nested files
+- [#98](https://github.com/org-roam/org-roam/pull/98) Fix `org-roam--find-file` picking up temporary files
+- [#136](https://github.com/org-roam/org-roam/pull/136) Misc bugfixes
+
+### Internal
+
+- [#122](https://github.com/org-roam/org-roam/pull/122), [#128](https://github.com/org-roam/org-roam/pull/128) Improve performance of post-command-hook
+- [#92](https://github.com/org-roam/org-roam/pull/92), [#105](https://github.com/org-roam/org-roam/pull/105) Add tests for core functionality
+
+### New Contributors
+
+- [@frigge](https://github.com/frigge)
+- [@juergenhoetzel](https://github.com/juergenhoetzel)
+- [@chip2n](https://github.com/chip2n)
+- [@l3kn](https://github.com/l3kn)
+- [@jdormit](https://github.com/jdormit)
+- [@herbertjones](https://github.com/herbertjones)
+- [@CeleritasCelery](https://github.com/CeleritasCelery)
+- [@daniel-koudouna](https://github.com/daniel-koudouna)
+
+## 0.1.1 (2020-02-15)
+
+Mostly a documentation/cleanup release.
+
+### New Features
+
+- [#62](https://github.com/org-roam/org-roam/pull/62) Add the options `org-roam-use-timestamps-as-filename` and `org-roam-file-format`, more in documentation.
+
+### Breaking Changes
+
+- [#62](https://github.com/org-roam/org-roam/pull/62) The ID (file-name) workflow is no longer first-class, but a fallback when titles don't exist.
+
+### Changes
+
+- [#66](https://github.com/org-roam/org-roam/pull/66), [#68](https://github.com/org-roam/org-roam/pull/68): Improved the quality of the package in preparation of submission to MELPA
+- [#73](https://github.com/org-roam/org-roam/pull/73): Added CI to the project via Github Issues (Thanks [@alphapapa](https://github.com/alphapapa/) for scripts and setup)
+- [#69](https://github.com/org-roam/org-roam/pull/69), [#72](https://github.com/org-roam/org-roam/pull/72), [#75](https://github.com/org-roam/org-roam/pull/75): Major cleanup and de-duplication of code
+
+### Bugfixes
+
+- [#67](https://github.com/org-roam/org-roam/pull/67): Fixed `org-roam--make-file` not creating files with extensions
+- [#71](https://github.com/org-roam/org-roam/pull/71), [#78](https://github.com/org-roam/org-roam/pull/78): Fixed `org-roam-insert` not inserting correct paths
+- [#82](https://github.com/org-roam/org-roam/pull/82): Fixed nested Org-roam files not being detected as part of Org-roam
+
+<!-- Local Variables: -->
+<!-- eval: (auto-fill-mode -1) -->
+<!-- End: -->

Eldev

@@ -0,0 +1,29 @@
+; -*- mode: emacs-lisp; lexical-binding: t; no-byte-compile: t -*-
+
+;; explicitly set main file
+(setf eldev-project-main-file "org-roam.el")
+
+(eldev-use-package-archive 'gnu)
+(eldev-use-package-archive 'melpa-unstable)
+
+;; allow to load test helpers
+(eldev-add-loading-roots 'test "test/utils")
+
+;; Tell checkdoc not to demand two spaces after a period.
+(setq sentence-end-double-space nil)
+
+(setf eldev-lint-default '(elisp))
+(setf eldev-standard-excludes `(:or ,eldev-standard-excludes "org-roam-macs.el"))
+
+(with-eval-after-load 'elisp-lint
+  ;; We will byte-compile with Eldev.
+  (setf elisp-lint-ignored-validators '("package-lint" "fill-column")
+        enable-local-variables        :all))
+
+;; Teach linter how to properly indent emacsql vectors
+(eldev-add-extra-dependencies 'lint 'emacsql)
+(add-hook 'eldev-lint-hook
+          (lambda ()
+            (eldev-load-project-dependencies 'lint nil t)
+            (require 'emacsql)
+            (call-interactively #'emacsql-fix-vector-indentation)))

Makefile

@@ -0,0 +1,29 @@
+.PHONY: clean
+clean:
+	eldev clean all
+
+.PHONY: prepare
+prepare:
+	eldev -C --unstable -p -dtT prepare
+
+.PHONY: lint
+lint:
+	eldev -C --unstable -T lint
+
+.PHONY: test
+test:
+	eldev -C --unstable -T test
+
+docs:
+	make -C doc all
+
+html:
+	make -C doc html-dir
+
+install: install-docs
+
+install-docs: docs
+	make -C doc install-docs
+
+install-info: info
+	make -C doc install-info

README.md

@@ -1,52 +1,257 @@
-[![Documentation Status](https://readthedocs.org/projects/org-roam/badge/?version=latest)](https://org-roam.readthedocs.io/en/latest/?badge=latest)
+# Org-roam [![GitHub Release][release-badge]][release] [![MELPA][melpa-badge]][melpa] [![License GPL 3][gpl3-badge]][gpl3]
 
-Org-roam is a rudimentary [Roam][roamresearch] replica built around
-the all-powerful [Org-mode][org]. 
+<img src="https://www.orgroam.com/img/logo.svg" align="right" alt="Org-roam Logo" width="240">
 
-Like Roam, Org-roam offers a powerful and effortless non-hierarchical
-note-taking approach. With Org-roam, notes flow naturally, making
-note-taking fun and easy. 
+Org-roam is a plain-text knowledge management system. It brings some of
+[Roam's][roamresearch] more powerful features into the [Org-mode][org]
+ecosystem.
 
-The goal of the project is to implement core features of Roam around
-Org-mode, and eventually introduce features enabled by the Emacs
-ecosystem. 
+Org-roam borrows principles from the Zettelkasten method, providing a solution
+for non-hierarchical note-taking. It should also work as a plug-and-play
+solution for anyone already using Org-mode for their personal wiki.
 
-For more documentation, see [the documentation page](https://org-roam.readthedocs.io/en/latest/).
+- **Private and Secure**: Edit your personal wiki completely offline, entirely
+  in your control. Encrypt your notes with GPG. Take lasting notes in
+  plain-text.
+- **Networked Thought**: Connect notes and thoughts together with ease using
+  backlinks. Discover surprising and previously unseen connections in your notes
+  with the built-in graph visualization.
+- **Extensible and Powerful**: Leverage Emacs' fantastic text-editing interface,
+  and the mature Emacs and Org-mode ecosystem of packages.
+- **Free and Open Source**: Org-roam is licensed under the GNU General Public
+  License version 3 or later.
 
-## Understanding Roam
+<p align="center">
+  <img src="https://www.orgroam.com/img/screenshot.png" alt="Org-roam Screenshot" width="738">
+</p>
 
-To understand more about Roam, I recommend the following links:
+- **[Documentation][docs]**
+- **[Discourse][discourse]**
+- **[Slack][slack]**
+- **[Frequently Asked Questions][faq]**
+- **[Changelog](CHANGELOG.md)**
 
--   [Building a second brain in
-    Roam](https://reddit.com/r/RoamResearch/comments/eho7de/building_a_second_brain_in_roamand_why_you_might)
--   [Roam: Why I Love It and How I Use
-    It](https://www.nateliason.com/blog/roam)
+## Installation
 
-## Project Status
+Down below you will find basic installation instructions for how to quickly
+install `org-roam` using various environments for various purposes. For more
+detailed information, please read the [manual][docs].
 
-As of February 2020, it is in a very early stage of development. 
+### Using `package.el`
+<details>
+<summary>Toggle instructions</summary>
 
-## A Preview
+You can install `org-roam` from [MELPA](https://melpa.org/) or [MELPA
+Stable](https://stable.melpa.org/) using `package.el`:
 
-Here's a screenshot of `org-roam`. The `org-roam` buffer shows
-backlinks for the active org buffer in the left window, as well as the
-surrounding content in the backlink file. The backlink database is
-built asynchronously in the background, and is not noticeable to the
-end user. The graph is generated from the link structure, and can be
-used to navigate to the respective files.
+```
+M-x package-install RET org-roam RET
+```
+</details>
 
-![img](doc/images/org-roam-graph.gif)
+### Using `straight.el`
+<details>
+<summary>Toggle instructions</summary>
 
-## Knowledge Bases using Org-Roam
+Installation from MELPA or MELPA Stable using `straight.el`:
+
+```emacs-lisp
+(straight-use-package 'org-roam)
+```
+
+Or with `use-package`:
+
+```emacs-lisp
+(use-package org-roam
+  :straight t
+  ...)
+```
+
+If you need to install the package directly from the source repository, instead
+of from MELPA, the next sample shows how to do so:
+
+```emacs-lisp
+(use-package org-roam
+  :straight (:host github :repo "org-roam/org-roam"
+             :files (:defaults "extensions/*"))
+  ...)
+```
+
+If you plan to use your own local fork for the development and contribution, the
+next sample will get you there:
+
+```emacs-lisp
+(use-package org-roam
+  :straight (:local-repo "/path/to/org-roam-fork"
+             :files (:defaults "extensions/*")
+             :build (:not compile))
+  ...)
+```
+</details>
+
+### Using Doom Emacs
+<details>
+<summary>Toggle instructions</summary>
+
+Doom's `:lang org` module comes with support for `org-roam`, but it's not
+enabled by default. To activate it pass `+roam2` flag to `org` module in your
+`$DOOMDIR/init.el` (e.g. `(org +roam2)`), save the file and run `doom sync -u`
+in your shell.
+
+To provide better stability, Doom pins the package to a specific commit. If you
+need to unpin it *(not recommended doing that, request Doom to bump the package
+instead)* use the next in your `packages.el`:
+
+```emacs-lisp
+(unpin! org-roam)
+```
+
+If for some reasons you want to use a different recipe for `org-roam`, you can
+use the next form in your `packages.el` to install the package from a recipe
+repository (e.g. MELPA):
+
+```emacs-lisp
+(package! org-roam)
+```
+
+You can pass `:pin "commit hash"` to pin the package to a specific commit.
+
+With the next sample you can install the package directly from the source
+repository:
+
+```emacs-lisp
+(package! org-roam
+  :recipe (:host github :repo "org-roam/org-roam"
+           :files (:defaults "extensions/*")))
+```
+
+And if you plan to use your own local fork for the development or contribution,
+the next sample will get you there:
+
+```emacs-lisp
+(package! org-roam
+  :recipe (:local-repo "/path/to/org-roam-fork"
+           :files (:defaults "extensions/*")
+           :build (:not compile)))
+```
+</details>
+
+### Without a package manager
+<details>
+<summary>Toggle instructions</summary>
+
+To install the package without using a package manager you have the next two
+options:
+
+1. Install the package by cloning it with `git` from the source repository.
+2. Or install the package by downloading the latest [release
+   version](https://github.com/org-roam/org-roam/releases).
+   
+In both of the cases you will need to ensure that you have all the required
+dependencies. These include:
+
+- dash
+- f
+- s
+- org (9.6 is the minimum required version!)
+- emacsql
+- magit-section
+- filenotify-recursive
+
+After installing the package, you will need to properly setup `load-path` to the
+package:
+
+``` emacs-lisp
+(add-to-list 'load-path "/path/to/org-roam/")
+(add-to-list 'load-path "/path/to-org-roam/extensions/")
+```
+
+After which you should be able to resolve `(require 'org-roam)` call without any
+problems.
+
+Org-roam also comes with `.texi` files to integrate with Emacs' built-in Info
+system. Read the manual to find more details for how to install them manually.
+</details>
+
+## Configuration
+
+Here's a very basic sample for configuration of `org-roam` using `use-package`:
+
+```emacs-lisp
+(use-package org-roam
+  :ensure t
+  :custom
+  (org-roam-directory (file-truename "/path/to/org-files/"))
+  :bind (("C-c n l" . org-roam-buffer-toggle)
+         ("C-c n f" . org-roam-node-find)
+         ("C-c n g" . org-roam-graph)
+         ("C-c n i" . org-roam-node-insert)
+         ("C-c n c" . org-roam-capture)
+         ;; Dailies
+         ("C-c n j" . org-roam-dailies-capture-today))
+  :config
+  ;; If you're using a vertical completion framework, you might want a more informative completion interface
+  (setq org-roam-node-display-template (concat "${title:*} " (propertize "${tags:10}" 'face 'org-tag)))
+  (org-roam-db-autosync-mode)
+  ;; If using org-roam-protocol
+  (require 'org-roam-protocol))
+```
+
+Note that the `file-truename` function is only necessary when you use symbolic
+link to `org-roam-directory`. Org-roam won't automatically resolve symbolic link
+to the directory.
+## Getting Started
+
+[David Wilson](https://github.com/daviwil) of [System
+Crafters](https://www.youtube.com/c/SystemCrafters) has produced an introductory
+video that covers the basic commands:
+
+[![Getting Started with Org Roam - Build a Second Brain in Emacs](https://img.youtube.com/vi/AyhPmypHDEw/0.jpg)](https://www.youtube.com/watch?v=AyhPmypHDEw)
+
+## Getting Help
+
+Before creating a new topic/issue, please be mindful of our time and ensure that
+it has not already been addressed on [GitHub][issues] or on
+[Discourse][discourse].
+
+- If you are new to Emacs and have problem setting up Org-roam, please ask your
+  question on [Slack, channel #how-do-i][slack].
+- For quick questions, please ask them on [Slack, channel
+  #troubleshooting][slack].
+- If something is not working as it should, or if you would like to suggest a
+  new feature, please [create a new issue][issues].
+- If you have questions about your workflow with the slip-box method, please
+  find a relevant topic on [Discourse][discourse], or create a new one.
+
+## Knowledge Bases using Org-roam
 
 - [Jethro Kuan](https://braindump.jethro.dev/)
   ([Source](https://github.com/jethrokuan/braindump/tree/master/org))
+- [Alexey Shmalko](https://www.alexeyshmalko.com/)
+- [Sidharth Arya](https://sidhartharya.github.io/braindump/index.html)
+- [Martin Edström](https://edstrom.dev/)
 
 ## Contributing
 
 To report bugs and suggest new feature use the issue tracker. If you
 have some code which you would like to be merged, then open a pull
-request. Please also see CONTRIBUTING.md.
+request. Please also see [CONTRIBUTING.md](.github/CONTRIBUTING.md).
+
+## License
+
+Copyright © Jethro Kuan and contributors. Distributed under the GNU
+General Public License, Version 3.
 
 [roamresearch]: https://www.roamresearch.com/
 [org]: https://orgmode.org/
+[gpl3-badge]: https://img.shields.io/badge/license-GPL_3-green.svg
+[gpl3]: http://www.gnu.org/licenses/gpl-3.0.txt
+[melpa-badge]: https://melpa.org/packages/org-roam-badge.svg
+[melpa]: https://melpa.org/#/org-roam
+[release-badge]: https://img.shields.io/github/v/release/org-roam/org-roam
+[release]: https://github.com/org-roam/org-roam/releases
+[docs]: https://www.orgroam.com/manual.html
+[discourse]: https://org-roam.discourse.group/
+[slack]: https://join.slack.com/t/orgroam/shared_invite/zt-wuoize1z-x3UyQnQ0WHF0RhuEQ2NLnQ
+[issues]: https://github.com/org-roam/org-roam/issues
+[faq]: https://www.orgroam.com/manual.html#FAQ

default.mk

@@ -0,0 +1,107 @@
+TOP := $(dir $(lastword $(MAKEFILE_LIST)))
+
+## User options ######################################################
+#
+# You can override these settings in "config.mk" or on the command
+# line.
+#
+# You might also want to set LOAD_PATH.  If you do, then it must
+# contain "-L .".
+#
+# If you don't do so, then the default is set in the "Load-Path"
+# section below.  The default assumes that all dependencies are
+# installed either at "../<DEPENDENCY>", or when using package.el
+# at "ELPA_DIR/<DEPENDENCY>-<HIGHEST-VERSION>".
+
+sharedir ?= $(HOME)/.local/share
+lispdir  ?= $(sharedir)/emacs/site-lisp/org-roam
+infodir  ?= $(sharedir)/info
+docdir   ?= $(sharedir)/doc/org-roam
+statsdir ?= $(TOP)/doc/stats
+
+CP       ?= install -p -m 644
+MKDIR    ?= install -p -m 755 -d
+RMDIR    ?= rm -rf
+TAR      ?= tar
+SED      ?= sed
+
+EMACSBIN ?= emacs
+BATCH     = $(EMACSBIN) -Q --batch $(LOAD_PATH)
+
+INSTALL_INFO     ?= $(shell command -v ginstall-info || printf install-info)
+MAKEINFO         ?= makeinfo
+MANUAL_HTML_ARGS ?= --css-ref /assets/page.css
+
+## Files #############################################################
+
+PKG       = org-roam
+PACKAGES  = org-roam
+
+TEXIPAGES = $(addsuffix .texi,$(PACKAGES))
+INFOPAGES = $(addsuffix .info,$(PACKAGES))
+HTMLFILES = $(addsuffix .html,$(PACKAGES))
+HTMLDIRS  = $(PACKAGES)
+PDFFILES  = $(addsuffix .pdf,$(PACKAGES))
+EPUBFILES = $(addsuffix .epub,$(PACKAGES))
+
+ELS = org-roam.el
+ELS += org-roam-capture.el
+ELS += org-roam-compat.el
+ELS += org-roam-db.el
+ELS += org-roam-mode.el
+ELS += org-roam-node.el
+ELS += org-roam-utils.el
+ELS += extensions/org-roam-dailies.el
+ELS += extensions/org-roam-graph.el
+ELS += extensions/org-roam-overlay.el
+ELS += extensions/org-roam-protocol.el
+ELCS = $(ELS:.el=.elc)
+ELMS = org-roam.el $(filter-out $(addsuffix .el,$(PACKAGES)),$(ELS))
+ELGS = org-roam-autoloads.el org-roam-version.el
+
+## Versions ##########################################################
+
+VERSION ?= $(shell test -e $(TOP).git && git describe --tags --abbrev=0 | cut -c2-)
+
+EMACS_VERSION = 26.1
+
+EMACSOLD := $(shell $(BATCH) --eval \
+  "(and (version< emacs-version \"$(EMACS_VERSION)\") (princ \"true\"))")
+ifeq "$(EMACSOLD)" "true"
+  $(error At least version $(EMACS_VERSION) of Emacs is required)
+endif
+
+## Load-Path #########################################################
+
+ifndef LOAD_PATH
+
+ELPA_DIR ?= $(HOME)/.emacs.d/elpa
+
+SYSTYPE := $(shell $(EMACSBIN) -Q --batch --eval "(princ system-type)")
+ifeq ($(SYSTYPE), windows-nt)
+  CYGPATH := $(shell cygpath --version 2>/dev/null)
+endif
+
+LOAD_PATH = -L $(TOP)
+
+# When making changes here, then don't forget to adjust "Makefile",
+# ".travis.yml", ".github/ISSUE_TEMPLATE/bug_report.md",
+# `magit-emacs-Q-command' and the "Installing from the Git Repository"
+# info node accordingly.  Also don't forget to "rgrep \b<pkg>\b".
+
+endif # ifndef LOAD_PATH
+
+ifndef ORG_LOAD_PATH
+ORG_LOAD_PATH  = $(LOAD_PATH)
+ORG_LOAD_PATH += -L $(TOP)../ox-texinfo-plus
+ORG_LOAD_PATH += -L $(TOP)../org-mode/contrib/lisp
+ORG_LOAD_PATH += -L $(TOP)../org-mode/lisp
+endif
+
+## Publish ###########################################################
+
+PUBLISH_TARGETS ?= html html-dir pdf epub
+
+DOCBOOK_XSL ?= /usr/share/xml/docbook/stylesheet/docbook-xsl/epub/docbook.xsl
+
+EPUBTRASH = epub.xml META-INF OEBPS

doc/AUTHORS.md

@@ -0,0 +1,37 @@
+Authors
+=======
+
+The following people have contributed to Org-Roam.
+
+Names below are sorted alphabetically.
+
+Author
+------
+
+- Jethro Kuan <jethrokuan95@gmail.com>
+
+Maintainers
+----------
+
+- Jethro Kuan <jethrokuan95@gmail.com>
+- Leo Vivier <leo.vivier+dev@gmail.com>
+
+Contributors
+------------
+
+- Alexey Shmalko <rasen.dubi@gmail.com>
+- James Ravn <james@r-vn.org>
+- Jethro Kuan <jethrokuan95@gmail.com>
+- Johann Klähn <johann@jklaehn.de>
+- Josh English <josh@joshenglish.com>
+- Jürgen Hötzel <juergen@archlinux.org>
+- Langston Barrett <langston.barrett@gmail.com>
+- Leo Vivier <leo.vivier+dev@gmail.com>
+- Michael Glaesemann <grzm@seespotcode.net>
+- Michael Herold <github@michaeljherold.com>
+- Noboru <noboru.ota@gmail.com>
+- N V <44036031+progfolio@users.noreply.github.com>
+- Rafael Accácio Nogueira <raccacio@poli.ufrj.br>
+- Roland Coeurjoly <rolandcoeurjoly@gmail.com>
+- Sayan <dit7ya@users.noreply.github.com>
+- Tim Quelch <tim@tquelch.com>

doc/Makefile

@@ -0,0 +1,127 @@
+-include ../config.mk
+include ../default.mk
+
+###################################################################
+MANUAL_HTML_ARGS = --css-ref assets/page.css
+
+.PHONY: texi install clean AUTHORS.md stats
+
+all: info
+
+## Build #############################################################
+
+info: $(INFOPAGES) dir
+html: $(HTMLFILES)
+pdf:  $(PDFFILES)
+epub: $(EPUBFILES)
+
+%.info: %.texi
+	@printf "Generating $@\n"
+	@$(MAKEINFO) --no-split $< -o $@
+
+dir: org-roam.info
+	@printf "Generating dir\n"
+	@echo $^ | xargs -n 1 $(INSTALL_INFO) --dir=$@
+
+%.html: %.texi
+	@printf "Generating $@\n"
+	@$(MAKEINFO) --html --no-split $(MANUAL_HTML_ARGS) $<
+
+html-dir:
+	@$(MAKEINFO) --html --no-split $(MANUAL_HTML_ARGS) org-roam.texi
+	mv org-roam.html manual.html
+
+%.pdf: %.texi
+	@printf "Generating $@\n"
+	@texi2pdf --clean $< > /dev/null
+
+%.epub: %.texi
+	@printf "Generating $@\n"
+	@$(MAKEINFO) --docbook $< -o epub.xml
+	@xsltproc $(DOCBOOK_XSL) epub.xml 2> /dev/null
+	@echo "application/epub+zip" > mimetype
+	@zip -X --quiet --recurse-paths -0 $@ mimetype
+	@zip -X --quiet --recurse-paths -9 --no-dir-entries $@ META-INF OEBPS
+	@$(RMDIR) $(EPUBTRASH)
+
+## Install ###########################################################
+
+install: install-info install-docs
+
+install-docs: install-info
+	@$(MKDIR) $(DESTDIR)$(docdir)
+	$(CP) AUTHORS.md $(DESTDIR)$(docdir)
+
+install-info: info
+	@$(MKDIR) $(DESTDIR)$(infodir)
+	$(CP) $(INFOPAGES) $(DESTDIR)$(infodir)
+
+## Clean #############################################################
+
+clean:
+	@printf "Cleaning doc/*...\n"
+	@$(RMDIR) dir $(INFOPAGES) $(HTMLFILES) $(HTMLDIRS) $(PDFFILES)
+	@$(RMDIR) $(EPUBFILES) $(EPUBTRASH)
+
+## Release management ################################################
+
+ORG_ARGS  = --batch -Q $(ORG_LOAD_PATH)
+ORG_ARGS += -l ox-extra -l ox-texinfo+
+ORG_ARGS += --eval "(or (require 'org-man nil t) (require 'ol-man))"
+ORG_EVAL  = --eval "(ox-extras-activate '(ignore-headlines))"
+ORG_EVAL += --eval "(setq indent-tabs-mode nil)"
+ORG_EVAL += --eval "(setq org-src-preserve-indentation nil)"
+ORG_EVAL += --funcall org-texinfo-export-to-texinfo
+
+# This target first bumps version strings in the Org source.  The
+# necessary tools might be missing so other targets do not depend
+# on this target and it has to be run explicitly when appropriate.
+#
+#   AMEND=t make texi    Update manual to be amended to HEAD.
+#   VERSION=N make texi  Update manual for release.
+#
+texi:
+	@$(EMACSBIN) $(ORG_ARGS) $(PKG).org $(ORG_EVAL)
+	@printf "\n" >> $(PKG).texi
+	@rm -f $(PKG).texi~
+
+stats:
+	@printf "Generating statistics\n"
+	@gitstats -c style=/assets/stats.css -c max_authors=999 $(TOP) $(statsdir)
+
+authors: AUTHORS.md
+
+AUTHORS.md:
+	@printf "Generating AUTHORS.md..."
+	@test -e $(TOP).git \
+	&& (printf "$$AUTHORS_HEADER\n" > $@ \
+	&& git log --pretty=format:'- %aN <%aE>' | sort -u >> $@ \
+	&& printf "done\n" ; ) \
+	|| printf "FAILED (non-fatal)\n"
+
+# Templates ##########################################################
+
+define AUTHORS_HEADER
+Authors
+=======
+
+The following people have contributed to Org-Roam.
+
+Names below are sorted alphabetically.
+
+Author
+------
+
+- Jethro Kuan <jethrokuan95@gmail.com>
+
+Maintainers
+----------
+
+- Jethro Kuan <jethrokuan95@gmail.com>
+- Leo Vivier <leo.vivier+dev@gmail.com>
+
+Contributors
+------------
+
+endef
+export AUTHORS_HEADER

doc/assets/page.css

@@ -0,0 +1,68 @@
+:root {
+  --border: #526980;
+  --code: #007;
+}
+
+body {
+    margin: 5ex 10ex;
+    max-width: 80ex;
+    line-height: 1.5;
+    font-family: sans-serif;
+}
+
+h1, h2, h3 {
+    font-weight: normal;
+}
+
+pre, code {
+    font-family: x, monospace;
+}
+
+pre {
+    padding: 1ex;
+    background: #eee;
+    border: solid 1px #ddd;
+    min-width: 0;
+    font-size: 80%;
+    overflow: auto;
+}
+
+code {
+    color: var(--code);
+}
+
+img {
+    max-width: 100%;
+}
+
+table {
+  border-collapse: collapse;
+  width: 100%;
+}
+
+pre.menu-comment {
+  background: none;
+  border: none;
+  font-family: sans-serif;
+  padding: 0;
+  margin: 0;
+  font-size: 100%;
+}
+
+thead {
+  border-bottom: 1px solid var(--border);
+}
+
+tfoot {
+  border-top: 1px solid var(--border);
+}
+
+blockquote {
+  margin-left: 1rem;
+  font-style: italic;
+  font-family: serif;
+  border-left: 3px solid;
+  border-left-color: currentcolor;
+  border-color: var(--text-color);
+  padding-left: 1em;
+}

doc/comparison.md

@@ -1,11 +0,0 @@
----
-title: "Comparing Org-Roam With Other Packages"
-metaTitle: "Comparing Org-Roam With Other Packages"
-metaDescription: "Comparing Org-Roam With Other Packages"
----
-
-# Org-brain
-
-# Zetteldeft
-
-# Org-zettelkasten

