docs(biblio,tree-sitter): update READMEs to new format
Also preforms minor spelling, grammar, and formatting corrections.
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Henrik Lissner
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#+TITLE: tools/biblio
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#+DATE: April 11, 2020
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#+SINCE: 21.12.0 (#5290)
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#+STARTUP: inlineimages
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# -*- mode: doom-docs-org -*-
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#+title: :tools biblio
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#+subtitle: Writes a PhD for you (citation needed)
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#+created: April 11, 2020
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#+since: 21.12.0 (#5290)
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* Table of Contents :TOC_3:noexport:
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- [[#description][Description]]
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- [[#maintainers][Maintainers]]
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- [[#module-flags][Module Flags]]
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- [[#plugins][Plugins]]
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- [[#prerequisites][Prerequisites]]
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- [[#pdf-viewing][PDF viewing]]
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- [[#bibtex-completion][Bibtex completion]]
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- [[#features][Features]]
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- [[#configuration][Configuration]]
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- [[#org-cite][Org-cite]]
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- [[#processor-configuration][Processor configuration]]
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- [[#other-configuration-options][Other configuration options]]
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- [[#path-configuration][Path configuration]]
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- [[#templates][Templates]]
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- [[#troubleshooting][Troubleshooting]]
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* Description
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* Description :unfold:
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This module adds tools to help when working with bibliographies and citations.
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Minimal modifications have been made to the packages and the configuration
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details are listed in [[*Configuration][Configuration]] below. Some sensible defaults have been
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selected so it should be possible to use without modifications.
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** Maintainers
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+ [[https://github.com/bdarcus][bdarcus]]
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+ [[https://github.com/brianmcgillion][bmg]]
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- [[doom-user:][bdarcus]]
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- [[doom-user:][bmg]]
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** Module Flags
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This module provides no flags.
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[[doom-contrib-maintainer:][Become a maintainer?]]
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** Plugins
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+ [[https://github.com/tmalsburg/helm-bibtex][bibtex-completion]]
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+ ~:completion vertico~
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+ [[https://github.com/bdarcus/citar][citar]]
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+ ~:completion helm~
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+ [[https://github.com/tmalsburg/helm-bibtex][helm-bibtex]]
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+ ~:completion ivy~
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+ [[https://github.com/tmalsburg/helm-bibtex][ivy-bibtex]]
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** Module flags
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/This module has no flags./
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* Prerequisites
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There are no hard dependencies for this module.
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** Packages
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- [[doom-package:][bibtex-completion]] if [[doom-module:][:completion ivy]] or [[doom-module:][:completion helm]]
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- [[doom-package:][citar]] if [[doom-module:][:completion vertico]]
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- [[doom-package:][helm-bibtex]] if [[doom-module:][:completion helm]]
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- [[doom-package:][ivy-bibtex]] if [[doom-module:][:completion ivy]]
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** Hacks
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/No hacks documented for this module./
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** TODO Changelog
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# This section will be machine generated. Don't edit it by hand.
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/This module does not have a changelog yet./
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* Installation
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[[id:01cffea4-3329-45e2-a892-95a384ab2338][Enable this module in your ~doom!~ block.]]
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There are no hard dependencies for this module, but this module can benefit from
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having a PDF reader and one of Doom's [[doom-module:][:completion]] modules.
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** PDF viewing
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An application for opening PDF files is required. By default =DocView= is used
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though it is highly recommended to enable =:tools pdf= in your personal ~init.el~
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file to enable [[https://github.com/politza/pdf-tools][pdf-tools]].
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though [[doom-module:][:tools pdf]] is highly recommended so PDFs can be viewed within Emacs.
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** Bibtex completion
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For vertico, helm, or ivy bibtex completion you should enable =:completion vertico=, =:completion helm=, or
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=:completion ivy= respectively.
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For vertico, helm, or ivy bibtex completion you should enable [[doom-module:][:completion
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vertico]], [[doom-module:][:completion helm]], or [[doom-module:][:completion ivy]] respectively.
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* Features
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Both [[https://github.com/tmalsburg/helm-bibtex][helm-bibtex]] (includes helm-bibtex, ivy-bibtex and bibtex-completion code)
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and [[https://github.com/bdarcus/bibtex-actions][citar]] provide an extensive range of features so it is best to check their
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* Usage
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Both [[doom-package:][helm-bibtex]] (includes [[doom-package:][helm-bibtex]], [[doom-package:][ivy-bibtex]], and bibtex-completion code)
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and [[doom-package:][citar]] provide an extensive range of features so it is best to check their
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respective sites for a full list of features.
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On a high-level you can expect:
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+ bibliography management
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+ notes per reference
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+ citation support
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+ citation lookup
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+ org integration for writing literate latex (org-roam)
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+ fast indexing and searching of references.
