(release): bump 2021 -> 2022, 2.1.0 -> 2.2.0

(fix): hotfix changelog
(release): 2.2.0 (#2037 )
2025-08-03 12:27:23 -05:00 · 2022-01-14 10:53:56 -08:00 · 2022-01-14 10:51:06 -08:00 · 2022-01-14 10:50:21 -08:00 · 2022-01-11 15:05:27 -08:00 · 2022-01-11 14:13:40 -08:00
18 changed files with 1558 additions and 701 deletions
--- a/.dir-locals.el
+++ b/.dir-locals.el
@ -5,9 +5,9 @@
  (elisp-lint-indent-specs . ((describe . 1)
                              (it . 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)
-                              (->> . 1)
                              (org-roam-with-file . 2)))))
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@ -1,7 +1,39 @@
 # Changelog

+## 2.2.0
+### 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
 ### 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`
--- a/README.md
+++ b/README.md
@ -39,7 +39,7 @@ detailed information, please read the [manual][docs].

 ### Using `package.el`
 <details>
-<summary>Toggle instuctions</summary>
+<summary>Toggle instructions</summary>

 You can install `org-roam` from [MELPA](https://melpa.org/) or [MELPA
 Stable](https://stable.melpa.org/) using `package.el`:
@ -75,7 +75,7 @@ to the directory.

 ### Using `straight.el`
 <details>
-<summary>Toggle instuctions</summary>
+<summary>Toggle instructions</summary>

 Installation from MELPA or MELPA Stable using `straight.el`:

@ -115,7 +115,7 @@ next sample will get you there:

 ### Using Doom Emacs
 <details>
-<summary>Toggle instuctions</summary>
+<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
@ -249,6 +249,6 @@ General Public License, Version 3.
 [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-deoqamys-043YQ~s5Tay3iJ5QRI~Lxg
+[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
--- a/doc/index.html
+++ b/doc/index.html
@ -95,7 +95,7 @@
        <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-deoqamys-043YQ~s5Tay3iJ5QRI~Lxg">Slack</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>
@ -151,7 +151,7 @@
        <div class="row">
          <a
            class="content footer-links"
-            href="https://join.slack.com/t/orgroam/shared_invite/zt-deoqamys-043YQ~s5Tay3iJ5QRI~Lxg"
+            href="https://join.slack.com/t/orgroam/shared_invite/zt-wuoize1z-x3UyQnQ0WHF0RhuEQ2NLnQ"
            >Slack</a
          >
        </div>
--- a/doc/org-roam.org
+++ b/doc/org-roam.org
@ -1,20 +1,20 @@
 #+title: Org-roam User Manual
 #+author: Jethro Kuan
 #+email: jethrokuan95@gmail.com
-#+date: 2020-2021
+#+date: 2020-2022
 #+language: en

 #+texinfo_deffn: t
 #+texinfo_dir_category: Emacs
 #+texinfo_dir_title: Org-roam: (org-roam).
 #+texinfo_dir_desc: Roam Research for Emacs.
-#+subtitle: for version 2.1.0
+#+subtitle: for version 2.2.0

 #+options: H:4 num:3 toc:nil creator:t ':t
 #+property: header-args :eval never
 #+texinfo: @noindent

-This manual is for Org-roam version 2.1.0.
+This manual is for Org-roam version 2.2.0.

 #+BEGIN_QUOTE
 Copyright (C) 2020-2021 Jethro Kuan <jethrokuan95@gmail.com>
@ -288,29 +288,25 @@ in your Emacs environment as a prerequisite for Org-roam when you install it.
 ~emacsql-sqlite~ requires a C compiler (e.g. ~gcc~ or ~clang~) to be present in
 your computer. How to install a C compiler depends on the OS that you use.

- For Windows:
+**** C Compiler for Windows

-There are various ways to install one, depending on how you have installed
-Emacs. If you use Emacs within a Cygwin or MinGW environment, then you should
-install a compiler using their respective package manager.
+One of the easiest ways to install a C compiler in Windows is to use [[https://www.msys2.org/][MSYS2]] as at the time of this writing:

-If you have installed your Emacs from the [[https://www.gnu.org/software/emacs/][GNU Emacs website]], then the easiest way
-is to use [[https://www.msys2.org/][MSYS2]] as at the time of this writing:
-
-1. Use the installer in the official website and install MSYS2
-2. Run MSYS2
-3. In the command-line tool, type the following and answer "Y" to proceed:
+1. Download and use the installer in the official MSYS2 website
+2. Run MSYS2 and in its terminal, type the following and answer "Y" to
+   proceed -- this will install ~gcc~ in your PC:

   #+BEGIN_SRC bash
     pacman -S gcc
   #+END_SRC

-   Note that you do not need to manually set the PATH for MSYS2; the
-installer automatically takes care of it for you.
+4. On Windows, add ~C:\msys64\usr\bin~ (command =where gcc= in MSYS2 terminal
+   can tell you the correct path) to ~PATH~ in your environmental variables

-4. Open Emacs and call ~M-x org-roam-db-autosync-mode~
+5. Launch Emacs and call ~M-x org-roam-db-autosync-mode~ (launch Emacs after
+   defining the path, so that Emacs can recognize it)

-   This will automatically start compiling ~emacsql-sqlite~; you should see a
+This will automatically start compiling ~emacsql-sqlite~; you should see a
 message in minibuffer. It may take a while until compilation completes. Once
 complete, you should see a new file ~emacsql-sqlite.exe~ created in a subfolder
 named ~sqlite~ under ~emacsql-sqlite~ installation folder. It's typically in
@ -418,6 +414,51 @@ One can also conveniently insert links via the completion-at-point functions
 Org-roam provides (see [[*Completion][Completion]]).

 * Customizing Node Caching
+** How to cache
+
+Org-roam uses a sqlite database to perform caching, but there are multiple Emacs
+libraries that can be used. The default used by Org-roam is ~emacs-sqlite~.
+Below the pros and cons of each package is used:
+
+[[https://github.com/skeeto/emacsql][**emacs-sqlite**]]
+
+The default option used by Org-roam. This library is the most mature and
+well-supported and is imported by default in Org-roam.
+
+One downside of using ~emacs-sqlite~ is that using it requires compilation and
+can cause issues in some environments (especially Windows). If you have issues
+producing the customized binary required by ~emacs-sqlite~, consider using
+~emacs-sqlite3~.
+
+[[https://github.com/cireu/emacsql-sqlite3][**emacs-sqlite3**]]
+
+~emacs-sqlite3~ uses the official sqlite3 binary that can be obtained from your
+system's package manager. This is useful if you have issues producing the
+~sqlite3~ binary required by the other packages. However, it is not recommended
+because it has some compatibility issues with Emacs, but should work for most
+regular cases. See [[https://nullprogram.com/blog/2014/02/06/][Chris Wellon's blog post]] for more information.
+
+To use ~emacsql-sqlite3~, ensure that the package is installed, and set:
+
+#+begin_src emacs-lisp
+  (setq org-roam-database-connector 'sqlite3)
+#+end_src
+
+[[https://github.com/emacscollective/emacsql-libsqlite3/][**emacsql-libsqlite3**]]
+
+~emacs-libsqlite3~ is a relatively young package which uses an Emacs module that
+exposes parts of the SQLite C API to Emacs Lisp, instead of using subprocess as
+~emacsql-sqlite~ does. It is expected to be a more performant drop-in
+replacement for ~emacs-sqlite~.
+
+At the moment it is experimental and does not work well with the SQL query load
+required by Org-roam, but you may still try it by ensuring the package is
+installed and setting:
+
+#+begin_src emacs-lisp
+  (setq org-roam-database-connector 'libsqlite3)
+#+end_src
+
 ** What to cache

 By default, all nodes (any headline or file with an ID) are cached by Org-roam.
@ -495,7 +536,7 @@ keybindings available. Here are several of the more useful ones:

 - ~M-{N}~: ~magit-section-show-level-{N}-all~
 - ~n~: ~magit-section-forward~
-~<TAB>~: ~magit-section-toggle~
+- ~<TAB>~: ~magit-section-toggle~
 - ~<RET>~: ~org-roam-buffer-visit-thing~

 ~org-roam-buffer-visit-thing~ is a placeholder command, that is replaced by
@ -646,6 +687,59 @@ Org-roam also provides some functions to add or remove refs.

  Remove a ref from the node at point.

+* Citations
+
+Since version 9.5, Org has first-class support for citations. Org-roam supports
+the caching of both these in-built citations (of form ~[cite:@key]~) and [[https://github.com/jkitchin/org-ref][org-ref]]
+citations (of form cite:key).
+
+Org-roam attempts to load both the ~org-ref~ and ~org-cite~ package when
+indexing files, so no further setup from the user is required for citation
+support.
+
+** Using the Cached Information
+
+It is common to use take reference notes for academic papers. To designate the
+node to be the canonical node for the academic paper, we can use its unique
+citation key:
+
+#+begin_src org
+,* Probabilistic Robotics
+:PROPERTIES:
+:ID:       51b7b82c-bbb4-4822-875a-ed548cffda10
+:ROAM_REFS: @thrun2005probabilistic
+:END:
+#+end_src
+
+or
+
+#+begin_src org
+,* Probabilistic Robotics
+:PROPERTIES:
+:ID:       51b7b82c-bbb4-4822-875a-ed548cffda10
+:ROAM_REFS: [cite:@thrun2005probabilistic]
+:END:
+#+end_src
+
+for ~org-cite~, or:
+
+#+begin_src org
+,* Probabilistic Robotics
+:PROPERTIES:
+:ID:       51b7b82c-bbb4-4822-875a-ed548cffda10
+:ROAM_REFS: cite:thrun2005probabilistic
+:END:
+#+end_src
+
+for ~org-ref~.
+
+When another node has a citation for that key, we can see it using the
+~Reflinks~ section of the Org-roam buffer.
+
+Extension developers may be interested in retrieving the citations within their
+notes. This information can be found within the ~citation~ table of the Org-roam
+database.
+
 * Completion

 Completions for Org-roam are provided via ~completion-at-point~. Org-roam
@ -698,7 +792,7 @@ extension in your Org-roam capture templates. For example:

 #+begin_src emacs-lisp
 (setq org-roam-capture-templates '(("d" "default" plain "%?"
-     :if-new (file+head "${slug}.org.gpg"
+     :target (file+head "${slug}.org.gpg"
                        "#+title: ${title}\n")
     :unnarrowed t)))
 #+end_src
@ -821,6 +915,29 @@ defaults write com.apple.LaunchServices/com.apple.launchservices.secure LSHandle

 Then restart your computer.

+**** Testing org-protocol
+
+To test that you have the handler setup and registered properly from the command
+line you can run:
+
+#+begin_src bash
+  open org-protocol://roam-ref\?template=r\&ref=test\&title=this
+#+end_src
+
+If you get an error similar too this or the wrong handler is run:
+
+#+begin_quote
+No application knows how to open URL org-protocol://roam-ref?template=r&ref=test&title=this (Error Domain=NSOSStatusErrorDomain Code=-10814 "kLSApplicationNotFoundErr: E.g. no application claims the file" UserInfo={_LSLine=1489, _LSFunction=runEvaluator}).
+
+#+end_quote
+
+You may need to manually register your handler, like this:
+
+#+begin_src bash
+/System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/LaunchServices.framework/Versions/A/Support/lsregister -R  -f /Applications/OrgProtocolClient.app
+#+end_src
+
+Here is a link to the lsregister command that is really useful: https://eclecticlight.co/2019/03/25/lsregister-a-valuable-undocumented-command-for-launchservices/
 *** Windows
 For Windows, create a temporary ~org-protocol.reg~ file:

@ -894,12 +1011,12 @@ will be no prompt for template selection.
 ** Template Walkthrough

 To demonstrate the additions made to org-capture templates. Here, we explain
-the default template, reproduced below. You will find some most of the elements
+the default template, reproduced below. You will find most of the elements
 of the template are similar to ~org-capture~ templates.

 #+BEGIN_SRC emacs-lisp
 (("d" "default" plain "%?"
-  :if-new (file+head "%<%Y%m%d%H%M%S>-${slug}.org"
+  :target (file+head "%<%Y%m%d%H%M%S>-${slug}.org"
                     "#+title: ${title}\n")
  :unnarrowed t))
 #+END_SRC
@ -913,8 +1030,12 @@ of the template are similar to ~org-capture~ templates.
   here.
 5. ~"%?"~ is the template inserted on each call to ~org-roam-capture-~.
   This template means don't insert any content, but place the cursor here.
-6. ~:if-new~ is a compulsory specification in the Org-roam capture template.
-   This indicates the location for the new node.
+6. ~:target~ is a compulsory specification in the Org-roam capture template. The
+   first element of the list indicates the type of the target, the second
+   element indicates the location of the captured node, and the rest of the
+   elements indicate prefilled template that will be inserted and the position
+   of the point will be adjusted for. The latter behavior varies from type to
+   type of the capture target.
 7. ~:unnarrowed t~ tells org-capture to show the contents for the whole file,
   rather than narrowing to just the entry. This is part of the Org-capture
   templates.
@ -1054,7 +1175,7 @@ Here is a sane default configuration:
 (setq org-roam-dailies-capture-templates
      '(("d" "default" entry
         "* %?"
-         :if-new (file+head "%<%Y-%m-%d>.org"
+         :target (file+head "%<%Y-%m-%d>.org"
                            "#+title: %<%Y-%m-%d>\n"))))
 #+end_src

@ -1240,6 +1361,9 @@ documents (PDF, EPUB etc.) within Org-mode.

 ** Bibliography

+Org 9.5 added native citation and bibliography functionality, called "org-cite",
+which org-roam supports.
+
 [[https://github.com/org-roam/org-roam-bibtex][org-roam-bibtex]] offers tight integration between [[https://github.com/jkitchin/org-ref][org-ref]], [[https://github.com/tmalsburg/helm-bibtex][helm-bibtex]] and
 ~org-roam~. This helps you manage your bibliographic notes under ~org-roam~.