doc/css/styles.css

@@ -0,0 +1,85 @@
+body {
+  margin: 20px;
+  background: #303030;
+  color: #f5f5f5;
+  font-size: 1.6rem;
+  font-weight: 300;
+}
+
+.container {
+  max-width: 800px;
+}
+
+.nav {
+  margin-top: 5rem;
+}
+
+.nav-item a {
+  /* color: #797979; */
+  color: #bebebe;
+  text-decoration: none;
+  font-family: "Consolas", "Monaco", "Menlo", monospace;
+}
+
+.nav-item a:hover {
+  cursor: pointer;
+  /* color: #4d4a4a; */
+  color: #dcdcdc;
+  border: none;
+}
+
+.hero {
+  color: #f5f5f5;
+}
+
+.hero div {
+  margin-bottom: 5rem;
+}
+
+.hero h3 {
+  /* font-family: "Edelsans", sans-serif; */
+  font-size: 5rem;
+  margin-bottom: 0;
+}
+
+.hero h5 {
+  margin-top: 1rem;
+  margin-bottom: 0;
+  /* font-weight: 200; */
+  font-weight: 250;
+}
+
+.grid-demo-col {
+  background: #e4e4e4;
+}
+
+a {
+  color: #cd86ff;
+}
+
+a:hover {
+  color: #dbb9f3;
+}
+
+img {
+  max-width: 100%;
+}
+
+.footer-links {
+  font-size: 1.5rem;
+  color: #f5f5f5;
+  text-decoration: none;
+  font-weight: 250;
+}
+
+.header {
+  font-weight: 200;
+}
+
+#footer {
+  margin-bottom: 3rem;
+}
+
+#footer h5 {
+  margin-bottom: 1.5rem;
+}

doc/ecosystem.md

@@ -1,37 +0,0 @@
-## Ecosystem
-
-A number of packages work well combined with Org-Roam:
-
-### Deft
-[Deft](https://jblevins.org/projects/deft/) provides a nice
-interface for browsing and filtering org-roam notes.
-
-```
-(use-package deft
-  :after org
-  :bind
-  ("C-c n d" . deft)
-  :custom
-  (deft-recursive t)
-  (deft-use-filter-string-for-filename t)
-  (deft-default-extension "org")
-  (deft-directory "/path/to/org-roam-files/")
-  (deft-use-filename-as-title t))
-```
-
-### Org-journal
-[Org-journal](https://github.com/bastibe/org-journal) is a more
-powerful alternative to the simple function `org-roam-today`. It
-provides better journaling capabilities, and a nice calendar interface
-to see all dated entries.
-
-```
-(use-package org-journal
-  :bind
-  ("C-c n j" . org-journal-new-entry)
-  :custom
-  (org-journal-date-prefix "#+TITLE: ")
-  (org-journal-file-format "%Y-%m-%d.org")
-  (org-journal-dir "/path/to/org-roam-files/")
-  (org-journal-date-format "%A, %d %B %Y"))
-```

doc/htmlxref.cnf

@@ -0,0 +1,15 @@
+# https://www.gnu.org/software/texinfo/manual/texinfo/html_node/HTML-Xref-Configuration.html
+
+EMACS = https://www.gnu.org/software/emacs/manual
+
+auth		mono	${EMACS}/html_mono/auth.html
+auth		node	${EMACS}/html_node/auth/
+
+ediff		mono	${EMACS}/html_mono/ediff.html
+ediff		node	${EMACS}/html_node/ediff/
+
+elisp		mono	${EMACS}/html_mono/elisp.html
+elisp		node	${EMACS}/html_node/elisp/
+
+emacs		mono	${EMACS}/html_mono/emacs.html
+emacs		node	${EMACS}/html_node/emacs/

doc/index.html

@@ -0,0 +1,168 @@
+<!DOCTYPE html>
+<html lang="en">
+  <head>
+    <meta charset="utf-8" />
+    <meta http-equiv="X-UA-Compatible" content="IE=edge" />
+    <meta name="viewport" content="width=device-width, initial-scale=1" />
+    <meta name="description" content="An Effortless PKM System." />
+    <meta name="author" content="Org-roam Contributors" />
+
+    <title>Org-roam</title>
+
+    <link rel="stylesheet" href="https://unpkg.com/wingcss" />
+    <link rel="stylesheet" type="text/css" href="./css/styles.css" />
+
+    <script src="https://code.iconify.design/1/1.0.6/iconify.min.js"></script>
+  </head>
+
+  <body>
+    <section class="hero container center text-center">
+      <div>
+        <img src="./img/logo.png" alt="Org-roam Logo" height="200" />
+        <h3>Org-roam</h3>
+        <h5>A plain-text personal knowledge management system.</h5>
+      </div>
+    </section>
+
+    <section class="container center">
+      <div>
+        <img src="./img/screenshot.png" alt="screenshot" />
+      </div>
+    </section>
+
+    <section id="features" class="container center">
+      <div>
+        <h3 class="header">FEATURES</h3>
+        <div class="row">
+          <div class="col">
+            <h5 class="left">
+              <iconify-icon data-icon="fxemoji:lock"></iconify-icon> &nbsp;
+              Private and Secure
+            </h5>
+            <p class="content">
+              Edit your personal wiki completely offline, entirely in your
+              control. Encrypt your notes with GPG. Take lasting notes in
+              plain-text.
+            </p>
+          </div>
+          <div class="col">
+            <h5 class="left">
+              <iconify-icon data-icon="flat-color-icons:link"></iconify-icon>
+              &nbsp; Make Connections
+            </h5>
+            <p class="content">
+              Connect notes and thoughts together with ease using backlinks.
+              Discover surprising and previously unseen connections in your
+              notes with the built-in graph visualization.
+            </p>
+          </div>
+        </div>
+
+        <div class="row">
+          <div class="col">
+            <h5 class="left">
+              <iconify-icon data-icon="twemoji:puzzle-piece"></iconify-icon>
+              &nbsp; Extensible and Powerful
+            </h5>
+            <p class="content">
+              Leverage Emacs' fantastic text-editing interface, and the mature
+              Emacs and Org-mode ecosystem of packages.
+            </p>
+          </div>
+          <div class="col">
+            <h5 class="left">
+              <iconify-icon data-icon="logos:git-icon"></iconify-icon> &nbsp;
+              Free and Open Source
+            </h5>
+            <p class="content">
+              Org-roam is licensed under the GNU General Public License version
+              3 or later. You are free to extend its functionality and
+              contribute back. Find
+              us <a href="https://github.com/org-roam/org-roam">here</a>.
+            </p>
+          </div>
+        </div>
+      </div>
+    </section>
+    
+    <section id="links" class="container">
+      <div>
+        <h3 class="header">LINKS</h3> New to Emacs and Org-mode, and trying to
+        find your way around? Org-roam has an inclusive community of users
+        passionate about Personal Knowledge Management -- we're happy to help!
+        You can find us on Discourse and Slack.
+        
+        <ul>
+            <li>Read our documentation within Emacs, or on the <a href="https://www.orgroam.com/manual.html">Online Manual</a></li>
+            <li>Participate in our forum discussions on <a href="https://org-roam.discourse.group">Discourse</a></li>
+            <li>Chat with us on <a href="https://join.slack.com/t/orgroam/shared_invite/zt-wuoize1z-x3UyQnQ0WHF0RhuEQ2NLnQ">Slack</a></li>
+          </ul>
+      </div>
+    </section>
+
+    <section id="footer" class="row container">
+      <div class="col">
+        <div class="row">
+          <h5 class="header">Ecosystem</h5>
+        </div>
+
+        <div class="row">
+          <a
+            class="content footer-links"
+            href="https://github.com/org-roam/org-roam-bibtex"
+            >org-roam-bibtex</a
+          >
+        </div>
+        <div class="row">
+          <a
+            class="content footer-links"
+            href="https://github.com/org-roam/org-roam-ui"
+            >org-roam-ui</a
+          >
+        </div>
+      </div>
+
+      <div class="col">
+        <div class="row">
+          <h5 class="header">Resources</h5>
+        </div>
+
+        <div class="row">
+          <a
+            class="content footer-links"
+            href="https://github.com/org-roam/org-roam/issues?q=is%3Aissue+is%3Aopen+sort%3Aupdated-desc"
+            >Open Issues</a
+          >
+        </div>
+        <div class="row">
+          <a
+            class="content footer-links"
+            href="https://github.com/org-roam/org-roam/releases"
+            >Releases</a
+          >
+        </div>
+      </div>
+
+      <div class="col">
+        <div class="row">
+          <h5 class="header">Connect</h5>
+        </div>
+
+        <div class="row">
+          <a
+            class="content footer-links"
+            href="https://join.slack.com/t/orgroam/shared_invite/zt-wuoize1z-x3UyQnQ0WHF0RhuEQ2NLnQ"
+            >Slack</a
+          >
+        </div>
+        <div class="row">
+          <a
+            class="content footer-links"
+            href="https://org-roam.discourse.group/"
+            >Discourse</a
+          >
+        </div>
+      </div>
+    </section>
+  </body>
+</html>

doc/index.md

@@ -1,41 +0,0 @@
-![org-roam][org-roam-intro-image]
-
-## What is Org-Roam?
-
-Org-roam is a rudimentary [Roam][roamresearch] replica built around
-the all-powerful [Org-mode][org]. 
-
-Like Roam, Org-roam offers a powerful and effortless non-hierarchical
-note-taking approach. With Org-roam, notes flow naturally, making
-note-taking fun and easy. To understand more about Roam, I recommend
-the following links:
-
--   [Building a second brain in
-    Roam](https://reddit.com/r/RoamResearch/comments/eho7de/building_a_second_brain_in_roamand_why_you_might)
--   [Roam: Why I Love It and How I Use
-    It](https://www.nateliason.com/blog/roam)
-
-The goal of the project is to implement core features of Roam around
-Org-mode, and eventually introduce features enabled by the Emacs
-ecosystem. 
-
-## Why build Org-Roam?
-
-With Org-roam, you:
-
-1. Never have to leave Emacs.
-2. Can leverage all the powerful features of Org-mode: LaTeX, tables,
-   and the whole to-do ecosystem (org-agenda etc.)
-3. Be in full control your second brain, and access it offline. Never
-   share your data with anyone
-
-There are several packages that are similar to Org-roam, see the
-[Comparison](comparison.md) page for a detailed comparison.
-
-## Project Status
-
-As of February 2020, it is in a very early stage of development. 
-
-[org-roam-intro-image]: images/org-roam-intro.png
-[roamresearch]: https://www.roamresearch.com/
-[org]: https://orgmode.org/

doc/installation.md

@@ -1,35 +0,0 @@
-## Installation
-
-The recommended method is using [use-package][use-package] and
-[straight][straight], or a similar package manager.
-
-```
-(use-package org-roam
-      :after org
-      :hook (org-mode . org-roam-mode)
-      :straight (:host github :repo "jethrokuan/org-roam")
-      :custom
-      (org-roam-directory "/path/to/org-files/")
-      (org-roam-link-representation 'title) ;; or keep it as 'id
-      :bind
-      ("C-c n l" . org-roam)      
-      ("C-c n t" . org-roam-today)
-      ("C-c n f" . org-roam-find-file)
-      ("C-c n i" . org-roam-insert)
-      ("C-c n g" . org-roam-show-graph))
-```
-
-If not using package.el, you can also clone it into your Emacs
-directory and add it to your load path:
-
-```
-git clone https://github.com/jethrokuan/org-roam/ ~/.emacs.d/elisp/org-roam
-```
-
-```
-(add-to-list 'load-path "./elisp")
-(require 'org-roam)
-```
-
-[use-package]: https://github.com/jwiegley/use-package
-[straight]: https://github.com/raxod502/straight.el

doc/requirements.txt

@@ -1,2 +0,0 @@
-mkdocs-material==4.6.2
-pymdown-extensions==6.3

doc/tour.md

@@ -1,20 +0,0 @@
-### A Tour of Org-Roam
-
-All of this starts from the note. A note is just a simple `.org` file
-in the directory. Any org file in the directory is considered part of
-the org-roam ecosystem. Notes are quickly linked together (and created
-if necessary) using `org-roam-insert`.
-
-![org-roam-insert](images/org-roam-insert.gif)
-
-Org-roam tracks all of these file links, and builds a cache
-asynchronously in the background. This cache is used to populate the
-backlinks buffer, which shows files that link to the current file, as
-well as some preview contents:
-
-![org-roam-buffer](images/org-roam-buffer.gif)
-
-These file links also form a graph. The generated graph is navigable
-in Emacs.
-
-![org-roam-graph](images/org-roam-graph.gif)

extensions/org-roam-dailies.el

@@ -0,0 +1,366 @@
+;;; org-roam-dailies.el --- Daily-notes for Org-roam -*- coding: utf-8; lexical-binding: t; -*-
+;;;
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+;; Copyright © 2020 Leo Vivier <leo.vivier+dev@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;;      Leo Vivier <leo.vivier+dev@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org-roam "2.1"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This extension provides functionality for creating daily-notes, or shortly
+;; "dailies". Dailies implemented here as a unique node per unique file, where
+;; each file named after certain date and stored in `org-roam-dailies-directory'.
+;;
+;; One can use dailies for various purposes, e.g. journaling, fleeting notes,
+;; scratch notes or whatever else you can think of.
+;;
+;;; Code:
+(require 'dash)
+(require 'org-roam)
+
+;;; Faces
+(defface org-roam-dailies-calendar-note
+  '((t :inherit (org-link) :underline nil))
+  "Face for dates with a daily-note in the calendar."
+  :group 'org-roam-faces)
+
+;;; Options
+(defcustom org-roam-dailies-directory "daily/"
+  "Path to daily-notes.
+This path is relative to `org-roam-directory'."
+  :group 'org-roam
+  :type 'string)
+
+(defcustom org-roam-dailies-find-file-hook nil
+  "Hook that is run right after navigating to a daily-note."
+  :group 'org-roam
+  :type 'hook)
+
+(defcustom org-roam-dailies-capture-templates
+  `(("d" "default" entry
+     "* %?"
+     :target (file+head "%<%Y-%m-%d>.org"
+                        "#+title: %<%Y-%m-%d>\n")))
+  "Capture templates for daily-notes in Org-roam.
+Note that for daily files to show up in the calendar, they have to be of format
+\"org-time-string.org\".
+See `org-roam-capture-templates' for the template documentation."
+  :group 'org-roam
+  :type '(repeat
+          (choice (list :tag "Multikey description"
+                        (string :tag "Keys       ")
+                        (string :tag "Description"))
+                  (list :tag "Template entry"
+                        (string :tag "Keys           ")
+                        (string :tag "Description    ")
+                        (choice :tag "Capture Type   " :value entry
+                                (const :tag "Org entry" entry)
+                                (const :tag "Plain list item" item)
+                                (const :tag "Checkbox item" checkitem)
+                                (const :tag "Plain text" plain)
+                                (const :tag "Table line" table-line))
+                        (choice :tag "Template       "
+                                (string)
+                                (list :tag "File"
+                                      (const :format "" file)
+                                      (file :tag "Template file"))
+                                (list :tag "Function"
+                                      (const :format "" function)
+                                      (function :tag "Template function")))
+                        (plist :inline t
+                               ;; Give the most common options as checkboxes
+                               :options (((const :format "%v " :target)
+                                          (choice :tag "Node location"
+                                                  (list :tag "File"
+                                                        (const :format "" file)
+                                                        (string :tag "  File"))
+                                                  (list :tag "File & Head Content"
+                                                        (const :format "" file+head)
+                                                        (string :tag "  File")
+                                                        (string :tag "  Head Content"))
+                                                  (list :tag "File & Outline path"
+                                                        (const :format "" file+olp)
+                                                        (string :tag "  File")
+                                                        (list :tag "Outline path"
+                                                              (repeat (string :tag "Headline"))))
+                                                  (list :tag "File & Head Content & Outline path"
+                                                        (const :format "" file+head+olp)
+                                                        (string :tag "  File")
+                                                        (string :tag "  Head Content")
+                                                        (list :tag "Outline path"
+                                                              (repeat (string :tag "Headline"))))))
+                                         ((const :format "%v " :prepend) (const t))
+                                         ((const :format "%v " :immediate-finish) (const t))
+                                         ((const :format "%v " :jump-to-captured) (const t))
+                                         ((const :format "%v " :empty-lines) (const 1))
+                                         ((const :format "%v " :empty-lines-before) (const 1))
+                                         ((const :format "%v " :empty-lines-after) (const 1))
+                                         ((const :format "%v " :clock-in) (const t))
+                                         ((const :format "%v " :clock-keep) (const t))
+                                         ((const :format "%v " :clock-resume) (const t))
+                                         ((const :format "%v " :time-prompt) (const t))
+                                         ((const :format "%v " :tree-type) (const week))
+                                         ((const :format "%v " :unnarrowed) (const t))
+                                         ((const :format "%v " :table-line-pos) (string))
+                                         ((const :format "%v " :kill-buffer) (const t))))))))
+
+;;; Commands
+;;;; Today
+;;;###autoload
+(defun org-roam-dailies-capture-today (&optional goto keys)
+  "Create an entry in the daily-note for today.
+When GOTO is non-nil, go the note without creating an entry.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive "P")
+  (org-roam-dailies--capture (current-time) goto keys))
+
+;;;###autoload
+(defun org-roam-dailies-goto-today (&optional keys)
+  "Find the daily-note for today, creating it if necessary.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive)
+  (org-roam-dailies-capture-today t keys))
+
+;;;; Tomorrow
+;;;###autoload
+(defun org-roam-dailies-capture-tomorrow (n &optional goto keys)
+  "Create an entry in the daily-note for tomorrow.
+
+With numeric argument N, use the daily-note N days in the future.
+
+With a `C-u' prefix or when GOTO is non-nil, go the note without
+creating an entry.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive "p")
+  (org-roam-dailies--capture (time-add (* n 86400) (current-time)) goto keys))
+
+;;;###autoload
+(defun org-roam-dailies-goto-tomorrow (n &optional keys)
+  "Find the daily-note for tomorrow, creating it if necessary.
+
+With numeric argument N, use the daily-note N days in the
+future.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive "p")
+  (org-roam-dailies-capture-tomorrow n t keys))
+
+;;;; Yesterday
+;;;###autoload
+(defun org-roam-dailies-capture-yesterday (n &optional goto keys)
+  "Create an entry in the daily-note for yesteday.
+
+With numeric argument N, use the daily-note N days in the past.
+
+When GOTO is non-nil, go the note without creating an entry.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive "p")
+  (org-roam-dailies-capture-tomorrow (- n) goto keys))
+
+;;;###autoload
+(defun org-roam-dailies-goto-yesterday (n &optional keys)
+  "Find the daily-note for yesterday, creating it if necessary.
+
+With numeric argument N, use the daily-note N days in the
+future.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive "p")
+  (org-roam-dailies-capture-tomorrow (- n) t keys))
+
+;;;; Date
+;;;###autoload
+(defun org-roam-dailies-capture-date (&optional goto prefer-future keys)
+  "Create an entry in the daily-note for a date using the calendar.
+Prefer past dates, unless PREFER-FUTURE is non-nil.
+With a `C-u' prefix or when GOTO is non-nil, go the note without
+creating an entry.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive "P")
+  (let ((time (let ((org-read-date-prefer-future prefer-future))
+                (org-read-date nil t nil (if goto
+                                             "Find daily-note: "
+                                           "Capture to daily-note: ")))))
+    (org-roam-dailies--capture time goto keys)))
+
+;;;###autoload
+(defun org-roam-dailies-goto-date (&optional prefer-future keys)
+  "Find the daily-note for a date using the calendar, creating it if necessary.
+Prefer past dates, unless PREFER-FUTURE is non-nil.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (interactive)
+  (org-roam-dailies-capture-date t prefer-future keys))
+
+;;;; Navigation
+(defun org-roam-dailies-goto-next-note (&optional n)
+  "Find next daily-note.
+
+With numeric argument N, find note N days in the future. If N is
+negative, find note N days in the past."
+  (interactive "p")
+  (unless (org-roam-dailies--daily-note-p)
+    (user-error "Not in a daily-note"))
+  (setq n (or n 1))
+  (let* ((dailies (org-roam-dailies--list-files))
+         (position
+          (cl-position-if (lambda (candidate)
+                            (string= (buffer-file-name (buffer-base-buffer)) candidate))
+                          dailies))
+         note)
+    (unless position
+      (user-error "Can't find current note file - have you saved it yet?"))
+    (pcase n
+      ((pred (natnump))
+       (when (eq position (- (length dailies) 1))
+         (user-error "Already at newest note")))
+      ((pred (integerp))
+       (when (eq position 0)
+         (user-error "Already at oldest note"))))
+    (setq note (nth (+ position n) dailies))
+    (find-file note)
+    (run-hooks 'org-roam-dailies-find-file-hook)))
+
+(defun org-roam-dailies-goto-previous-note (&optional n)
+  "Find previous daily-note.
+
+With numeric argument N, find note N days in the past. If N is
+negative, find note N days in the future."
+  (interactive "p")
+  (let ((n (if n (- n) -1)))
+    (org-roam-dailies-goto-next-note n)))
+
+(defun org-roam-dailies--list-files (&rest extra-files)
+  "List all files in `org-roam-dailies-directory'.
+EXTRA-FILES can be used to append extra files to the list."
+  (let ((dir (expand-file-name org-roam-dailies-directory org-roam-directory))
+        (regexp (rx-to-string `(and "." (or ,@org-roam-file-extensions)))))
+    (append (--remove (let ((file (file-name-nondirectory it)))
+                        (when (or (auto-save-file-name-p file)
+                                  (backup-file-name-p file)
+                                  (string-match "^\\." file))
+                          it))
+                      (directory-files-recursively dir regexp))
+            extra-files)))
+
+(defun org-roam-dailies--daily-note-p (&optional file)
+  "Return t if FILE is an Org-roam daily-note, nil otherwise.
+If FILE is not specified, use the current buffer's file-path."
+  (when-let ((path (expand-file-name
+                    (or file
+                        (buffer-file-name (buffer-base-buffer)))))
+             (directory (expand-file-name org-roam-dailies-directory org-roam-directory)))
+    (setq path (expand-file-name path))
+    (save-match-data
+      (and
+       (org-roam-file-p path)
+       (org-roam-descendant-of-p path directory)))))
+
+;;;###autoload
+(defun org-roam-dailies-find-directory ()
+  "Find and open `org-roam-dailies-directory'."
+  (interactive)
+  (find-file (expand-file-name org-roam-dailies-directory org-roam-directory)))
+
+;;; Calendar integration
+(defun org-roam-dailies-calendar--file-to-date (file)
+  "Convert FILE to date.
+Return (MONTH DAY YEAR) or nil if not an Org time-string."
+  (ignore-errors
+    (cl-destructuring-bind (_ _ _ d m y _ _ _)
+        (org-parse-time-string
+         (file-name-sans-extension
+          (file-name-nondirectory file)))
+      (list m d y))))
+
+(defun org-roam-dailies-calendar-mark-entries ()
+  "Mark days in the calendar for which a daily-note is present."
+  (when (file-exists-p (expand-file-name org-roam-dailies-directory org-roam-directory))
+    (dolist (date (remove nil
+                          (mapcar #'org-roam-dailies-calendar--file-to-date
+                                  (org-roam-dailies--list-files))))
+      (when (calendar-date-is-visible-p date)
+        (calendar-mark-visible-date date 'org-roam-dailies-calendar-note)))))
+
+(add-hook 'calendar-today-visible-hook #'org-roam-dailies-calendar-mark-entries)
+(add-hook 'calendar-today-invisible-hook #'org-roam-dailies-calendar-mark-entries)
+
+;;; Capture implementation
+(add-to-list 'org-roam-capture--template-keywords :override-default-time)
+
+(defun org-roam-dailies--capture (time &optional goto keys)
+  "Capture an entry in a daily-note for TIME, creating it if necessary.
+When GOTO is non-nil, go the note without creating an entry.
+
+ELisp programs can set KEYS to a string associated with a template.
+In this case, interactive selection will be bypassed."
+  (let ((org-roam-directory (expand-file-name org-roam-dailies-directory org-roam-directory))
+        (org-roam-dailies-directory "./"))
+    (org-roam-capture- :goto (when goto '(4))
+                       :keys keys
+                       :node (org-roam-node-create)
+                       :templates org-roam-dailies-capture-templates
+                       :props (list :override-default-time time)))
+  (when goto (run-hooks 'org-roam-dailies-find-file-hook)))
+
+(add-hook 'org-roam-capture-preface-hook #'org-roam-dailies--override-capture-time-h)
+(defun org-roam-dailies--override-capture-time-h ()
+  "Override the `:default-time' with the time from `:override-default-time'."
+  (prog1 nil
+    (when (org-roam-capture--get :override-default-time)
+      (org-capture-put :default-time (org-roam-capture--get :override-default-time)))))
+
+;;; Bindings
+(defvar org-roam-dailies-map (make-sparse-keymap)
+  "Keymap for `org-roam-dailies'.")
+
+(define-prefix-command 'org-roam-dailies-map)
+
+(define-key org-roam-dailies-map (kbd "d") #'org-roam-dailies-goto-today)
+(define-key org-roam-dailies-map (kbd "y") #'org-roam-dailies-goto-yesterday)
+(define-key org-roam-dailies-map (kbd "t") #'org-roam-dailies-goto-tomorrow)
+(define-key org-roam-dailies-map (kbd "n") #'org-roam-dailies-capture-today)
+(define-key org-roam-dailies-map (kbd "f") #'org-roam-dailies-goto-next-note)
+(define-key org-roam-dailies-map (kbd "b") #'org-roam-dailies-goto-previous-note)
+(define-key org-roam-dailies-map (kbd "c") #'org-roam-dailies-goto-date)
+(define-key org-roam-dailies-map (kbd "v") #'org-roam-dailies-capture-date)
+(define-key org-roam-dailies-map (kbd ".") #'org-roam-dailies-find-directory)
+
+(provide 'org-roam-dailies)
+
+;;; org-roam-dailies.el ends here

extensions/org-roam-export.el

@@ -0,0 +1,75 @@
+;;; org-roam-export.el --- Org-roam org-export tweaks -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (org "9.6") (org-roam "2.1"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This package provides the necessary changes required to make org-export work out-of-the-box.
+;;
+;; To enable it, run:
+;;
+;;    (require 'org-roam-export)
+;;
+;; The key issue Org's export-to-html functionality has is that it does not respect the ID property, which
+;; Org-roam relies heavily on. This patches the necessary function in ox-html to export ID links correctly,
+;; pointing to the correct place.
+;;
+;;; Code:
+(require 'ox-html)
+
+(defun org-roam-export--org-html--reference (datum info &optional named-only)
+  "Org-roam's patch for `org-html--reference' to support ID link export.
+See `org-html--reference' for DATUM, INFO and NAMED-ONLY."
+  (let* ((type (org-element-type datum))
+         (user-label
+          (org-element-property
+           (pcase type
+             ((or `headline `inlinetask) :CUSTOM_ID)
+             ((or `radio-target `target) :value)
+             (_ :name))
+           datum))
+         (user-label
+          (or user-label
+              (when-let ((path (org-element-property :ID datum)))
+                ;; see `org-html-link' for why we use "ID-"
+                ;; (search for "ID-" in ox-html.el)
+                (concat "ID-" path)))))
+    (cond
+     ((and user-label
+           (or (plist-get info :html-prefer-user-labels)
+               (memq type '(headline inlinetask))))
+      user-label)
+     ((and named-only
+           (not (memq type '(headline inlinetask radio-target target)))
+           (not user-label))
+      nil)
+     (t
+      (org-export-get-reference datum info)))))
+
+(advice-add 'org-html--reference :override #'org-roam-export--org-html--reference)
+
+(provide 'org-roam-export)
+;;; org-roam-export.el ends here