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- bibliography management
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- notes per reference
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- citation support
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- citation lookup
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- org integration for writing literate latex (org-roam)
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- fast indexing and searching of references.
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To understand the interaction between these packages this [[https://www.reddit.com/r/emacs/comments/cxu0qg/emacs_org_and_bibtex_as_alternative_to_zotero_and/eyqe4vq/][reddit]] thread will explain
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the unique features and the overlapping functionality, if any.
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To understand the interaction between these packages this [[https://www.reddit.com/r/emacs/comments/cxu0qg/emacs_org_and_bibtex_as_alternative_to_zotero_and/eyqe4vq/][reddit]] thread will
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explain the unique features and the overlapping functionality, if any.
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In addition, this module provides support for native Org-mode citations: =org-cite=.
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In addition, this module provides support for native Org-mode citations
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([[doom-package:][org-cite]]).
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* Configuration
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For all these packages it is advisable to use ~(after! package)~ in your
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~config.el~ to override any default settings and tune the packages to your
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needs.
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To override any defaults set by this module, do so in an ~(after! package ...)~
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block in =$DOOMDIR/config.el=.
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** Org-cite
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*** Processor configuration
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[[doom-package:][org-cite]] provides rich features and flexible configuration options via its
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"processor" capabilities.
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=Org-cite= provides rich features and flexible configuration options via its "processor" capabilities.
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1. /insert/ provides =org-cite-insert= integration for inserting and editing citations.
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1. /insert/ provides =org-cite-insert= integration for inserting and editing
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citations.
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2. /activate/ provides fontification, previews, etc.
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3. /follow/ integrates contextual citation actions with =org-open-at-point=.
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4. /export/ for different output targets.
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This module makes the following processors available:
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1. The core =oc-basic=, =oc-natbib=, =oc-biblatex=, and =oc-csl=.
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2. [[https://github.com/bdarcus/bibtex-actions][citar]] for integration with =vertico= completion.
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The module configures these processors as follows for the different completion modules:
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2. [[doom-package:][citar]] for integration with [[doom-package:][vertico]] completion.
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The module configures these processors as follows for the different completion
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modules:
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| Feature | Vertico | Ivy | Helm |
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|----------+---------+----------+----------|
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| Insert | citar | oc-basic | oc-basic |
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| Activate | citar | oc-basic | oc-basic |
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| Follow | citar | oc-basic | oc-basic |
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*** Other configuration options
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If you like, you can also set the =oc-csl= processor to look in a specific
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directory for your CSL styles:
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#+BEGIN_SRC emacs-lisp
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#+begin_src emacs-lisp
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(setq org-cite-csl-styles-dir "~/Zotero/styles")
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#+END_SRC
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#+end_src
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** Path configuration
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You must set the path variable for either =citar= (if using =vertico=
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completion) or =bibtex-completion= (if using =ivy= or =helm=); this module will
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in turn set the =org-cite-global-bibliography= variable to the same value:
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#+BEGIN_src emacs-lisp
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You must set the path variable for either [[doom-package:][citar]] (if using [[doom-module:][:completion vertico]])
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or [[doom-package:][bibtex-completion]] (if using [[doom-module::completion ivy][ivy]] or [[doom-module::completion helm][helm]]); this module will in turn set the
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[[var:][org-cite-global-bibliography]] variable to the same value:
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#+begin_src emacs-lisp
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(setq! bibtex-completion-bibliography '("/path/to/references.bib"))
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#+END_src
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#+end_src
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#+BEGIN_src emacs-lisp
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#+begin_src emacs-lisp
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(setq! citar-bibliography '("/path/to/references.bib"))
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#+END_src
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#+end_src
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You may also set the respective note and library path variables as well for
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enhanced functionality:
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#+BEGIN_src emacs-lisp
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#+begin_src emacs-lisp
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(setq! bibtex-completion-library-path '("/path/to/library/path/")
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bibtex-completion-notes-path "/path/to/your/notes/")
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#+END_src
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#+end_src
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#+BEGIN_src emacs-lisp
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#+begin_src emacs-lisp
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(setq! citar-library-paths '("/path/to/library/files/")
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citar-notes-paths '("/path/to/your/notes/"))
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#+END_src
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#+end_src
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** Templates
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This module provides reasonable default templates for the packages. However, if
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you wish to change them, refer to the respective packages' documentation for in-depth
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instructions.
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you wish to change them, refer to the respective packages' documentation for
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in-depth instructions.
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* Troubleshooting
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# Common issues and their solution, or places to look for help.
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/There are no known problems with this module./ [[doom-report:][Report one?]]
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Refer to the respective package repositories.
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* Frequently asked questions
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/This module has no FAQs yet./ [[doom-suggest-faq:][Ask one?]]
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* TODO Appendix
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#+begin_quote
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🔨 This module has no appendix yet. [[doom-contrib-module:][Write one?]]
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#+end_quote
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