@ -1267,20 +1391,27 @@ variable using directory-local variables. This is what ~.dir-locals.el~ may
 contain:

 #+BEGIN_SRC emacs-lisp
-  ((nil . ((org-roam-directory . (expand-file-name "."))
-           (org-roam-db-location . (expand-file-name "./org-roam.db")))))
+  ((nil . ((org-roam-directory . "/path/to/alt/org-roam-dir")
+           (org-roam-db-location . "/path/to/alt/org-roam-dir/org-roam.db"))))
+#+END_SRC
+
+Note ~org-roam-directory~ and ~org-roam-db-location~ should be an absolute path, not relative.
+
+Alternatively, use ~eval~ if you wish to call functions:
+
+#+BEGIN_SRC emacs-lisp
+  ((nil . ((eval . (setq-local
+                    org-roam-directory (expand-file-name (locate-dominating-file
+                                                          default-directory ".dir-locals.el"))))
+           (eval . (setq-local
+                    org-roam-db-location (expand-file-name "org-roam.db"
+                                                           org-roam-directory))))))
 #+END_SRC

 All files within that directory will be treated as their own separate set of
 Org-roam files. Remember to run ~org-roam-db-sync~ from a file within
 that directory, at least once.

-** How do I migrate from Roam Research?
-
-Fabio has produced a command-line tool that converts markdown files exported
-from Roam Research into Org-roam compatible markdown. More instructions are
-provided [[https://github.com/fabioberger/roam-migration][in the repository]].
-
 ** How do I create a note whose title already matches one of the candidates?

 This situation arises when, for example, one would like to create a note titled
@ -1301,28 +1432,111 @@ you don't want them to be (e.g. when tangling an Org file), check the value you
 have set for ~org-id-link-to-org-use-id~: setting it to ~'create-if-interactive~
 is a popular option.

-* Migrating from Org-roam v1
+** How do I migrate from Roam Research?
+
+Fabio has produced a command-line tool that converts markdown files exported
+from Roam Research into Org-roam compatible markdown. More instructions are
+provided [[https://github.com/fabioberger/roam-migration][in the repository]].
+
+** How to migrate from Org-roam v1?

 Those coming from Org-roam v1 will do well treating v2 as entirely new software.
 V2 has a smaller core and fewer moving parts, while retaining the bulk of its
 functionality. It is recommended to read the documentation above about nodes.

-It is still desirable to migrate notes collected in v1 to v2. To migrate your v1
-notes to v2, you may use the migration script provided in [[https://gist.github.com/jethrokuan/02f41028fb4a6f81787dc420fb99b6e4][this gist]], or [[https://gist.github.com/jethrokuan/02f41028fb4a6f81787dc420fb99b6e4#gistcomment-3737019][this
-gist]], the latter being better tested. [[https://d12frosted.io/posts/2021-06-11-path-to-org-roam-v2.html][This blog post]] provides a good overview of
-what's new in v2 and how to migrate.
+It is still desirable to migrate notes collected in v1 to v2.
+To migrate your v1 notes to v2, use =M-x org-roam-migrate-wizard=.
+[[https://d12frosted.io/posts/2021-06-11-path-to-org-roam-v2.html][This blog post]]
+provides a good overview of what's new in v2 and how to migrate.

-Simply put, to migrate notes from v1 to v2, one must:
+Essentially, to migrate notes from v1 to v2, one must:

-1. Add IDs to all existing notes. These are located in top-level property
-   drawers (Although note that in v2, not all files need to have IDs)
+1. Add IDs to all existing notes.
+   These are located in top-level property drawers
+   (Although note that in v2, not all files need to have IDs).
 2. Update the Org-roam database to conform to the new schema.
 3. Replace ~#+ROAM_KEY~ into the ~ROAM_REFS~ property
 4. Replace ~#+ROAM_ALIAS~ into the ~ROAM_ALIASES~ property
-5. Move ~#+ROAM_TAGS~ into the ~#+FILETAGS~ property for file-level nodes, and
-   the ~ROAM_TAGS~ property for headline nodes
+5. Move ~#+ROAM_TAGS~ into the ~#+FILETAGS~ property for file-level nodes,
+   and the ~ROAM_TAGS~ property for headline nodes
 6. Replace existing file links with ID links.

+** How do I publish my notes with an Internet-friendly graph?
+
+The default graph builder creates a graph with an [[https://orgmode.org/worg/org-contrib/org-protocol.html][org-protocol]]
+handler which is convenient when you're working locally but
+inconvenient when you want to publish your notes for remote access.
+Likewise, it defaults to displaying the graph in Emacs which has the
+exact same caveats.  This problem is solvable in the following way
+using org-mode's native [[https://orgmode.org/manual/Publishing.html][publishing]] capability:
+
+1. configure org-mode to publish your org-roam notes as a project.
+2. create a function that overrides the default org-protocol link
+   creation function(=org-roam-default-link-builder=).
+3. create a hook that's called at the end of graph creation to copy
+   the generated graph to the appropriate place.
+
+The example code below is used to publish to a local directory where a
+separate shell script copies the files to the remote site.
+
+*** Configure org-mode for publishing
+This has two steps:
+1. Setting of a /roam/ project that publishes your notes.
+2. Configuring the /sitemap.html/ generation.
+3. Setting up =org-publish= to generate the graph.
+  
+This will require code like the following:
+#+begin_src emacs-lisp
+  (defun roam-sitemap (title list)
+    (concat "#+OPTIONS: ^:nil author:nil html-postamble:nil\n"
+            "#+SETUPFILE: ./simple_inline.theme\n"
+            "#+TITLE: " title "\n\n"
+            (org-list-to-org list) "\nfile:sitemap.svg"))
+
+  (setq my-publish-time 0)   ; see the next section for context
+  (defun roam-publication-wrapper (plist filename pubdir)
+    (org-roam-graph)
+    (org-html-publish-to-html plist filename pubdir)
+    (setq my-publish-time (cadr (current-time))))
+
+  (setq org-publish-project-alist
+    '(("roam"
+       :base-directory "~/roam"
+       :auto-sitemap t
+       :sitemap-function roam-sitemap
+       :sitemap-title "Roam notes"
+       :publishing-function roam-publication-wrapper
+       :publishing-directory "~/roam-export"
+       :section-number nil
+       :table-of-contents nil
+       :style "<link rel=\"stylesheet\" href=\"../other/mystyle.cs\" type=\"text/css\">")))
+#+end_src
+
+*** Overriding the default link creation function
+The code below will generate a link to the generated html file instead
+of the default org-protocol link.
+#+begin_src emacs-lisp
+  (defun org-roam-custom-link-builder (node)
+    (let ((file (org-roam-node-file node)))
+      (concat (file-name-base file) ".html")))
+
+  (setq org-roam-graph-link-builder 'org-roam-custom-link-builder)
+#+end_src
+
+*** Copying the generated file to the export directory
+The default behavior of =org-roam-graph= is to generate the graph and
+display it in Emacs.  There is an =org-roam-graph-generation-hook=
+available that provides access to the file names so they can be copied
+to the publishing directory.  Example code follows:
+
+#+begin_src emacs-lisp
+  (add-hook 'org-roam-graph-generation-hook
+            (lambda (dot svg) (if (< (- (cadr (current-time)) my-publish-time) 5)
+                                  (progn (copy-file svg "~/roam-export/sitemap.svg" 't)
+                                         (kill-buffer (file-name-nondirectory svg))
+                                         (setq my-publish-time 0)))))
+#+end_src
+
 * Developer's Guide to Org-roam
 ** Org-roam's Design Principle

--- a/doc/org-roam.texi
+++ b/doc/org-roam.texi
@ -31,7 +31,7 @@ General Public License for more details.
@finalout
@titlepage
@title Org-roam User Manual
-@subtitle for version 2.1.0
+@subtitle for version 2.2.0
@author Jethro Kuan
@page
@vskip 0pt plus 1filll
@ -44,7 +44,7 @@ General Public License for more details.

@noindent

-This manual is for Org-roam version 2.1.0.
+This manual is for Org-roam version 2.2.0.

@quotation
 Copyright (C) 2020-2021 Jethro Kuan <jethrokuan95@@gmail.com>
@ -70,6 +70,7 @@ General Public License for more details.
 * Customizing Node Caching::
 * The Org-roam Buffer::
 * Node Properties::
+* Citations::
 * Completion::
 * Encryption::
 * Org-roam Protocol::
@ -79,7 +80,6 @@ General Public License for more details.
 * Performance Optimization::
 * The Org-mode Ecosystem::
 * FAQ::
-* Migrating from Org-roam v1::
 * Developer's Guide to Org-roam::
 * Appendix::
 * Keystroke Index::
@ -100,6 +100,10 @@ Installation Troubleshooting

 * C Compiler::

+C Compiler
+
+* C Compiler for Windows::
+
 Getting Started

 * The Org-roam Node::
@ -109,6 +113,7 @@ Getting Started

 Customizing Node Caching

+* How to cache::
 * What to cache::
 * When to cache::

@ -126,6 +131,10 @@ Node Properties
 * Tags::
 * Refs::

+Citations
+
+* Using the Cached Information::
+
 Completion

 * Completing within Link Brackets::
@ -143,6 +152,10 @@ Installation
 * Mac OS::
 * Windows::

+Mac OS
+
+* Testing org-protocol::
+
 The Templating System

 * Template Walkthrough::
@ -176,9 +189,17 @@ The Org-mode Ecosystem
 FAQ

 * How do I have more than one Org-roam directory?::
-* How do I migrate from Roam Research?::
 * How do I create a note whose title already matches one of the candidates?::
 * How can I stop Org-roam from creating IDs everywhere?::
+* How do I migrate from Roam Research?::
+* How to migrate from Org-roam v1?::
+* How do I publish my notes with an Internet-friendly graph?::
+
+How do I publish my notes with an Internet-friendly graph?
+
+* Configure org-mode for publishing::
+* Overriding the default link creation function::
+* Copying the generated file to the export directory::

 Developer's Guide to Org-roam

@ -250,7 +271,7 @@ available to Emacs.

 Org-roam is a tool that will appear unfriendly to anyone unfamiliar with Emacs
 and Org-mode, but it is also extremely powerful to those willing to put effort
-inn mastering the intricacies. Org-roam stands on the shoulders of giants. Emacs
+in mastering the intricacies. Org-roam stands on the shoulders of giants. Emacs
 was first created in 1976, and remains the tool of choice for many for editing
 text and designing textual interfaces. The malleability of Emacs allowed the
 creation of Org-mode, an all-purpose plain-text system for maintaining TODO
@ -518,42 +539,39 @@ in your Emacs environment as a prerequisite for Org-roam when you install it.
@code{emacsql-sqlite} requires a C compiler (e.g. @code{gcc} or @code{clang}) to be present in
 your computer. How to install a C compiler depends on the OS that you use.

-@itemize
-@item
-For Windows:
-@end itemize
+@menu
+* C Compiler for Windows::
+@end menu

-There are various ways to install one, depending on how you have installed
-Emacs. If you use Emacs within a Cygwin or MinGW environment, then you should
-install a compiler using their respective package manager.
+@node C Compiler for Windows
+@unnumberedsubsubsec C Compiler for Windows

-If you have installed your Emacs from the @uref{https://www.gnu.org/software/emacs/, GNU Emacs website}, then the easiest way
-is to use @uref{https://www.msys2.org/, MSYS2} as at the time of this writing:
+One of the easiest ways to install a C compiler in Windows is to use @uref{https://www.msys2.org/, MSYS2} as at the time of this writing:

@itemize
@item
-Use the installer in the official website and install MSYS2
+Download and use the installer in the official MSYS2 website

@item
-Run MSYS2
-
-@item
-In the command-line tool, type the following and answer ``Y'' to proceed:
+Run MSYS2 and in its terminal, type the following and answer ``Y'' to
+proceed -- this will install @code{gcc} in your PC:

@example
 pacman -S gcc
@end example

-Note that you do not need to manually set the PATH for MSYS2; the
-@end itemize
-installer automatically takes care of it for you.

-@itemize
@item
-Open Emacs and call @code{M-x org-roam-db-autosync-mode}
+On Windows, add @code{C:\msys64\usr\bin} (command @samp{where gcc} in MSYS2 terminal
+can tell you the correct path) to @code{PATH} in your environmental variables
+
+
+@item
+Launch Emacs and call @code{M-x org-roam-db-autosync-mode} (launch Emacs after
+defining the path, so that Emacs can recognize it)
+@end itemize

 This will automatically start compiling @code{emacsql-sqlite}; you should see a
-@end itemize
 message in minibuffer. It may take a while until compilation completes. Once
 complete, you should see a new file @code{emacsql-sqlite.exe} created in a subfolder
 named @code{sqlite} under @code{emacsql-sqlite} installation folder. It's typically in
@ -637,8 +655,8 @@ The @code{file-truename} function is only necessary when you use symbolic links
 inside @code{org-roam-directory}: Org-roam does not resolve symbolic links.