extensions/org-roam-graph.el

@@ -0,0 +1,302 @@
+;;; org-roam-graph.el --- Basic graphing functionality for Org-roam -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (org "9.6") (org-roam "2.1"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This extension implements capability to build and generate graphs in Org-roam
+;; with the help of Graphviz.
+;;
+;;; Code:
+(require 'xml) ;xml-escape-string
+(require 'org-roam)
+
+;;; Options
+(defcustom org-roam-graph-viewer (executable-find "firefox")
+  "Method to view the org-roam graph.
+It may be one of the following:
+  - a string representing the path to the executable for viewing the graph.
+  - a function accepting a single argument: the graph file path.
+  - nil uses `view-file' to view the graph."
+  :type '(choice
+          (string   :tag "Path to executable")
+          (function :tag "Function to display graph" eww-open-file)
+          (const    :tag "view-file"))
+  :group 'org-roam)
+
+(defcustom org-roam-graph-executable "dot"
+  "Path to graphing executable, or its name."
+  :type 'string
+  :group 'org-roam)
+
+(defcustom org-roam-graph-filetype "svg"
+  "File type to generate when producing graphs."
+  :type 'string
+  :group 'org-roam)
+
+
+(defcustom org-roam-graph-extra-config nil
+  "Extra options passed to graphviz.
+Example:
+ '((\"rankdir\" . \"LR\"))"
+  :type '(alist)
+  :group 'org-roam)
+
+(defcustom org-roam-graph-edge-extra-config nil
+  "Extra edge options passed to graphviz.
+Example:
+ '((\"dir\" . \"back\"))"
+  :type '(alist)
+  :group 'org-roam)
+
+(defcustom org-roam-graph-node-extra-config
+  '(("id" . (("style"      . "bold,rounded,filled")
+             ("fillcolor"  . "#EEEEEE")
+             ("color"      . "#C9C9C9")
+             ("fontcolor"  . "#111111")))
+    ("http" . (("style"      . "rounded,filled")
+               ("fillcolor"  . "#EEEEEE")
+               ("color"      . "#C9C9C9")
+               ("fontcolor"  . "#0A97A6")))
+    ("https" . (("style"      . "rounded,filled")
+                ("fillcolor"  . "#EEEEEE")
+                ("color"      . "#C9C9C9")
+                ("fontcolor"  . "#0A97A6"))))
+  "Extra options for graphviz nodes."
+  :type '(alist)
+  :group 'org-roam)
+
+(defcustom org-roam-graph-link-hidden-types
+  '("file")
+  "What sort of links to hide from the Org-roam graph."
+  :type '(repeat string)
+  :group 'org-roam)
+
+(defcustom org-roam-graph-max-title-length 100
+  "Maximum length of titles in graph nodes."
+  :type 'number
+  :group 'org-roam)
+
+(defcustom org-roam-graph-shorten-titles 'truncate
+  "Determines how long titles appear in graph nodes.
+Recognized values are the symbols `truncate' and `wrap', in which
+cases the title will be truncated or wrapped, respectively, if it
+is longer than `org-roam-graph-max-title-length'.
+
+All other values including nil will have no effect."
+  :type '(choice
+          (const :tag "truncate" truncate)
+          (const :tag "wrap" wrap)
+          (const :tag "no" nil))
+  :group 'org-roam)
+
+(defcustom org-roam-graph-link-builder 'org-roam-org-protocol-link-builder
+  "Function used to build the Org-roam graph links.
+Given a node name, return a string to be used for the link fed to
+the graph generation utility."
+  :type 'function
+  :group 'org-roam)
+
+(defcustom org-roam-graph-generation-hook nil
+  "Functions to run after the graph has been generated.
+Each function is called with two arguments: the filename
+containing the graph generation tool, and the generated graph."
+  :type 'hook
+  :group 'org-roam)
+
+(defun org-roam-org-protocol-link-builder (node)
+  "Default org-roam link builder.  Generate an org-protocol link using NODE."
+  (concat "org-protocol://roam-node?node="
+          (url-hexify-string (org-roam-node-id node))))
+
+;;; Interactive command
+;;;###autoload
+(defun org-roam-graph (&optional arg node)
+  "Build and possibly display a graph for NODE.
+ARG may be any of the following values:
+  - nil       show the graph.
+  - `\\[universal-argument]'     show the graph for NODE.
+  - `\\[universal-argument]' N   show the graph for NODE limiting nodes to N steps."
+  (interactive
+   (list current-prefix-arg
+         (and current-prefix-arg
+              (org-roam-node-at-point 'assert))))
+  (let ((graph (cl-typecase arg
+                 (null (org-roam-graph--dot nil 'all-nodes))
+                 (cons (org-roam-graph--dot (org-roam-graph--connected-component
+                                             (org-roam-node-id node) 0)))
+                 (integer (org-roam-graph--dot (org-roam-graph--connected-component
+                                                (org-roam-node-id node) (abs arg)))))))
+    (org-roam-graph--build graph #'org-roam-graph--open)))
+
+;;; Generation and Build process
+(defun org-roam-graph--build (graph &optional callback)
+  "Generate the GRAPH, and execute CALLBACK when process exits successfully.
+CALLBACK is passed the graph file as its sole argument."
+  (unless (stringp org-roam-graph-executable)
+    (user-error "`org-roam-graph-executable' is not a string"))
+  (unless (executable-find org-roam-graph-executable)
+    (user-error (concat "Cannot find executable \"%s\" to generate the graph.  "
+                        "Please adjust `org-roam-graph-executable'")
+                org-roam-graph-executable))
+  (let* ((temp-dot   (make-temp-file "graph." nil ".dot" graph))
+         (temp-graph (make-temp-file "graph." nil (concat "." org-roam-graph-filetype))))
+    (org-roam-message "building graph")
+    (make-process
+     :name "*org-roam-graph*"
+     :buffer " *org-roam-graph*"
+     :command `(,org-roam-graph-executable ,temp-dot "-T" ,org-roam-graph-filetype "-o" ,temp-graph)
+     :sentinel (when callback
+                 (lambda (process _event)
+                   (when (= 0 (process-exit-status process))
+                     (progn (funcall callback temp-graph)
+                            (run-hook-with-args 'org-roam-graph-generation-hook temp-dot temp-graph))))))))
+
+(defun org-roam-graph--dot (&optional edges all-nodes)
+  "Build the graphviz given the EDGES of the graph.
+If ALL-NODES, include also nodes without edges."
+  (let ((org-roam-directory-temp org-roam-directory)
+        (nodes-table (make-hash-table :test #'equal))
+        (seen-nodes (list))
+        (edges (or edges (org-roam-db-query [:select :distinct [source dest type] :from links]))))
+    (pcase-dolist (`(,id ,file ,title)
+                   (org-roam-db-query [:select [id file title] :from nodes]))
+      (puthash id (org-roam-node-create :file file :id id :title title) nodes-table))
+    (with-temp-buffer
+      (setq-local org-roam-directory org-roam-directory-temp)
+      (insert "digraph \"org-roam\" {\n")
+      (dolist (option org-roam-graph-extra-config)
+        (insert (org-roam-graph--dot-option option) ";\n"))
+      (insert (format " edge [%s];\n"
+                      (mapconcat (lambda (var)
+                                   (org-roam-graph--dot-option var nil "\""))
+                                 org-roam-graph-edge-extra-config
+                                 ",")))
+      (pcase-dolist (`(,source ,dest ,type) edges)
+        (unless (member type org-roam-graph-link-hidden-types)
+          (pcase-dolist (`(,node ,node-type) `((,source "id")
+                                               (,dest ,type)))
+            (unless (member node seen-nodes)
+              (insert (org-roam-graph--format-node
+                       (or (gethash node nodes-table) node) node-type))
+              (push node seen-nodes)))
+          (insert (format "  \"%s\" -> \"%s\";\n"
+                          (xml-escape-string source)
+                          (xml-escape-string dest)))))
+      (when all-nodes
+        (maphash (lambda (id node)
+                   (unless (member id seen-nodes)
+                     (insert (org-roam-graph--format-node node "id"))))
+                 nodes-table))
+      (insert "}")
+      (buffer-string))))
+
+(defun org-roam-graph--connected-component (id distance)
+  "Return the edges for all nodes reachable from/connected to ID.
+DISTANCE is the maximum distance away from the root node."
+  (let* ((query
+          (if (= distance 0)
+              "
+WITH RECURSIVE
+  links_of(source, dest) AS
+  (SELECT source, dest FROM links UNION
+   SELECT dest, source FROM links),
+   connected_component(source) AS
+  (SELECT dest FROM links_of WHERE source = $s1 UNION
+   SELECT dest FROM links_of JOIN connected_component USING(source))
+SELECT DISTINCT source, dest, type FROM links
+WHERE source IN connected_component OR dest IN connected_component;"
+            "
+WITH RECURSIVE
+  links_of(source, dest) AS
+  (SELECT source, dest FROM links UNION
+   SELECT dest, source FROM links),
+  connected_component(source, trace) AS
+  (VALUES ($s1 , json_array($s1)) UNION
+   SELECT lo.dest, json_insert(cc.trace, '$[' || json_array_length(cc.trace) || ']', lo.dest) FROM
+   connected_component AS cc JOIN links_of AS lo USING(source)
+   WHERE (
+    -- Avoid cycles by only visiting each node once.
+    (SELECT count(*) FROM json_each(cc.trace) WHERE json_each.value == lo.dest) == 0
+    -- Note: BFS is cut off early here.
+    AND json_array_length(cc.trace) < $s2)),
+  nodes(source) as (SELECT DISTINCT source
+   FROM connected_component GROUP BY source ORDER BY min(json_array_length(trace)))
+SELECT DISTINCT source, dest, type FROM links WHERE source IN nodes OR dest IN nodes;")))
+    (org-roam-db-query query id distance)))
+
+(defun org-roam-graph--dot-option (option &optional wrap-key wrap-val)
+  "Return dot string of form KEY=VAL for OPTION cons.
+If WRAP-KEY is non-nil it wraps the KEY.
+If WRAP-VAL is non-nil it wraps the VAL."
+  (concat wrap-key (car option) wrap-key
+          "="
+          wrap-val (cdr option) wrap-val))
+
+(defun org-roam-graph--format-node (node type)
+  "Return a graphviz NODE with TYPE.
+Handles both Org-roam nodes, and string nodes (e.g. urls)."
+  (let (node-id node-properties)
+    (if (org-roam-node-p node)
+        (let* ((title (org-roam-quote-string (org-roam-node-title node)))
+               (shortened-title
+                (org-roam-quote-string
+                 (pcase org-roam-graph-shorten-titles
+                   (`truncate (truncate-string-to-width title org-roam-graph-max-title-length nil nil "..."))
+                   (`wrap (org-roam-word-wrap org-roam-graph-max-title-length title))
+                   (_ title)))))
+          (setq node-id (org-roam-node-id node)
+                node-properties `(("label"   . ,shortened-title)
+                                  ("URL"     . ,(funcall org-roam-graph-link-builder node))
+                                  ("tooltip" . ,(xml-escape-string title)))))
+      (setq node-id node
+            node-properties (append `(("label" . ,(concat type ":" node)))
+                                    (when (member type (list "http" "https"))
+                                      `(("URL" . ,(xml-escape-string (concat type ":" node))))))))
+    (format "\"%s\" [%s];\n"
+            node-id
+            (mapconcat (lambda (n)
+                         (org-roam-graph--dot-option n nil "\""))
+                       (append (cdr (assoc type org-roam-graph-node-extra-config))
+                               node-properties) ","))))
+
+(defun org-roam-graph--open (file)
+  "Open FILE using `org-roam-graph-viewer' with `view-file' as a fallback."
+  (pcase org-roam-graph-viewer
+    ((pred stringp)
+     (if (executable-find org-roam-graph-viewer)
+         (condition-case err
+             (call-process org-roam-graph-viewer nil 0 nil file)
+           (error (user-error "Failed to open org-roam graph: %s" err)))
+       (user-error "Executable not found: \"%s\"" org-roam-graph-viewer)))
+    ((pred functionp) (funcall org-roam-graph-viewer file))
+    ('nil (view-file file))
+    (_ (signal 'wrong-type-argument `((functionp stringp null) ,org-roam-graph-viewer)))))
+
+
+(provide 'org-roam-graph)
+
+;;; org-roam-graph.el ends here

extensions/org-roam-overlay.el

@@ -0,0 +1,96 @@
+;;; org-roam-overlay.el --- Link overlay for [id:] links to Org-roam nodes -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (org "9.6") (org-roam "2.1"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This extension allows to render [[id:]] links that don't have an associated
+;; descriptor with an overlay that displays the node's current title.
+;;
+;;; Code:
+(require 'org-roam)
+
+(defface org-roam-overlay
+  '((((class color) (background light))
+     :background "grey90" :box (:line-width -1 :color "black"))
+    (((class color) (background dark))
+     :background "grey10" :box (:line-width -1 :color "white")))
+  "Face for the Org-roam overlay."
+  :group 'org-roam-faces)
+
+(defun org-roam-overlay--make (l r &rest props)
+  "Make an overlay from L to R with PROPS."
+  (let ((o (make-overlay l (or r l))))
+    (overlay-put o 'category 'org-roam)
+    (while props (overlay-put o (pop props) (pop props)))
+    o))
+
+(defun org-roam-overlay-make-link-overlay (link)
+  "Create overlay for LINK."
+  (save-excursion
+    (save-match-data
+      (let* ((type (org-element-property :type link))
+             (id (org-element-property :path link))
+             (pos (org-element-property :end link))
+             (desc-p (org-element-property :contents-begin link))
+             node)
+        (when (and (string-equal type "id")
+                   (setq node (org-roam-node-from-id id))
+                   (not desc-p))
+          (org-roam-overlay--make
+           pos pos
+           'after-string (format "%s "
+                                 (propertize (org-roam-node-title node)
+                                             'face 'org-roam-overlay))))))))
+
+(defun org-roam-overlay-enable ()
+  "Enable Org-roam overlays."
+  (org-roam-db-map-links
+   (list #'org-roam-overlay-make-link-overlay)))
+
+(defun org-roam-overlay-disable ()
+  "Disable Org-roam overlays."
+  (remove-overlays nil nil 'category 'org-roam))
+
+(defun org-roam-overlay-redisplay ()
+  "Redisplay Org-roam overlays."
+  (org-roam-overlay-disable)
+  (org-roam-overlay-enable))
+
+(define-minor-mode org-roam-overlay-mode
+  "Overlays for Org-roam ID links.
+Org-roam overlay mode is a minor mode.  When enabled,
+overlay displaying the node's title is displayed."
+  :lighter " org-roam-overlay"
+  (if org-roam-overlay-mode
+      (progn
+        (org-roam-overlay-enable)
+        (add-hook 'after-save-hook #'org-roam-overlay-redisplay nil t))
+    (org-roam-overlay-disable)
+    (remove-hook 'after-save-hook #'org-roam-overlay-redisplay t)))
+
+(provide 'org-roam-overlay)
+;;; org-roam-overlay.el ends here

extensions/org-roam-protocol.el

@@ -0,0 +1,174 @@
+;;; org-roam-protocol.el --- Protocol handler for roam:// links  -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (org "9.6") (org-roam "2.1"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This extension extends `org-protocol', adding custom Org-roam handlers to it
+;; to provide the next new protocols:
+;;
+;; 1. "roam-node": This protocol simply opens the node given by the node ID
+;; 2. "roam-ref": This protocol creates or opens the node with the given REF
+;;
+;; You can find detailed instructions on how to setup the protocol in the
+;; documentation for Org-roam.
+;;
+;;; Code:
+(require 'org-protocol)
+(require 'ol) ;; for org-link-decode
+(require 'org-roam)
+
+;;; Options
+(defcustom org-roam-protocol-store-links nil
+  "Whether to store links when capturing websites with `org-roam-protocol'."
+  :type 'boolean
+  :group 'org-roam)
+
+(defcustom org-roam-capture-ref-templates
+  '(("r" "ref" plain "%?"
+     :target (file+head "${slug}.org"
+                        "#+title: ${title}")
+     :unnarrowed t))
+  "The Org-roam templates used during a capture from the roam-ref protocol.
+See `org-roam-capture-templates' for the template documentation."
+  :group 'org-roam
+  :type '(repeat
+          (choice (list :tag "Multikey description"
+                        (string :tag "Keys       ")
+                        (string :tag "Description"))
+                  (list :tag "Template entry"
+                        (string :tag "Keys           ")
+                        (string :tag "Description    ")
+                        (choice :tag "Capture Type   " :value entry
+                                (const :tag "Org entry" entry)
+                                (const :tag "Plain list item" item)
+                                (const :tag "Checkbox item" checkitem)
+                                (const :tag "Plain text" plain)
+                                (const :tag "Table line" table-line))
+                        (choice :tag "Template       "
+                                (string)
+                                (list :tag "File"
+                                      (const :format "" file)
+                                      (file :tag "Template file"))
+                                (list :tag "Function"
+                                      (const :format "" function)
+                                      (function :tag "Template function")))
+                        (plist :inline t
+                               ;; Give the most common options as checkboxes
+                               :options (((const :format "%v " :target)
+                                          (choice :tag "Node location"
+                                                  (list :tag "File"
+                                                        (const :format "" file)
+                                                        (string :tag "  File"))
+                                                  (list :tag "File & Head Content"
+                                                        (const :format "" file+head)
+                                                        (string :tag "  File")
+                                                        (string :tag "  Head Content"))
+                                                  (list :tag "File & Outline path"
+                                                        (const :format "" file+olp)
+                                                        (string :tag "  File")
+                                                        (list :tag "Outline path"
+                                                              (repeat (string :tag "Headline"))))
+                                                  (list :tag "File & Head Content & Outline path"
+                                                        (const :format "" file+head+olp)
+                                                        (string :tag "  File")
+                                                        (string :tag "  Head Content")
+                                                        (list :tag "Outline path"
+                                                              (repeat (string :tag "Headline"))))))
+                                         ((const :format "%v " :prepend) (const t))
+                                         ((const :format "%v " :immediate-finish) (const t))
+                                         ((const :format "%v " :jump-to-captured) (const t))
+                                         ((const :format "%v " :empty-lines) (const 1))
+                                         ((const :format "%v " :empty-lines-before) (const 1))
+                                         ((const :format "%v " :empty-lines-after) (const 1))
+                                         ((const :format "%v " :clock-in) (const t))
+                                         ((const :format "%v " :clock-keep) (const t))
+                                         ((const :format "%v " :clock-resume) (const t))
+                                         ((const :format "%v " :time-prompt) (const t))
+                                         ((const :format "%v " :tree-type) (const week))
+                                         ((const :format "%v " :unnarrowed) (const t))
+                                         ((const :format "%v " :table-line-pos) (string))
+                                         ((const :format "%v " :kill-buffer) (const t))))))))
+
+;;; Handlers
+(defun org-roam-protocol-open-ref (info)
+  "Process an org-protocol://roam-ref?ref= style url with INFO.
+
+It opens or creates a note with the given ref.
+
+  javascript:location.href = \\='org-protocol://roam-ref?template=r&ref=\\='+ \\
+        encodeURIComponent(location.href) + \\='&title=\\=' + \\
+        encodeURIComponent(document.title) + \\='&body=\\=' + \\
+        encodeURIComponent(window.getSelection())"
+  (unless (plist-get info :ref)
+    (user-error "No ref key provided"))
+  (org-roam-plist-map! (lambda (k v)
+                         (org-link-decode
+                          (if (equal k :ref)
+                              (org-protocol-sanitize-uri v)
+                            v))) info)
+  (when org-roam-protocol-store-links
+    (push (list (plist-get info :ref)
+                (plist-get info :title)) org-stored-links))
+  (org-link-store-props :type (and (string-match org-link-plain-re
+                                                 (plist-get info :ref))
+                                   (match-string 1 (plist-get info :ref)))
+                        :link (plist-get info :ref)
+                        :annotation (org-link-make-string (plist-get info :ref)
+                                                          (or (plist-get info :title)
+                                                              (plist-get info :ref)))
+                        :initial (or (plist-get info :body) ""))
+  (raise-frame)
+  (let ((org-capture-link-is-already-stored t))
+    (org-roam-capture-
+     :keys (plist-get info :template)
+     :node (org-roam-node-create :title (plist-get info :title))
+     :info (list :ref (plist-get info :ref)
+                 :body (plist-get info :body))
+     :templates org-roam-capture-ref-templates))
+  nil)
+
+(defun org-roam-protocol-open-node (info)
+  "This handler simply opens the file with emacsclient.
+
+INFO is a plist containing additional information passed by the protocol URL.
+It should contain the FILE key, pointing to the path of the file to open.
+
+  Example protocol string:
+
+org-protocol://roam-node?node=uuid"
+  (when-let ((node (plist-get info :node)))
+    (raise-frame)
+    (org-roam-node-visit (org-roam-populate (org-roam-node-create :id node)) nil 'force))
+  nil)
+
+(push '("org-roam-ref"  :protocol "roam-ref"   :function org-roam-protocol-open-ref)
+      org-protocol-protocol-alist)
+(push '("org-roam-node"  :protocol "roam-node"   :function org-roam-protocol-open-node)
+      org-protocol-protocol-alist)
+
+(provide 'org-roam-protocol)
+
+;;; org-roam-protocol.el ends here

github-eldev

@@ -0,0 +1,11 @@
+#! /bin/sh
+set -e
+
+ELDEV_BIN_DIR=~/.local/bin
+
+# `$GITHUB_PATH' is a magic file which contents is translated to environment variable `$PATH'.
+echo "$ELDEV_BIN_DIR" >> $GITHUB_PATH
+
+mkdir -p $ELDEV_BIN_DIR
+curl -fsSL https://raw.githubusercontent.com/doublep/eldev/f111d19cda305e5e8fcb70a5675b87173041cb68/bin/eldev > $ELDEV_BIN_DIR/eldev
+chmod a+x $ELDEV_BIN_DIR/eldev

mkdocs.yml

@@ -1,30 +0,0 @@
-site_name: "Org-Roam: Roam + Org-Mode = ♥"
-repo_url: https://github.com/jethrokuan/org-roam/
-edit_uri: edit/master/doc/
-copyright: "Copyright (C) 2020 Jethro Kuan and contributors"
-docs_dir: doc
-nav:
-- Home: index.md
-- A Tour of Org-Roam: tour.md
-- Installation: installation.md
-- Ecosystem: ecosystem.md
-- Similar Packages: comparison.md
-markdown_extensions:
-  - admonition
-  - pymdownx.betterem:
-      smart_enable: all
-  - pymdownx.caret
-  - pymdownx.critic
-  - pymdownx.details
-  - pymdownx.mark
-  - pymdownx.smartsymbols
-  - pymdownx.superfences
-  - pymdownx.tasklist:
-      custom_checkbox: true
-  - pymdownx.tilde
-
-theme:
-  name: 'material'
-  palette:
-    primary: 'deep purple'
-    accent: 'deep purple'

org-roam-capture.el

@@ -0,0 +1,826 @@
+;;; org-roam-capture.el --- Capture functionality -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.6") (emacsql "4.1.0") (magit-section "3.0.0"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This module provides `org-capture' functionality for Org-roam. With this
+;; module the user can capture new nodes or capture new content to existing
+;; nodes.
+;;
+;;; Code:
+(require 'org-roam)
+
+;;;; Declarations
+(defvar org-end-time-was-given)
+
+;;; Options
+(defcustom org-roam-capture-templates
+  '(("d" "default" plain "%?"
+     :target (file+head "%<%Y%m%d%H%M%S>-${slug}.org"
+                        "#+title: ${title}\n")
+     :unnarrowed t))
+  "Templates for the creation of new entries within Org-roam.
+
+Each entry is a list with the following items:
+
+keys   The keys that will select the template, as a string, characters only, for
+       example \"a\" for a template to be selected with a single key, or
+       \"bt\" for selection with two keys. When using several keys, keys
+       using the same prefix must be together in the list and preceded by a
+       2-element entry explaining the prefix key, for example:
+
+                   (\"b\" \"Templates for marking stuff to buy\")
+
+       The \"C\" key is used by default for quick access to the customization of
+       the template variable. But if you want to use that key for a template,
+       you can.
+
+description   A short string describing the template, which will be shown
+              during selection.
+
+type       The type of entry. Valid types are:
+               entry       an Org node, with a headline.  Will be filed
+                           as the child of the target entry or as a
+                           top level entry.  Its default template is:
+                             \"* %?\n %a\"
+               item        a plain list item, will be placed in the
+                           first plain list at the target location.
+                           Its default template is:
+                             \"- %?\"
+               checkitem   a checkbox item.  This differs from the
+                           plain list item only in so far as it uses a
+                           different default template.  Its default
+                           template is:
+                             \"- [ ] %?\"
+               table-line  a new line in the first table at target location.
+                           Its default template is:
+                             \"| %? |\"
+               plain       text to be inserted as it is.
+
+template     The template for creating the capture item.
+             If it is an empty string or nil, a default template based on
+             the entry type will be used (see the \"type\" section above).
+             Instead of a string, this may also be one of:
+
+                 (file \"/path/to/template-file\")
+                 (function function-returning-the-template)
+
+             in order to get a template from a file, or dynamically
+             from a function.
+
+The template contains a compulsory :target property. The :target property
+contains a list, where:
+  - The first element indicates the type of the target.
+  - The second element indicates the location of the captured node.
+  - And the rest of the list indicate the prefilled template, that will be
+    inserted and the position of the point will be adjusted for.
+    This behavior varies from type to type.
+
+The following options are supported for the :target property:
+
+   (file \"path/to/file\")
+       The file will be created, and prescribed an ID.
+
+   (file+head \"path/to/file\" \"head content\")
+       The file will be created, prescribed an ID, and head content will be
+       inserted if the node is a newly captured one.
+
+   (file+olp \"path/to/file\" (\"h1\" \"h2\"))
+       The file will be created, prescribed an ID. If the file doesn't contain
+       the outline path (h1, h2), it will be automatically created. The point
+       will be adjusted to the last element in the OLP.
+
+   (file+head+olp \"path/to/file\" \"head content\" (\"h1\" \"h2\"))
+       The file will be created, prescribed an ID. Head content will be
+       inserted at the start of the file if the node is a newly captured one.
+       If the file doesn't contain the outline path (h1, h2), it will be
+       automatically created. The point will be adjusted to the last element in
+       the OLP.
+
+   (file+datetree \"path/to/file\" tree-type)
+       The file will be created, prescribed an ID. A date based outline path
+       will be created for today's date. The tree-type can be one of the
+       following symbols: day, week or month. The point will adjusted to the
+       last element in the tree. To prompt for date instead of using today's,
+       use the :time-prompt property.
+
+   (node \"title or alias or ID of an existing node\")
+       The point will be placed for an existing node, based on either, its
+       title, alias or ID.
+
+The rest of the entry is a property list of additional options.  Recognized
+properties are:
+
+ :prepend            Normally newly captured information will be appended at
+                     the target location (last child, last table line,
+                     last list item...).  Setting this property will
+                     change that.
+
+ :immediate-finish   When set, do not offer to edit the information, just
+                     file it away immediately.  This makes sense if the
+                     template only needs information that can be added
+                     automatically.
+
+ :jump-to-captured   When set, jump to the captured entry when finished.
+
+ :empty-lines        Set this to the number of lines that should be inserted
+                     before and after the new item.  Default 0, only common
+                     other value is 1.
+
+ :empty-lines-before Set this to the number of lines that should be inserted
+                     before the new item.  Overrides :empty-lines for the
+                     number lines inserted before.
+
+ :empty-lines-after  Set this to the number of lines that should be inserted
+                     after the new item.  Overrides :empty-lines for the
+                     number of lines inserted after.
+
+ :clock-in           Start the clock in this item.
+
+ :clock-keep         Keep the clock running when filing the captured entry.
+
+ :clock-resume       Start the interrupted clock when finishing the capture.
+                     Note that :clock-keep has precedence over :clock-resume.
+                     When setting both to t, the current clock will run and
+                     the previous one will not be resumed.
+
+ :time-prompt        Prompt for a date/time to be used for date/week trees
+                     and when filling the template.
+
+ :tree-type          When `week', make a week tree instead of the month-day
+                     tree.  When `month', make a month tree instead of the
+                     month-day tree.
+
+ :unnarrowed         Do not narrow the target buffer, simply show the
+                     full buffer.  Default is to narrow it so that you
+                     only see the new stuff.
+
+ :table-line-pos     Specification of the location in the table where the
+                     new line should be inserted.  It should be a string like
+                     \"II-3\", meaning that the new line should become the
+                     third line before the second horizontal separator line.
+
+ :kill-buffer        If the target file was not yet visited by a buffer when
+                     capture was invoked, kill the buffer again after capture
+                     is finalized.
+
+ :no-save            Do not save the target file after finishing the capture.
+
+The template defines the text to be inserted.  Often this is an
+Org mode entry (so the first line should start with a star) that
+will be filed as a child of the target headline.  It can also be
+freely formatted text.  Furthermore, the following %-escapes will
+be replaced with content and expanded:
+
+  %[pathname] Insert the contents of the file given by
+              `pathname'.  These placeholders are expanded at the very
+              beginning of the process so they can be used to extend the
+              current template.
+  %(sexp)     Evaluate elisp `(sexp)' and replace it with the results.
+              Only placeholders pre-existing within the template, or
+              introduced with %[pathname] are expanded this way.  Since this
+              happens after expanding non-interactive %-escapes, those can
+              be used to fill the expression.
+  %<...>      The result of `format-time-string' on the ... format
+              specification.
+  %t          Time stamp, date only.  The time stamp is the current time,
+              except when called from agendas with `\\[org-agenda-capture]' or
+              with `org-capture-use-agenda-date' set.
+  %T          Time stamp as above, with date and time.
+  %u, %U      Like the above, but inactive time stamps.
+  %i          Initial content, copied from the active region.  If
+              there is text before %i on the same line, such as
+              indentation, and %i is not inside a %(sexp), that prefix
+              will be added before every line in the inserted text.
+  %a          Annotation, normally the link created with `org-store-link'.
+  %A          Like %a, but prompt for the description part.
+  %l          Like %a, but only insert the literal link.
+  %L          Like %l, but without brackets (the link content itself).
+  %c          Current kill ring head.
+  %x          Content of the X clipboard.
+  %k          Title of currently clocked task.
+  %K          Link to currently clocked task.
+  %n          User name (taken from the variable `user-full-name').
+  %f          File visited by current buffer when `org-capture' was called.
+  %F          Full path of the file or directory visited by current buffer.
+  %:keyword   Specific information for certain link types, see below.
+  %^g         Prompt for tags, with completion on tags in target file.
+  %^G         Prompt for tags, with completion on all tags in all agenda files.
+  %^t         Like %t, but prompt for date.  Similarly %^T, %^u, %^U.
+              You may define a prompt like: %^{Please specify birthday}t.
+              The default date is that of %t, see above.
+  %^C         Interactive selection of which kill or clip to use.
+  %^L         Like %^C, but insert as link.
+  %^{prop}p   Prompt the user for a value for property `prop'.
+              A default value can be specified like this:
+              %^{prop|default}p.
+  %^{prompt}  Prompt the user for a string and replace this sequence with it.
+              A default value and a completion table can be specified like this:
+              %^{prompt|default|completion2|completion3|...}.
+  %?          After completing the template, position cursor here.
+  %\\1 ... %\\N Insert the text entered at the nth %^{prompt}, where N
+              is a number, starting from 1.
+
+Apart from these general escapes, you can access information specific to
+the link type that is created.  For example, calling `org-capture' in emails
+or in Gnus will record the author and the subject of the message, which you
+can access with \"%:from\" and \"%:subject\", respectively.  Here is a
+complete list of what is recorded for each link type.
+
+Link type               |  Available information
+------------------------+------------------------------------------------------
+bbdb                    |  %:type %:name %:company
+vm, wl, mh, mew, rmail, |  %:type %:subject %:message-id
+gnus                    |  %:from %:fromname %:fromaddress
+                        |  %:to   %:toname   %:toaddress
+                        |  %:fromto (either \"to NAME\" or \"from NAME\")
+                        |  %:date %:date-timestamp (as active timestamp)
+                        |  %:date-timestamp-inactive (as inactive timestamp)
+gnus                    |  %:group, for messages also all email fields
+eww, w3, w3m            |  %:type %:url
+info                    |  %:type %:file %:node
+calendar                |  %:type %:date
+
+When you need to insert a literal percent sign in the template,
+you can escape ambiguous cases with a backward slash, e.g., \\%i.
+
+In addition to all of the above, Org-roam supports additional
+substitutions within its templates. \"${foo}\" will look for the
+foo property in the Org-roam node (see the `org-roam-node'). If
+the property does not exist, the user will be prompted to fill in
+the string value.
+
+Org-roam templates are NOT compatible with regular Org capture:
+they rely on additional hacks and hooks to achieve the
+streamlined user experience in Org-roam."
+  :group 'org-roam
+  :type '(repeat
+          (choice (list :tag "Multikey description"
+                        (string :tag "Keys       ")
+                        (string :tag "Description"))
+                  (list :tag "Template entry"
+                        (string :tag "Keys           ")
+                        (string :tag "Description    ")
+                        (choice :tag "Capture Type   " :value entry
+                                (const :tag "Org entry" entry)
+                                (const :tag "Plain list item" item)
+                                (const :tag "Checkbox item" checkitem)
+                                (const :tag "Plain text" plain)
+                                (const :tag "Table line" table-line))
+                        (choice :tag "Template       "
+                                (string)
+                                (list :tag "File"
+                                      (const :format "" file)
+                                      (file :tag "Template file"))
+                                (list :tag "Function"
+                                      (const :format "" function)
+                                      (function :tag "Template function")))
+                        (plist :inline t
+                               ;; Give the most common options as checkboxes
+                               :options (((const :format "%v " :target)
+                                          (choice :tag "Node location"
+                                                  (list :tag "File"
+                                                        (const :format "" file)
+                                                        (string :tag "  File"))
+                                                  (list :tag "File & Head Content"
+                                                        (const :format "" file+head)
+                                                        (string :tag "  File")
+                                                        (string :tag "  Head Content"))
+                                                  (list :tag "File & Outline path"
+                                                        (const :format "" file+olp)
+                                                        (string :tag "  File")
+                                                        (list :tag "Outline path"
+                                                              (repeat (string :tag "Headline"))))
+                                                  (list :tag "File & Head Content & Outline path"
+                                                        (const :format "" file+head+olp)
+                                                        (string :tag "  File")
+                                                        (string :tag "  Head Content")
+                                                        (list :tag "Outline path"
+                                                              (repeat (string :tag "Headline"))))))
+                                         ((const :format "%v " :prepend) (const t))
+                                         ((const :format "%v " :immediate-finish) (const t))
+                                         ((const :format "%v " :jump-to-captured) (const t))
+                                         ((const :format "%v " :empty-lines) (const 1))
+                                         ((const :format "%v " :empty-lines-before) (const 1))
+                                         ((const :format "%v " :empty-lines-after) (const 1))
+                                         ((const :format "%v " :clock-in) (const t))
+                                         ((const :format "%v " :clock-keep) (const t))
+                                         ((const :format "%v " :clock-resume) (const t))
+                                         ((const :format "%v " :time-prompt) (const t))
+                                         ((const :format "%v " :tree-type) (const week))
+                                         ((const :format "%v " :unnarrowed) (const t))
+                                         ((const :format "%v " :table-line-pos) (string))
+                                         ((const :format "%v " :kill-buffer) (const t))))))))
+
+(defcustom org-roam-capture-new-node-hook nil
+  "Normal-mode hooks run when a new Org-roam node is created.
+The current point is the point of the new node.
+The hooks must not move the point."
+  :group 'org-roam
+  :type 'hook)
+
+(defvar org-roam-capture-preface-hook nil
+  "Hook run when Org-roam tries to determine capture location of the node.
+If any hook returns a value (which should be an ID), all hooks
+after it are ignored.
+
+With this hook you can hijack controls over the location of the
+node for which the capture process is currently running for, or
+use to just perform an arbitrary side effect, e.g. modify the
+state related to the capture process. See `org-roam-protocol' and
+`org-roam-dailies' as examples for what and how this hook is used
+for.
+
+If you're trying to perform the hijack, it's mandatory for you to:
+  1. Set the currently active buffer for editing operations using
+     `org-capture-target-buffer'.
+  2. Place the point in this buffer from where the location starts
+     from (e.g. if it's a file based node it should be the BOB,
+     otherwise it should be the position from where the heading
+     based node starts from).
+  3. Return the ID (as a string) of the capturing node.
+
+If you use this hook for any other purpose, but not the hijack,
+it's mandatory that you should return nil as the return value; so
+the capture process would be able to setup the capture buffer.
+
+If you need to do something when you capture new nodes, use
+`org-roam-capture-new-node-hook' instead of this hook.
+
+WARNING: This hook is primarily designed for the usage by the
+extensions and packages, and requires understanding of the
+internal capture process. If you don't understand it, you should
+learn these internals before using this or use it at your own
+risk breaking things.")
+
+;;; Variables
+
+(defvar org-roam-capture--node nil
+  "The node passed during an Org-roam capture.
+This variable is populated dynamically, and is only non-nil
+during the Org-roam capture process.")
+
+(defvar org-roam-capture--info nil
+  "A property-list of additional information passed to the Org-roam template.
+This variable is populated dynamically, and is only non-nil
+during the Org-roam capture process.")
+
+(defconst org-roam-capture--template-keywords (list :target :id :link-description :call-location
+                                                    :region)
+  "Keywords used in `org-roam-capture-templates' specific to Org-roam.")
+
+;;; Main entry point
+;;;###autoload
+(cl-defun org-roam-capture- (&key goto keys node info props templates)
+  "Main entry point of `org-roam-capture' module.
+GOTO and KEYS correspond to `org-capture' arguments.
+INFO is a plist for filling up Org-roam's capture templates.
+NODE is an `org-roam-node' construct containing information about the node.
+PROPS is a plist containing additional Org-roam properties for each template.
+TEMPLATES is a list of org-roam templates."
+  (let* ((props (plist-put props :call-location (point-marker)))
+         (org-capture-templates
+          (mapcar (lambda (template)
+                    (org-roam-capture--convert-template template props))
+                  (or templates org-roam-capture-templates)))
+         (_ (setf (org-roam-node-id node) (or (org-roam-node-id node)
+                                              (org-id-new))))
+         (org-roam-capture--node node)
+         (org-roam-capture--info info))
+    (when (and (not keys)
+               (= (length org-capture-templates) 1))
+      (setq keys (caar org-capture-templates)))
+    (org-capture goto keys)))
+
+;;;###autoload
+(cl-defun org-roam-capture (&optional goto keys &key filter-fn templates info)
+  "Launches an `org-capture' process for a new or existing node.
+This uses the templates defined at `org-roam-capture-templates'.
+Arguments GOTO and KEYS see `org-capture'.
+FILTER-FN is a function to filter out nodes: it takes an `org-roam-node',
+and when nil is returned the node will be filtered out.
+The TEMPLATES, if provided, override the list of capture templates (see
+`org-roam-capture-'.)
+The INFO, if provided, is passed along to the underlying `org-roam-capture-'."
+  (interactive "P")
+  (let ((node (org-roam-node-read nil filter-fn)))
+    (org-roam-capture- :goto goto
+                       :info info
+                       :keys keys
+                       :templates templates
+                       :node node
+                       :props '(:immediate-finish nil))))
+
+;;; Capture process
+(defun org-roam-capture-p ()
+  "Return t if the current capture process is an Org-roam capture.
+This function is to only be called when `org-capture-plist' is
+valid for the capture (i.e. initialization, and finalization of
+the capture)."
+  (plist-get org-capture-plist :org-roam))
+
+(defun org-roam-capture--get (keyword)
+  "Get the value for KEYWORD from the `org-roam-capture-template'."
+  (plist-get (plist-get org-capture-plist :org-roam) keyword))
+
+(defun org-roam-capture--put (prop value)
+  "Set property PROP to VALUE in the `org-roam-capture-template'."
+  (let ((p (plist-get org-capture-plist :org-roam)))
+    (setq org-capture-plist
+          (plist-put org-capture-plist
+                     :org-roam
+                     (plist-put p prop value)))))
+
+;;;; Capture target
+(defun org-roam-capture--prepare-buffer ()
+  "Prepare the capture buffer for the current Org-roam based capture template.
+This function will initialize and setup the capture buffer,
+position the point to the current :target (and if necessary,
+create it if it doesn't exist), and place the point for further
+processing by `org-capture'.
+
+Note: During the capture process this function is run by
+`org-capture-set-target-location', as a (function ...) based
+capture target."
+  (let ((id (cond ((run-hook-with-args-until-success 'org-roam-capture-preface-hook))
+                  (t (org-roam-capture--setup-target-location)))))
+    (org-roam-capture--adjust-point-for-capture-type)
+    (let ((template (org-capture-get :template)))
+      (when (stringp template)
+        (org-capture-put
+         :template
+         (org-roam-capture--fill-template template))))
+    (org-roam-capture--put :id id)
+    (org-roam-capture--put :finalize (or (org-capture-get :finalize)
+                                         (org-roam-capture--get :finalize)))))
+
+(defun org-roam-capture--setup-target-location ()
+  "Initialize the buffer, and goto the location of the new capture.
+Return the ID of the location."
+  (let (p new-file-p)
+    (pcase (org-roam-capture--get-target)
+      (`(file ,path)
+       (setq path (org-roam-capture--target-truepath path)
+             new-file-p (org-roam-capture--new-file-p path))
+       (when new-file-p (org-roam-capture--put :new-file path))
+       (set-buffer (org-capture-target-buffer path))
+       (widen)
+       (setq p (goto-char (point-min))))
+      (`(file+olp ,path ,olp)
+       (setq path (org-roam-capture--target-truepath path)
+             new-file-p (org-roam-capture--new-file-p path))
+       (when new-file-p (org-roam-capture--put :new-file path))
+       (set-buffer (org-capture-target-buffer path))
+       (setq p (point-min))
+       (let ((m (org-roam-capture-find-or-create-olp olp)))
+         (goto-char m))
+       (widen))
+      (`(file+head ,path ,head)
+       (setq path (org-roam-capture--target-truepath path)
+             new-file-p (org-roam-capture--new-file-p path))
+       (set-buffer (org-capture-target-buffer path))
+       (when new-file-p
+         (org-roam-capture--put :new-file path)
+         (insert (org-roam-capture--fill-template head 'ensure-newline)))
+       (widen)
+       (setq p (goto-char (point-min))))
+      (`(file+head+olp ,path ,head ,olp)
+       (setq path (org-roam-capture--target-truepath path)
+             new-file-p (org-roam-capture--new-file-p path))
+       (set-buffer (org-capture-target-buffer path))
+       (widen)
+       (when new-file-p
+         (org-roam-capture--put :new-file path)
+         (insert (org-roam-capture--fill-template head 'ensure-newline)))
+       (setq p (point-min))
+       (let ((m (org-roam-capture-find-or-create-olp olp)))
+         (goto-char m)))
+      (`(file+datetree ,path ,tree-type)
+       (setq path (org-roam-capture--target-truepath path))
+       (require 'org-datetree)
+       (widen)
+       (set-buffer (org-capture-target-buffer path))
+       (unless (file-exists-p path)
+         (org-roam-capture--put :new-file path))
+       (funcall
+        (pcase tree-type
+          (`week #'org-datetree-find-iso-week-create)
+          (`month #'org-datetree-find-month-create)
+          (_ #'org-datetree-find-date-create))
+        (calendar-gregorian-from-absolute
+         (cond
+          (org-overriding-default-time
+           ;; Use the overriding default time.
+           (time-to-days org-overriding-default-time))
+          ((org-capture-get :default-time)
+           (time-to-days (org-capture-get :default-time)))
+          ((org-capture-get :time-prompt)
+           ;; Prompt for date.  Bind `org-end-time-was-given' so
+           ;; that `org-read-date-analyze' handles the time range
+           ;; case and returns `prompt-time' with the start value.
+           (let* ((org-time-was-given nil)
+                  (org-end-time-was-given nil)
+                  (prompt-time (org-read-date
+                                nil t nil "Date for tree entry:")))
+             (org-capture-put
+              :default-time
+              (if (or org-time-was-given
+                      (= (time-to-days prompt-time) (org-today)))
+                  prompt-time
+                ;; Use 00:00 when no time is given for another
+                ;; date than today?
+                (apply #'encode-time 0 0
+                       org-extend-today-until
+                       (cl-cdddr (decode-time prompt-time)))))
+             (time-to-days prompt-time)))
+          (t
+           ;; Current date, possibly corrected for late night
+           ;; workers.
+           (org-today)))))
+       (setq p (point)))
+      (`(node ,title-or-id)
+       ;; first try to get ID, then try to get title/alias
+       (let ((node (or (org-roam-node-from-id title-or-id)
+                       (org-roam-node-from-title-or-alias title-or-id)
+                       (user-error "No node with title or id \"%s\"" title-or-id))))
+         (set-buffer (org-capture-target-buffer (org-roam-node-file node)))
+         (goto-char (org-roam-node-point node))
+         (setq p (org-roam-node-point node)))))
+    ;; Setup `org-id' for the current capture target and return it back to the
+    ;; caller.
+    (save-excursion
+      (goto-char p)
+      (if-let ((id (org-entry-get p "ID")))
+          (setf (org-roam-node-id org-roam-capture--node) id)
+        (org-entry-put p "ID" (org-roam-node-id org-roam-capture--node)))
+      (prog1
+          (org-id-get)
+        (run-hooks 'org-roam-capture-new-node-hook)))))
+
+(defun org-roam-capture--get-target ()
+  "Get the current capture :target for the capture template in use."
+  (or (org-roam-capture--get :target)
+      (user-error "Template needs to specify `:target'")))
+
+(defun org-roam-capture--target-truepath (path)
+  "From PATH get the correct path to the current capture target and return it.
+PATH is a string that can optionally contain templated text in
+it."
+  (or (org-roam-node-file org-roam-capture--node)
+      (thread-first
+        path
+        (org-roam-capture--fill-template)
+        (string-trim)
+        (expand-file-name org-roam-directory))))
+
+(defun org-roam-capture--new-file-p (path)
+  "Return t if PATH is for a new file with no visiting buffer."
+  (not (or (file-exists-p path)
+           (org-find-base-buffer-visiting path))))
+
+(defun org-roam-capture-find-or-create-olp (olp)
+  "Return a marker pointing to the entry at OLP in the current buffer.
+If OLP does not exist, create it. If anything goes wrong, throw
+an error, and if you need to do something based on this error,
+you can catch it with `condition-case'."
+  (let* ((level 1)
+         (lmin 1)
+         (lmax 1)
+         (start (point-min))
+         (end (point-max))
+         found flevel)
+    (unless (derived-mode-p 'org-mode)
+      (error "Buffer %s needs to be in Org mode" (current-buffer)))
+    (org-with-wide-buffer
+     (goto-char start)
+     (dolist (heading olp)
+       (setq heading (org-roam-capture--fill-template heading))
+       (let ((re (format org-complex-heading-regexp-format
+                         (regexp-quote heading)))
+             (cnt 0))
+         (while (re-search-forward re end t)
+           (setq level (- (match-end 1) (match-beginning 1)))
+           (when (and (>= level lmin) (<= level lmax))
+             (setq found (match-beginning 0) flevel level cnt (1+ cnt))))
+         (when (> cnt 1)
+           (error "Heading not unique on level %d: %s" lmax heading))
+         (when (= cnt 0)
+           ;; Create heading if it doesn't exist
+           (goto-char end)
+           (unless (bolp) (newline))
+           (let (org-insert-heading-respect-content)
+             (org-insert-heading nil nil t))
+           (unless (= lmax 1)
+             (dotimes (_ level) (org-do-demote)))
+           (insert heading)
+           (setq end (point))
+           (goto-char start)
+           (while (re-search-forward re end t)
+             (setq level (- (match-end 1) (match-beginning 1)))
+             (when (and (>= level lmin) (<= level lmax))
+               (setq found (match-beginning 0) flevel level cnt (1+ cnt))))))
+       (goto-char found)
+       (setq lmin (1+ flevel) lmax (+ lmin (if org-odd-levels-only 1 0)))
+       (setq start found
+             end (save-excursion (org-end-of-subtree t t))))
+     (point-marker))))
+
+(defun org-roam-capture--adjust-point-for-capture-type (&optional pos)
+  "Reposition the point for template insertion dependently on the capture type.
+Return the newly adjusted position of `point'.
+
+POS is the current position of point (an integer) inside the
+currently active capture buffer, where the adjustment should
+start to begin from. If it's nil, then it will default to
+the current value of `point'."
+  (or pos (setq pos (point)))
+  (goto-char pos)
+  (let ((location-type (if (= pos 1) 'beginning-of-file 'heading-at-point)))
+    (and (eq location-type 'heading-at-point)
+         (cl-assert (org-at-heading-p)))
+    (pcase (org-capture-get :type)
+      (`plain
+       (cl-case location-type
+         (beginning-of-file
+          (if (org-capture-get :prepend)
+              (let ((el (org-element-at-point)))
+                (while (and (not (eobp))
+                            (memq (org-element-type el)
+                                  '(drawer property-drawer keyword comment comment-block horizontal-rule)))
+                  (goto-char (org-element-property :end el))
+                  (setq el (org-element-at-point))))
+            (goto-char (org-entry-end-position))))
+         (heading-at-point
+          (if (org-capture-get :prepend)
+              (org-end-of-meta-data t)
+            (goto-char (org-entry-end-position))))))))
+  (point))
+
+;;; Capture implementation
+(add-hook 'org-roam-capture-preface-hook #'org-roam-capture--try-capture-to-ref-h)
+(defun org-roam-capture--try-capture-to-ref-h ()
+  "Try to capture to an existing node that match the ref."
+  (when-let ((node (and (plist-get org-roam-capture--info :ref)
+                        (org-roam-node-from-ref
+                         (plist-get org-roam-capture--info :ref)))))
+    (set-buffer (org-capture-target-buffer (org-roam-node-file node)))
+    (goto-char (org-roam-node-point node))
+    (widen)
+    (org-roam-node-id node)))
+
+(add-hook 'org-roam-capture-new-node-hook #'org-roam-capture--insert-captured-ref-h)
+(defun org-roam-capture--insert-captured-ref-h ()
+  "Insert the ref if any."
+  (when-let ((ref (plist-get org-roam-capture--info :ref)))
+    (org-roam-ref-add ref)))
+
+;;;; Finalizers
+(add-hook 'org-capture-prepare-finalize-hook #'org-roam-capture--install-finalize-h)
+(defun org-roam-capture--install-finalize-h ()
+  "Install `org-roam-capture--finalize' if the capture is an Org-roam capture."
+  (when (org-roam-capture-p)
+    (add-hook 'org-capture-after-finalize-hook #'org-roam-capture--finalize)))
+
+(defun org-roam-capture--finalize ()
+  "Finalize the `org-roam-capture' process."
+  (if org-note-abort
+      (when-let ((new-file (org-roam-capture--get :new-file))
+                 (_ (yes-or-no-p "Delete file for aborted capture?")))
+        (when (find-buffer-visiting new-file)
+          (kill-buffer (find-buffer-visiting new-file)))
+        (delete-file new-file))
+    (when-let* ((buffer (plist-get org-capture-plist :buffer))
+                (file (buffer-file-name buffer)))
+      (org-id-add-location (org-roam-capture--get :id) file))
+    (when-let* ((finalize (org-roam-capture--get :finalize))
+                (org-roam-finalize-fn (intern (concat "org-roam-capture--finalize-"
+                                                      (symbol-name finalize)))))
+      (if (functionp org-roam-finalize-fn)
+          (funcall org-roam-finalize-fn)
+        (funcall finalize))))
+  (remove-hook 'org-capture-after-finalize-hook #'org-roam-capture--finalize))
+
+(defun org-roam-capture--finalize-find-file ()
+  "Visit the buffer after Org-capture is done.
+This function is to be called in the Org-capture finalization process.
+ID is unused."
+  (switch-to-buffer (org-capture-get :buffer)))
+
+(defun org-roam-capture--finalize-insert-link ()
+  "Insert a link to ID into the buffer where Org-capture was called.
+ID is the Org id of the newly captured content.
+This function is to be called in the Org-capture finalization process."
+  (when-let* ((mkr (org-roam-capture--get :call-location))
+              (buf (marker-buffer mkr)))
+    (with-current-buffer buf
+      (when-let ((region (org-roam-capture--get :region)))
+        (delete-region (car region) (cdr region))
+        (set-marker (car region) nil)
+        (set-marker (cdr region) nil))
+      (let* ((id (org-roam-capture--get :id))
+             (description (org-roam-capture--get :link-description))
+             (link (org-link-make-string (concat "id:" id)
+                                         description)))
+        (if (eq (point) (marker-position mkr))
+            (insert link)
+          (org-with-point-at mkr
+            (insert link)))
+        (run-hook-with-args 'org-roam-post-node-insert-hook
+                            id
+                            description)))))
+
+;;;; Processing of the capture templates
+(defun org-roam-capture--fill-template (template &optional ensure-newline)
+  "Expand TEMPLATE and return it.
+It expands ${var} occurrences in TEMPLATE, and then runs
+org-capture's template expansion.
+When ENSURE-NEWLINE, always ensure there's a newline behind."
+  (let* ((template (if (functionp template)
+                       (funcall template)
+                     template))
+         (template-whitespace-content (org-roam-whitespace-content template)))
+    (setq template
+          (org-roam-format-template
+           template
+           (lambda (key default-val)
+             (let ((fn (intern key))
+                   (node-fn (intern (concat "org-roam-node-" key)))
+                   (ksym (intern (concat ":" key))))
+               (cond
+                ((fboundp fn)
+                 (funcall fn org-roam-capture--node))
+                ((fboundp node-fn)
+                 (funcall node-fn org-roam-capture--node))
+                ((plist-get org-roam-capture--info ksym)
+                 (plist-get org-roam-capture--info ksym))
+                (t (let ((r (read-from-minibuffer (format "%s: " key) default-val)))
+                     (plist-put org-roam-capture--info ksym r)
+                     r)))))))
+    ;; WARNING:
+    ;; `org-capture-fill-template' fills the template, but post-processes whitespace such that the resultant
+    ;; template does not start with any whitespace, and only ends with a single newline
+    ;;
+    ;; Instead, we restore the whitespace in the original template.
+    (setq template (replace-regexp-in-string "[\n]*\\'" "" (org-capture-fill-template template)))
+    (when (and ensure-newline
+               (string-equal template-whitespace-content ""))
+      (setq template-whitespace-content "\n"))
+    (setq template (concat template template-whitespace-content))
+    template))
+
+(defun org-roam-capture--convert-template (template &optional props)
+  "Convert TEMPLATE from Org-roam syntax to `org-capture-templates' syntax.
+PROPS is a plist containing additional Org-roam specific
+properties to be added to the template."
+  (pcase template
+    (`(,_key ,_desc)
+     template)
+    ((or `(,key ,desc ,type ignore ,body . ,rest)
+         `(,key ,desc ,type (function ignore) ,body . ,rest)
+         `(,key ,desc ,type ,body . ,rest))
+     (setq rest (append rest props))
+     (let (org-roam-plist options)
+       (while rest
+         (let* ((key (pop rest))
+                (val (pop rest))
+                (custom (member key org-roam-capture--template-keywords)))
+           (when (and custom
+                      (not val))
+             (user-error "Invalid capture template format: %s\nkey %s cannot be nil" template key))
+           (if custom
+               (setq org-roam-plist (plist-put org-roam-plist key val))
+             (setq options (plist-put options key val)))))
+       (append `(,key ,desc ,type #'org-roam-capture--prepare-buffer ,body)
+               options
+               (list :org-roam org-roam-plist))))
+    (_
+     (signal 'invalid-template template))))
+
+
+(provide 'org-roam-capture)
+
+;;; org-roam-capture.el ends here