 Next, we setup Org-roam to run functions on file changes to maintain cache
-consistency. This is achieved by running @code{M-x org-roam-db-autosync-mode~}.
-To ensure that Org-roam is available on startup, place this in your Emacs
+consistency. This is achieved by running @code{M-x org-roam-db-autosync-mode}. To
+ensure that Org-roam is available on startup, place this in your Emacs
 configuration:

@lisp
@ -690,10 +708,57 @@ Org-roam provides (see @ref{Completion}).
@chapter Customizing Node Caching

@menu
+* How to cache::
 * What to cache::
 * When to cache::
@end menu

+@node How to cache
+@section How to cache
+
+Org-roam uses a sqlite database to perform caching, but there are multiple Emacs
+libraries that can be used. The default used by Org-roam is @code{emacs-sqlite}.
+Below the pros and cons of each package is used:
+
+@uref{https://github.com/skeeto/emacsql, @strong{@strong{emacs-sqlite}}}
+
+The default option used by Org-roam. This library is the most mature and
+well-supported and is imported by default in Org-roam.
+
+One downside of using @code{emacs-sqlite} is that using it requires compilation and
+can cause issues in some environments (especially Windows). If you have issues
+producing the customized binary required by @code{emacs-sqlite}, consider using
+@code{emacs-sqlite3}.
+
+@uref{https://github.com/cireu/emacsql-sqlite3, @strong{@strong{emacs-sqlite3}}}
+
+@code{emacs-sqlite3} uses the official sqlite3 binary that can be obtained from your
+system's package manager. This is useful if you have issues producing the
+@code{sqlite3} binary required by the other packages. However, it is not recommended
+because it has some compatibility issues with Emacs, but should work for most
+regular cases. See @uref{https://nullprogram.com/blog/2014/02/06/, Chris Wellon's blog post} for more information.
+
+To use @code{emacsql-sqlite3}, ensure that the package is installed, and set:
+
+@lisp
+(setq org-roam-database-connector 'sqlite3)
+@end lisp
+
+@uref{https://github.com/emacscollective/emacsql-libsqlite3/, @strong{@strong{emacsql-libsqlite3}}}
+
+@code{emacs-libsqlite3} is a relatively young package which uses an Emacs module that
+exposes parts of the SQLite C API to Emacs Lisp, instead of using subprocess as
+@code{emacsql-sqlite} does. It is expected to be a more performant drop-in
+replacement for @code{emacs-sqlite}.
+
+At the moment it is experimental and does not work well with the SQL query load
+required by Org-roam, but you may still try it by ensuring the package is
+installed and setting:
+
+@lisp
+(setq org-roam-database-connector 'libsqlite3)
+@end lisp
+
@node What to cache
@section What to cache

@ -794,9 +859,10 @@ keybindings available. Here are several of the more useful ones:

@item
@code{n}: @code{magit-section-forward}
-@end itemize
-@code{<TAB>}: @code{magit-section-toggle}
-@itemize
+
+@item
+@code{<TAB>}: @code{magit-section-toggle}
+
@item
@code{<RET>}: @code{org-roam-buffer-visit-thing}
@end itemize
@ -995,6 +1061,65 @@ ref to add.
 Remove a ref from the node at point.
@end defun

+@node Citations
+@chapter Citations
+
+Since version 9.5, Org has first-class support for citations. Org-roam supports
+the caching of both these in-built citations (of form @code{[cite:@@key]}) and @uref{https://github.com/jkitchin/org-ref, org-ref}
+citations (of form cite:key).
+
+Org-roam attempts to load both the @code{org-ref} and @code{org-cite} package when
+indexing files, so no further setup from the user is required for citation
+support.
+
+@menu
+* Using the Cached Information::
+@end menu
+
+@node Using the Cached Information
+@section Using the Cached Information
+
+It is common to use take reference notes for academic papers. To designate the
+node to be the canonical node for the academic paper, we can use its unique
+citation key:
+
+@example
+* Probabilistic Robotics
+:PROPERTIES:
+:ID:       51b7b82c-bbb4-4822-875a-ed548cffda10
+:ROAM_REFS: @@thrun2005probabilistic
+:END:
+@end example
+
+or
+
+@example
+* Probabilistic Robotics
+:PROPERTIES:
+:ID:       51b7b82c-bbb4-4822-875a-ed548cffda10
+:ROAM_REFS: [cite:@@thrun2005probabilistic]
+:END:
+@end example
+
+for @code{org-cite}, or:
+
+@example
+* Probabilistic Robotics
+:PROPERTIES:
+:ID:       51b7b82c-bbb4-4822-875a-ed548cffda10
+:ROAM_REFS: cite:thrun2005probabilistic
+:END:
+@end example
+
+for @code{org-ref}.
+
+When another node has a citation for that key, we can see it using the
+@code{Reflinks} section of the Org-roam buffer.
+
+Extension developers may be interested in retrieving the citations within their
+notes. This information can be found within the @code{citation} table of the Org-roam
+database.
+
@node Completion
@chapter Completion

@ -1062,7 +1187,7 @@ extension in your Org-roam capture templates. For example:

@lisp
 (setq org-roam-capture-templates '(("d" "default" plain "%?"
-     :if-new (file+head "$@{slug@}.org.gpg"
+     :target (file+head "$@{slug@}.org.gpg"
                        "#+title: $@{title@}\n")
     :unnarrowed t)))
@end lisp
@ -1216,6 +1341,35 @@ defaults write com.apple.LaunchServices/com.apple.launchservices.secure LSHandle

 Then restart your computer.

+@menu
+* Testing org-protocol::
+@end menu
+
+@node Testing org-protocol
+@unnumberedsubsubsec Testing org-protocol
+
+To test that you have the handler setup and registered properly from the command
+line you can run:
+
+@example
+open org-protocol://roam-ref\?template=r\&ref=test\&title=this
+@end example
+
+If you get an error similar too this or the wrong handler is run:
+
+@quotation
+No application knows how to open URL org-protocol://roam-ref?template=r&ref=test&title=this (Error Domain=NSOSStatusErrorDomain Code=-10814 ``kLSApplicationNotFoundErr: E.g. no application claims the file'' UserInfo=@{@math{_LSLine}=1489, _LSFunction=runEvaluator@}).
+
+@end quotation
+
+You may need to manually register your handler, like this:
+
+@example
+/System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/LaunchServices.framework/Versions/A/Support/lsregister -R  -f /Applications/OrgProtocolClient.app
+@end example
+
+Here is a link to the lsregister command that is really useful: @uref{https://eclecticlight.co/2019/03/25/lsregister-a-valuable-undocumented-command-for-launchservices/}
+
@node Windows
@subsection Windows

@ -1300,12 +1454,12 @@ will be no prompt for template selection.
@section Template Walkthrough

 To demonstrate the additions made to org-capture templates. Here, we explain
-the default template, reproduced below. You will find some most of the elements
+the default template, reproduced below. You will find most of the elements
 of the template are similar to @code{org-capture} templates.

@lisp
 (("d" "default" plain "%?"
-  :if-new (file+head "%<%Y%m%d%H%M%S>-$@{slug@}.org"
+  :target (file+head "%<%Y%m%d%H%M%S>-$@{slug@}.org"
                     "#+title: $@{title@}\n")
  :unnarrowed t))
@end lisp
@ -1331,8 +1485,12 @@ here.
 This template means don't insert any content, but place the cursor here.

@item
-@code{:if-new} is a compulsory specification in the Org-roam capture template.
-This indicates the location for the new node.
+@code{:target} is a compulsory specification in the Org-roam capture template. The
+first element of the list indicates the type of the target, the second
+element indicates the location of the captured node, and the rest of the
+elements indicate prefilled template that will be inserted and the position
+of the point will be adjusted for. The latter behavior varies from type to
+type of the capture target.

@item
@code{:unnarrowed t} tells org-capture to show the contents for the whole file,
@ -1519,7 +1677,7 @@ Here is a sane default configuration:
 (setq org-roam-dailies-capture-templates
      '(("d" "default" entry
         "* %?"
-         :if-new (file+head "%<%Y-%m-%d>.org"
+         :target (file+head "%<%Y-%m-%d>.org"
                            "#+title: %<%Y-%m-%d>\n"))))
@end lisp

@ -1748,6 +1906,9 @@ documents (PDF, EPUB etc.) within Org-mode.
@node Bibliography
@section Bibliography

+Org 9.5 added native citation and bibliography functionality, called ``org-cite'',
+which org-roam supports.
+
@uref{https://github.com/org-roam/org-roam-bibtex, org-roam-bibtex} offers tight integration between @uref{https://github.com/jkitchin/org-ref, org-ref}, @uref{https://github.com/tmalsburg/helm-bibtex, helm-bibtex} and
@code{org-roam}. This helps you manage your bibliographic notes under @code{org-roam}.

@ -1769,9 +1930,11 @@ Org-mode, and sync your cards to Anki via @uref{https://github.com/FooSoft/anki-

@menu
 * How do I have more than one Org-roam directory?::
-* How do I migrate from Roam Research?::
 * How do I create a note whose title already matches one of the candidates?::
 * How can I stop Org-roam from creating IDs everywhere?::
+* How do I migrate from Roam Research?::
+* How to migrate from Org-roam v1?::
+* How do I publish my notes with an Internet-friendly graph?::
@end menu

@node How do I have more than one Org-roam directory?
@ -1786,21 +1949,27 @@ variable using directory-local variables. This is what @code{.dir-locals.el} may
 contain:

@lisp
-((nil . ((org-roam-directory . (expand-file-name "."))
-         (org-roam-db-location . (expand-file-name "./org-roam.db")))))
+((nil . ((org-roam-directory . "/path/to/alt/org-roam-dir")
+         (org-roam-db-location . "/path/to/alt/org-roam-dir/org-roam.db"))))
+@end lisp
+
+Note @code{org-roam-directory} and @code{org-roam-db-location} should be an absolute path, not relative.
+
+Alternatively, use @code{eval} if you wish to call functions:
+
+@lisp
+((nil . ((eval . (setq-local
+                  org-roam-directory (expand-file-name (locate-dominating-file
+                                                        default-directory ".dir-locals.el"))))
+         (eval . (setq-local
+                  org-roam-db-location (expand-file-name "org-roam.db"
+                                                         org-roam-directory))))))
@end lisp

 All files within that directory will be treated as their own separate set of
 Org-roam files. Remember to run @code{org-roam-db-sync} from a file within
 that directory, at least once.

-@node How do I migrate from Roam Research?
-@section How do I migrate from Roam Research?
-
-Fabio has produced a command-line tool that converts markdown files exported
-from Roam Research into Org-roam compatible markdown. More instructions are
-provided @uref{https://github.com/fabioberger/roam-migration, in the repository}.
-
@node How do I create a note whose title already matches one of the candidates?
@section How do I create a note whose title already matches one of the candidates?

@ -1829,24 +1998,32 @@ you don't want them to be (e.g. when tangling an Org file), check the value you
 have set for @code{org-id-link-to-org-use-id}: setting it to @code{'create-if-interactive}
 is a popular option.

-@node Migrating from Org-roam v1
-@chapter Migrating from Org-roam v1
+@node How do I migrate from Roam Research?
+@section How do I migrate from Roam Research?
+
+Fabio has produced a command-line tool that converts markdown files exported
+from Roam Research into Org-roam compatible markdown. More instructions are
+provided @uref{https://github.com/fabioberger/roam-migration, in the repository}.
+
+@node How to migrate from Org-roam v1?
+@section How to migrate from Org-roam v1?

 Those coming from Org-roam v1 will do well treating v2 as entirely new software.
 V2 has a smaller core and fewer moving parts, while retaining the bulk of its
 functionality. It is recommended to read the documentation above about nodes.

-It is still desirable to migrate notes collected in v1 to v2. To migrate your v1
-notes to v2, you may use the migration script provided in @uref{https://gist.github.com/jethrokuan/02f41028fb4a6f81787dc420fb99b6e4, this gist}, or @uref{https://gist.github.com/jethrokuan/02f41028fb4a6f81787dc420fb99b6e4#gistcomment-3737019, this
-gist}, the latter being better tested. @uref{https://d12frosted.io/posts/2021-06-11-path-to-org-roam-v2.html, This blog post} provides a good overview of
-what's new in v2 and how to migrate.
+It is still desirable to migrate notes collected in v1 to v2.
+To migrate your v1 notes to v2, use @samp{M-x org-roam-migrate-wizard}.
+@uref{https://d12frosted.io/posts/2021-06-11-path-to-org-roam-v2.html, This blog post}
+provides a good overview of what's new in v2 and how to migrate.

-Simply put, to migrate notes from v1 to v2, one must:
+Essentially, to migrate notes from v1 to v2, one must:

@itemize
@item
-Add IDs to all existing notes. These are located in top-level property
-drawers (Although note that in v2, not all files need to have IDs)
+Add IDs to all existing notes.
+These are located in top-level property drawers
+(Although note that in v2, not all files need to have IDs).

@item
 Update the Org-roam database to conform to the new schema.
@ -1858,13 +2035,116 @@ Replace @code{#+ROAM_KEY} into the @code{ROAM_REFS} property
 Replace @code{#+ROAM_ALIAS} into the @code{ROAM_ALIASES} property

@item
-Move @code{#+ROAM_TAGS} into the @code{#+FILETAGS} property for file-level nodes, and
-the @code{ROAM_TAGS} property for headline nodes
+Move @code{#+ROAM_TAGS} into the @code{#+FILETAGS} property for file-level nodes,
+and the @code{ROAM_TAGS} property for headline nodes

@item
 Replace existing file links with ID links.
@end itemize

+@node How do I publish my notes with an Internet-friendly graph?
+@section How do I publish my notes with an Internet-friendly graph?
+
+The default graph builder creates a graph with an @uref{https://orgmode.org/worg/org-contrib/org-protocol.html, org-protocol}
+handler which is convenient when you're working locally but
+inconvenient when you want to publish your notes for remote access.
+Likewise, it defaults to displaying the graph in Emacs which has the
+exact same caveats.  This problem is solvable in the following way
+using org-mode's native @uref{https://orgmode.org/manual/Publishing.html, publishing} capability:
+
+@itemize
+@item
+configure org-mode to publish your org-roam notes as a project.
+
+@item
+create a function that overrides the default org-protocol link
+creation function(@samp{org-roam-default-link-builder}).
+
+@item
+create a hook that's called at the end of graph creation to copy
+the generated graph to the appropriate place.
+@end itemize
+
+The example code below is used to publish to a local directory where a
+separate shell script copies the files to the remote site.
+
+@menu
+* Configure org-mode for publishing::
+* Overriding the default link creation function::
+* Copying the generated file to the export directory::
+@end menu
+
+@node Configure org-mode for publishing
+@subsection Configure org-mode for publishing
+
+This has two steps:
+@itemize
+@item
+Setting of a @emph{roam} project that publishes your notes.
+
+@item
+Configuring the @emph{sitemap.html} generation.
+
+@item
+Setting up @samp{org-publish} to generate the graph.
+@end itemize
+
+This will require code like the following:
+@lisp
+(defun roam-sitemap (title list)
+  (concat "#+OPTIONS: ^:nil author:nil html-postamble:nil\n"
+          "#+SETUPFILE: ./simple_inline.theme\n"
+          "#+TITLE: " title "\n\n"
+          (org-list-to-org list) "\nfile:sitemap.svg"))
+
+(setq my-publish-time 0)   ; see the next section for context
+(defun roam-publication-wrapper (plist filename pubdir)
+  (org-roam-graph)
+  (org-html-publish-to-html plist filename pubdir)
+  (setq my-publish-time (cadr (current-time))))
+
+(setq org-publish-project-alist
+  '(("roam"
+     :base-directory "~/roam"
+     :auto-sitemap t
+     :sitemap-function roam-sitemap
+     :sitemap-title "Roam notes"
+     :publishing-function roam-publication-wrapper
+     :publishing-directory "~/roam-export"
+     :section-number nil
+     :table-of-contents nil
+     :style "<link rel=\"stylesheet\" href=\"../other/mystyle.cs\" type=\"text/css\">")))
+@end lisp
+
+@node Overriding the default link creation function
+@subsection Overriding the default link creation function
+
+The code below will generate a link to the generated html file instead
+of the default org-protocol link.
+@lisp
+(defun org-roam-custom-link-builder (node)
+  (let ((file (org-roam-node-file node)))
+    (concat (file-name-base file) ".html")))
+
+(setq org-roam-graph-link-builder 'org-roam-custom-link-builder)
+@end lisp
+
+@node Copying the generated file to the export directory
+@subsection Copying the generated file to the export directory
+
+The default behavior of @samp{org-roam-graph} is to generate the graph and
+display it in Emacs.  There is an @samp{org-roam-graph-generation-hook}
+available that provides access to the file names so they can be copied
+to the publishing directory.  Example code follows:
+
+@lisp
+(add-hook 'org-roam-graph-generation-hook
+          (lambda (dot svg) (if (< (- (cadr (current-time)) my-publish-time) 5)
+                                (progn (copy-file svg "~/roam-export/sitemap.svg" 't)
+                                       (kill-buffer (file-name-nondirectory svg))
+                                       (setq my-publish-time 0)))))
+@end lisp
+
@node Developer's Guide to Org-roam
@chapter Developer's Guide to Org-roam

@ -2117,5 +2397,5 @@ When GOTO is non-nil, go the note without creating an entry."

@printindex vr

-Emacs 28.0.50 (Org mode 9.5)
+Emacs 29.0.50 (Org mode 9.6)
@bye
--- a/extensions/org-roam-dailies.el
+++ b/extensions/org-roam-dailies.el
@ -7,7 +7,7 @@
 ;;      Leo Vivier <leo.vivier+dev@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
+;; Version: 2.2.0
 ;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org-roam "2.1"))

 ;; This file is NOT part of GNU Emacs.
@ -62,7 +62,7 @@ This path is relative to `org-roam-directory'."
 (defcustom org-roam-dailies-capture-templates
  `(("d" "default" entry
     "* %?"
-     :if-new (file+head "%<%Y-%m-%d>.org"
+     :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
@ -92,7 +92,7 @@ See `org-roam-capture-templates' for the template documentation."
                                      (function :tag "Template function")))
                        (plist :inline t
                               ;; Give the most common options as checkboxes
-                               :options (((const :format "%v " :if-new)
+                               :options (((const :format "%v " :target)
                                          (choice :tag "Node location"
                                                  (list :tag "File"
                                                        (const :format "" file)
@ -130,11 +130,14 @@ See `org-roam-capture-templates' for the template documentation."
 ;;; Commands
 ;;;; Today
 ;;;###autoload
-(defun org-roam-dailies-capture-today (&optional goto)
+(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."
+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))
+  (org-roam-dailies--capture (current-time) goto keys))

 ;;;###autoload
 (defun org-roam-dailies-goto-today ()
@ -192,7 +195,7 @@ With a `C-u' prefix or when GOTO is non-nil, go the note without
 creating an entry."
  (interactive "P")
  (let ((time (let ((org-read-date-prefer-future prefer-future))
-                (org-read-date t t nil (if goto
+                (org-read-date nil t nil (if goto
                                             "Find daily-note: "
                                           "Capture to daily-note: ")))))
    (org-roam-dailies--capture time goto)))
@ -300,11 +303,15 @@ Return (MONTH DAY YEAR) or nil if not an Org time-string."
 ;;; Capture implementation
 (add-to-list 'org-roam-capture--template-keywords :override-default-time)

-(defun org-roam-dailies--capture (time &optional goto)
+(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."
+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-capture- :goto (when goto '(4))
+                       :keys keys
                       :node (org-roam-node-create)
                       :templates org-roam-dailies-capture-templates
                       :props (list :override-default-time time)))
--- a/extensions/org-roam-graph.el
+++ b/extensions/org-roam-graph.el
@ -5,7 +5,7 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
+;; Version: 2.2.0
 ;; Package-Requires: ((emacs "26.1") (org "9.4") (org-roam "2.1"))

 ;; This file is NOT part of GNU Emacs.
@ -81,7 +81,7 @@ Example:
               ("fillcolor"  . "#EEEEEE")
               ("color"      . "#C9C9C9")
               ("fontcolor"  . "#0A97A6")))
-    ("https" . (("shape"      . "rounded,filled")
+    ("https" . (("style"      . "rounded,filled")
                ("fillcolor"  . "#EEEEEE")
                ("color"      . "#C9C9C9")
                ("fontcolor"  . "#0A97A6"))))
@ -113,6 +113,25 @@ All other values including nil will have no effect."
          (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)
@ -147,13 +166,14 @@ CALLBACK is passed the graph file as its sole argument."
         (temp-graph (make-temp-file "graph." nil (concat "." org-roam-graph-filetype))))
    (org-roam-message "building graph")
    (make-process
-     :name "*org-roam-graph--build-process*"
-     :buffer "*org-roam-graph--build-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))
-                     (funcall callback temp-graph)))))))
+                     (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.
@ -250,8 +270,7 @@ Handles both Org-roam nodes, and string nodes (e.g. urls)."
                   (_ title)))))
          (setq node-id (org-roam-node-id node)
                node-properties `(("label"   . ,shortened-title)
-                                  ("URL"     . ,(concat "org-protocol://roam-node?node="
-                                                        (url-hexify-string (org-roam-node-id node))))
+                                  ("URL"     . ,(funcall org-roam-graph-link-builder node))
                                  ("tooltip" . ,(xml-escape-string title)))))
      (setq node-id node
            node-properties (append `(("label" . ,(concat type ":" node)))
--- a/extensions/org-roam-overlay.el
+++ b/extensions/org-roam-overlay.el
@ -5,7 +5,7 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
+;; Version: 2.2.0
 ;; Package-Requires: ((emacs "26.1") (org "9.4") (org-roam "2.1"))

 ;; This file is NOT part of GNU Emacs.
@ -27,8 +27,8 @@

 ;;; Commentary:
 ;;
-;; This extension provides allows to render [[id:]] links that don't have an
-;; asscoiated descriptor with an overlay that displays the node's current title.
+;; 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)
--- a/extensions/org-roam-protocol.el
+++ b/extensions/org-roam-protocol.el
@ -4,7 +4,7 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
+;; Version: 2.2.0
 ;; Package-Requires: ((emacs "26.1") (org "9.4") (org-roam "2.1"))

 ;; This file is NOT part of GNU Emacs.
@ -48,7 +48,7 @@

 (defcustom org-roam-capture-ref-templates
  '(("r" "ref" plain "%?"
-     :if-new (file+head "${slug}.org"
+     :target (file+head "${slug}.org"
                        "#+title: ${title}")
     :unnarrowed t))
  "The Org-roam templates used during a capture from the roam-ref protocol.
@ -77,7 +77,7 @@ See `org-roam-capture-templates' for the template documentation."
                                      (function :tag "Template function")))
                        (plist :inline t
                               ;; Give the most common options as checkboxes
-                               :options (((const :format "%v " :if-new)
+                               :options (((const :format "%v " :target)
                                          (choice :tag "Node location"
                                                  (list :tag "File"
                                                        (const :format "" file)
@ -141,12 +141,13 @@ It opens or creates a note with the given ref.
                                                              (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)
+     :templates org-roam-capture-ref-templates))
  nil)

 (defun org-roam-protocol-open-node (info)
--- a/org-roam-capture.el
+++ b/org-roam-capture.el
@ -5,8 +5,8 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
-;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "2.90.1"))
+;; Version: 2.2.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "3.0.0"))

 ;; This file is NOT part of GNU Emacs.

@ -40,7 +40,7 @@
 ;;; Options
 (defcustom org-roam-capture-templates
  '(("d" "default" plain "%?"
-     :if-new (file+head "%<%Y%m%d%H%M%S>-${slug}.org"
+     :target (file+head "%<%Y%m%d%H%M%S>-${slug}.org"
                        "#+title: ${title}\n")
     :unnarrowed t))
  "Templates for the creation of new entries within Org-roam.
@ -92,30 +92,41 @@ template     The template for creating the capture item.
             in order to get a template from a file, or dynamically
             from a function.

-The template contains a compulsory :if-new property. This determines the
-location of the new node. The :if-new property contains a list, supporting
-the following options:
+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 into the file.
+       inserted if the node is a newly captured one.

   (file+olp \"path/to/file\" (\"h1\" \"h2\"))
-       The file will be created, prescribed an ID. The OLP (h1, h2) will be
-       created, and the point placed after.
+       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. The OLP (h1, h2) will be created,
-       and the point placed after.
+       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\" day)
-       The file will be created, prescribed an ID. Head content will be
-       inserted at the start of the file. The datetree will be created,
-       available options are day, week, month.
+   (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
@ -194,7 +205,8 @@ be replaced with content and expanded:
              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.
+  %<...>      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.
@ -289,7 +301,7 @@ streamlined user experience in Org-roam."
                                      (function :tag "Template function")))
                        (plist :inline t
                               ;; Give the most common options as checkboxes
-                               :options (((const :format "%v " :if-new)
+                               :options (((const :format "%v " :target)
                                          (choice :tag "Node location"
                                                  (list :tag "File"
                                                        (const :format "" file)
@ -377,7 +389,7 @@ during the Org-roam capture process.")
 This variable is populated dynamically, and is only non-nil
 during the Org-roam capture process.")

-(defconst org-roam-capture--template-keywords (list :if-new :id :link-description :call-location
+(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.")

@ -433,36 +445,33 @@ the capture)."
  "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 (&rest stuff)
-  "Put properties from STUFF into the `org-roam-capture-template'."
+(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)))
-    (while stuff
-      (setq p (plist-put p (pop stuff) (pop stuff))))
    (setq org-capture-plist
-          (plist-put org-capture-plist :org-roam p))))
+          (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,
-create the target node (`:if-new') if it doesn't exist, and place
-the point for further processing by `org-capture'.
+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))
-                  ((and (org-roam-node-file org-roam-capture--node)
-                        (org-roam-node-point org-roam-capture--node))
-                   (set-buffer (org-capture-target-buffer (org-roam-node-file org-roam-capture--node)))
-                   (goto-char (org-roam-node-point org-roam-capture--node))
-                   (widen)
-                   (org-roam-node-id org-roam-capture--node))
-                  (t
-                   (org-roam-capture--setup-target-location)))))
+                  (t (org-roam-capture--setup-target-location)))))
    (org-roam-capture--adjust-point-for-capture-type)
-    (org-capture-put :template
-                     (org-roam-capture--fill-template (org-capture-get :template)))
+    (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)))))
@ -471,22 +480,17 @@ capture target."
  "Initialize the buffer, and goto the location of the new capture.
 Return the ID of the location."
  (let (p new-file-p)
-    (pcase (or (org-roam-capture--get :if-new)
-               (user-error "Template needs to specify `:if-new'"))
+    (pcase (org-roam-capture--get-target)
      (`(file ,path)
-       (setq path (expand-file-name
-                   (string-trim (org-roam-capture--fill-template path t))
-                   org-roam-directory))
-       (setq new-file-p (org-roam-capture--new-file-p 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 (expand-file-name
-                   (string-trim (org-roam-capture--fill-template path t))
-                   org-roam-directory))
-       (setq new-file-p (org-roam-capture--new-file-p 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))
       (setq p (point-min))
@ -494,10 +498,8 @@ Return the ID of the location."
         (goto-char m))
       (widen))
      (`(file+head ,path ,head)
-       (setq path (expand-file-name
-                   (string-trim (org-roam-capture--fill-template path t))
-                   org-roam-directory))
-       (setq new-file-p (org-roam-capture--new-file-p path))
+       (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)
@ -505,10 +507,8 @@ Return the ID of the location."
       (widen)
       (setq p (goto-char (point-min))))
      (`(file+head+olp ,path ,head ,olp)
-       (setq path (expand-file-name
-                   (string-trim (org-roam-capture--fill-template path t))
-                   org-roam-directory))
-       (setq new-file-p (org-roam-capture--new-file-p path))
+       (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
@ -518,9 +518,7 @@ Return the ID of the location."
       (let ((m (org-roam-capture-find-or-create-olp olp)))
         (goto-char m)))
      (`(file+datetree ,path ,tree-type)
-       (setq path (expand-file-name
-                   (string-trim (org-roam-capture--fill-template path t))
-                   org-roam-directory))
+       (setq path (org-roam-capture--target-truepath path))
       (require 'org-datetree)
       (widen)
       (set-buffer (org-capture-target-buffer path))
@ -581,6 +579,21 @@ Return the ID of the location."
          (org-id-get-create)
        (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 t)
+        (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)
@ -602,6 +615,7 @@ you can catch it with `condition-case'."
    (org-with-wide-buffer
     (goto-char start)
     (dolist (heading olp)
+       (setq heading (org-roam-capture--fill-template heading t))
       (let ((re (format org-complex-heading-regexp-format
                         (regexp-quote heading)))
             (cnt 0))
@ -711,12 +725,12 @@ This function is to be called in the Org-capture finalization process."
                                      (org-roam-capture--get :link-description)))))))