org-roam-compat.el

@@ -0,0 +1,241 @@
+;;; org-roam-compat.el --- Backward compatibility code -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This file is dedicated to maintain backward compatibility with older older
+;; Emacsen and Org-roam versions.
+;;
+;;; Code:
+(require 'org-roam)
+
+;;; Backports
+;; REVIEW Remove when 26.x support is dropped. This is exact the same as
+;; `directory-files-recursively' from Emacs 26, but with FOLLOW-SYMLINKS
+;; parameter from Emacs 27.
+(defun org-roam--directory-files-recursively (dir regexp
+                                                  &optional include-directories predicate
+                                                  follow-symlinks)
+  "Return list of all files under directory DIR whose names match REGEXP.
+This function works recursively.  Files are returned in \"depth
+first\" order, and files from each directory are sorted in
+alphabetical order.  Each file name appears in the returned list
+in its absolute form.
+
+By default, the returned list excludes directories, but if
+optional argument INCLUDE-DIRECTORIES is non-nil, they are
+included.
+
+PREDICATE can be either nil (which means that all subdirectories
+of DIR are descended into), t (which means that subdirectories that
+can't be read are ignored), or a function (which is called with
+the name of each subdirectory, and should return non-nil if the
+subdirectory is to be descended into).
+
+If FOLLOW-SYMLINKS is non-nil, symbolic links that point to
+directories are followed.  Note that this can lead to infinite
+recursion."
+  (let* ((result nil)
+         (files nil)
+         (dir (directory-file-name dir))
+         ;; When DIR is "/", remote file names like "/method:" could
+         ;; also be offered.  We shall suppress them.
+         (tramp-mode (and tramp-mode (file-remote-p (expand-file-name dir)))))
+    (dolist (file (sort (file-name-all-completions "" dir)
+                        'string<))
+      (unless (member file '("./" "../"))
+        (if (directory-name-p file)
+            (let* ((leaf (substring file 0 (1- (length file))))
+                   (full-file (concat dir "/" leaf)))
+              ;; Don't follow symlinks to other directories.
+              (when (and (or (not (file-symlink-p full-file))
+                             (and (file-symlink-p full-file)
+                                  follow-symlinks))
+                         ;; Allow filtering subdirectories.
+                         (or (eq predicate nil)
+                             (eq predicate t)
+                             (funcall predicate full-file)))
+                (let ((sub-files
+                       (if (eq predicate t)
+                           (condition-case nil
+                               (org-roam--directory-files-recursively
+                                full-file regexp include-directories
+                                predicate follow-symlinks)
+                             (file-error nil))
+                         (org-roam--directory-files-recursively
+                          full-file regexp include-directories
+                          predicate follow-symlinks))))
+                  (setq result (nconc result sub-files))))
+              (when (and include-directories
+                         (string-match regexp leaf))
+                (setq result (nconc result (list full-file)))))
+          (when (string-match regexp file)
+            (push (concat dir "/" file) files)))))
+    (nconc result (nreverse files))))
+
+;;; Compatibility hacks and patches
+(advice-add #'org-id-add-location :around #'org-roam--handle-absent-org-id-locations-file-a)
+(defun org-roam--handle-absent-org-id-locations-file-a (fn &rest args)
+  "Gracefully handle errors related to absence of `org-id-locations-file'.
+FN is `org-id-add-location' that comes from advice and ARGS are
+passed to it."
+  (condition-case err
+      (apply fn args)
+    ;; `org-id' makes the assumption that `org-id-locations-file' will be stored in `user-emacs-directory'
+    ;; which always exist if you have Emacs, so it uses `with-temp-file' to write to the file. However, the
+    ;; users *do* change the path to this file and `with-temp-file' unable to create the file, if the path to
+    ;; it consists of directories that don't exist. We'll have to handle this ourselves.
+    (error
+     (advice-remove 'org-id-add-location #'org-roam--handle-absent-org-id-locations-file-a)
+     (if (file-exists-p (file-truename org-id-locations-file))
+         (signal (car err) (cdr err))
+       ;; Pre-allocate the hash table to avoid weird access related errors during the regeneration.
+       (or org-id-locations (setq org-id-locations (make-hash-table :test 'equal)))
+       ;; If permissions allow that, try to create the user specified directory path to
+       ;; `org-id-locations-file' ourselves.
+       (condition-case _err
+           (progn (org-roam-message (concat "`org-id-locations-file' (%s) doesn't exist. "
+                                            "Trying to regenerate it (this may take a while)...")
+                                    org-id-locations-file)
+                  (make-directory (file-name-directory (file-truename org-id-locations-file)))
+                  (org-roam-update-org-id-locations)
+                  (apply fn args))
+         ;; In case of failure (lack of permissions), we'll patch it to at least handle the current session
+         ;; without errors.
+         (file-error (org-roam-message "Failed to regenerate `org-id-locations-file'")
+                     (lwarn 'org-roam :error "
+--------
+WARNING: `org-id-locations-file' (%s) doesn't exist!
+         Org-roam is unable to create it for you.
+--------
+
+This happens when Emacs doesn't have permissions to create the
+path to your `org-id-locations-file'. Org-roam will now fallback
+storing the file in your current `org-roam-directory', but the
+warning will keep popup with each new session.
+
+To stop this warning from popping up, set `org-id-locations-file'
+to the location you want and ensure that the path exists on your
+filesystem, then run M-x `org-roam-update-org-id-locations'.
+
+Note: While Org-roam doesn't depend on `org-id-locations-file' to
+lookup IDs for the nodes that are stored in the database, it
+still tries to keep it updated so IDs work across other files in
+Org-mode, so the IDs used in your `org-roam-directory' would be
+able to cross-reference outside of `org-roam-directory'. It also
+allows to keep linking with \"id:\" links within the current
+`org-roam-directory' to headings and files that are excluded from
+identification (e.g. with \"ROAM_EXCLUDE\" property) as Org-roam
+nodes." org-id-locations-file)
+                     (setq org-id-locations-file
+                           (expand-file-name ".orgids" (file-truename org-roam-directory)))
+                     (apply fn args)))))))
+
+;;;; Deprecated :if-new capture template keyword
+(with-eval-after-load 'org-roam-capture
+  (add-to-list 'org-roam-capture--template-keywords :if-new)
+
+  (let ((inhibit-warning-p t)) ; REVIEW Set this to nil close to next major release
+    (advice-add 'org-roam-capture--get-target :around #'org-roam-capture--get-if-new-target-a)
+    (defun org-roam-capture--get-if-new-target-a (fn &rest args)
+      "Get the current capture target using deprecated :if-new property."
+      (if-let ((target (org-roam-capture--get :if-new)))
+          (prog1 target
+            (unless inhibit-warning-p
+              (lwarn 'org-roam-capture :warning
+                     (mapconcat
+                      #'identity
+                      ["`:if-new' property is deprecated in favor of `:target'."
+                       "This warning will popup once per each session. In order to get"
+                       "rid of it, rename all the references to the `:if-new' property"
+                       "in your capture templates to `:target'."]
+                      "\n"))
+              ;; Don't irritate the user too much. Displaying the warning once per session should be enough.
+              (setq inhibit-warning-p t)))
+        (apply fn args)))))
+
+;;; Obsolete aliases (remove after next major release)
+(define-obsolete-function-alias
+  'org-roam-setup
+  'org-roam-db-autosync-enable "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-teardown
+  'org-roam-db-autosync-disable "org-roam 2.0")
+
+(define-obsolete-variable-alias
+  'org-roam-current-node
+  'org-roam-buffer-current-node "org-roam 2.0")
+(define-obsolete-variable-alias
+  'org-roam-current-directory
+  'org-roam-buffer-current-directory "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-buffer-render
+  'org-roam-buffer-render-contents "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-buffer
+  'org-roam-buffer-display-dedicated "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-visit-thing
+  'org-roam-buffer-visit-thing "org-roam 2.0")
+
+(define-obsolete-function-alias
+  'org-roam-dailies-find-today
+  'org-roam-dailies-goto-today "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-dailies-find-yesterday
+  'org-roam-dailies-goto-yesterday "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-dailies-find-tomorrow
+  'org-roam-dailies-goto-tomorrow "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-dailies-find-next-note
+  'org-roam-dailies-goto-next-note "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-dailies-find-previous-note
+  'org-roam-dailies-goto-previous-note "org-roam 2.0")
+(define-obsolete-function-alias
+  'org-roam-dailies-find-date
+  'org-roam-dailies-goto-date "org-roam 2.0")
+
+(define-obsolete-function-alias
+  'org-roam-add-property
+  'org-roam-property-add "org-roam 2.1")
+
+(define-obsolete-function-alias
+  'org-roam-remove-property
+  'org-roam-property-remove "org-roam 2.1")
+
+(define-obsolete-variable-alias
+  'org-roam-mode-section-functions
+  'org-roam-mode-sections "org-roam 2.2.0")
+
+;;; Obsolete functions
+(make-obsolete 'org-roam-get-keyword 'org-collect-keywords "org-roam 2.0")
+
+(provide 'org-roam-compat)
+
+;;; org-roam-compat.el ends here

org-roam-db.el

@@ -0,0 +1,729 @@
+;;; org-roam-db.el --- Org-roam database API -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.6") (emacsql "4.1.0") (magit-section "3.0.0"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This module provides the underlying database API to Org-roam.
+;;
+;;; Code:
+(require 'org-roam)
+(require 'url-parse)
+(require 'ol)
+(defvar org-outline-path-cache)
+
+;;; Options
+(defcustom org-roam-db-location (locate-user-emacs-file "org-roam.db")
+  "The path to file where the Org-roam database is stored.
+
+It is the user's responsibility to set this correctly, especially
+when used with multiple Org-roam instances."
+  :type 'string
+  :group 'org-roam)
+
+(defcustom org-roam-db-gc-threshold gc-cons-threshold
+  "The value to temporarily set the `gc-cons-threshold' threshold to.
+During `org-roam-db-sync', Emacs can pause multiple times to
+perform garbage collection because of the large number of
+temporary structures generated (e.g. parsed ASTs).
+
+`gc-cons-threshold' is temporarily set to
+`org-roam-db-gc-threshold' during this operation, and increasing
+`gc-cons-threshold' will help reduce the number of GC operations,
+at the cost of memory usage. Tweaking this value may lead to
+better overall performance.
+
+For example, to reduce the number of GCs to the minimum, on
+machines with large memory one may set it to
+`most-positive-fixnum'."
+  :type 'int
+  :group 'org-roam)
+
+(defcustom org-roam-db-node-include-function (lambda () t)
+  "A custom function to check if the point contains a valid node.
+This function is called each time a node (both file and headline)
+is about to be saved into the Org-roam database.
+
+If the function returns nil, Org-roam will skip the node. This
+function is useful for excluding certain nodes from the Org-roam
+database."
+  :type 'function
+  :group 'org-roam)
+
+(defcustom org-roam-db-update-on-save t
+  "If t, update the Org-roam database upon saving the file.
+Disable this if your files are large and updating the database is
+slow."
+  :type 'boolean
+  :group 'org-roam)
+
+(defcustom org-roam-db-extra-links-elements '(node-property keyword)
+  "The list of Org element types to include for parsing by Org-roam.
+
+By default, when parsing Org's AST, links within keywords and
+property drawers are not parsed as links. Sometimes however, it
+is desirable to parse and cache these links (e.g. hiding links in
+a property drawer)."
+  :package-version '(org-roam . "2.2.0")
+  :group 'org-roam
+  :type '(set
+          (const :tag "keywords" keyword)
+          (const :tag "property drawers" node-property)))
+
+(defcustom org-roam-db-extra-links-exclude-keys '((node-property . ("ROAM_REFS"))
+                                                  (keyword . ("transclude")))
+  "Keys to ignore when mapping over links.
+
+The car of the association list is the Org element type (e.g.
+keyword). The cdr is a list of case-insensitive strings to
+exclude from being treated as links.
+
+For example, we use this to prevent self-referential links in
+ROAM_REFS."
+  :package-version '(org-roam . "2.2.0")
+  :group 'org-roam
+  :type '(alist))
+
+;;; Variables
+(defconst org-roam-db-version 20)
+
+(defvar org-roam-db--connection (make-hash-table :test #'equal)
+  "Database connection to Org-roam database.")
+
+;;; Core Functions
+(defun org-roam-db--get-connection ()
+  "Return the database connection, if any."
+  (gethash (expand-file-name (file-name-as-directory org-roam-directory))
+           org-roam-db--connection))
+
+(defun org-roam-db ()
+  "Entrypoint to the Org-roam sqlite database.
+Initializes and stores the database, and the database connection.
+Performs a database upgrade when required."
+  (unless (and (org-roam-db--get-connection)
+               (emacsql-live-p (org-roam-db--get-connection)))
+    (let ((init-db (not (file-exists-p org-roam-db-location))))
+      (make-directory (file-name-directory org-roam-db-location) t)
+      (let ((conn (emacsql-sqlite-open org-roam-db-location)))
+        (puthash (expand-file-name (file-name-as-directory org-roam-directory))
+                 conn
+                 org-roam-db--connection)
+        (when init-db
+          (org-roam-db--init conn))
+        (let* ((version (caar (emacsql conn "PRAGMA user_version")))
+               (version (org-roam-db--upgrade-maybe conn version)))
+          (cond
+           ((> version org-roam-db-version)
+            (emacsql-close conn)
+            (user-error
+             "The Org-roam database was created with a newer Org-roam version.  %s"
+             "You need to update the Org-roam package"))
+           ((< version org-roam-db-version)
+            (emacsql-close conn)
+            (error "BUG: The Org-roam database scheme changed %s"
+                   "and there is no upgrade path")))))))
+  (org-roam-db--get-connection))
+
+;;; Entrypoint: (org-roam-db-query)
+(define-error 'emacsql-constraint "SQL constraint violation")
+(defun org-roam-db-query (sql &rest args)
+  "Run SQL query on Org-roam database with ARGS.
+SQL can be either the emacsql vector representation, or a string."
+  (apply #'emacsql (org-roam-db) sql args))
+
+(defun org-roam-db-query! (handler sql &rest args)
+  "Run SQL query on Org-roam database with ARGS.
+SQL can be either the emacsql vector representation, or a string.
+The query is expected to be able to fail, in this situation, run HANDLER."
+  (condition-case err
+      (org-roam-db-query sql args)
+    (emacsql-constraint
+     (funcall handler err))))
+
+;;; Schemata
+(defconst org-roam-db--table-schemata
+  '((files
+     [(file :unique :primary-key)
+      title
+      (hash :not-null)
+      (atime :not-null)
+      (mtime :not-null)])
+
+    (nodes
+     ([(id :not-null :primary-key)
+       (file :not-null)
+       (level :not-null)
+       (pos :not-null)
+       todo
+       priority
+       (scheduled text)
+       (deadline text)
+       title
+       properties
+       olp]
+      (:foreign-key [file] :references files [file] :on-delete :cascade)))
+
+    (aliases
+     ([(node-id :not-null)
+       alias]
+      (:foreign-key [node-id] :references nodes [id] :on-delete :cascade)))
+
+    (citations
+     ([(node-id :not-null)
+       (cite-key :not-null)
+       (pos :not-null)
+       properties]
+      (:foreign-key [node-id] :references nodes [id] :on-delete :cascade)))
+
+    (refs
+     ([(node-id :not-null)
+       (ref :not-null)
+       (type :not-null)]
+      (:foreign-key [node-id] :references nodes [id] :on-delete :cascade)))
+
+    (tags
+     ([(node-id :not-null)
+       tag]
+      (:foreign-key [node-id] :references nodes [id] :on-delete :cascade)))
+
+    (links
+     ([(pos :not-null)
+       (source :not-null)
+       (dest :not-null)
+       (type :not-null)
+       (properties :not-null)]
+      (:foreign-key [source] :references nodes [id] :on-delete :cascade)))))
+
+(defconst org-roam-db--table-indices
+  '((alias-node-id aliases [node-id])
+    (refs-node-id refs [node-id])
+    (tags-node-id tags [node-id])))
+
+(defun org-roam-db--init (db)
+  "Initialize database DB with the correct schema and user version."
+  (emacsql-with-transaction db
+    (pcase-dolist (`(,table ,schema) org-roam-db--table-schemata)
+      (emacsql db [:create-table $i1 $S2] table schema))
+    (pcase-dolist (`(,index-name ,table ,columns) org-roam-db--table-indices)
+      (emacsql db [:create-index $i1 :on $i2 $S3] index-name table columns))
+    (emacsql db (format "PRAGMA user_version = %s" org-roam-db-version))))
+
+(defun org-roam-db--upgrade-maybe (db version)
+  "Upgrades the database schema for DB, if VERSION is old."
+  (emacsql-with-transaction db
+    'ignore
+    (if (< version org-roam-db-version)
+        (progn
+          (org-roam-message (format "Upgrading the Org-roam database from version %d to version %d"
+                                    version org-roam-db-version))
+          (org-roam-db-sync t))))
+  version)
+
+(defun org-roam-db--close (&optional db)
+  "Closes the database connection for database DB.
+If DB is nil, closes the database connection for the database in
+the current `org-roam-directory'."
+  (unless db
+    (setq db (org-roam-db--get-connection)))
+  (when (and db (emacsql-live-p db))
+    (emacsql-close db)))
+
+(defun org-roam-db--close-all ()
+  "Closes all database connections made by Org-roam."
+  (dolist (conn (hash-table-values org-roam-db--connection))
+    (org-roam-db--close conn)))
+
+;;; Database API
+;;;; Clearing
+(defun org-roam-db-clear-all ()
+  "Clears all entries in the Org-roam cache."
+  (interactive)
+  (when (file-exists-p org-roam-db-location)
+    (dolist (table (mapcar #'car org-roam-db--table-schemata))
+      (org-roam-db-query `[:delete :from ,table]))))
+
+(defun org-roam-db-clear-file (&optional file)
+  "Remove any related links to the FILE.
+This is equivalent to removing the node from the graph.
+If FILE is nil, clear the current buffer."
+  (setq file (or file (buffer-file-name (buffer-base-buffer))))
+  (org-roam-db-query [:delete :from files
+                      :where (= file $s1)]
+                     file))
+
+;;;; Updating tables
+
+(defun org-roam-db--file-title ()
+  "In current Org buffer, get the title.
+If there is no title, return the file name relative to
+`org-roam-directory'."
+  (org-link-display-format
+   (or (string-join (cdr (assoc "TITLE" (org-collect-keywords '("title")))) " ")
+       (file-name-sans-extension (file-relative-name
+                                  (buffer-file-name (buffer-base-buffer))
+                                  org-roam-directory)))))
+
+(defun org-roam-db-insert-file (&optional hash)
+  "Update the files table for the current buffer.
+If UPDATE-P is non-nil, first remove the file in the database.
+If HASH is non-nil, use that as the file's hash without recalculating it."
+  (let* ((file (buffer-file-name))
+         (file-title (org-roam-db--file-title))
+         (attr (file-attributes file))
+         (atime (file-attribute-access-time attr))
+         (mtime (file-attribute-modification-time attr))
+         (hash (or hash (org-roam-db--file-hash file))))
+    (org-roam-db-query
+     [:insert :into files
+      :values $v1]
+     (list (vector file file-title hash atime mtime)))))
+
+(defun org-roam-db-get-scheduled-time ()
+  "Return the scheduled time at point in ISO8601 format."
+  (when-let ((time (org-get-scheduled-time (point))))
+    (format-time-string "%FT%T" time)))
+
+(defun org-roam-db-get-deadline-time ()
+  "Return the deadline time at point in ISO8601 format."
+  (when-let ((time (org-get-deadline-time (point))))
+    (format-time-string "%FT%T" time)))
+
+(defun org-roam-db-node-p ()
+  "Return t if headline at point is an Org-roam node, else return nil."
+  (and (org-id-get)
+       (not (org-entry-get (point) "ROAM_EXCLUDE"))
+       (funcall org-roam-db-node-include-function)))
+
+(defun org-roam-db-map-nodes (fns)
+  "Run FNS over all nodes in the current buffer."
+  (org-with-wide-buffer
+   (org-map-region
+    (lambda ()
+      (when (org-roam-db-node-p)
+        (dolist (fn fns)
+          (funcall fn))))
+    (point-min) (point-max))))
+
+(defun org-roam-db-map-links (fns)
+  "Run FNS over all links in the current buffer."
+  (org-with-point-at 1
+    (while (re-search-forward org-link-any-re nil :no-error)
+      ;; `re-search-forward' let the cursor one character after the link, we need to go backward one char to
+      ;; make the point be on the link.
+      (backward-char)
+      (let* ((begin (match-beginning 0))
+             (element (org-element-context))
+             (type (org-element-type element))
+             link)
+        (cond
+         ;; Links correctly recognized by Org Mode
+         ((eq type 'link)
+          (setq link element))
+         ;; Links in property drawers and lines starting with #+. Recall that, as for Org Mode v9.4.4, the
+         ;; org-element-type of links within properties drawers is "node-property" and for lines starting with
+         ;; #+ is "keyword".
+         ((and (member type org-roam-db-extra-links-elements)
+               (not (member-ignore-case (org-element-property :key element)
+                                        (cdr (assoc type org-roam-db-extra-links-exclude-keys))))
+               (setq link (save-excursion
+                            (goto-char begin)
+                            (save-match-data (org-element-link-parser)))))))
+        (when link
+          (dolist (fn fns)
+            (funcall fn link)))))))
+
+(defun org-roam-db-map-citations (info fns)
+  "Run FNS over all citations in the current buffer.
+INFO is the org-element parsed buffer."
+  (org-element-map info 'citation-reference
+    (lambda (cite)
+      (dolist (fn fns)
+        (funcall fn cite)))))
+
+(defun org-roam-db-insert-file-node ()
+  "Insert the file-level node into the Org-roam cache."
+  (org-with-point-at 1
+    (when (and (= (org-outline-level) 0)
+               (org-roam-db-node-p))
+      (when-let ((id (org-id-get)))
+        (let* ((file (buffer-file-name (buffer-base-buffer)))
+               (title (org-roam-db--file-title))
+               (pos (point))
+               (todo nil)
+               (priority nil)
+               (scheduled nil)
+               (deadline nil)
+               (level 0)
+               (tags org-file-tags)
+               (properties (org-entry-properties))
+               (olp nil))
+          (org-roam-db-query!
+           (lambda (err)
+             (lwarn 'org-roam :warning "%s for %s (%s) in %s"
+                    (error-message-string err)
+                    title id file))
+           [:insert :into nodes
+            :values $v1]
+           (vector id file level pos todo priority
+                   scheduled deadline title properties olp))
+          (when tags
+            (org-roam-db-query
+             [:insert :into tags
+              :values $v1]
+             (mapcar (lambda (tag)
+                       (vector id (substring-no-properties tag)))
+                     tags)))
+          (org-roam-db-insert-aliases)
+          (org-roam-db-insert-refs))))))
+
+(cl-defun org-roam-db-insert-node-data ()
+  "Insert node data for headline at point into the Org-roam cache."
+  (when-let ((id (org-id-get)))
+    (let* ((file (buffer-file-name (buffer-base-buffer)))
+           (heading-components (org-heading-components))
+           (pos (point))
+           (todo (nth 2 heading-components))
+           (priority (nth 3 heading-components))
+           (level (nth 1 heading-components))
+           (scheduled (org-roam-db-get-scheduled-time))
+           (deadline (org-roam-db-get-deadline-time))
+           (title (or (nth 4 heading-components)
+                      (progn (lwarn 'org-roam :warning "Node in %s:%s:%s has no title, skipping..."
+                                    file
+                                    (line-number-at-pos)
+                                    (1+ (- (point) (line-beginning-position))))
+                             (cl-return-from org-roam-db-insert-node-data))))
+           (properties (org-entry-properties))
+           (olp (org-get-outline-path nil 'use-cache))
+           (title (org-link-display-format title)))
+      (org-roam-db-query!
+       (lambda (err)
+         (lwarn 'org-roam :warning "%s for %s (%s) in %s"
+                (error-message-string err)
+                title id file))
+       [:insert :into nodes
+        :values $v1]
+       (vector id file level pos todo priority
+               scheduled deadline title properties olp)))))
+
+(defun org-roam-db-insert-aliases ()
+  "Insert aliases for node at point into Org-roam cache."
+  (when-let* ((node-id (org-id-get))
+              (aliases (org-entry-get (point) "ROAM_ALIASES"))
+              (aliases (split-string-and-unquote aliases)))
+    (org-roam-db-query [:insert :into aliases
+                        :values $v1]
+                       (mapcar (lambda (alias)
+                                 (vector node-id alias))
+                               aliases))))
+
+(defun org-roam-db-insert-tags ()
+  "Insert tags for node at point into Org-roam cache."
+  (when-let ((node-id (org-id-get))
+             (tags (org-get-tags)))
+    (org-roam-db-query [:insert :into tags
+                        :values $v1]
+                       (mapcar (lambda (tag)
+                                 (vector node-id (substring-no-properties tag))) tags))))
+
+(defun org-roam-db-insert-refs ()
+  "Insert refs for node at point into Org-roam cache."
+  (when-let* ((node-id (org-id-get))
+              (refs (org-entry-get (point) "ROAM_REFS"))
+              (refs (split-string-and-unquote refs)))
+    (let (rows)
+      (dolist (ref refs)
+        (save-match-data
+          (cond (;; @citeKey
+                 (string-prefix-p "@" ref)
+                 (push (vector node-id (substring ref 1) "cite") rows))
+                (;; [cite:@citeKey]
+                 (string-prefix-p "[cite:" ref)
+                 (condition-case nil
+                     (let ((cite-obj (org-cite-parse-objects ref)))
+                       (org-element-map cite-obj 'citation-reference
+                         (lambda (cite)
+                           (let ((key (org-element-property :key cite)))
+                             (push (vector node-id key "cite") rows)))))
+                   (error
+                    (lwarn '(org-roam) :warning
+                           "%s:%s\tInvalid cite %s, skipping..." (buffer-file-name) (point) ref))))
+                (;; https://google.com, cite:citeKey
+                 ;; Note: we use string-match here because it matches any link: e.g. [[cite:abc][abc]]
+                 ;; But this form of matching is loose, and can accept invalid links e.g. [[cite:abc]
+                 (string-match org-link-any-re (org-link-encode ref '(#x20)))
+                 (setq ref (org-link-encode ref '(#x20)))
+                 (let ((ref-url (url-generic-parse-url (or (match-string 2 ref) (match-string 0 ref))))
+                       (link-type ()) ;; clear url-type for backward compatible.
+                       (path ()))
+                   (setq link-type (url-type ref-url))
+                   (setf (url-type ref-url) nil)
+                   (setq path (org-link-decode (url-recreate-url ref-url)))
+                   (if (and (boundp 'org-ref-cite-types)
+                            (or (assoc link-type org-ref-cite-types)
+                                (member link-type org-ref-cite-types)))
+                       (dolist (key (org-roam-org-ref-path-to-keys path))
+                         (push (vector node-id key link-type) rows))
+                     (push (vector node-id path link-type) rows))))
+                (t
+                 (lwarn '(org-roam) :warning
+                        "%s:%s\tInvalid ref %s, skipping..." (buffer-file-name) (point) ref)))))
+      (when rows
+        (org-roam-db-query [:insert :into refs
+                            :values $v1]
+                           rows)))))
+
+(defun org-roam-db-insert-link (link)
+  "Insert link data for LINK at current point into the Org-roam cache."
+  (save-excursion
+    (goto-char (org-element-property :begin link))
+    (let* ((type (org-element-property :type link))
+           (path (org-element-property :path link))
+           (option (and (string-match "::\\(.*\\)\\'" path)
+                        (match-string 1 path)))
+           (path (if (not option) path
+                   (substring path 0 (match-beginning 0))))
+           (source (org-roam-id-at-point))
+           (properties (list :outline (ignore-errors
+                                        ;; This can error if link is not under any headline
+                                        (org-get-outline-path 'with-self 'use-cache))))
+           (properties (if option (plist-put properties :search-option option)
+                         properties)))
+      ;; For Org-ref links, we need to split the path into the cite keys
+      (when (and source path)
+        (if (and (boundp 'org-ref-cite-types)
+                 (or (assoc type org-ref-cite-types)
+                     (member type org-ref-cite-types)))
+            (org-roam-db-query
+             [:insert :into citations
+              :values $v1]
+             (mapcar (lambda (k) (vector source k (point) properties))
+                     (org-roam-org-ref-path-to-keys path)))
+          (org-roam-db-query
+           [:insert :into links
+            :values $v1]
+           (vector (point) source path type properties)))))))
+
+(defun org-roam-db-insert-citation (citation)
+  "Insert data for CITATION at current point into the Org-roam cache."
+  (save-excursion
+    (goto-char (org-element-property :begin citation))
+    (let ((key (org-element-property :key citation))
+          (source (org-roam-id-at-point))
+          (properties (list :outline (ignore-errors
+                                       ;; This can error if link is not under any headline
+                                       (org-get-outline-path 'with-self 'use-cache)))))
+      (when (and source key)
+        (org-roam-db-query
+         [:insert :into citations
+          :values $v1]
+         (vector source key (point) properties))))))
+
+;;;; Fetching
+(defun org-roam-db--get-current-files ()
+  "Return a hash-table of file to the hash of its file contents."
+  (let ((current-files (org-roam-db-query [:select [file hash] :from files]))
+        (ht (make-hash-table :test #'equal)))
+    (dolist (row current-files)
+      (puthash (car row) (cadr row) ht))
+    ht))
+
+(defun org-roam-db--file-hash (file-path)
+  "Compute the hash of FILE-PATH."
+  (with-temp-buffer
+    (set-buffer-multibyte nil)
+    (insert-file-contents-literally file-path)
+    (secure-hash 'sha1 (current-buffer))))
+
+;;;; Synchronization
+(defun org-roam-db-update-file (&optional file-path no-require)
+  "Update Org-roam cache for FILE-PATH.
+
+If the file does not exist anymore, remove it from the cache.
+
+If the file exists, update the cache with information.
+
+If NO-REQUIRE, don't require optional libraries. Set NO-REQUIRE
+when the libraries are already required at some toplevel, e.g.
+in `org-roam-db-sync'."
+  (setq file-path (or file-path (buffer-file-name (buffer-base-buffer))))
+  (let ((content-hash (org-roam-db--file-hash file-path))
+        (db-hash (caar (org-roam-db-query [:select hash :from files
+                                           :where (= file $s1)] file-path)))
+        info)
+    (unless (string= content-hash db-hash)
+      (unless no-require
+        (org-roam-require '(org-ref oc)))
+      (org-roam-with-file file-path nil
+        (emacsql-with-transaction (org-roam-db)
+          (org-with-wide-buffer
+           (org-set-regexps-and-options 'tags-only)
+           ;; Org doesn't use this anymore, so we probably should stop too.
+           ;; (org-refresh-category-properties)
+           (org-roam-db-clear-file)
+           (org-roam-db-insert-file content-hash)
+           (org-roam-db-insert-file-node)
+           (setq org-outline-path-cache nil)
+           (org-roam-db-map-nodes
+            (list #'org-roam-db-insert-node-data
+                  #'org-roam-db-insert-aliases
+                  #'org-roam-db-insert-tags
+                  #'org-roam-db-insert-refs))
+           (setq org-outline-path-cache nil)
+           (setq info (org-element-parse-buffer))
+           (org-roam-db-map-links
+            (list #'org-roam-db-insert-link))
+           (when (fboundp 'org-cite-insert)
+             (require 'oc)             ;ensure feature is loaded
+             (org-roam-db-map-citations
+              info
+              (list #'org-roam-db-insert-citation)))))))))
+
+;;;###autoload
+(defun org-roam-db-sync (&optional force)
+  "Synchronize the cache state with the current Org files on-disk.
+If FORCE, force a rebuild of the cache from scratch."
+  (interactive "P")
+  (org-roam-db--close) ;; Force a reconnect
+  (when force (delete-file org-roam-db-location))
+  (org-roam-db) ;; To initialize the database, no-op if already initialized
+  (org-roam-require '(org-ref oc))
+  (let* ((gc-cons-threshold org-roam-db-gc-threshold)
+         (org-agenda-files nil)
+         (org-roam-files (org-roam-list-files))
+         (current-files (org-roam-db--get-current-files))
+         (modified-files nil))
+    (dolist (file org-roam-files)
+      (let ((contents-hash (org-roam-db--file-hash file)))
+        (unless (string= (gethash file current-files)
+                         contents-hash)
+          (push file modified-files)))
+      (remhash file current-files))
+    (emacsql-with-transaction (org-roam-db)
+      (org-roam-dolist-with-progress (file (hash-table-keys current-files))
+          "Clearing removed files..."
+        (org-roam-db-clear-file file))
+      (org-roam-dolist-with-progress (file modified-files)
+          "Processing modified files..."
+        (condition-case err
+            (org-roam-db-update-file file 'no-require)
+          (error
+           (org-roam-db-clear-file file)
+           (lwarn 'org-roam :error "Failed to process %s with error %s, skipping..."
+                  file (error-message-string err))))))))
+
+;;;###autoload
+(define-minor-mode org-roam-db-autosync-mode
+  "Global minor mode to keep your Org-roam session automatically synchronized.
+Through the session this will continue to setup your
+buffers (that are Org-roam file visiting), keep track of the
+related changes, maintain cache consistency and incrementally
+update the currently active database.
+
+If you need to manually trigger resync of the currently active
+database, see `org-roam-db-sync' command."
+  :group 'org-roam
+  :global t
+  :init-value nil
+  (let ((enabled org-roam-db-autosync-mode))
+    (cond
+     (enabled
+      (add-hook 'find-file-hook  #'org-roam-db-autosync--setup-file-h)
+      (add-hook 'kill-emacs-hook #'org-roam-db--close-all)
+      (advice-add #'rename-file :after  #'org-roam-db-autosync--rename-file-a)
+      (advice-add #'delete-file :before #'org-roam-db-autosync--delete-file-a)
+      (org-roam-db-sync))
+     (t
+      (remove-hook 'find-file-hook  #'org-roam-db-autosync--setup-file-h)
+      (remove-hook 'kill-emacs-hook #'org-roam-db--close-all)
+      (advice-remove #'rename-file #'org-roam-db-autosync--rename-file-a)
+      (advice-remove #'delete-file #'org-roam-db-autosync--delete-file-a)
+      (org-roam-db--close-all)
+      ;; Disable local hooks for all org-roam buffers
+      (dolist (buf (org-roam-buffer-list))
+        (with-current-buffer buf
+          (remove-hook 'after-save-hook #'org-roam-db-autosync--try-update-on-save-h t)))))))
+
+;;;###autoload
+(defun org-roam-db-autosync-enable ()
+  "Activate `org-roam-db-autosync-mode'."
+  (org-roam-db-autosync-mode +1))
+
+(defun org-roam-db-autosync-disable ()
+  "Deactivate `org-roam-db-autosync-mode'."
+  (org-roam-db-autosync-mode -1))
+
+(defun org-roam-db-autosync-toggle ()
+  "Toggle `org-roam-db-autosync-mode' enabled/disabled."
+  (org-roam-db-autosync-mode 'toggle))
+
+(defun org-roam-db-autosync--delete-file-a (file &optional _trash)
+  "Maintain cache consistency when file deletes.
+FILE is removed from the database."
+  (when (and (not (auto-save-file-name-p file))
+             (not (backup-file-name-p file))
+             (org-roam-file-p file))
+    (org-roam-db-clear-file (expand-file-name file))))
+
+(defun org-roam-db-autosync--rename-file-a (old-file new-file-or-dir &rest _args)
+  "Maintain cache consistency of file rename.
+OLD-FILE is cleared from the database, and NEW-FILE-OR-DIR is added."
+  (let ((new-file (if (directory-name-p new-file-or-dir)
+                      (expand-file-name (file-name-nondirectory old-file) new-file-or-dir)
+                    new-file-or-dir)))
+    (setq new-file (expand-file-name new-file))
+    (setq old-file (expand-file-name old-file))
+    (when (and (not (auto-save-file-name-p old-file))
+               (not (auto-save-file-name-p new-file))
+               (not (backup-file-name-p old-file))
+               (not (backup-file-name-p new-file))
+               (org-roam-file-p old-file))
+      (org-roam-db-clear-file old-file))
+    (when (org-roam-file-p new-file)
+      (org-roam-db-update-file new-file))))
+
+(defun org-roam-db-autosync--setup-file-h ()
+  "Setup the current buffer if it visits an Org-roam file."
+  (when (org-roam-file-p) (run-hooks 'org-roam-find-file-hook)))
+
+(add-hook 'org-roam-find-file-hook #'org-roam-db-autosync--setup-update-on-save-h)
+(defun org-roam-db-autosync--setup-update-on-save-h ()
+  "Setup the current buffer to update the DB after saving the current file."
+  (add-hook 'after-save-hook #'org-roam-db-autosync--try-update-on-save-h nil t))
+
+(defun org-roam-db-autosync--try-update-on-save-h ()
+  "If appropriate, update the database for the current file after saving buffer."
+  (when org-roam-db-update-on-save (org-roam-db-update-file)))
+
+;;; Diagnostics
+(defun org-roam-db-diagnose-node ()
+  "Print information about node at point."
+  (interactive)
+  (prin1 (org-roam-node-at-point)))
+
+(provide 'org-roam-db)
+
+;;; org-roam-db.el ends here