 ;;;; Processing of the capture templates
-(defun org-roam-capture--fill-template (template &optional org-capture-p)
+(defun org-roam-capture--fill-template (template &optional org-capture-p newline)
  "Expand TEMPLATE and return it.
 It expands ${var} occurrences in TEMPLATE. When ORG-CAPTURE-P,
-also run Org-capture's template expansion."
-  (funcall (if org-capture-p #'org-capture-fill-template #'identity)
-           (org-roam-format-template
+also run Org-capture's template expansion.
+If NEWLINE, ensure that the template returned ends with a newline."
+  (setq template (org-roam-format-template
                  template
                  (lambda (key default-val)
                    (let ((fn (intern key))
@ -729,9 +743,25 @@ also run Org-capture's template expansion."
                        (funcall node-fn org-roam-capture--node))
                       ((plist-get org-roam-capture--info ksym)
                        (plist-get org-roam-capture--info ksym))
-                 (t (let ((r (completing-read (format "%s: " key) nil nil nil default-val)))
+                       (t (let ((r (read-from-minibuffer (format "%s: " key) default-val)))
                            (plist-put org-roam-capture--info ksym r)
-                      r))))))))
+                            r)))))))
+  ;; WARNING:
+  ;; `org-capture-fill-template' fills the template, but post-processes whitespace such that the resultant
+  ;; template does not start with any whitespace, and only ends with a single newline
+  ;;
+  ;; In most cases where we rely on `org-capture-fill-template' to populate non-org-capture-related templates,
+  ;; (e.g. in OLPs), we strip the final newline, obtaining a template that seems to be string-trimmed.
+  ;;
+  ;; This means that if the original passed template has newlines, and ORG-CAPTURE-P is true, then the extra
+  ;; whitespace specified in the template will be ignored.
+  (when org-capture-p
+    (setq template
+          (replace-regexp-in-string "\n$" "" (org-capture-fill-template template))))
+  (when (and newline
+             (not (string-suffix-p "\n" template)))
+    (setq template (concat template "\n")))
+  template)

 (defun org-roam-capture--convert-template (template &optional props)
  "Convert TEMPLATE from Org-roam syntax to `org-capture-templates' syntax.
--- a/org-roam-compat.el
+++ b/org-roam-compat.el
@ -5,7 +5,7 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
+;; Version: 2.2.0
 ;; Package-Requires: ((emacs "26.1"))

 ;; This file is NOT part of GNU Emacs.
@ -31,6 +31,8 @@
 ;; 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
@ -99,22 +101,20 @@ recursion."
 (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-locations-file' that comes from advice and ARGS are
+FN is `org-id-add-location' that comes from advice and ARGS are
 passed to it."
-  (let (result)
-    ;; Use `unwind-protect' over `condition-case' because `org-id' can produce various other errors, but all
-    ;; of its errors are generic ones, so trapping all of them isn't a good idea and preserving the correct
-    ;; backtrace is valuable.
-    (unwind-protect (setq result (apply fn args))
-      (unless result
-        (unless org-id-locations
-          ;; Pre-allocate the hash table to avoid weird access related errors during the regeneration.
-          (setq org-id-locations (make-hash-table :type 'equal)))
+  (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.
-        (unless (file-exists-p (file-truename org-id-locations-file))
+    ;; 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
@ -153,8 +153,30 @@ 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)))))
-      result)))

 ;;; Obsolete aliases (remove after next major release)
 (define-obsolete-function-alias
@ -199,6 +221,14 @@ nodes." org-id-locations-file)
  '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")
+
 ;;; Obsolete functions
 (make-obsolete 'org-roam-get-keyword 'org-collect-keywords "org-roam 2.0")

--- a/org-roam-db.el
+++ b/org-roam-db.el
@ -5,8 +5,8 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
-;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "2.90.1"))
+;; Version: 2.2.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "3.0.0"))

 ;; This file is NOT part of GNU Emacs.

@ -34,7 +34,27 @@
 (defvar org-outline-path-cache)

 ;;; Options
-(defcustom org-roam-db-location (expand-file-name "org-roam.db" user-emacs-directory)
+(defcustom org-roam-database-connector 'sqlite
+  "The database connector used by Org-roam.
+This must be set before `org-roam' is loaded. To use an
+alternative connector you must install the respective package
+explicitly. When `sqlite', then use the `emacsql-sqlite' library
+that is being maintained in the same repository as `emacsql'
+itself. When `libsqlite3', then use the `emacsql-libsqlite3'
+library, which itself uses a module provided by the `sqlite3'
+package. This is still experimental. When `sqlite3', then use the
+`emacsql-sqlite3' library, which uses the official `sqlite3' cli
+tool, which is not recommended because it is not suitable to be
+used like this, but has the advantage that you likely don't need
+a compiler. See https://nullprogram.com/blog/2014/02/06/."
+  :package-version '(org-roam . "2.2.0")
+  :group 'org-roam
+  :type '(choice (const sqlite)
+                 (const libsqlite3)
+                 (const sqlite3)
+                 (symbol :tag "other")))
+
+(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
@ -79,13 +99,7 @@ slow."
  :group 'org-roam)

 ;;; Variables
-(defconst org-roam-db-version 16)
-
-;; TODO Rename this
-(defconst org-roam--sqlite-available-p
-  (with-demoted-errors "Org-roam initialization: %S"
-    (emacsql-sqlite-ensure-binary)
-    t))
+(defconst org-roam-db-version 18)

 (defvar org-roam-db--connection (make-hash-table :test #'equal)
  "Database connection to Org-roam database.")
@ -93,9 +107,29 @@ slow."
 ;;; Core Functions
 (defun org-roam-db--get-connection ()
  "Return the database connection, if any."
-  (gethash (expand-file-name org-roam-directory)
+  (gethash (expand-file-name (file-name-as-directory org-roam-directory))
           org-roam-db--connection))

+(declare-function emacsql-sqlite "ext:emacsql-sqlite")
+(declare-function emacsql-libsqlite3 "ext:emacsql-libsqlite3")
+(declare-function emacsql-sqlite3 "ext:emacsql-sqlite3")
+
+(defun org-roam-db--conn-fn ()
+  "Return the function for creating the database connection."
+  (cl-case org-roam-database-connector
+    (sqlite
+     (progn
+       (require 'emacsql-sqlite)
+       #'emacsql-sqlite))
+    (libsqlite3
+     (progn
+       (require 'emacsql-libsqlite3)
+       #'emacsql-libsqlite3))
+    (sqlite3
+     (progn
+       (require 'emacsql-sqlite3)
+       #'emacsql-sqlite3))))
+
 (defun org-roam-db ()
  "Entrypoint to the Org-roam sqlite database.
 Initializes and stores the database, and the database connection.
@ -104,9 +138,11 @@ Performs a database upgrade when required."
               (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 org-roam-db-location)))
-        (set-process-query-on-exit-flag (emacsql-process conn) nil)
-        (puthash (expand-file-name org-roam-directory)
+      (let ((conn (funcall (org-roam-db--conn-fn) org-roam-db-location)))
+        (emacsql conn [:pragma (= foreign_keys ON)])
+        (when-let ((process (emacsql-process conn)))
+          (set-process-query-on-exit-flag process nil))
+        (puthash (expand-file-name (file-name-as-directory org-roam-directory))
                 conn
                 org-roam-db--connection)
        (when init-db
@ -145,6 +181,7 @@ The query is expected to be able to fail, in this situation, run HANDLER."
 (defconst org-roam-db--table-schemata
  '((files
     [(file :unique :primary-key)
+      title
      (hash :not-null)
      (atime :not-null)
      (mtime :not-null)])
@ -168,6 +205,13 @@ The query is expected to be able to fail, in this situation, run HANDLER."
       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)
@ -195,7 +239,6 @@ The query is expected to be able to fail, in this situation, run HANDLER."
 (defun org-roam-db--init (db)
  "Initialize database DB with the correct schema and user version."
  (emacsql-with-transaction db
-    (emacsql db "PRAGMA foreign_keys = ON")
    (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)
@ -246,10 +289,22 @@ If FILE is nil, clear the current buffer."
                     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 (cadr (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 ()
  "Update the files table for the current buffer.
 If UPDATE-P is non-nil, first remove the file in the database."
  (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))
@ -257,7 +312,7 @@ If UPDATE-P is non-nil, first remove the file in the database."
    (org-roam-db-query
     [:insert :into files
      :values $v1]
-     (list (vector file hash atime mtime)))))
+     (list (vector file file-title hash atime mtime)))))

 (defun org-roam-db-get-scheduled-time ()
  "Return the scheduled time at point in ISO8601 format."
@ -272,25 +327,60 @@ If UPDATE-P is non-nil, first remove the file in the database."
 (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 (cdr (assoc "ROAM_EXCLUDE" (org-entry-properties))))
+       (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-point-at 1
-    (org-map-entries
+  (org-map-region
   (lambda ()
     (when (org-roam-db-node-p)
       (dolist (fn fns)
-           (funcall fn)))))))
+         (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
-    (org-element-map (org-element-parse-buffer) 'link
-      (lambda (link)
+    (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* ((element (org-element-context))
+             (type (org-element-type element))
+             link bounds)
+        (cond
+         ;; Links correctly recognized by Org Mode
+         ((eq type 'link)
+          (setq link element))
+         ;; Prevent self-referencing links in ROAM_REFS
+         ((and (eq type 'node-property)
+               (org-roam-string-equal (org-element-property :key element) "ROAM_REFS"))
+          nil)
+         ;; 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 (or (eq type 'node-property)
+                   (eq type 'keyword))
+               (setq bounds (org-in-regexp org-link-any-re))
+               (setq link (buffer-substring-no-properties
+                           (car bounds)
+                           (cdr bounds))))
+          (with-temp-buffer
+            (delay-mode-hooks (org-mode))
+            (insert link)
+            (setq link (org-element-context)))))
+        (when link
          (dolist (fn fns)
-          (funcall fn link))))))
+            (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."
@ -299,19 +389,14 @@ If UPDATE-P is non-nil, first remove the file in the database."
               (org-roam-db-node-p))
      (when-let ((id (org-id-get)))
        (let* ((file (buffer-file-name (buffer-base-buffer)))
-               (title (org-link-display-format
-                       (or (cadr (assoc "TITLE" (org-collect-keywords '("title"))
-                                        #'string-equal))
-                           (file-relative-name file org-roam-directory))))
+               (title (org-roam-db--file-title))
               (pos (point))
               (todo nil)
               (priority nil)
               (scheduled nil)
               (deadline nil)
               (level 0)
-               (aliases (org-entry-get (point) "ROAM_ALIASES"))
               (tags org-file-tags)
-               (refs (org-entry-get (point) "ROAM_REFS"))
               (properties (org-entry-properties))
               (olp nil))
          (org-roam-db-query!
@ -330,29 +415,8 @@ If UPDATE-P is non-nil, first remove the file in the database."
             (mapcar (lambda (tag)
                       (vector id (substring-no-properties tag)))
                     tags)))
-          (when aliases
-            (org-roam-db-query
-             [:insert :into aliases
-              :values $v1]
-             (mapcar (lambda (alias)
-                       (vector id alias))
-                     (split-string-and-unquote aliases))))
-          (when refs
-            (setq refs (split-string-and-unquote refs))
-            (let (rows)
-              (dolist (ref refs)
-                (if (string-match org-link-plain-re ref)
-                    (progn
-                      (push (vector id (match-string 2 ref)
-                                    (match-string 1 ref)) rows))
-                  (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)))))))))
+          (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."
@ -386,13 +450,14 @@ If UPDATE-P is non-nil, first remove the file in the database."

 (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")))
+  (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))
-                               (split-string-and-unquote aliases)))))
+                               aliases))))

 (defun org-roam-db-insert-tags ()
  "Insert tags for node at point into Org-roam cache."
@ -411,14 +476,39 @@ If UPDATE-P is non-nil, first remove the file in the database."
    (let (rows)
      (dolist (ref refs)
        (save-match-data
-          (if (string-match org-link-plain-re ref)
-              (progn
-                (push (vector node-id (match-string 2 ref) (match-string 1 ref)) rows))
+          (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 ref %s, skipping..." (buffer-file-name) (point) ref))))
+                           "%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-plain-re ref)
+                 (let ((link-type (match-string 1 ref))
+                       (path (match-string 2 ref)))
+                   (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))))
+                           rows)))))

 (defun org-roam-db-insert-link (link)
  "Insert link data for LINK at current point into the Org-roam cache."
@ -426,24 +516,39 @@ If UPDATE-P is non-nil, first remove the file in the database."
    (goto-char (org-element-property :begin link))
    (let ((type (org-element-property :type link))
          (path (org-element-property :path link))
+          (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))))
-          (source (org-roam-id-at-point)))
+                                       (org-get-outline-path 'with-self 'use-cache)))))
      ;; For Org-ref links, we need to split the path into the cite keys
-      (when (and (boundp 'org-ref-cite-types)
-                 (fboundp 'org-ref-split-and-strip-string)
-                 (member type org-ref-cite-types))
-        (setq path (org-ref-split-and-strip-string path)))
-      (unless (listp path)
-        (setq path (list path)))
      (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]
-         (mapcar (lambda (p)
-                   (vector (point) source p type properties))
-                 path))))))
+           (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 ()
@ -469,18 +574,29 @@ If UPDATE-P is non-nil, first remove the file in the database."
     (secure-hash 'sha1 (current-buffer)))))

 ;;;; Synchronization
-(defun org-roam-db-update-file (&optional file-path)
+(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 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))))
+                                           :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)
          (save-excursion
            (org-set-regexps-and-options 'tags-only)
+            (org-refresh-category-properties)
            (org-roam-db-clear-file)
            (org-roam-db-insert-file)
            (org-roam-db-insert-file-node)
@ -491,8 +607,14 @@ If the file exists, update the cache with information."
                   #'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)))))))
+             (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)
@ -502,6 +624,7 @@ If FORCE, force a rebuild of the cache from scratch."
  (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))
@ -514,18 +637,17 @@ If FORCE, force a rebuild of the cache from scratch."
          (push file modified-files)))
      (remhash file current-files))
    (emacsql-with-transaction (org-roam-db)
-      (if (fboundp 'dolist-with-progress-reporter)
-          (dolist-with-progress-reporter (file (hash-table-keys current-files))
+      (org-roam-dolist-with-progress (file (hash-table-keys current-files))
          "Clearing removed files..."
        (org-roam-db-clear-file file))
-        (dolist (file (hash-table-keys current-files))
-          (org-roam-db-clear-file file)))
-      (if (fboundp 'dolist-with-progress-reporter)
-          (dolist-with-progress-reporter (file modified-files)
+      (org-roam-dolist-with-progress (file modified-files)
          "Processing modified files..."
-            (org-roam-db-update-file file))
-        (dolist (file modified-files)
-          (org-roam-db-update-file file))))))
+        (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
--- a/org-roam-migrate.el
+++ b/org-roam-migrate.el
@ -5,8 +5,8 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
-;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "2.90.1"))
+;; Version: 2.2.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "3.0.0"))

 ;; This file is NOT part of GNU Emacs.

@ -34,48 +34,6 @@
 ;;; Code:
 (require 'org-roam)

-;;; v1 breaking warning
-(defvar org-roam-v2-ack nil
-  "When set to t, won't display the annoying warning message about the upgrade.
-Need to be set before the package is loaded, otherwise won't take
-any affect.")
-
-(unless org-roam-v2-ack
-  (lwarn 'org-roam :error "
------------------------------------
-WARNING: You're now on Org-roam v2!
------------------------------------
-
-You may have arrived here from a package upgrade. Please read the
-wiki entry at
-%s
-for an overview of the major changes.
-
-Notes taken in v1 are incompatible with v2, but you can upgrade
-them to the v2 format via a simple command. To migrate your
-notes, first make sure you're on at least Org 9.4 (check with
-C-h v org-version) and set your org-roam-directory to your notes:
-
-(setq org-roam-directory \"path/to/org/files\")
-
-then, run:
-
-  M-x org-roam-migrate-wizard
-
-If you wish to stay on v1, v1 is unfortunately not distributed on
-MELPA. See org-roam/org-roam-v1 on GitHub on how to install v1.
-
-If you've gone through the migration steps (if necessary), and
-know what you're doing set `org-roam-v2-ack' to `t' to disable
-this warning. You can do so by adding:
-
-(setq org-roam-v2-ack t)
-
-To your init file.
-
-"
-         "https://github.com/org-roam/org-roam/wiki/Hitchhiker's-Rough-Guide-to-Org-roam-V2"))
-
 ;;; Migration wizard (v1 -> v2)
 ;;;###autoload
 (defun org-roam-migrate-wizard ()
--- a/org-roam-mode.el
+++ b/org-roam-mode.el
@ -1,12 +1,12 @@
 ;;; org-roam-mode.el --- Major mode for special Org-roam buffers -*- lexical-binding: t -*-

-;; Copyright © 2020-2021 Jethro Kuan <jethrokuan95@gmail.com>
+;; Copyright © 2020-2022 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: 2.1.0
-;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "2.90.1"))
+;; Version: 2.2.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "3.0.0"))

 ;; This file is NOT part of GNU Emacs.

@ -48,6 +48,30 @@ Normally this node is `org-roam-buffer-current-node'."
  :group 'org-roam
  :type 'hook)

+(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))
@ -160,7 +184,8 @@ value shows the current node in the persistent `org-roam-buffer'.")

 (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'.")
+Set both, locally and globally in the same way as
+`org-roam-buffer-current-node'.")

 (put 'org-roam-buffer-current-directory 'permanent-local t)

@ -204,6 +229,7 @@ buffer."
    (magit-insert-section (org-roam)
      (magit-insert-heading)
      (run-hook-with-args 'org-roam-mode-section-functions org-roam-buffer-current-node))
+    (run-hooks 'org-roam-buffer-postrender-functions)
    (goto-char 0)))

 (defun org-roam-buffer-set-header-line-format (string)
@ -397,87 +423,27 @@ In interactive calls OTHER-WINDOW is set with
    (when (org-invisible-p) (org-show-context))
    buf))

-(defun org-roam-preview-get-contents (file point)
-  "Get preview content for FILE at POINT."
+(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 (progn (org-roam-end-of-meta-data t)
+                    (point)))
+        (end (progn (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
-      (goto-char point)
-      (let ((elem (org-element-at-point)))
-        ;; We want the parent element always
-        (while (org-element-property :parent elem)
-          (setq elem (org-element-property :parent elem)))
-        (pcase (car elem)
-          ('headline                    ; show subtree
-           (org-roam-preview-get-entry-text (point-marker) most-positive-fixnum))
-          (_
-           (let ((begin (org-element-property :begin elem))
-                 (end (org-element-property :end elem)))
-             (or (string-trim (buffer-substring-no-properties begin end))
-                 (org-element-property :raw-value elem)))))))))
-
-(defun org-roam-preview-get-entry-text (marker n-lines &optional indent)
-  "Extract entry text from MARKER, at most N-LINES lines.
-This will ignore drawers etc, just get the text.
-If INDENT is given, prefix every line with this string."
-  (let (txt ind)
-    (save-excursion
-      (with-current-buffer (marker-buffer marker)
-        (if (not (derived-mode-p 'org-mode))
-            (setq txt "")
      (org-with-wide-buffer
-           (goto-char marker)
-           (end-of-line 1)
-           (setq txt (buffer-substring
-                      (min (1+ (point)) (point-max))
-                      (progn (outline-next-heading) (point))))
-           (with-temp-buffer
-             (insert txt)
-             (goto-char (point-min))
-             (while (org-activate-links (point-max))
-               (goto-char (match-end 0)))
-             (goto-char (point-min))
-             (while (re-search-forward org-link-bracket-re (point-max) t)
-               (set-text-properties (match-beginning 0) (match-end 0)
-                                    nil))
-             (goto-char (point-min))
-             (while (re-search-forward org-drawer-regexp nil t)
-               (delete-region
-                (match-beginning 0)
-                (progn (re-search-forward
-                        "^[ \t]*:END:.*\n?" nil 'move)
-                       (point))))
-             (goto-char (point-min))
-             (goto-char (point-max))
-             (skip-chars-backward " \t\n")
-             (when (looking-at "[ \t\n]+\\'") (replace-match ""))
-
-             ;; find and remove min common indentation
-             (goto-char (point-min))
-             (untabify (point-min) (point-max))
-             (setq ind (current-indentation))
-             (while (not (eobp))
-               (unless (looking-at "[ \t]*$")
-                 (setq ind (min ind (current-indentation))))
-               (beginning-of-line 2))
-             (goto-char (point-min))
-             (while (not (eobp))
-               (unless (looking-at "[ \t]*$")
-                 (move-to-column ind)
-                 (delete-region (point-at-bol) (point)))
-               (beginning-of-line 2))
-             (goto-char (point-min))
-             (when indent
-               (while (and (not (eobp)) (re-search-forward "^" nil t))
-                 (replace-match indent t t)))
-             (goto-char (point-min))
-             (while (looking-at "[ \t]*\n") (replace-match ""))
-             (goto-char (point-max))
-             (when (> (org-current-line)
-                      n-lines)
-               (org-goto-line (1+ n-lines))
-               (backward-char 1))
-             (setq txt (buffer-substring (point-min) (point))))))))
-    txt))
+       (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)
@ -542,22 +508,27 @@ Sorts by title."

 (defun org-roam-reflinks-get (node)
  "Return the reflinks for NODE."
-  (let ((refs (org-roam-db-query [:select [ref] :from refs
-                                  :where (= node-id $s1)]
+  (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) refs)
-      (pcase-dolist (`(,source-id ,pos ,properties) (org-roam-db-query
-                                                     [:select [source pos properties]
-                                                      :from links
-                                                      :where (= dest $s1)]
-                                                     ref))
+    (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)))
+              :properties properties)) links))
    links))

 (defun org-roam-reflinks-sort (a b)
@ -568,8 +539,8 @@ Sorts by title."

 (defun org-roam-reflinks-section (node)
  "The reflinks section for NODE."
-  (when (org-roam-node-refs node)
-    (let* ((reflinks (seq-sort #'org-roam-reflinks-sort (org-roam-reflinks-get 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)
@ -577,7 +548,7 @@ Sorts by title."
         :source-node (org-roam-reflink-source-node reflink)
         :point (org-roam-reflink-point reflink)
         :properties (org-roam-reflink-properties reflink)))
-        (insert ?\n)))))
+      (insert ?\n))))

 ;;;; Grep
 (defvar org-roam-grep-map
@ -679,7 +650,7 @@ References from FILE are excluded."
                  (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 "...")
+                                              (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
--- a/org-roam-node.el
+++ b/org-roam-node.el
@ -5,8 +5,8 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
-;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.4") (magit-section "2.90.1"))
+;; Version: 2.2.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.4") (magit-section "3.0.0"))

 ;; This file is NOT part of GNU Emacs.

@ -37,7 +37,7 @@
 ;;; Options
 ;;;; Completing-read
 (defcustom org-roam-node-display-template
-  "${title:*} ${tags:10}"
+  (concat "${title:*} " (propertize "${tags:10}" 'face 'org-tag))
  "Configures display formatting for Org-roam node.
 Patterns of form \"${field-name:length}\" are interpolated based
 on the current node.
@ -60,9 +60,13 @@ field. If it's not specified, the field will be inserted as is,
 i.e. it won't be aligned nor trimmed. If it's an integer, the
 field will be aligned accordingly and all the exceeding
 characters will be trimmed out. If it's \"*\", the field will use
-as many characters as possible and will be aligned accordingly."
+as many characters as possible and will be aligned accordingly.
+
+A closure can also be assigned to this variable in which case the
+closure is evaluated and the return value is used as the
+template. The closure must evaluate to a valid template string."
  :group 'org-roam
-  :type  'string)
+  :type  '(string function))

 (defcustom org-roam-node-annotation-function #'org-roam-node-read--annotation
  "This function used to attach annotations for `org-roam-node-read'.
@ -72,10 +76,22 @@ It takes a single argument NODE, which is an `org-roam-node' construct."

 (defcustom org-roam-node-default-sort 'file-mtime
  "Default sort order for Org-roam node completions."
-  :type '(choice (const :tag "file-mtime" file-mtime)
+  :type '(choice
+          (const :tag "none" nil)
+          (const :tag "file-mtime" file-mtime)
          (const :tag "file-atime" file-atime))
  :group 'org-roam)

+(defcustom org-roam-node-formatter nil
+  "The link description for node insertion.
+If a function is provided, the function should take a single
+argument, an `org-roam-node', and return a string.
+
+If a string is provided, it is a template string expanded by
+`org-roam-node--format-entry'."
+  :group 'org-roam
+  :type '(string function))
+
 (defcustom org-roam-node-template-prefixes
  '(("tags" . "#")
    ("todo" . "t:"))
@ -93,7 +109,9 @@ has the entry (\"tags\" . \"#\"), these will appear as

 (defcustom org-roam-ref-annotation-function #'org-roam-ref-read--annotation
  "This function used to attach annotations for `org-roam-ref-read'.
-It takes a single argument REF, which is a propertized string.")
+It takes a single argument REF, which is a propertized string."
+  :group 'org-roam
+  :type  '(function))

 ;;;; Completion-at-point
 (defcustom org-roam-completion-everywhere nil
@ -118,14 +136,31 @@ It takes a single argument REF, which is a propertized string.")
  :group 'org-roam
  :type 'string)

+(defvar org-roam-node-history nil
+  "Minibuffer history of nodes.")
+
+(defvar org-roam-ref-history nil
+  "Minibuffer history of refs.")
+
 ;;; Definition
 (cl-defstruct (org-roam-node (:constructor org-roam-node-create)
                             (:copier nil))
  "A heading or top level file with an assigned ID property."
-  file file-hash file-atime file-mtime
+  file file-title file-hash file-atime file-mtime
  id level point todo priority scheduled deadline title properties olp
  tags aliases refs)

+;; Shim `string-glyph-compose' and `string-glyph-decompose' for Emacs versions that do not have it.
+;; The functions were introduced in emacs commit 3f096eb3405b2fce7c35366eb2dcf025dda55783 and the
+;; (original) functions behind them aren't autoloaded anymore.
+(dolist (sym.replace
+         '((string-glyph-compose . ucs-normalize-NFC-string)
+           (string-glyph-decompose . ucs-normalize-NFD-string)))
+  (let ((emacs-29-symbol (car sym.replace))
+        (previous-implementation (cdr sym.replace)))
+    (unless (fboundp emacs-29-symbol)
+      (defalias emacs-29-symbol previous-implementation))))
+
 (cl-defmethod org-roam-node-slug ((node org-roam-node))
  "Return the slug of NODE."
  (let ((title (org-roam-node-title node))
@ -154,9 +189,9 @@ It takes a single argument REF, which is a propertized string.")
    (cl-flet* ((nonspacing-mark-p (char)
                                  (memq char slug-trim-chars))
               (strip-nonspacing-marks (s)
-                                       (ucs-normalize-NFC-string
+                                       (string-glyph-compose
                                        (apply #'string (seq-remove #'nonspacing-mark-p
-                                                                    (ucs-normalize-NFD-string s)))))
+                                                                    (string-glyph-decompose s)))))
               (cl-replace (title pair)
                           (replace-regexp-in-string (car pair) (cdr pair) title)))
      (let* ((pairs `(("[^[:alnum:][:digit:]]" . "_") ;; convert anything not alphanumeric
@ -166,6 +201,16 @@ It takes a single argument REF, which is a propertized string.")
             (slug (-reduce-from #'cl-replace (strip-nonspacing-marks title) pairs)))
        (downcase slug)))))