org-roam-id.el

@@ -0,0 +1,94 @@
+;;; org-roam-id.el --- ID-related utilities for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.6") (magit-section "3.0.0"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This module provides ID-related facilities using the Org-roam database.
+;;
+;;; Code:
+(require 'org-id)
+
+(defun org-roam-id-at-point ()
+  "Return the ID at point, if any.
+Recursively traverses up the headline tree to find the
+first encapsulating ID."
+  (org-with-wide-buffer
+   (org-back-to-heading-or-point-min t)
+   (while (and (not (org-roam-db-node-p))
+               (not (bobp)))
+     (org-roam-up-heading-or-point-min))
+   (when (org-roam-db-node-p)
+     (org-id-get))))
+
+(defun org-roam-id-find (id &optional markerp)
+  "Return the location of the entry with the id ID using the Org-roam db.
+The return value is a cons cell (file-name . position), or nil
+if there is no entry with that ID.
+With optional argument MARKERP, return the position as a new marker."
+  (cond
+   ((symbolp id) (setq id (symbol-name id)))
+   ((numberp id) (setq id (number-to-string id))))
+  (let ((node (org-roam-populate (org-roam-node-create :id id))))
+    (when-let ((file (org-roam-node-file node)))
+      (if markerp
+          (let ((buffer (or (find-buffer-visiting file)
+                            (find-file-noselect file))))
+            (with-current-buffer buffer
+              (move-marker (make-marker) (org-roam-node-point node) buffer)))
+        (cons (org-roam-node-file node)
+              (org-roam-node-point node))))))
+
+(defalias 'org-roam-id-open 'org-id-open
+  "Obsolete alias - use `org-id-open' directly.")
+
+(advice-add 'org-id-find :before-until #'org-roam-id-find)
+
+;;;###autoload
+(defun org-roam-update-org-id-locations (&rest directories)
+  "Scan Org-roam files to update `org-id' related state.
+This is like `org-id-update-id-locations', but will automatically
+use the currently bound `org-directory' and `org-roam-directory'
+along with DIRECTORIES (if any), where the lookup for files in
+these directories will be always recursive.
+
+Note: Org-roam doesn't have hard dependency on
+`org-id-locations-file' to lookup IDs for nodes that are stored
+in the database, but it still tries to properly integrates with
+`org-id'. This allows the user to cross-reference IDs outside of
+the current `org-roam-directory', and also link with \"id:\"
+links to headings/files within the current `org-roam-directory'
+that are excluded from identification in Org-roam as
+`org-roam-node's, e.g. with \"ROAM_EXCLUDE\" property."
+  (interactive)
+  (cl-loop for dir in (cons org-roam-directory directories)
+           for org-roam-directory = dir
+           nconc (org-roam-list-files) into files
+           finally (org-id-update-id-locations files org-roam-verbose)))
+
+(provide 'org-roam-id)
+
+;;; org-roam-id.el ends here

org-roam-log.el

@@ -0,0 +1,53 @@
+;;; org-roam-log.el --- Integrations with Org-log -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2022-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.6") (emacsql "4.1.0") (magit-section "3.0.0"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This module provides integrations with Org-log.
+;;
+;;; Code:
+(require 'org-roam)
+
+(defcustom org-roam-log-setup-hook nil
+  "Hook run when a log for an Org-roam file is setup."
+  :group 'org-roam
+  :type 'hook)
+
+(defun org-roam-log-p ()
+  "Return t if the log buffer is for an Org-roam file, nil otherwise."
+  (and org-log-note-marker
+       (org-roam-file-p (buffer-file-name (marker-buffer org-log-note-marker)))))
+
+(defun org-roam-log--setup ()
+  "Run hooks in `org-roam-log-setup-hook'."
+  (run-hooks 'org-roam-log-setup-hook))
+
+(add-hook 'org-roam-log-setup-hook #'org-roam--register-completion-functions-h)
+(add-hook 'org-log-buffer-setup-hook #'org-roam-log--setup)
+
+(provide 'org-roam-log)
+;;; org-roam-log.el ends here

org-roam-migrate.el

@@ -0,0 +1,168 @@
+;;; org-roam-migrate.el --- Migration utilities from v1 to v2 -*- coding: utf-8; lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.6") (emacsql "4.1.0") (magit-section "3.0.0"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This is a special library provided for the v1 users of this package. It's
+;; purpose is to ease the transition from v1 to v2, by providing migration
+;; utilities to convert from v1 notes to v2 nodes.
+;;
+;;; Code:
+(require 'org-roam)
+
+;;; Migration wizard (v1 -> v2)
+;;;###autoload
+(defun org-roam-migrate-wizard ()
+  "Migrate all notes from to be compatible with Org-roam v2.
+1. Convert all notes from v1 format to v2.
+2. Rebuild the cache.
+3. Replace all file links with ID links."
+  (interactive)
+  (when (yes-or-no-p "Org-roam will now convert all your notes from v1 to v2.
+This will take a while. Are you sure you want to do this?")
+    ;; Back up notes
+    (let ((backup-dir (expand-file-name "org-roam.bak"
+                                        (file-name-directory (directory-file-name org-roam-directory)))))
+      (message "Backing up files to %s" backup-dir)
+      (copy-directory org-roam-directory backup-dir))
+
+    ;; Upgrade database to v2
+    (org-roam-db-sync 'force)
+
+    ;; Convert v1 to v2
+    (dolist (f (org-roam-list-files))
+      (org-roam-with-file f nil
+        (org-roam-migrate-v1-to-v2)))
+
+    ;; Rebuild cache
+    (org-roam-db-sync 'force)
+
+    ;;Replace all file links with ID links
+    (dolist (f (org-roam-list-files))
+      (org-roam-with-file f nil
+        (org-roam-migrate-replace-file-links-with-id)
+        (save-buffer)))))
+
+(defun org-roam-migrate-v1-to-v2 ()
+  "Convert the current buffer to v2 format."
+  ;; Create file level ID
+  (org-with-point-at 1
+    (org-id-get-create))
+  ;; Replace roam_key into properties drawer roam_ref
+  (when-let* ((refs (mapcan #'split-string-and-unquote
+                            (cdar (org-collect-keywords '("roam_key"))))))
+    (let ((case-fold-search t))
+      (org-with-point-at 1
+        (dolist (ref refs)
+          (org-roam-ref-add ref))
+        (while (re-search-forward "^#\\+roam_key:" (point-max) t)
+          (beginning-of-line)
+          (kill-line 1)))))
+
+  ;; Replace roam_alias into properties drawer roam_aliases
+  (when-let* ((aliases (mapcan #'split-string-and-unquote
+                               (cdar (org-collect-keywords '("roam_alias"))))))
+    (dolist (alias aliases)
+      (org-roam-alias-add alias)))
+  (let ((case-fold-search t))
+    (org-with-point-at 1
+      (while (re-search-forward "^#\\+roam_alias:" (point-max) t)
+        (beginning-of-line)
+        (kill-line 1))))
+
+  ;; Replace #+roam_tags into #+filetags
+  (org-with-point-at 1
+    (let* ((roam-tags (org-roam-migrate-get-prop-list "ROAM_TAGS"))
+           (file-tags (cl-mapcan (lambda (value)
+                                   (cl-mapcan
+                                    (lambda (k) (org-split-string k ":"))
+                                    (split-string value)))
+                                 (org-roam-migrate-get-prop-list "FILETAGS")))
+           (tags (append roam-tags file-tags))
+           (tags (seq-map (lambda (tag)
+                            (replace-regexp-in-string
+                             "[^[:alnum:]_@#%]"
+                             "_"
+                             tag)) tags))
+           (tags (seq-uniq tags)))
+      (when tags
+        (org-roam-migrate-prop-set "filetags" (org-make-tag-string tags))))
+    (let ((case-fold-search t))
+      (org-with-point-at 1
+        (while (re-search-forward "^#\\+roam_tags:" (point-max) t)
+          (beginning-of-line)
+          (kill-line 1)))))
+  (save-buffer))
+
+(defun org-roam-migrate-get-prop-list (keyword)
+  "Return prop list for KEYWORD."
+  (let ((re (format "^#\\+%s:[ \t]*\\([^\n]+\\)" (upcase keyword)))
+        lst)
+    (goto-char (point-min))
+    (while (re-search-forward re 2048 t)
+      (setq lst (append lst (split-string-and-unquote
+                             (buffer-substring-no-properties
+                              (match-beginning 1) (match-end 1))))))
+    lst))
+
+(defun org-roam-migrate-prop-set (name value)
+  "Set a file property called NAME to VALUE in buffer file.
+If the property is already set, replace its value."
+  (setq name (downcase name))
+  (org-with-point-at 1
+    (let ((case-fold-search t))
+      (if (re-search-forward (concat "^#\\+" name ":\\(.*\\)")
+                             (point-max) t)
+          (replace-match (concat "#+" name ": " value) 'fixedcase)
+        (while (and (not (eobp))
+                    (looking-at "^[#:]"))
+          (if (save-excursion (end-of-line) (eobp))
+              (progn
+                (end-of-line)
+                (insert "\n"))
+            (forward-line)
+            (beginning-of-line)))
+        (insert "#+" name ": " value "\n")))))
+
+(defun org-roam-migrate-replace-file-links-with-id ()
+  "Replace all file: links with ID links in current buffer."
+  (org-with-point-at 1
+    (while (re-search-forward org-link-bracket-re nil t)
+      (let* ((mdata (match-data))
+             (path (match-string 1))
+             (desc (match-string 2)))
+        (when (string-prefix-p "file:" path)
+          (setq path (expand-file-name (substring path 5)))
+          (when-let ((node-id (caar (org-roam-db-query [:select [id] :from nodes
+                                                        :where (= file $s1)
+                                                        :and (= level 0)] path))))
+            (set-match-data mdata)
+            (replace-match (org-link-make-string (concat "id:" node-id)
+                                                 desc) nil t)))))))
+
+(provide 'org-roam-migrate)
+;;; org-roam-migrate.el ends here