+(cl-defmethod org-roam-node-formatted ((node org-roam-node))
+  "Return a formatted string for NODE."
+  (pcase org-roam-node-formatter
+    ((pred functionp)
+     (funcall org-roam-node-formatter node))
+    ((pred stringp)
+     (org-roam-node--format-entry (org-roam-node--process-display-format org-roam-node-formatter) node))
+    (_
+     (org-roam-node-title node))))
+
 ;;; Nodes
 ;;;; Getters
 (defun org-roam-node-at-point (&optional assert)
@ -180,7 +225,7 @@ populated."
                                    (magit-section-up)
                                    (org-roam-node-at-point)))
        (t (org-with-wide-buffer
-            (org-back-to-heading-or-point-min)
+            (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))
@ -223,9 +268,15 @@ Throw an error if multiple choices exist."
  "Return an `org-roam-node' from REF reference.
 Return nil if there's no node with such REF."
  (save-match-data
-    (when (string-match org-link-plain-re ref)
-      (let ((type (match-string 1 ref))
-            (path (match-string 2 ref)))
+    (let (type path)
+      (cond
+       ((string-match org-link-plain-re ref)
+        (setq type (match-string 1 ref)
+              path (match-string 2 ref)))
+       ((string-prefix-p "@" ref)
+        (setq type "cite"
+              path (substring ref 1))))
+      (when (and type path)
        (when-let ((id (caar (org-roam-db-query
                              [:select [nodes:id]
                               :from refs
@ -249,7 +300,7 @@ nodes."
                                                 :limit 1]
                                                (org-roam-node-id node)))))
    (pcase-let* ((`(,file ,level ,pos ,todo ,priority ,scheduled ,deadline ,title ,properties ,olp) node-info)
-                 (`(,atime ,mtime) (car (org-roam-db-query [:select [atime mtime]
+                 (`(,atime ,mtime ,file-title) (car (org-roam-db-query [:select [atime mtime title]
                                                                        :from files
                                                                        :where (= file $s1)]
                                                                       file)))
@ -263,6 +314,7 @@ nodes."
                                                              :where (= node-id $s1)]
                                                             (org-roam-node-id node)))))
      (setf (org-roam-node-file node) file
+            (org-roam-node-file-title node) file-title
            (org-roam-node-file-atime node) atime
            (org-roam-node-file-mtime node) mtime
            (org-roam-node-level node) level
@ -285,6 +337,7 @@ nodes."
               "SELECT
  id,
  file,
+  filetitle,
  \"level\",
  todo,
  pos,
@ -304,6 +357,7 @@ FROM
  SELECT
    id,
    file,
+    filetitle,
    \"level\",
    todo,
    pos,
@ -334,6 +388,7 @@ FROM
      nodes.olp as olp,
      files.atime as atime,
      files.mtime as mtime,
+      files.title as filetitle,
      tags.tag as tags,
      aliases.alias as aliases,
      '(' || group_concat(RTRIM (refs.\"type\", '\"') || ':' || LTRIM(refs.ref, '\"'), ' ') || ')' as refs
@ -346,13 +401,14 @@ FROM
  GROUP BY id, tags )
 GROUP BY id")))
    (cl-loop for row in rows
-             append (pcase-let* ((`(,id ,file ,level ,todo ,pos ,priority ,scheduled ,deadline
+             append (pcase-let* ((`(,id ,file ,file-title ,level ,todo ,pos ,priority ,scheduled ,deadline
                                        ,title ,properties ,olp ,atime ,mtime ,tags ,aliases ,refs)
                                  row)
                                 (all-titles (cons title aliases)))
                      (mapcar (lambda (temp-title)
                                (org-roam-node-create :id id
                                                      :file file
+                                                      :file-title file-title
                                                      :file-atime atime
                                                      :file-mtime mtime
                                                      :level level
@ -362,6 +418,7 @@ GROUP BY id")))
                                                      :scheduled scheduled
                                                      :deadline deadline
                                                      :title temp-title
+                                                      :aliases aliases
                                                      :properties properties
                                                      :olp olp
                                                      :tags tags
@ -393,7 +450,7 @@ If NODE is already visited, this won't automatically move the
 point to the beginning of the NODE, unless FORCE is non-nil. In
 interactive calls FORCE always set to t."
  (interactive (list (org-roam-node-at-point t) current-prefix-arg t))
-  (let ((buf (org-roam-node-find-noselect node 'force))
+  (let ((buf (org-roam-node-find-noselect node force))
        (display-buffer-fn (if other-window
                               #'switch-to-buffer-other-window
                             #'pop-to-buffer-same-window)))
@ -432,58 +489,70 @@ window instead."
                         other-window)))

 ;;;; Completing-read interface
-(defun org-roam-node-read (&optional initial-input filter-fn sort-fn require-match)
+(defun org-roam-node-read (&optional initial-input filter-fn sort-fn require-match prompt)
  "Read and return an `org-roam-node'.
 INITIAL-INPUT is the initial minibuffer prompt value.
 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.
 SORT-FN is a function to sort nodes. See `org-roam-node-read-sort-by-file-mtime'
 for an example sort function.
-If REQUIRE-MATCH, the minibuffer prompt will require a match."
+If REQUIRE-MATCH, the minibuffer prompt will require a match.
+PROMPT is a string to show at the beginning of the mini-buffer, defaulting to \"Node: \""
  (let* ((nodes (org-roam-node-read--completions))
-         (nodes (cl-remove-if-not (lambda (n)
-                                    (if filter-fn (funcall filter-fn (cdr n)) t)) nodes))
+         (nodes (if filter-fn
+                    (cl-remove-if-not
+                     (lambda (n) (funcall filter-fn (cdr n)))
+                     nodes)
+                  nodes))
         (sort-fn (or sort-fn
                      (when org-roam-node-default-sort
                        (intern (concat "org-roam-node-read-sort-by-"
                                        (symbol-name org-roam-node-default-sort))))))
         (_ (when sort-fn (setq nodes (seq-sort sort-fn nodes))))
+         (prompt (or prompt "Node: "))
         (node (completing-read
-                "Node: "
+                prompt
                (lambda (string pred action)
                  (if (eq action 'metadata)
-                      '(metadata
-                        (annotation-function . (lambda (title)
+                      `(metadata
+                        ;; Preserve sorting in the completion UI if a sort-fn is used
+                        ,@(when sort-fn
+                            '((display-sort-function . identity)
+                              (cycle-sort-function . identity)))
+                        (annotation-function
+                         . ,(lambda (title)
                              (funcall org-roam-node-annotation-function
                                       (get-text-property 0 'node title))))
                        (category . org-roam-node))
                    (complete-with-action action nodes string pred)))
-                nil require-match initial-input)))
+                nil require-match initial-input 'org-roam-node-history)))
    (or (cdr (assoc node nodes))
        (org-roam-node-create :title node))))

-(defvar org-roam-node-read--cached-display-format nil)
-
 (defun org-roam-node-read--completions ()
  "Return an alist for node completion.
 The car is the displayed title or alias for the node, and the cdr
 is the `org-roam-node'.
 The displayed title is formatted according to `org-roam-node-display-template'."
-  (setq org-roam-node-read--cached-display-format nil)
-  (let ((nodes (org-roam-node-list)))
-    (mapcar #'org-roam-node-read--to-candidate nodes)))
+  (let ((template (org-roam-node--process-display-format org-roam-node-display-template))
+        (nodes (org-roam-node-list)))
+    (mapcar (lambda (node)
+              (org-roam-node-read--to-candidate node template)) nodes)))

-(defun org-roam-node-read--to-candidate (node)
-  "Return a minibuffer completion candidate given NODE."
-  (let ((candidate-main (org-roam-node-read--format-entry node (1- (frame-width)))))
+(defun org-roam-node-read--to-candidate (node template)
+  "Return a minibuffer completion candidate given NODE.
+TEMPLATE is the processed template used to format the entry."
+  (let ((candidate-main (org-roam-node--format-entry
+                         template
+                         node
+                         (1- (frame-width)))))
    (cons (propertize candidate-main 'node node) node)))

-(defun org-roam-node-read--format-entry (node width)
+(defun org-roam-node--format-entry (template node &optional width)
  "Formats NODE for display in the results list.
 WIDTH is the width of the results list.
-Uses `org-roam-node-display-template' to format the entry."
-  (pcase-let ((`(,tmpl . ,tmpl-width)
-               (org-roam-node-read--process-display-format org-roam-node-display-template)))
+TEMPLATE is the processed template used to format the entry."
+  (pcase-let ((`(,tmpl . ,tmpl-width) template))
    (org-roam-format-template
     tmpl
     (lambda (field _default-val)
@ -508,26 +577,28 @@ Uses `org-roam-node-display-template' to format the entry."
                            ((not field-width)
                             field-width)
                            ((string-equal field-width "*")
-                             (- width tmpl-width))
+                             (if width
+                                 (- width tmpl-width)
+                               tmpl-width))
                            ((>= (string-to-number field-width) 0)
                             (string-to-number field-width))))
-         ;; Setting the display (which would be padded out to the field length) for an
-         ;; empty string results in an empty string and misalignment for candidates that
-         ;; don't have some field. This uses the actual display string, made of spaces
-         ;; when the field-value is "" so that we actually take up space.
-         (let ((display-string (if field-width
-                                   (truncate-string-to-width field-value field-width 0 ?\s)
-                                 field-value)))
-           (if (equal field-value "")
-               display-string
-             ;; Remove properties from the full candidate string, otherwise the display
-             ;; formatting with pre-prioritized field-values gets messed up.
-             (propertize (substring-no-properties field-value) 'display display-string))))))))
+         (when field-width
+           (let* ((truncated (truncate-string-to-width field-value field-width 0 ?\s))
+                  (tlen (length truncated))
+                  (len (length field-value)))
+             (if (< tlen len)
+                 ;; Make the truncated part of the string invisible. If strings
+                 ;; are pre-propertized with display or invisible properties, the
+                 ;; formatting may get messed up. Ideally, truncated strings are
+                 ;; not preformatted with these properties. Face properties are
+                 ;; allowed without restriction.
+                 (put-text-property tlen len 'invisible t field-value)
+               ;; If the string wasn't truncated, but padded, use this string instead.
+               (setq field-value truncated))))
+         field-value)))))

-(defun org-roam-node-read--process-display-format (format)
+(defun org-roam-node--process-display-format (format)
  "Pre-calculate minimal widths needed by the FORMAT string."
-  (or org-roam-node-read--cached-display-format
-      (setq org-roam-node-read--cached-display-format
  (let* ((fields-width 0)
         (string-width
          (string-width
@ -539,11 +610,12 @@ Uses `org-roam-node-display-template' to format the entry."
                       (string-to-number
                        (or (cadr (split-string field ":"))
                            "")))))))))
-              (cons format (+ fields-width string-width))))))
+    (cons format (+ fields-width string-width))))

 (defun org-roam-node-read-sort-by-file-mtime (completion-a completion-b)
  "Sort files such that files modified more recently are shown first.
-COMPLETION-A and COMPLETION-B are items in the form of (node-title org-roam-node-struct)"
+COMPLETION-A and COMPLETION-B are items in the form of
+\(node-title org-roam-node-struct)"
  (let ((node-a (cdr completion-a))
        (node-b (cdr completion-b)))
    (time-less-p (org-roam-node-file-mtime node-b)
@ -551,7 +623,8 @@ COMPLETION-A and COMPLETION-B are items in the form of (node-title org-roam-node

 (defun org-roam-node-read-sort-by-file-atime (completion-a completion-b)
  "Sort files such that files accessed more recently are shown first.
-COMPLETION-A and COMPLETION-B are items in the form of (node-title org-roam-node-struct)"
+COMPLETION-A and COMPLETION-B are items in the form of
+\(node-title org-roam-node-struct)"
  (let ((node-a (cdr completion-a))
        (node-b (cdr completion-b)))
    (time-less-p (org-roam-node-file-atime node-b)
@ -583,7 +656,7 @@ The INFO, if provided, is passed to the underlying `org-roam-capture-'."
                    (setq region-text (org-link-display-format (buffer-substring-no-properties beg end)))))
               (node (org-roam-node-read region-text filter-fn))
               (description (or region-text
-                                (org-roam-node-title node))))
+                                (org-roam-node-formatted node))))
          (if (org-roam-node-id node)
              (progn
                (when region-text
@ -611,19 +684,19 @@ The INFO, if provided, is passed to the underlying `org-roam-capture-'."
  (add-hook 'org-open-at-point-functions #'org-roam-open-id-at-point nil t))

 (defun org-roam-open-id-at-point ()
-  "Try to navigate \"id:\" link to find and visit node with an assigned ID.
-Assumes that the cursor was put where the link is."
-  (let* ((context (org-element-context))
-         (type (org-element-property :type context))
-         (id (org-element-property :path context)))
-    (when (string= type "id")
+  "Navigate to \"id:\" link at point using the Org-roam database."
+  (when (org-in-regexp org-link-any-re)
+    (let ((link (match-string 2))
+          id)
+      (when (string-prefix-p "id:" link)
+        (setq id (substring-no-properties link 3))
        (let ((node (org-roam-populate (org-roam-node-create :id id))))
          (cond
           ((org-roam-node-file node)
            (org-mark-ring-push)
            (org-roam-node-visit node nil 'force)
            t)
-         (t nil))))))
+           (t nil)))))))

 ;;;;; [roam:] link
 (org-link-set-parameters "roam" :follow #'org-roam-link-follow-link)
@ -676,7 +749,7 @@ Assumes that the cursor was put where the link is."

 ;;;;;; Completion-at-point interface
 (defconst org-roam-bracket-completion-re
-  "\\[\\[\\(\\(?:roam:\\)?\\)\\([^z-a]*\\)]]"
+  "\\[\\[\\(\\(?:roam:\\)?\\)\\([^z-a]*?\\)]]"
  "Regex for completion within link brackets.
 We use this as a substitute for `org-link-bracket-re', because
 `org-link-bracket-re' requires content within the brackets for a match.")
@ -689,9 +762,7 @@ We use this as a substitute for `org-link-bracket-re', because
            start (match-beginning 2)
            end (match-end 2))
      (list start end
-            (completion-table-dynamic
-             (lambda (_)
-               (funcall #'org-roam--get-titles)))
+            (org-roam--get-titles)
            :exit-function
            (lambda (str &rest _)
              (delete-char (- 0 (length str)))
@ -712,22 +783,21 @@ hence \"everywhere\"."
             (not (save-match-data (org-in-regexp org-link-any-re))))
    (let ((bounds (bounds-of-thing-at-point 'word)))
      (list (car bounds) (cdr bounds)
-            (completion-table-dynamic
-             (lambda (_)
-               (funcall #'org-roam--get-titles)))
+            (org-roam--get-titles)
            :exit-function
            (lambda (str _status)
              (delete-char (- (length str)))
-              (insert "[[roam:" str "]]"))))))
-
-(defun org-roam-complete-at-point ()
-  "Try get completion candidates at point using `org-roam-completion-functions'."
-  (run-hook-with-args-until-success 'org-roam-completion-functions))
+              (insert "[[roam:" str "]]"))
+            ;; Proceed with the next completion function if the returned titles
+            ;; do not match. This allows the default Org capfs or custom capfs
+            ;; of lower priority to run.
+            :exclusive 'no))))

 (add-hook 'org-roam-find-file-hook #'org-roam--register-completion-functions-h)
 (defun org-roam--register-completion-functions-h ()
  "Setup `org-roam-completion-functions' for `completion-at-point'."
-  (add-hook 'completion-at-point-functions #'org-roam-complete-at-point nil t))
+  (dolist (f org-roam-completion-functions)
+    (add-hook 'completion-at-point-functions f nil t)))

 ;;;; Editing
 (defun org-roam-demote-entire-buffer ()
@ -779,6 +849,8 @@ If region is active, then use it instead of the node at point."
         (nbuf (or (find-buffer-visiting file)
                   (find-file-noselect file)))
         level reversed)
+    (if (equal (org-roam-node-at-point) node)
+        (user-error "Target is the same as current node")
      (if regionp
          (progn
            (org-kill-new (buffer-substring region-start region-end))
@ -820,14 +892,14 @@ If region is active, then use it instead of the node at point."
        (when (and org-capture-mode
                   (buffer-base-buffer (current-buffer)))
          (org-capture-kill))
-      (kill-buffer (current-buffer)))))
+        (kill-buffer (current-buffer))))))

 ;;;###autoload
 (defun org-roam-extract-subtree ()
  "Convert current subtree at point to a node, and extract it into a new file."
  (interactive)
  (save-excursion
-    (org-back-to-heading-or-point-min)
+    (org-back-to-heading-or-point-min t)
    (when (bobp) (user-error "Already a top-level node"))
    (org-id-get-create)
    (save-buffer)
@ -845,10 +917,11 @@ If region is active, then use it instead of the node at point."
                            (funcall fn node))
                           ((fboundp node-fn)
                            (funcall node-fn node))
-                           (t (let ((r (completing-read (format "%s: " key) nil nil nil default-val)))
+                           (t (let ((r (read-from-minibuffer (format "%s: " key) default-val)))
                                (plist-put template-info ksym r)
                                r)))))))
-           (file-path (read-file-name "Extract node to: " org-roam-directory template nil template)))
+           (file-path (read-file-name "Extract node to: "
+                                      (file-name-as-directory org-roam-directory) template nil template)))
      (when (file-exists-p file-path)
        (user-error "%s exists. Aborting" file-path))
      (org-cut-subtree)
@ -865,7 +938,7 @@ If region is active, then use it instead of the node at point."
 Recursively traverses up the headline tree to find the
 first encapsulating ID."
  (org-with-wide-buffer
-   (org-back-to-heading-or-point-min)
+   (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))
@ -889,7 +962,7 @@ 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 with files for dir in (cons org-roam-directory directories)
+  (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)))
@ -908,13 +981,12 @@ filtered out."
         (ref (completing-read "Ref: "
                               (lambda (string pred action)
                                 (if (eq action 'metadata)
-                                     '(metadata
-                                       (annotation-function . (lambda (ref)
-                                                                (funcall org-roam-ref-annotation-function
-                                                                         ref)))
+                                     `(metadata
+                                       (annotation-function
+                                        . ,org-roam-ref-annotation-function)
                                       (category . org-roam-ref))
                                   (complete-with-action action refs string pred)))
-                               nil t initial-input)))
+                               nil t initial-input 'org-roam-ref-history)))
    (cdr (assoc ref refs))))

 (defun org-roam-ref-read--completions ()
@ -959,7 +1031,7 @@ and when nil is returned the node will be filtered out."
  (let ((node (org-roam-node-at-point 'assert)))
    (save-excursion
      (goto-char (org-roam-node-point node))
-      (org-roam-add-property ref "ROAM_REFS"))))
+      (org-roam-property-add "ROAM_REFS" ref))))

 (defun org-roam-ref-remove (&optional ref)
  "Remove a REF from the node at point."
@ -967,7 +1039,7 @@ and when nil is returned the node will be filtered out."
  (let ((node (org-roam-node-at-point 'assert)))
    (save-excursion
      (goto-char (org-roam-node-point node))
-      (org-roam-remove-property "ROAM_REFS" ref))))
+      (org-roam-property-remove "ROAM_REFS" ref))))

 ;;; Tags
 ;;;; Getters
@ -1016,7 +1088,7 @@ and when nil is returned the node will be filtered out."
                                  (org-make-tag-string (seq-difference current-tags tags #'string-equal))))
        (let* ((current-tags (or (org-get-tags)
                                 (user-error "No tag to remove")))
-               (tags (completing-read-multiple "Tag: " current-tags)))
+               (tags (or tags (completing-read-multiple "Tag: " current-tags))))
          (org-set-tags (seq-difference current-tags tags #'string-equal))))
      tags)))

@ -1034,7 +1106,7 @@ and when nil is returned the node will be filtered out."
  (let ((node (org-roam-node-at-point 'assert)))
    (save-excursion
      (goto-char (org-roam-node-point node))
-      (org-roam-add-property alias "ROAM_ALIASES"))))
+      (org-roam-property-add "ROAM_ALIASES" alias))))

 (defun org-roam-alias-remove (&optional alias)
  "Remove an ALIAS from the node at point."
@ -1042,7 +1114,7 @@ and when nil is returned the node will be filtered out."
  (let ((node (org-roam-node-at-point 'assert)))
    (save-excursion
      (goto-char (org-roam-node-point node))
-      (org-roam-remove-property "ROAM_ALIASES" alias))))
+      (org-roam-property-remove "ROAM_ALIASES" alias))))


 (provide 'org-roam-node)
--- a/org-roam-utils.el
+++ b/org-roam-utils.el
@ -1,11 +1,11 @@
 ;;; org-roam-utils.el --- Utilities for Org-roam -*- lexical-binding: t; -*-

-;; Copyright © 2020-2021 Jethro Kuan <jethrokuan95@gmail.com>
+;; Copyright © 2020-2022 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: 2.1.0
+;; Version: 2.2.0
 ;; Package-Requires: ((emacs "26.1") (dash "2.13") (org "9.4"))

 ;; This file is NOT part of GNU Emacs.
@ -32,6 +32,13 @@
 ;;
 ;;; 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)
@ -45,18 +52,51 @@
       (org-roam-replace-string "\\" "\\\\")
       (org-roam-replace-string "\"" "\\\"")))

+(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-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 (point-at-bol) (progn (forward-line) (point)))
+        (forward-line)))
+    (buffer-string)))
+
 ;;; List utilities
-(defmacro org-roam-plist-map! (fn plist)
-  "Map FN over PLIST, modifying it in-place."
-  (declare (indent 1))
-  (let ((plist-var (make-symbol "plist"))
-        (k (make-symbol "k"))
-        (v (make-symbol "v")))
-    `(let ((,plist-var (copy-sequence ,plist)))
-       (while ,plist-var
-         (setq ,k (pop ,plist-var))
-         (setq ,v (pop ,plist-var))
-         (setq ,plist (plist-put ,plist ,k (funcall ,fn ,k ,v)))))))
+(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
 (defmacro org-roam-with-file (file keep-buf-p &rest body)
@ -66,6 +106,7 @@ 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
@ -74,11 +115,12 @@ Kills the buffer if KEEP-BUF-P is nil, and FILE is not yet visited."
                     (find-file-noselect ,file)))) ; Else, visit FILE and return buffer
          res)
     (with-current-buffer buf
-       (unless (equal major-mode 'org-mode)
+       (unless (derived-mode-p 'org-mode)
         (delay-mode-hooks
           (let ((org-inhibit-startup t)
                 (org-agenda-files nil))
-             (org-mode))))
+             (org-mode)
+             (hack-local-variables))))
       (setq res (progn ,@body))
       (unless (and new-buf (not ,keep-buf-p))
         (save-buffer)))
@ -125,14 +167,20 @@ value (possibly nil). Adapted from `s-format'."
                 (let ((v (progn
                            (set-match-data saved-match-data)
                            (funcall replacer var default-val))))
-                   (if v (format "%s" v) (signal 'org-roam-format-resolve md)))
+                   (if v
+                       (format (apply #'propertize "%s" (text-properties-at 0 var)) v)
+                     (signal 'org-roam-format-resolve md)))
               (set-match-data replacer-match-data))))
-         template
+         (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'."
@ -221,6 +269,45 @@ If BOUND, scan up to BOUND bytes of the buffer."
      (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."
@ -230,14 +317,13 @@ If the property is already set, it's value is replaced."
          (if (string-blank-p value)
              (kill-whole-line)
            (replace-match (concat " " value) 'fixedcase nil nil 1))
-        (while (and (not (eobp))
-                    (looking-at "^[#:]"))
+        (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)))
+          (beginning-of-line))
        (insert "#+" key ": " value "\n")))))

 (defun org-roam-erase-keyword (keyword)
@ -274,6 +360,40 @@ If VAL is not specified, user is prompted to select a value."
      (org-delete-property prop))
    prop-to-remove))

+(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)
--- a/org-roam.el
+++ b/org-roam.el
@ -5,8 +5,8 @@
 ;; Author: Jethro Kuan <jethrokuan95@gmail.com>
 ;; URL: https://github.com/org-roam/org-roam
 ;; Keywords: org-mode, roam, convenience
-;; Version: 2.1.0
-;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "2.90.1"))
+;; Version: 2.2.0
+;; Package-Requires: ((emacs "26.1") (dash "2.13") (f "0.17.2") (org "9.4") (emacsql "3.0.0") (emacsql-sqlite "1.0.0") (magit-section "3.0.0"))

 ;; This file is NOT part of GNU Emacs.

@ -94,9 +94,6 @@
 (eval-when-compile
  (require 'subr-x))

-(require 'org-roam-utils)
-(require 'org-roam-compat)
-
 ;;; Options
 (defgroup org-roam nil
  "A database abstraction layer for Org-mode."
@ -275,15 +272,15 @@ E.g. (\".org\") => (\"*.org\" \"*.org.gpg\")"
 (defun org-roam--list-files-find (executable dir)
  "Return all Org-roam files under DIR, using \"find\", provided as EXECUTABLE."
  (let* ((globs (org-roam--list-files-search-globs org-roam-file-extensions))
-         (names (s-join " -o " (mapcar (lambda (glob) (concat "-name " glob)) globs)))
-         (command (s-join " " `(,executable "-L" ,dir "-type f \\(" ,names "\\)"))))
+         (names (string-join (mapcar (lambda (glob) (concat "-name " glob)) globs) " -o "))
+         (command (string-join `(,executable "-L" ,dir "-type f \\(" ,names "\\)") " ")))
    (org-roam--shell-command-files command)))

 (defun org-roam--list-files-fd (executable dir)
  "Return all Org-roam files under DIR, using \"fd\", provided as EXECUTABLE."
  (let* ((globs (org-roam--list-files-search-globs org-roam-file-extensions))
-         (extensions (s-join " -e " (mapcar (lambda (glob) (substring glob 2 -1)) globs)))
-         (command (s-join " " `(,executable "-L" ,dir "--type file" ,extensions))))
+         (extensions (string-join (mapcar (lambda (glob) (concat "-e " (substring glob 2 -1))) globs) " "))
+         (command (string-join `(,executable "-L" "--type file" ,extensions "." ,dir) " ")))
    (org-roam--shell-command-files command)))

 (defalias 'org-roam--list-files-fdfind #'org-roam--list-files-fd)
@ -291,10 +288,12 @@ E.g. (\".org\") => (\"*.org\" \"*.org.gpg\")"
 (defun org-roam--list-files-rg (executable dir)
  "Return all Org-roam files under DIR, using \"rg\", provided as EXECUTABLE."
  (let* ((globs (org-roam--list-files-search-globs org-roam-file-extensions))
-         (command (s-join " " `(,executable "-L" ,dir "--files"
-                                            ,@(mapcar (lambda (glob) (concat "-g " glob)) globs)))))
+         (command (string-join `(,executable "-L" ,dir "--files"
+                                             ,@(mapcar (lambda (glob) (concat "-g " glob)) globs)) " ")))
    (org-roam--shell-command-files command)))

+(declare-function org-roam--directory-files-recursively "org-roam-compat")
+
 (defun org-roam--list-files-elisp (dir)
  "Return all Org-roam files under DIR, using Elisp based implementation."
  (let ((regex (concat "\\.\\(?:"(mapconcat
@ -310,6 +309,8 @@ E.g. (\".org\") => (\"*.org\" \"*.org.gpg\")"
 (provide 'org-roam)

 (cl-eval-when (load eval)
+  (require 'org-roam-compat)
+  (require 'org-roam-utils)
  (require 'org-roam-db)
  (require 'org-roam-node)
  (require 'org-roam-capture)