org-roam-mode.el

@@ -0,0 +1,711 @@
+;;; org-roam-mode.el --- Major mode for special Org-roam buffers -*- lexical-binding: t -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.6") (emacsql "4.1.0") (magit-section "3.0.0"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This module implements `org-roam-mode', which is a major mode that used by
+;; special Org-roam buffers to display various content in a section-like manner
+;; about the nodes and relevant to them information (e.g. backlinks) with which
+;; the user can interact with.
+;;
+;;; Code:
+(require 'org-roam)
+
+;;;; Declarations
+(defvar org-ref-buffer-hacked)
+
+;;; Options
+(defcustom org-roam-mode-sections (list #'org-roam-backlinks-section
+                                        #'org-roam-reflinks-section)
+  "A list of sections for the `org-roam-mode' based buffers.
+Each section is a function that is passed the `org-roam-node'
+for which the section will be constructed as the first
+argument. Normally this node is `org-roam-buffer-current-node'.
+The function may also accept other optional arguments. Each item
+in the list is either:
+
+1. A function, which is called only with the `org-roam-node' as the argument
+2. A list, containing the function and the optional arguments.
+
+For example, one can add
+
+    (org-roam-backlinks-section :unique t)
+
+to the list to pass :unique t to the section-rendering function."
+  :group 'org-roam
+  :type `(repeat (choice (symbol :tag "Function")
+                         (list :tag "Function with arguments"
+                               (symbol :tag "Function")
+                               (repeat :tag "Arguments" :inline t (sexp :tag "Arg"))))))
+
+(defcustom org-roam-buffer-postrender-functions (list)
+  "Functions to run after the Org-roam buffer is rendered.
+Each function accepts no arguments, and is run with the Org-roam
+buffer as the current buffer."
+  :group 'org-roam
+  :type 'hook)
+
+(defcustom org-roam-preview-function #'org-roam-preview-default-function
+  "The preview function to use to populate the Org-roam buffer.
+
+The function takes no arguments, but the point is temporarily set
+to the exact location of the backlink."
+  :group 'org-roam
+  :type 'function)
+
+(defcustom org-roam-preview-postprocess-functions (list #'org-roam-strip-comments)
+  "A list of functions to postprocess the preview content.
+
+Each function takes a single argument, the string for the preview
+content, and returns the post-processed string. The functions are
+applied in order of appearance in the list."
+  :group 'org-roam
+  :type 'hook)
+
+;;; Faces
+(defface org-roam-header-line
+  `((((class color) (background light))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :foreground "DarkGoldenrod4"
+     :weight bold)
+    (((class color) (background  dark))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :foreground "LightGoldenrod2"
+     :weight bold))
+  "Face for the `header-line' in some Org-roam modes."
+  :group 'org-roam-faces)
+
+(defface org-roam-title
+  '((t :weight bold))
+  "Face for Org-roam titles."
+  :group 'org-roam-faces)
+
+(defface org-roam-olp
+  '((((class color) (background light)) :foreground "grey60")
+    (((class color) (background  dark)) :foreground "grey40"))
+  "Face for the OLP of the node."
+  :group 'org-roam-faces)
+
+(defface org-roam-preview-heading
+  `((((class color) (background light))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :background "grey80"
+     :foreground "grey30")
+    (((class color) (background dark))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :background "grey25"
+     :foreground "grey70"))
+  "Face for preview headings."
+  :group 'org-roam-faces)
+
+(defface org-roam-preview-heading-highlight
+  `((((class color) (background light))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :background "grey75"
+     :foreground "grey30")
+    (((class color) (background dark))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :background "grey35"
+     :foreground "grey70"))
+  "Face for current preview headings."
+  :group 'org-roam-faces)
+
+(defface org-roam-preview-heading-selection
+  `((((class color) (background light))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :inherit org-roam-preview-heading-highlight
+     :foreground "salmon4")
+    (((class color) (background dark))
+     ,@(and (>= emacs-major-version 27) '(:extend t))
+     :inherit org-roam-preview-heading-highlight
+     :foreground "LightSalmon3"))
+  "Face for selected preview headings."
+  :group 'org-roam-faces)
+
+(defface org-roam-preview-region
+  `((t :inherit bold
+       ,@(and (>= emacs-major-version 27)
+              (list :extend (ignore-errors (face-attribute 'region :extend))))))
+  "Face used by `org-roam-highlight-preview-region-using-face'.
+
+This face is overlaid over text that uses other hunk faces,
+and those normally set the foreground and background colors.
+The `:foreground' and especially the `:background' properties
+should be avoided here.  Setting the latter would cause the
+loss of information.  Good properties to set here are `:weight'
+and `:slant'."
+  :group 'org-roam-faces)
+
+(defface org-roam-dim
+  '((((class color) (background light)) :foreground "grey60")
+    (((class color) (background  dark)) :foreground "grey40"))
+  "Face for the dimmer part of the widgets."
+  :group 'org-roam-faces)
+
+;;; Major mode
+(defvar org-roam-mode-map
+  (let ((map (make-sparse-keymap)))
+    (set-keymap-parent map magit-section-mode-map)
+    (define-key map [C-return]  'org-roam-buffer-visit-thing)
+    (define-key map (kbd "C-m") 'org-roam-buffer-visit-thing)
+    (define-key map [remap revert-buffer] 'org-roam-buffer-refresh)
+    map)
+  "Parent keymap for all keymaps of modes derived from `org-roam-mode'.")
+
+(define-derived-mode org-roam-mode magit-section-mode "Org-roam"
+  "Major mode for displaying relevant information about Org-roam nodes.
+This mode is used by special Org-roam buffers, such as persistent
+`org-roam-buffer' and dedicated Org-roam buffers
+\(`org-roam-buffer-display-dedicated'), which render the
+information in a section-like manner (see
+`org-roam-mode-sections'), with which the user can
+interact with."
+  :group 'org-roam
+  (face-remap-add-relative 'header-line 'org-roam-header-line))
+
+;;; Buffers
+(defvar org-roam-buffer-current-node nil
+  "The node for which an `org-roam-mode' based buffer displays its contents.
+This set both, locally and globally. Normally the local value is
+only set in the `org-roam-mode' based buffers, while the global
+value shows the current node in the persistent `org-roam-buffer'.")
+
+(put 'org-roam-buffer-current-node 'permanent-local t)
+
+(defvar org-roam-buffer-current-directory nil
+  "The `org-roam-directory' value of `org-roam-buffer-current-node'.
+Set both, locally and globally in the same way as
+`org-roam-buffer-current-node'.")
+
+(put 'org-roam-buffer-current-directory 'permanent-local t)
+
+;;;; Library
+(defun org-roam-buffer-visit-thing ()
+  "This is a placeholder command.
+Where applicable, section-specific keymaps bind another command
+which visits the thing at point."
+  (interactive)
+  (user-error "There is no thing at point that could be visited"))
+
+(defun org-roam-buffer-file-at-point (&optional assert)
+  "Return the file at point in the current `org-roam-mode' based buffer.
+If ASSERT, throw an error."
+  (if-let ((file (magit-section-case
+                   (org-roam-node-section (org-roam-node-file (oref it node)))
+                   (org-roam-grep-section (oref it file))
+                   (org-roam-preview-section (oref it file))
+                   (t (cl-assert (derived-mode-p 'org-roam-mode))))))
+      file
+    (when assert
+      (user-error "No file at point"))))
+
+(defun org-roam-buffer-refresh ()
+  "Refresh the contents of the currently selected Org-roam buffer."
+  (interactive)
+  (cl-assert (derived-mode-p 'org-roam-mode))
+  (save-excursion (org-roam-buffer-render-contents)))
+
+(defun org-roam-buffer-render-contents ()
+  "Recompute and render the contents of an Org-roam buffer.
+Assumes that the current buffer is an `org-roam-mode' based
+buffer."
+  (let ((inhibit-read-only t))
+    (erase-buffer)
+    (org-roam-mode)
+    (setq-local default-directory org-roam-buffer-current-directory)
+    (setq-local org-roam-directory org-roam-buffer-current-directory)
+    (org-roam-buffer-set-header-line-format
+     (org-roam-node-title org-roam-buffer-current-node))
+    (magit-insert-section (org-roam)
+      (magit-insert-heading)
+      (dolist (section org-roam-mode-sections)
+        (pcase section
+          ((pred functionp)
+           (funcall section org-roam-buffer-current-node))
+          (`(,fn . ,args)
+           (apply fn (cons org-roam-buffer-current-node args)))
+          (_
+           (user-error "Invalid `org-roam-mode-sections' specification")))))
+    (run-hooks 'org-roam-buffer-postrender-functions)
+    (goto-char 0)))
+
+(defun org-roam-buffer-set-header-line-format (string)
+  "Set the header-line using STRING.
+If the `face' property of any part of STRING is already set, then
+that takes precedence. Also pad the left side of STRING so that
+it aligns with the text area."
+  (setq-local header-line-format
+              (concat (propertize " " 'display '(space :align-to 0))
+                      string)))
+
+;;;; Dedicated buffer
+;;;###autoload
+(defun org-roam-buffer-display-dedicated (node)
+  "Launch NODE dedicated Org-roam buffer.
+Unlike the persistent `org-roam-buffer', the contents of this
+buffer won't be automatically changed and will be held in place.
+
+In interactive calls prompt to select NODE, unless called with
+`universal-argument', in which case NODE will be set to
+`org-roam-node-at-point'."
+  (interactive
+   (list (if current-prefix-arg
+             (org-roam-node-at-point 'assert)
+           (org-roam-node-read nil nil nil 'require-match))))
+  (let ((buffer (get-buffer-create (org-roam-buffer--dedicated-name node))))
+    (with-current-buffer buffer
+      (setq-local org-roam-buffer-current-node node)
+      (setq-local org-roam-buffer-current-directory org-roam-directory)
+      (org-roam-buffer-render-contents))
+    (display-buffer buffer)))
+
+(defun org-roam-buffer--dedicated-name (node)
+  "Construct buffer name for NODE dedicated Org-roam buffer."
+  (let ((title (org-roam-node-title node))
+        (filename (file-relative-name (org-roam-node-file node) org-roam-directory)))
+    (format "*org-roam: %s<%s>*" title filename)))
+
+(defun org-roam-buffer-dedicated-p (&optional buffer)
+  "Return t if an Org-roam BUFFER is a node dedicated one.
+See `org-roam-buffer-display-dedicated' for more details.
+If BUFFER is nil, default it to `current-buffer'."
+  (or buffer (setq buffer (current-buffer)))
+  (string-match-p (concat "^" (regexp-quote "*org-roam: "))
+                  (buffer-name buffer)))
+
+;;;; Persistent buffer
+(defvar org-roam-buffer "*org-roam*"
+  "The persistent Org-roam buffer name. Must be surround with \"*\".
+The content inside of this buffer will be automatically updated
+to the nearest node at point that comes from the current buffer.
+To toggle its display use `org-roam-buffer-toggle' command.")
+
+(defun org-roam-buffer-toggle ()
+  "Toggle display of the persistent `org-roam-buffer'."
+  (interactive)
+  (pcase (org-roam-buffer--visibility)
+    ('visible
+     (progn
+       (quit-window nil (get-buffer-window org-roam-buffer))
+       (remove-hook 'post-command-hook #'org-roam-buffer--redisplay-h)))
+    ((or 'exists 'none)
+     (progn
+       (display-buffer (get-buffer-create org-roam-buffer))
+       (org-roam-buffer-persistent-redisplay)))))
+
+(define-inline org-roam-buffer--visibility ()
+  "Return the current visibility state of the persistent `org-roam-buffer'.
+Valid states are `visible', `exists' and `none'."
+  (declare (side-effect-free t))
+  (inline-quote
+   (cond
+    ((get-buffer-window org-roam-buffer) 'visible)
+    ((get-buffer org-roam-buffer) 'exists)
+    (t 'none))))
+
+(defun org-roam-buffer-persistent-redisplay ()
+  "Recompute contents of the persistent `org-roam-buffer'.
+Has no effect when there's no `org-roam-node-at-point'."
+  (when-let ((node (org-roam-node-at-point)))
+    (unless (equal node org-roam-buffer-current-node)
+      (setq org-roam-buffer-current-node node
+            org-roam-buffer-current-directory org-roam-directory)
+      (with-current-buffer (get-buffer-create org-roam-buffer)
+        (org-roam-buffer-render-contents)
+        (add-hook 'kill-buffer-hook #'org-roam-buffer--persistent-cleanup-h nil t)))))
+
+(defun org-roam-buffer--persistent-cleanup-h ()
+  "Clean-up global state that's dedicated for the persistent `org-roam-buffer'."
+  (setq-default org-roam-buffer-current-node nil
+                org-roam-buffer-current-directory nil))
+
+(add-hook 'org-roam-find-file-hook #'org-roam-buffer--setup-redisplay-h)
+(defun org-roam-buffer--setup-redisplay-h ()
+  "Setup automatic redisplay of the persistent `org-roam-buffer'."
+  (add-hook 'post-command-hook #'org-roam-buffer--redisplay-h nil t))
+
+(defun org-roam-buffer--redisplay-h ()
+  "Reconstruct the persistent `org-roam-buffer'.
+This needs to be quick or infrequent, because this designed to
+run at `post-command-hook'."
+  (and (get-buffer-window org-roam-buffer)
+       (org-roam-buffer-persistent-redisplay)))
+
+;;; Sections
+;;;; Node
+(defvar org-roam-node-map
+  (let ((map (make-sparse-keymap)))
+    (set-keymap-parent map org-roam-mode-map)
+    (define-key map [remap org-roam-buffer-visit-thing] 'org-roam-node-visit)
+    map)
+  "Keymap for `org-roam-node-section's.")
+
+(defclass org-roam-node-section (magit-section)
+  ((keymap :initform 'org-roam-node-map)
+   (node :initform nil))
+  "A `magit-section' used by `org-roam-mode' to outline NODE in its own heading.")
+
+(cl-defun org-roam-node-insert-section (&key source-node point properties)
+  "Insert section for a link from SOURCE-NODE to some other node.
+The other node is normally `org-roam-buffer-current-node'.
+
+SOURCE-NODE is an `org-roam-node' that links or references with
+the other node.
+
+POINT is a character position where the link is located in
+SOURCE-NODE's file.
+
+PROPERTIES (a plist) contains additional information about the
+link.
+
+Despite the name, this function actually inserts 2 sections at
+the same time:
+
+1. `org-roam-node-section' for a heading that describes
+   SOURCE-NODE. Acts as a parent section of the following one.
+
+2. `org-roam-preview-section' for a preview content that comes
+   from SOURCE-NODE's file for the link (that references the
+   other node) at POINT. Acts a child section of the previous
+   one."
+  (magit-insert-section section (org-roam-node-section)
+    (let ((outline (if-let ((outline (plist-get properties :outline)))
+                       (mapconcat #'org-link-display-format outline " > ")
+                     "Top")))
+      (insert (concat (propertize (org-roam-node-title source-node)
+                                  'font-lock-face 'org-roam-title)
+                      (format " (%s)"
+                              (propertize outline 'font-lock-face 'org-roam-olp)))))
+    (magit-insert-heading)
+    (oset section node source-node)
+    (magit-insert-section section (org-roam-preview-section)
+      (insert (org-roam-fontify-like-in-org-mode
+               (org-roam-preview-get-contents (org-roam-node-file source-node) point))
+              "\n")
+      (oset section file (org-roam-node-file source-node))
+      (oset section point point)
+      (insert ?\n))))
+
+;;;; Preview
+(defvar org-roam-preview-map
+  (let ((map (make-sparse-keymap)))
+    (set-keymap-parent map org-roam-mode-map)
+    (define-key map [remap org-roam-buffer-visit-thing] 'org-roam-preview-visit)
+    map)
+  "Keymap for `org-roam-preview-section's.")
+
+(defclass org-roam-preview-section (magit-section)
+  ((keymap :initform 'org-roam-preview-map)
+   (file :initform nil)
+   (point :initform nil))
+  "A `magit-section' used by `org-roam-mode' to contain preview content.
+The preview content comes from FILE, and the link as at POINT.")
+
+(defun org-roam-preview-visit (file point &optional other-window)
+  "Visit FILE at POINT and return the visited buffer.
+With OTHER-WINDOW non-nil do so in another window.
+In interactive calls OTHER-WINDOW is set with
+`universal-argument'."
+  (interactive (list (org-roam-buffer-file-at-point 'assert)
+                     (oref (magit-current-section) point)
+                     current-prefix-arg))
+  (let ((buf (find-file-noselect file))
+        (display-buffer-fn (if other-window
+                               #'switch-to-buffer-other-window
+                             #'pop-to-buffer-same-window)))
+    (funcall display-buffer-fn buf)
+    (with-current-buffer buf
+      (widen)
+      (goto-char point))
+    (when (org-invisible-p) (org-fold-show-context))
+    buf))
+
+(defun org-roam-preview-default-function ()
+  "Return the preview content at point.
+
+This function returns the all contents under the current
+headline, up to the next headline."
+  (let ((beg (save-excursion
+               (org-roam-end-of-meta-data t)
+               (point)))
+        (end (save-excursion
+               (org-next-visible-heading 1)
+               (point))))
+    (string-trim (buffer-substring-no-properties beg end))))
+
+(defun org-roam-preview-get-contents (file pt)
+  "Get preview content for FILE at PT."
+  (save-excursion
+    (org-roam-with-temp-buffer file
+      (org-with-wide-buffer
+       (goto-char pt)
+       (let ((s (funcall org-roam-preview-function)))
+         (dolist (fn org-roam-preview-postprocess-functions)
+           (setq s (funcall fn s)))
+         s)))))
+
+;;;; Backlinks
+(cl-defstruct (org-roam-backlink (:constructor org-roam-backlink-create)
+                                 (:copier nil))
+  source-node target-node
+  point properties)
+
+(cl-defmethod org-roam-populate ((backlink org-roam-backlink))
+  "Populate BACKLINK from database."
+  (setf (org-roam-backlink-source-node backlink)
+        (org-roam-populate (org-roam-backlink-source-node backlink))
+        (org-roam-backlink-target-node backlink)
+        (org-roam-populate (org-roam-backlink-target-node backlink)))
+  backlink)
+
+(cl-defun org-roam-backlinks-get (node &key unique)
+  "Return the backlinks for NODE.
+
+ When UNIQUE is nil, show all positions where references are found.
+ When UNIQUE is t, limit to unique sources."
+  (let* ((sql (if unique
+                  [:select :distinct [source dest pos properties]
+                   :from links
+                   :where (= dest $s1)
+                   :and (= type "id")
+                   :group :by source
+                   :having (funcall min pos)]
+                [:select [source dest pos properties]
+                 :from links
+                 :where (= dest $s1)
+                 :and (= type "id")]))
+         (backlinks (org-roam-db-query sql (org-roam-node-id node))))
+    (cl-loop for backlink in backlinks
+             collect (pcase-let ((`(,source-id ,dest-id ,pos ,properties) backlink))
+                       (org-roam-populate
+                        (org-roam-backlink-create
+                         :source-node (org-roam-node-create :id source-id)
+                         :target-node (org-roam-node-create :id dest-id)
+                         :point pos
+                         :properties properties))))))
+
+(defun org-roam-backlinks-sort (a b)
+  "Default sorting function for backlinks A and B.
+Sorts by title."
+  (string< (org-roam-node-title (org-roam-backlink-source-node a))
+           (org-roam-node-title (org-roam-backlink-source-node b))))
+
+(cl-defun org-roam-backlinks-section (node &key (unique nil) (show-backlink-p nil)
+                                           (section-heading "Backlinks:"))
+  "The backlinks section for NODE.
+
+When UNIQUE is nil, show all positions where references are found.
+When UNIQUE is t, limit to unique sources.
+
+When SHOW-BACKLINK-P is not null, only show backlinks for which
+this predicate is not nil.
+
+SECTION-HEADING is the string used as a heading for the backlink section."
+  (when-let ((backlinks (seq-sort #'org-roam-backlinks-sort (org-roam-backlinks-get node :unique unique))))
+    (magit-insert-section (org-roam-backlinks)
+      (magit-insert-heading section-heading)
+      (dolist (backlink backlinks)
+        (when (or (null show-backlink-p)
+                  (and (not (null show-backlink-p))
+                       (funcall show-backlink-p backlink)))
+          (org-roam-node-insert-section
+           :source-node (org-roam-backlink-source-node backlink)
+           :point (org-roam-backlink-point backlink)
+           :properties (org-roam-backlink-properties backlink))))
+      (insert ?\n))))
+
+;;;; Reflinks
+(cl-defstruct (org-roam-reflink (:constructor org-roam-reflink-create)
+                                (:copier nil))
+  source-node ref
+  point properties)
+
+(cl-defmethod org-roam-populate ((reflink org-roam-reflink))
+  "Populate REFLINK from database."
+  (setf (org-roam-reflink-source-node reflink)
+        (org-roam-populate (org-roam-reflink-source-node reflink)))
+  reflink)
+
+(defun org-roam-reflinks-get (node)
+  "Return the reflinks for NODE."
+  (let ((refs (org-roam-db-query [:select :distinct [refs:ref links:source links:pos links:properties]
+                                  :from refs
+                                  :left-join links
+                                  :where (= refs:node-id $s1)
+                                  :and (= links:dest refs:ref)
+                                  :union
+                                  :select :distinct [refs:ref citations:node-id
+                                                     citations:pos citations:properties]
+                                  :from refs
+                                  :left-join citations
+                                  :where (= refs:node-id $s1)
+                                  :and (= citations:cite-key refs:ref)]
+                                 (org-roam-node-id node)))
+        links)
+    (pcase-dolist (`(,ref ,source-id ,pos ,properties) refs)
+      (push (org-roam-populate
+             (org-roam-reflink-create
+              :source-node (org-roam-node-create :id source-id)
+              :ref ref
+              :point pos
+              :properties properties)) links))
+    links))
+
+(defun org-roam-reflinks-sort (a b)
+  "Default sorting function for reflinks A and B.
+Sorts by title."
+  (string< (org-roam-node-title (org-roam-reflink-source-node a))
+           (org-roam-node-title (org-roam-reflink-source-node b))))
+
+(defun org-roam-reflinks-section (node)
+  "The reflinks section for NODE."
+  (when-let ((refs (org-roam-node-refs node))
+             (reflinks (seq-sort #'org-roam-reflinks-sort (org-roam-reflinks-get node))))
+    (magit-insert-section (org-roam-reflinks)
+      (magit-insert-heading "Reflinks:")
+      (dolist (reflink reflinks)
+        (org-roam-node-insert-section
+         :source-node (org-roam-reflink-source-node reflink)
+         :point (org-roam-reflink-point reflink)
+         :properties (org-roam-reflink-properties reflink)))
+      (insert ?\n))))
+
+;;;; Grep
+(defvar org-roam-grep-map
+  (let ((map (make-sparse-keymap)))
+    (set-keymap-parent map org-roam-mode-map)
+    (define-key map [remap org-roam-buffer-visit-thing] 'org-roam-grep-visit)
+    map)
+  "Keymap for Org-roam grep result sections.")
+
+(defclass org-roam-grep-section (magit-section)
+  ((keymap :initform 'org-roam-grep-map)
+   (file :initform nil)
+   (row :initform nil)
+   (col :initform nil))
+  "A `magit-section' used by `org-roam-mode' to contain grep output.")
+
+(defun org-roam-grep-visit (file &optional other-window row col)
+  "Visit FILE at row ROW (if any) and column COL (if any). Return the buffer.
+With OTHER-WINDOW non-nil (in interactive calls set with
+`universal-argument') display the buffer in another window
+instead."
+  (interactive (list (org-roam-buffer-file-at-point t)
+                     current-prefix-arg
+                     (oref (magit-current-section) row)
+                     (oref (magit-current-section) col)))
+  (let ((buf (find-file-noselect file))
+        (display-buffer-fn (if other-window
+                               #'switch-to-buffer-other-window
+                             #'pop-to-buffer-same-window)))
+    (funcall display-buffer-fn buf)
+    (with-current-buffer buf
+      (widen)
+      (goto-char (point-min))
+      (when row
+        (forward-line (1- row)))
+      (when col
+        (forward-char (1- col))))
+    (when (org-invisible-p) (org-fold-show-context))
+    buf))
+
+;;;; Unlinked references
+(defvar org-roam-unlinked-references-result-re
+  (rx (group (one-or-more anything))
+      ":"
+      (group (one-or-more digit))
+      ":"
+      (group (one-or-more digit))
+      ":"
+      (group (zero-or-more anything)))
+  "Regex for the return result of a ripgrep query.")
+
+(defun org-roam-unlinked-references-preview-line (file row)
+  "Return the preview line from FILE.
+This is the ROW within FILE."
+  (with-temp-buffer
+    (insert-file-contents file)
+    (forward-line (1- row))
+    (buffer-substring-no-properties
+     (save-excursion
+       (beginning-of-line)
+       (point))
+     (save-excursion
+       (end-of-line)
+       (point)))))
+
+(defun org-roam-unlinked-references--rg-command (titles)
+  "Return the ripgrep command searching for TITLES."
+  (concat "rg --follow --only-matching --vimgrep --pcre2 --ignore-case "
+          (mapconcat (lambda (glob) (concat "--glob " glob))
+                     (org-roam--list-files-search-globs org-roam-file-extensions)
+                     " ")
+          (format " '\\[([^[]]++|(?R))*\\]%s' "
+                  (mapconcat (lambda (title)
+                               (format "|(\\b%s\\b)" (shell-quote-argument title)))
+                             titles ""))
+          (shell-quote-argument org-roam-directory)))
+
+(defun org-roam-unlinked-references-section (node)
+  "The unlinked references section for NODE.
+References from FILE are excluded."
+  (when (and (executable-find "rg")
+             (org-roam-node-title node)
+             (not (string-match "PCRE2 is not available"
+                                (shell-command-to-string "rg --pcre2-version"))))
+    (let* ((titles (cons (org-roam-node-title node)
+                         (org-roam-node-aliases node)))
+           (rg-command (org-roam-unlinked-references--rg-command titles))
+           (results (split-string (shell-command-to-string rg-command) "\n"))
+           f row col match)
+      (magit-insert-section (unlinked-references)
+        (magit-insert-heading "Unlinked References:")
+        (dolist (line results)
+          (save-match-data
+            (when (string-match org-roam-unlinked-references-result-re line)
+              (setq f (match-string 1 line)
+                    row (string-to-number (match-string 2 line))
+                    col (string-to-number (match-string 3 line))
+                    match (match-string 4 line))
+              (when (and match
+                         (not (file-equal-p (org-roam-node-file node) f))
+                         (member (downcase match) (mapcar #'downcase titles)))
+                (magit-insert-section section (org-roam-grep-section)
+                  (oset section file f)
+                  (oset section row row)
+                  (oset section col col)
+                  (insert (propertize (format "%s:%s:%s"
+                                              (truncate-string-to-width (file-name-base f) 15 nil nil t)
+                                              row col) 'font-lock-face 'org-roam-dim)
+                          " "
+                          (org-roam-fontify-like-in-org-mode
+                           (org-roam-unlinked-references-preview-line f row))
+                          "\n"))))))
+        (insert ?\n)))))
+
+(provide 'org-roam-mode)
+;;; org-roam-mode.el ends here

org-roam-utils.el

@@ -0,0 +1,458 @@
+;;; org-roam-utils.el --- Utilities for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright © 2020-2025 Jethro Kuan <jethrokuan95@gmail.com>
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; URL: https://github.com/org-roam/org-roam
+;; Keywords: org-mode, roam, convenience
+;; Version: 2.3.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.6"))
+
+;; This file is NOT part of GNU Emacs.
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation; either version 3, or (at your option)
+;; any later version.
+;;
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+;;
+;; You should have received a copy of the GNU General Public License
+;; along with GNU Emacs; see the file COPYING.  If not, write to the
+;; Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor,
+;; Boston, MA 02110-1301, USA.
+
+;;; Commentary:
+;;
+;; This library provides definitions for utilities that used throughout the
+;; whole package.
+;;
+;;; Code:
+
+(require 'org-roam)
+
+(defun org-roam-require (libs)
+  "Require LIBS."
+  (dolist (lib libs)
+    (require lib nil 'noerror)))
+
+;;; String utilities
+;; TODO Refactor this.
+(defun org-roam-replace-string (old new s)
+  "Replace OLD with NEW in S."
+  (declare (pure t) (side-effect-free t))
+  (replace-regexp-in-string (regexp-quote old) new s t t))
+
+(defun org-roam-quote-string (s)
+  "Quotes string S."
+  (->> s
+       (org-roam-replace-string "\\" "\\\\")
+       (org-roam-replace-string "\"" "\\\"")))
+
+(defun org-roam-word-wrap (len s)
+  "If S is longer than LEN, wrap the words with newlines."
+  (declare (side-effect-free t))
+  (save-match-data
+    (with-temp-buffer
+      (insert s)
+      (let ((fill-column len))
+        (fill-region (point-min) (point-max)))
+      (buffer-substring (point-min) (point-max)))))
+
+(defun org-roam-string-equal (s1 s2)
+  "Return t if S1 and S2 are equal.
+Like `string-equal', but case-insensitive."
+  (and (= (length s1) (length s2))
+       (or (string-equal s1 s2)
+           (string-equal (downcase s1) (downcase s2)))))
+
+(defun org-roam-whitespace-content (s)
+  "Return the whitespace content at the end of S."
+  (with-temp-buffer
+    (insert s)
+    (skip-chars-backward " \t\n")
+    (buffer-substring-no-properties
+     (point) (point-max))))
+
+(defun org-roam-strip-comments (s)
+  "Strip Org comments from string S."
+  (with-temp-buffer
+    (insert s)
+    (goto-char (point-min))
+    (while (not (eobp))
+      (if (org-at-comment-p)
+          (delete-region (line-beginning-position)
+                         (progn (forward-line) (point)))
+        (forward-line)))
+    (buffer-string)))
+
+;;; List utilities
+(defun org-roam-plist-map! (fn plist)
+  "Map FN over PLIST, modifying it in-place and returning it.
+FN must take two arguments: the key and the value."
+  (let ((plist-index plist))
+    (while plist-index
+      (let ((key (pop plist-index)))
+        (setf (car plist-index) (funcall fn key (car plist-index))
+              plist-index (cdr plist-index)))))
+  plist)
+
+(defmacro org-roam-dolist-with-progress (spec msg &rest body)
+  "Loop over a list and report progress in the echo area.
+Like `dolist-with-progress-reporter', but falls back to `dolist'
+if the function does not yet exist.
+
+Evaluate BODY with VAR bound to each car from LIST, in turn.
+Then evaluate RESULT to get return value, default nil.
+
+MSG is a progress reporter object or a string.  In the latter
+case, use this string to create a progress reporter.
+
+SPEC is a list, as per `dolist'."
+  (declare (indent 2))
+  (if (fboundp 'dolist-with-progress-reporter)
+      `(dolist-with-progress-reporter ,spec ,msg ,@body)
+    `(dolist ,spec ,@body)))
+
+;;; File utilities
+(defun org-roam-descendant-of-p (a b)
+  "Return t if A is descendant of B."
+  (unless (and a b (equal (file-truename a) (file-truename b)))
+    (string-prefix-p (replace-regexp-in-string "^\\([A-Za-z]\\):" 'downcase (expand-file-name b) t t)
+                     (replace-regexp-in-string "^\\([A-Za-z]\\):" 'downcase (expand-file-name a) t t))))
+
+(defmacro org-roam-with-file (file keep-buf-p &rest body)
+  "Execute BODY within FILE.
+If FILE is nil, execute BODY in the current buffer.
+Kills the buffer if KEEP-BUF-P is nil, and FILE is not yet visited."
+  (declare (indent 2) (debug t))
+  `(let* (new-buf
+          (auto-mode-alist nil)
+          (find-file-hook nil)
+          (buf (or (and (not ,file)
+                        (current-buffer)) ;If FILE is nil, use current buffer
+                   (find-buffer-visiting ,file) ; If FILE is already visited, find buffer
+                   (progn
+                     (setq new-buf t)
+                     (find-file-noselect ,file)))) ; Else, visit FILE and return buffer
+          res)
+     (with-current-buffer buf
+       (unless (derived-mode-p 'org-mode)
+         (delay-mode-hooks
+           (let ((org-inhibit-startup t)
+                 (org-agenda-files nil))
+             (org-mode)
+             (hack-local-variables))))
+       (setq res (progn ,@body))
+       (unless (and new-buf (not ,keep-buf-p))
+         (save-buffer)))
+     (if (and new-buf (not ,keep-buf-p))
+         (when (find-buffer-visiting ,file)
+           (kill-buffer (find-buffer-visiting ,file))))
+     res))
+
+;;; Buffer utilities
+(defmacro org-roam-with-temp-buffer (file &rest body)
+  "Execute BODY within a temp buffer.
+Like `with-temp-buffer', but propagates `org-roam-directory'.
+If FILE, set `default-directory' to FILE's directory and insert its contents."
+  (declare (indent 1) (debug t))
+  (let ((current-org-roam-directory (make-symbol "current-org-roam-directory")))
+    `(let ((,current-org-roam-directory org-roam-directory))
+       (with-temp-buffer
+         (let ((org-roam-directory ,current-org-roam-directory))
+           (delay-mode-hooks (org-mode))
+           (when ,file
+             (insert-file-contents ,file)
+             (setq-local default-directory (file-name-directory ,file)))
+           ,@body)))))
+
+;;; Formatting
+(defun org-roam-format-template (template replacer)
+  "Format TEMPLATE with the function REPLACER.
+The templates are of form ${foo} for variable foo, and
+${foo=default} for variable foo with default value \"default\".
+REPLACER takes an argument of the format variable and the default
+value (possibly nil). Adapted from `s-format'."
+  (let ((saved-match-data (match-data)))
+    (unwind-protect
+        (replace-regexp-in-string
+         "\\${\\([^}]+\\)}"
+         (lambda (md)
+           (let ((var (match-string 1 md))
+                 (replacer-match-data (match-data))
+                 default-val)
+             (when (string-match "\\(.+\\)=\\(.+\\)" var)
+               (setq default-val (match-string 2 var)
+                     var (match-string 1 var)))
+             (unwind-protect
+                 (let ((v (progn
+                            (set-match-data saved-match-data)
+                            (funcall replacer var default-val))))
+                   (if v
+                       (format (apply #'propertize "%s" (text-properties-at 0 var)) v)
+                     (signal 'org-roam-format-resolve md)))
+               (set-match-data replacer-match-data))))
+         (if (functionp template)
+             (funcall template)
+           template)
+         ;; Need literal to make sure it works
+         t t)
+      (set-match-data saved-match-data))))
+
+;;; Fontification
+(defvar org-ref-buffer-hacked)
+
+(defun org-roam-fontify-like-in-org-mode (s)
+  "Fontify string S like in Org mode.
+Like `org-fontify-like-in-org-mode', but supports `org-ref'."
+  ;; NOTE: pretend that the temporary buffer created by `org-fontify-like-in-org-mode' to
+  ;; fontify a `cite:' reference has been hacked by org-ref, whatever that means;
+  ;;
+  ;; `org-ref-cite-link-face-fn', which is used to supply a face for `cite:' links, calls
+  ;; `hack-dir-local-variables' rationalizing that `bibtex-completion' would throw some warnings
+  ;; otherwise.  This doesn't seem to be the case and calling this function just before
+  ;; `org-font-lock-ensure' (alias of `font-lock-ensure') actually instead of fixing the alleged
+  ;; warnings messes the things so badly that `font-lock-ensure' crashes with error and doesn't let
+  ;; org-roam to proceed further. I don't know what's happening there exactly but disabling this hackery
+  ;; fixes the crashing.  Fortunately, org-ref provides the `org-ref-buffer-hacked' switch, which we use
+  ;; here to make it believe that the buffer was hacked.
+  ;;
+  ;; This is a workaround for `cite:' links and does not have any effect on other ref types.
+  ;;
+  ;; `org-ref-buffer-hacked' is a buffer-local variable, therefore we inline
+  ;; `org-fontify-like-in-org-mode' here
+  (with-temp-buffer
+    (insert s)
+    (let ((org-ref-buffer-hacked t))
+      (org-mode)
+      (setq-local org-fold-core-style 'overlays)
+      (font-lock-ensure)
+      (buffer-string))))
+
+;;; Org-mode utilities
+;;;; Motions
+(defun org-roam-up-heading-or-point-min ()
+  "Fixed version of Org's `org-up-heading-or-point-min'."
+  (ignore-errors (org-back-to-heading t))
+  (let ((p (point)))
+    (if (< 1 (funcall outline-level))
+        (progn
+          (org-up-heading-safe)
+          (when (= (point) p)
+            (goto-char (point-min))))
+      (unless (bobp) (goto-char (point-min))))))
+
+;;;; Keywords
+(defun org-roam-get-keyword (name &optional file bound)
+  "Return keyword property NAME from an org FILE.
+FILE defaults to current file.
+Only scans up to BOUND bytes of the document."
+  (unless bound
+    (setq bound 1024))
+  (if file
+      (with-temp-buffer
+        (insert-file-contents file nil 0 bound)
+        (org-roam--get-keyword name))
+    (org-roam--get-keyword name bound)))
+
+(defun org-roam--get-keyword (name &optional bound)
+  "Return keyword property NAME in current buffer.
+If BOUND, scan up to BOUND bytes of the buffer."
+  (save-excursion
+    (let ((re (format "^#\\+%s:[ \t]*\\([^\n]+\\)" (upcase name))))
+      (goto-char (point-min))
+      (when (re-search-forward re bound t)
+        (buffer-substring-no-properties (match-beginning 1) (match-end 1))))))
+
+(defun org-roam-end-of-meta-data (&optional full)
+  "Like `org-end-of-meta-data', but supports file-level metadata.
+
+When FULL is non-nil but not t, skip planning information,
+properties, clocking lines and logbook drawers.
+
+When optional argument FULL is t, skip everything above, and also
+skip keywords."
+  (org-back-to-heading-or-point-min t)
+  (when (org-at-heading-p) (forward-line))
+  ;; Skip planning information.
+  (when (looking-at-p org-planning-line-re) (forward-line))
+  ;; Skip property drawer.
+  (when (looking-at org-property-drawer-re)
+    (goto-char (match-end 0))
+    (forward-line))
+  ;; When FULL is not nil, skip more.
+  (when (and full (not (org-at-heading-p)))
+    (catch 'exit
+      (let ((end (save-excursion (outline-next-heading) (point)))
+            (re (concat "[ \t]*$" "\\|" org-clock-line-re)))
+        (while (not (eobp))
+          (cond ;; Skip clock lines.
+           ((looking-at-p re) (forward-line))
+           ;; Skip logbook drawer.
+           ((looking-at-p org-logbook-drawer-re)
+            (if (re-search-forward "^[ \t]*:END:[ \t]*$" end t)
+                (forward-line)
+              (throw 'exit t)))
+           ((looking-at-p org-drawer-regexp)
+            (if (re-search-forward "^[ \t]*:END:[ \t]*$" end t)
+                (forward-line)
+              (throw 'exit t)))
+           ;; When FULL is t, skip keywords too.
+           ((and (eq full t)
+                 (looking-at-p org-keyword-regexp))
+            (forward-line))
+           (t (throw 'exit t))))))))
+
+(defun org-roam-set-keyword (key value)
+  "Set keyword KEY to VALUE.
+If the property is already set, it's value is replaced."
+  (org-with-point-at 1
+    (let ((case-fold-search t))
+      (if (re-search-forward (concat "^#\\+" key ":\\(.*\\)") (point-max) t)
+          (if (string-blank-p value)
+              (kill-whole-line)
+            (replace-match (concat " " value) 'fixedcase nil nil 1))
+        (org-roam-end-of-meta-data 'drawers)
+        (if (save-excursion (end-of-line) (eobp))
+            (progn
+              (end-of-line)
+              (insert "\n"))
+          (forward-line)
+          (beginning-of-line))
+        (insert "#+" key ": " value "\n")))))
+
+(defun org-roam-erase-keyword (keyword)
+  "Erase the line where the KEYWORD is, setting line from the top of the file."
+  (let ((case-fold-search t))
+    (org-with-point-at 1
+      (when (re-search-forward (concat "^#\\+" keyword ":") nil t)
+        (beginning-of-line)
+        (delete-region (point) (line-end-position))
+        (delete-char 1)))))
+
+;;;; Properties
+(defun org-roam-add-property (val prop)
+  "Add VAL value to PROP property for the node at point.
+Both, VAL and PROP are strings."
+  (org-roam-property-add prop val))
+
+(defun org-roam-remove-property (prop &optional val)
+  "Remove VAL value from PROP property for the node at point.
+Both VAL and PROP are strings.
+
+If VAL is not specified, user is prompted to select a value."
+  (org-roam-property-remove prop val))
+
+(defun org-roam-property-add (prop val)
+  "Add VAL value to PROP property for the node at point.
+Both, VAL and PROP are strings."
+  (let* ((p (org-entry-get (point) prop))
+         (lst (when p (split-string-and-unquote p)))
+         (lst (if (memq val lst) lst (cons val lst)))
+         (lst (seq-uniq lst)))
+    (org-set-property prop (combine-and-quote-strings lst))
+    val))
+
+(defun org-roam-property-remove (prop &optional val)
+  "Remove VAL value from PROP property for the node at point.
+Both VAL and PROP are strings.
+
+If VAL is not specified, user is prompted to select a value."
+  (let* ((p (org-entry-get (point) prop))
+         (lst (when p (split-string-and-unquote p)))
+         (prop-to-remove (or val (completing-read "Remove: " lst)))
+         (lst (delete prop-to-remove lst)))
+    (if lst
+        (org-set-property prop (combine-and-quote-strings lst))
+      (org-delete-property prop))
+    prop-to-remove))
+
+;;; Refs
+(defun org-roam-org-ref-path-to-keys (path)
+  "Return a list of keys given an org-ref cite: PATH.
+Accounts for both v2 and v3."
+  (cond ((fboundp 'org-ref-parse-cite-path)
+         (mapcar (lambda (cite) (plist-get cite :key))
+                 (plist-get (org-ref-parse-cite-path path) :references)))
+        ((fboundp 'org-ref-split-and-strip-string)
+         (org-ref-split-and-strip-string path))))
+
+;;; Logs
+(defvar org-roam-verbose)
+(defun org-roam-message (format-string &rest args)
+  "Pass FORMAT-STRING and ARGS to `message' when `org-roam-verbose' is t."
+  (when org-roam-verbose
+    (apply #'message `(,(concat "(org-roam) " format-string) ,@args))))
+
+;;; Diagnostics
+;; TODO Update this to also get commit hash
+;;;###autoload
+(defun org-roam-version (&optional message)
+  "Return `org-roam' version.
+Interactively, or when MESSAGE is non-nil, show in the echo area."
+  (interactive)
+  (let* ((toplib (or load-file-name buffer-file-name))
+         gitdir topdir version)
+    (unless (and toplib (equal (file-name-nondirectory toplib) "org-roam-utils.el"))
+      (setq toplib (locate-library "org-roam-utils.el")))
+    (setq toplib (and toplib (org-roam--straight-chase-links toplib)))
+    (when toplib
+      (setq topdir (file-name-directory toplib)
+            gitdir (expand-file-name ".git" topdir)))
+    (when (file-exists-p gitdir)
+      (setq version
+            (let ((default-directory topdir))
+              (shell-command-to-string "git describe --tags --dirty --always"))))
+    (unless version
+      (setq version (with-temp-buffer
+                      (insert-file-contents-literally (locate-library "org-roam.el"))
+                      (goto-char (point-min))
+                      (save-match-data
+                        (if (re-search-forward "\\(?:;; Version: \\([^z-a]*?$\\)\\)" nil nil)
+                            (substring-no-properties (match-string 1))
+                          "N/A")))))
+    (if (or message (called-interactively-p 'interactive))
+        (message "%s" version)
+      version)))
+
+(defun org-roam--straight-chase-links (filename)
+  "Chase links in FILENAME until a name that is not a link.
+
+This is the same as `file-chase-links', except that it also
+handles fake symlinks that are created by the package manager
+straight.el on Windows.
+
+See <https://github.com/raxod502/straight.el/issues/520>."
+  (when (and (bound-and-true-p straight-symlink-emulation-mode)
+             (fboundp 'straight-chase-emulated-symlink))
+    (when-let ((target (straight-chase-emulated-symlink filename)))
+      (unless (eq target 'broken)
+        (setq filename target))))
+  (file-chase-links filename))
+
+;;;###autoload
+(defun org-roam-diagnostics ()
+  "Collect and print info for `org-roam' issues."
+  (interactive)
+  (with-current-buffer (switch-to-buffer-other-window (get-buffer-create "*org-roam diagnostics*"))
+    (erase-buffer)
+    (insert (propertize "Copy info below this line into issue:\n" 'face '(:weight bold)))
+    (insert (format "- Emacs: %s\n" (emacs-version)))
+    (insert (format "- Framework: %s\n"
+                    (condition-case _
+                        (completing-read "I'm using the following Emacs framework:"
+                                         '("Doom" "Spacemacs" "N/A" "I don't know"))
+                      (quit "N/A"))))
+    (insert (format "- Org: %s\n" (org-version nil 'full)))
+    (insert (format "- Org-roam: %s" (org-roam-version)))
+    (insert (format "- sqlite-connector: %s"
+                    (if-let ((conn (org-roam-db--get-connection)))
+                        (eieio-object-class conn)
+                      "not connected")))))
+
+(provide 'org-roam-utils)
+;;; org-roam-utils.el ends here

shell.nix

@@ -1,10 +0,0 @@
-let
-  pkgs = import <nixpkgs> {};
-in
-pkgs.mkShell {
-  name = "docs";
-  buildInput = with pkgs; [
-    mkdocs
-    python3Packages.alabaster
-  ];
-}

tests/roam-files/bar.org

@@ -0,0 +1,6 @@
+:PROPERTIES:
+:ID:       440795d0-70c1-4165-993d-aebd5eef7a24
+:END:
+#+title: Bar
+
+[[id:884b2341-b7fe-434d-848c-5282c0727861][Foo]]

tests/roam-files/demoteable.org

@@ -0,0 +1,8 @@
+:PROPERTIES:
+:ID: 97bf31cf-dfee-45d8-87a5-2ae0dabc4734
+:END:
+#+title: Demoteable
+
+* Demoteable h1
+
+** Demoteable child

tests/roam-files/family.org

@@ -0,0 +1,19 @@
+:PROPERTIES:
+:ID: 998b2341-b7fe-434d-848c-5282c0727870
+:END:
+#+title: Family
+
+* Grand-Parent
+:PROPERTIES:
+:ID: 77a90980-1994-464e-901f-7e3d3df07fd3
+:END:
+
+** Parent
+:PROPERTIES:
+:ID: 0fa5bb3e-3d8c-4966-8bc9-78d32e505d69
+:END:
+
+*** Child
+:PROPERTIES:
+:ID: 5fb4fdc5-b6d2-4f75-8d54-e60053e467ec
+:END:

tests/roam-files/foo.org

@@ -0,0 +1,4 @@
+:PROPERTIES:
+:ID:       884b2341-b7fe-434d-848c-5282c0727861
+:END:
+#+title: Foo

tests/roam-files/promoteable.org

@@ -0,0 +1,3 @@
+* Promoteable h1
+
+** Promoteable child

tests/roam-files/ref_with_space.org

@@ -0,0 +1,7 @@
+:PROPERTIES:
+:ROAM_REFS: "http://site.net/docs/01. introduction - hello world.html"
+:ID: 5b9a7400-f59c-4ef9-acbb-045b69af98f1
+:END:
+#+title: ref with space
+* Note
+hello

tests/roam-files/roam-exclude.org

@@ -0,0 +1,7 @@
+:PROPERTIES:
+:ID:       53fadc75-f48e-461e-be06-44a1e88b2abe
+:ROAM_EXCLUDE: t
+:END:
+#+TITLE: Excluded by Org-roam
+
+This node is excluded by declaring ~ROAM_EXCLUDE: t~.

tests/roam-files/with-alias.org

@@ -0,0 +1,5 @@
+:PROPERTIES:
+:ID: 57ff3ce7-5bda-4825-8fca-c09f523e87ba
+:ROAM_ALIASES: Batman
+:END:
+#+title: Bruce Wayne

tests/roam-files/with-times.org

@@ -0,0 +1,16 @@
+:PROPERTIES:
+:ID: 9a20ca6c-5555-41c9-a039-ac38bf59c7a9
+:END:
+#+title: With Times
+
+* Scheduled heading
+SCHEDULED: <2024-07-16 Tue>
+:PROPERTIES:
+:ID: a523c198-4cb4-44d2-909c-a0e3258089cd
+:END:
+
+* Deadline heading
+DEADLINE: <2024-07-17 Tue>
+:PROPERTIES:
+:ID: 3ab84701-d1c1-463f-b5c6-715e6ff5a0bf
+:END:

tests/test-org-roam-capture.el

@@ -0,0 +1,63 @@
+;;; test-org-roam-capture.el --- Tests for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2020 Jethro Kuan
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; Package-Requires: ((buttercup))
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+;;; Code:
+
+(require 'buttercup)
+(require 'org-roam)
+
+(describe "org-roam-capture--fill-template"
+  (it "fills template without newline"
+    (expect
+     (org-roam-capture--fill-template "foo")
+     :to-equal "foo"))
+
+  (it "fills template ensuring newline"
+    (expect
+     (org-roam-capture--fill-template "foo" 'ensure-newline)
+     :to-equal "foo\n"))
+
+  (it "fills template with newline"
+    (expect
+     (org-roam-capture--fill-template "foo\n")
+     :to-equal "foo\n"))
+
+  (it "fills template with two newlines"
+    (expect
+     (org-roam-capture--fill-template "foo\n\n")
+     :to-equal "foo\n\n")
+    (expect
+     (org-roam-capture--fill-template "foo\n\t\n")
+     :to-equal "foo\n\t\n"))
+
+  (it "fills template without deleting newlines in its body"
+    (expect
+     (org-roam-capture--fill-template "foo\n\n\nbar\n\n")
+     :to-equal "foo\n\n\nbar\n\n"))
+
+  (it "expands templates when it's a function"
+    (expect
+     (org-roam-capture--fill-template (lambda () "foo"))
+     :to-equal "foo")))
+
+(provide 'test-org-roam-capture)
+
+;;; test-org-roam-capture.el ends here

tests/test-org-roam-db.el

@@ -0,0 +1,120 @@
+;;; test-org-roam-db.el --- Tests for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2020 Jethro Kuan
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; Package-Requires: ((buttercup))
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+;;; Code:
+
+(require 'buttercup)
+(require 'org-roam)
+
+(defvar root-directory default-directory)
+
+(describe "org-roam-db-get-scheduled-time"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location)
+    (cd root-directory))
+
+  (it "should get scheduled time for current heading node"
+    (org-roam-id-open "a523c198-4cb4-44d2-909c-a0e3258089cd" nil)
+    (expect (org-roam-db-get-scheduled-time) :to-equal "2024-07-16T00:00:00")))
+
+(describe "org-roam-db-get-deadline-time"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location)
+    (cd root-directory))
+
+  (it "should get deadline time for current heading node"
+    (org-roam-id-open "3ab84701-d1c1-463f-b5c6-715e6ff5a0bf" nil)
+    (expect (org-roam-db-get-deadline-time) :to-equal "2024-07-17T00:00:00")))
+
+(describe "org-roam-db--file-hash"
+  (it "computes the SHA1 of file"
+    (expect (org-roam-db--file-hash "tests/roam-files/family.org")
+            :to-equal
+            "c4ebf8918c1533df72e4d182cbf1bbd90f776b3b")))
+
+(describe "org-roam-db-sync"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location))
+
+  (it "has the correct number of files"
+    (expect (caar (org-roam-db-query [:select (funcall count) :from files]))
+            :to-equal
+            9))
+
+  (it "has the correct number of nodes"
+    (expect (caar (org-roam-db-query [:select (funcall count) :from nodes]))
+            :to-equal
+            12))
+
+  (it "has the correct number of links"
+    (expect (caar (org-roam-db-query [:select (funcall count) :from links]))
+            :to-equal
+            1))
+
+  (it "respects ROAM_EXCLUDE"
+    ;; The excluded node has ID "53fadc75-f48e-461e-be06-44a1e88b2abe"
+    (expect (mapcar #'car (org-roam-db-query [:select id :from nodes]))
+            :to-have-same-items-as
+            '("884b2341-b7fe-434d-848c-5282c0727861"
+              "440795d0-70c1-4165-993d-aebd5eef7a24"
+              "5b9a7400-f59c-4ef9-acbb-045b69af98f1"
+              "0fa5bb3e-3d8c-4966-8bc9-78d32e505d69"
+              "5fb4fdc5-b6d2-4f75-8d54-e60053e467ec"
+              "77a90980-1994-464e-901f-7e3d3df07fd3"
+              "57ff3ce7-5bda-4825-8fca-c09f523e87ba"
+              "998b2341-b7fe-434d-848c-5282c0727870"
+              "a523c198-4cb4-44d2-909c-a0e3258089cd"
+              "3ab84701-d1c1-463f-b5c6-715e6ff5a0bf"
+              "9a20ca6c-5555-41c9-a039-ac38bf59c7a9"
+              "97bf31cf-dfee-45d8-87a5-2ae0dabc4734")))
+
+  (it "reads ref in quotes correctly"
+    (expect (mapcar #'car (org-roam-db-query [:select [ref] :from refs]))
+            :to-have-same-items-as
+            '("//site.net/docs/01. introduction - hello world.html"))))
+
+(provide 'test-org-roam-db)
+
+;;; test-org-roam-db.el ends here

tests/test-org-roam-id.el

@@ -0,0 +1,79 @@
+;;; test-org-roam-id.el --- Tests for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2020 Jethro Kuan
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; Package-Requires: ((buttercup))
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+;;; Code:
+
+(require 'buttercup)
+(require 'org-roam)
+
+(defvar root-directory default-directory)
+
+(describe "org-roam-id-at-point"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location)
+    (cd root-directory))
+
+  (it "returns the correct node ids"
+    (find-file "tests/roam-files/family.org" nil)
+    (expect (org-roam-id-at-point) :to-equal "998b2341-b7fe-434d-848c-5282c0727870")
+
+    (search-forward "Grand")
+    (expect (org-roam-id-at-point) :to-equal "77a90980-1994-464e-901f-7e3d3df07fd3")
+
+    (search-forward "Child")
+    (expect (org-roam-id-at-point) :to-equal "5fb4fdc5-b6d2-4f75-8d54-e60053e467ec")))
+
+(describe "org-roam-id-find"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location))
+
+  (it "finds nothing for non-existing node"
+    (expect (org-roam-id-find "non-existing") :to-equal nil))
+
+  (it "finds the correct file node"
+    (let ((location (org-roam-id-find "884b2341-b7fe-434d-848c-5282c0727861")))
+      (expect (car location) :to-match ".*/tests/roam-files/foo.org")
+      (expect (cdr location) :to-equal 1)))
+
+  (it "finds the correct heading node"
+    (let ((location (org-roam-id-find "0fa5bb3e-3d8c-4966-8bc9-78d32e505d69")))
+      (expect (car location) :to-match ".*/tests/roam-files/family.org")
+      (expect (cdr location) :to-equal 156))))
+
+(provide 'test-org-roam-id)
+
+;;; test-org-roam-id.el ends here

tests/test-org-roam-mode.el

@@ -0,0 +1,39 @@
+;;; test-org-roam-mode.el --- Tests for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2020 Jethro Kuan
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; Package-Requires: ((buttercup))
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+;;; Code:
+
+(require 'buttercup)
+(require 'org-roam)
+
+(describe "org-roam-unlinked-references--rg-command"
+  (before-each
+    ;; the space in the directory is on purpose
+    (setq org-roam-directory "/tmp/org roam"))
+
+  (it "returns the correct rg command for unlinked references"
+    (expect (org-roam-unlinked-references--rg-command '("foo" "bar"))
+            :to-equal
+            "rg --follow --only-matching --vimgrep --pcre2 --ignore-case --glob \"*.org\" --glob \"*.org.gpg\" --glob \"*.org.age\" '\\[([^[]]++|(?R))*\\]|(\\bfoo\\b)|(\\bbar\\b)' /tmp/org\\ roam")))
+
+(provide 'test-org-roam-mode)
+
+;;; test-org-roam-mode.el ends here

tests/test-org-roam-node.el

@@ -0,0 +1,164 @@
+;;; test-org-roam-node.el --- Tests for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2020 Jethro Kuan
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; Package-Requires: ((buttercup))
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+;;; Code:
+
+(require 'buttercup)
+(require 'org-roam)
+
+(defvar root-directory default-directory)
+
+(describe "org-roam-node-from-id"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location))
+
+  (it "returns nil for unknown id"
+    (expect (org-roam-node-from-id "non-existing") :to-equal nil))
+
+  (it "returns correct node from id"
+    (let ((node (org-roam-node-from-id "884b2341-b7fe-434d-848c-5282c0727861")))
+      (expect (org-roam-node-title node) :to-equal "Foo"))))
+
+(describe "org-roam-node-from-title-or-alias"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location))
+
+  (it "returns nil for unknown title"
+    (expect (org-roam-node-from-title-or-alias "non-existing") :to-equal nil))
+
+  (it "returns correct node from title"
+    (let ((node (org-roam-node-from-title-or-alias "Foo")))
+      (expect (org-roam-node-title node) :to-equal "Foo")))
+
+  (it "returns correct node from alias"
+    (let ((node (org-roam-node-from-title-or-alias "Batman")))
+      (expect (org-roam-node-title node) :to-equal "Bruce Wayne")))
+
+  (it "returns correct node from alias with nocase"
+    (let ((node (org-roam-node-from-title-or-alias "batman" t)))
+      (expect (org-roam-node-title node) :to-equal "Bruce Wayne"))))
+
+(describe "org-roam-demote-entire-buffer"
+  (after-each
+    (cd root-directory))
+
+  (it "demotes an entire org buffer"
+    (find-file "tests/roam-files/demoteable.org" nil)
+    (org-roam-demote-entire-buffer)
+    (expect (buffer-substring-no-properties (point) (point-max))
+            :to-equal "* Demoteable\n:PROPERTIES:\n:ID: 97bf31cf-dfee-45d8-87a5-2ae0dabc4734\n:END:\n\n** Demoteable h1\n\n*** Demoteable child\n")))
+
+(describe "org-roam--h1-count"
+  (after-each
+    (cd root-directory))
+
+  (it "returns the correct number of level-1 headings"
+    (find-file "tests/roam-files/foo.org" nil)
+    (expect (org-roam--h1-count) :to-equal 0)
+
+    (cd root-directory)
+
+    (find-file "tests/roam-files/family.org" nil)
+    (expect (org-roam--h1-count) :to-equal 1)))
+
+(describe "org-roam--buffer-promoteable-p"
+  (after-each
+    (cd root-directory))
+
+  (it "should check if buffer is promoteable"
+    (find-file "tests/roam-files/foo.org" nil)
+    (expect (org-roam--buffer-promoteable-p) :to-equal nil)
+
+    (cd root-directory)
+
+    (find-file "tests/roam-files/family.org" nil)
+    (expect (org-roam--buffer-promoteable-p) :to-equal nil)
+
+    (cd root-directory)
+
+    (find-file "tests/roam-files/promoteable.org" nil)
+    (expect (org-roam--buffer-promoteable-p) :to-equal t)))
+
+(describe "org-roam--get-titles"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location))
+
+  (it "returns the list of titles and aliases"
+    (expect (org-roam--get-titles)
+            :to-have-same-items-as
+            `("Bar" "Batman" "Bruce Wayne" "Child" "Deadline heading" "Demoteable" "Family"
+              "Foo" "Grand-Parent" "Parent" "ref with space" "Scheduled heading" "With Times"))))
+
+
+(describe "org-roam-alias"
+  (before-all
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil)
+    (org-roam-db-sync))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location)
+    (cd root-directory))
+
+  (it "adds an alias to a node"
+    (cd root-directory)
+    (find-file "tests/roam-files/foo.org" nil)
+    (org-roam-alias-add "qux")
+    (expect (buffer-substring-no-properties (point) (point-max))
+            :to-equal ":PROPERTIES:\n:ID:       884b2341-b7fe-434d-848c-5282c0727861\n:ROAM_ALIASES: qux\n:END:\n#+title: Foo\n"))
+
+  (it "removes an alias from a node"
+    (cd root-directory)
+    (find-file "tests/roam-files/with-alias.org" nil)
+    (org-roam-alias-remove "Batman")
+    (expect (buffer-substring-no-properties (point) (point-max))
+            :to-equal ":PROPERTIES:\n:ID: 57ff3ce7-5bda-4825-8fca-c09f523e87ba\n:END:\n#+title: Bruce Wayne\n")))
+
+(provide 'test-org-roam-node)
+
+;;; test-org-roam-node.el ends here

tests/test-org-roam-utils.el

@@ -0,0 +1,64 @@
+;;; test-org-roam-utils.el --- Tests for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2020 Jethro Kuan
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; Package-Requires: ((buttercup))
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+;;; Code:
+
+(require 'buttercup)
+(require 'org-roam)
+
+(describe "org-roam-whitespace-content"
+  (it "extracts whitespace correctly"
+    (expect
+     (org-roam-whitespace-content "foo")
+     :to-equal "")
+    (expect
+     (org-roam-whitespace-content "foo\n")
+     :to-equal "\n")
+    (expect
+     (org-roam-whitespace-content "foo\n\t\n")
+     :to-equal "\n\t\n")))
+
+(describe "org-roam-db--file-title"
+  (it "supports normal titles"
+    (expect
+     (with-temp-buffer
+       (insert "#+title:normal title")
+       (org-roam-db--file-title))
+     :to-equal "normal title"))
+  (it "supports multi-line titles"
+    (expect
+     (with-temp-buffer
+       (insert "#+title: title:\n#+title: separated by newline")
+       (org-roam-db--file-title))
+     :to-equal "title: separated by newline"))
+  (it "supports file-name based titles"
+    (progn
+      (setq org-roam-directory temporary-file-directory
+            org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+            org-roam-file-extensions '("org"))
+      (with-temp-buffer
+        (write-file (expand-file-name "test file.org" org-roam-directory))
+        (org-roam-db--file-title)))
+    :to-equal "test file"))
+
+(provide 'test-org-roam-utils)
+
+;;; test-org-roam-utils.el ends here

tests/test-org-roam.el

@@ -0,0 +1,82 @@
+;;; test-org-roam.el --- Tests for Org-roam -*- lexical-binding: t; -*-
+
+;; Copyright (C) 2020 Jethro Kuan
+
+;; Author: Jethro Kuan <jethrokuan95@gmail.com>
+;; Package-Requires: ((buttercup))
+
+;; This program is free software; you can redistribute it and/or modify
+;; it under the terms of the GNU General Public License as published by
+;; the Free Software Foundation, either version 3 of the License, or
+;; (at your option) any later version.
+
+;; This program is distributed in the hope that it will be useful,
+;; but WITHOUT ANY WARRANTY; without even the implied warranty of
+;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+;; GNU General Public License for more details.
+
+;; You should have received a copy of the GNU General Public License
+;; along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+;;; Commentary:
+;;; Code:
+
+(require 'buttercup)
+(require 'org-roam)
+
+(defvar root-directory default-directory)
+
+(describe "org-roam-file-p"
+  (it "checks if given file respects criteria"
+    (setq org-roam-directory "/non-existent")
+    (expect (org-roam-file-p "tests/roam-files/family.org") :to-equal nil)
+
+    (setq org-roam-directory (expand-file-name "tests/roam-files"))
+    (expect (org-roam-file-p "tests/roam-files/family.org") :to-equal t)
+    (expect (org-roam-file-p "tests/roam-files/markdown.md") :to-equal nil)
+
+    (setq org-roam-file-exclude-regexp (regexp-quote "family.org"))
+    (expect (org-roam-file-p "tests/roam-files/family.org") :to-equal nil)))
+
+(describe "org-roam-buffer-p"
+  (it "checks if current buffer respects criteria"
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-file-exclude-regexp nil)
+    (find-file "tests/roam-files/family.org" nil)
+    (expect (org-roam-buffer-p) :to-equal t)
+    (cd root-directory)))
+
+(describe "org-roam-list-files"
+  (before-each
+    (setq org-roam-directory (expand-file-name "tests/roam-files")
+          org-roam-db-location (expand-file-name "org-roam.db" temporary-file-directory)
+          org-roam-file-extensions '("org")
+          org-roam-file-exclude-regexp nil))
+
+  (after-all
+    (org-roam-db--close)
+    (delete-file org-roam-db-location))
+
+  (it "gets files correctly"
+    (expect (length (org-roam-list-files)) :to-equal 9))
+
+  (it "respects org-roam-file-extensions"
+    (setq org-roam-file-extensions '("md"))
+    (expect (length (org-roam-list-files)) :to-equal 1)
+    (setq org-roam-file-extensions '("org" "md"))
+    (expect (length (org-roam-list-files)) :to-equal 10))
+
+  (it "respects org-roam-file-exclude-regexp"
+    (setq org-roam-file-exclude-regexp (regexp-quote "foo.org"))
+    (expect (length (org-roam-list-files)) :to-equal 8)))
+
+(describe "org-roam--list-files-search-globs"
+
+  (it "returns the correct list of globs"
+    (expect (org-roam--list-files-search-globs org-roam-file-extensions)
+            :to-have-same-items-as
+            '("\"*.org\"" "\"*.org.gpg\"" "\"*.org.age\""))))
+
+(provide 'test-org-roam)
+
+;;; test-org-roam.el ends here