Add org-ref integation to biblio module

2021-07-04 01:33:50 +02:00
17 changed files with 298 additions and 269 deletions
--- a/+keybindings.el
+++ b/+keybindings.el
@@ -1,6 +0,0 @@
-;;; +keybindings.el -*- lexical-binding: t; -*-
-;; Custom keybindings
-;;
-;; Keybindings for next/previous buffer
-(map! :n "C-c j" #'previous-buffer)
-(map! :n "C-c k" #'next-buffer)
--- a/+org.el
+++ b/+org.el
@@ -1,14 +1,24 @@
 ;;; ~/.doom.d/+org.el -*- lexical-binding: t; -*-
 ;; Org mode configuration
 ;;
-(setq org-ellipsis " ▼ ")
+(setq org-ellipsis " ▼ "
+      org-superstar-headline-bullets-list '("⁖"))
 ;; Cycle through header visibility
 (after! evil-org
  (remove-hook 'org-tab-first-hook #'+org-cycle-only-current-subtree-h))
 ;; Disable completion
 (set-company-backend! 'org-mode nil)
 ;; Turn off line numbers
-(add-hook! 'org-mode-hook (display-line-numbers-mode -1))
+(add-hook 'org-mode-hook (lambda () (display-line-numbers-mode -1)))
+;; Add Notes to agenda
+(setq org-agenda-files '("~/Notes"))
+;; Tailor Org super agenda
+(use-package! org-super-agenda
+  :after org-agenda
+  :init
+  (setq org-super-agenda-groups '((:auto-category t)))
+  :config
+  (org-super-agenda-mode))
 ;; Add timestamp to DONE task
 (setq org-log-done 'time)
 ;; Print babel results to the buffer and export them
@@ -16,8 +26,7 @@
                                      (:cache . "no") (:noweb . "no") (:hlines . "no") (:tangle . "no"))
      org-babel-default-lob-header-args '((:exports . "both")))
 ;; Enter writeroom-mode in all org files
-(add-hook! 'org-mode-hook 'global-writeroom-mode)
-(add-hook! 'org-mode-hook 'visual-line-mode)
+(add-hook 'org-mode-hook 'global-writeroom-mode)
 ;; Respect LANGUAGE export variable
 (add-to-list 'org-latex-packages-alist '("AUTO" "babel" t ("pdflatex")))
 ;; Don't evaluate code blocks on export
@@ -25,7 +34,7 @@
 ;; Speed up agenda startup
 (setq org-agenda-dim-blocked-tasks nil)
 ;; Open file with folded headlines
-(setq org-startup-folded t)
+(setq org-startup-folded 'content)
 ;; Add tufte-handout to LaTeX classes
 (after! ox-latex
  (add-to-list 'org-latex-classes
@@ -37,64 +46,23 @@
 ;; Add org-plain-latex
 (after! ox-latex
  (add-to-list 'org-latex-classes
-               '("org-plain-latex"
-                 "\\documentclass{article}
+             '("org-plain-latex"
+               "\\documentclass{article}
           [NO-DEFAULT-PACKAGES]
           [PACKAGES]
           [EXTRA]"
-                 ("\\section{%s}" . "\\section*{%s}")
-                 ("\\subsection{%s}" . "\\subsection*{%s}")
-                 ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
-                 ("\\paragraph{%s}" . "\\paragraph*{%s}")
-                 ("\\subparagraph{%s}" . "\\subparagraph*{%s}"))))
-;; Prettify code block export
-(use-package! engrave-faces-latex
-  :after ox-latex)
-(setq org-latex-src-block-backend 'engraved)
-;; Add citeproc and metadata-file options to ox-pandoc
-(after! ox-pandoc
-  (add-to-list 'org-pandoc-valid-options 'citeproc)
-  (add-to-list 'org-pandoc-valid-options 'metadata-file))
+               ("\\section{%s}" . "\\section*{%s}")
+               ("\\subsection{%s}" . "\\subsection*{%s}")
+               ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
+               ("\\paragraph{%s}" . "\\paragraph*{%s}")
+               ("\\subparagraph{%s}" . "\\subparagraph*{%s}"))))
+;; Enable listings for LaTeX export
+(setq org-latex-listings 't)
+;; Set up bibliography management
+(setq! +biblio-pdf-library-dir "~/Documents/Uni/TFG/bibliography/"
+       +biblio-default-bibliography-files '("~/Documents/Uni/TFG/assets/bibliography.bib"))
+;; Add citeproc and metadata-file options to ox-latex
+(add-to-list 'org-pandoc-valid-options 'citeproc)
+(add-to-list 'org-pandoc-valid-options 'metadata-file)
 ;; Allow referencing by label in org-ref
 (setq org-latex-prefer-user-labels t)
-;; Extend pomodoro length to 45/15
-(setq org-pomodoro-length '45
-      org-pomodoro-short-break-length '15
-      org-pomodoro-long-break-length '30
-      org-pomodoro-time-format "%.2m min"
-      org-pomodoro-keep-killed-pomodoro-time t)
-;; Save org-download images to an assets directory
-(after! org-download
-  (setq org-download-image-dir "assets/"
-        org-attach-auto-tag nil))
-;; Show images by default with a limited width
-(setq org-startup-with-inline-images t
-      org-image-actual-width 600)
-;; Use a modern look
-(use-package! org-modern
-  :hook (org-mode . org-modern-mode)
-  :config
-  (setq org-modern-star ["⁖"]))
-(add-hook! 'org-agenda-finalize-hook #'org-modern-agenda)
-;; Configure a better split and some default for org-noter
-(after! org-noter
-  (setq org-noter-always-create-frame nil
-        org-noter-doc-split-fraction '(0.7 . 0.3)
-        org-noter-default-heading-title " "
-        org-noter-separate-notes-from-heading nil))
-;; Show latex preview automatically and increase its size
-(setq org-startup-with-latex-preview t
-      org-format-latex-options (plist-put org-format-latex-options :scale 3.0))
-;; Close tags automatically
-(after! smartparens
-  (sp-with-modes 'org-mode
-    (sp-local-pair "*" "*")
-    (sp-local-pair "_" "_")
-    (sp-local-pair "/" "/")
-    (sp-local-pair "~" "~")
-    (sp-local-pair "$" "$")))
-;; Show raw latex when the cursor on the expression
-(add-hook! 'org-mode-hook 'org-fragtog-mode)
-;; HACK Fix search folded sections
-(setq org-fold-core-style 'overlays)
-(evil-select-search-module 'evil-search-module 'evil-search)
--- a/+ui.el
+++ b/+ui.el
@@ -2,41 +2,37 @@
 ;; Appearance settings
 ;; Set Font and theme
 (setq doom-font (font-spec :family "Iosevka Medium" :size 26)
-      doom-theme 'doom-one)
+      doom-theme 'doom-nord)
+;; Display Magit status in fullscreen
+(after! magit
+  (setq magit-display-buffer-function #'magit-display-buffer-fullframe-status-v1))
+;; Match pdf-tools colors to the theme
+(after! pdf-tools
+  (setq pdf-view-midnight-colors '("#ECEFF4" . "#2E3440"))
+  (add-hook 'pdf-tools-enabled-hook 'pdf-view-midnight-minor-mode))
 ;; Customize modeline
-(setq doom-modeline-buffer-encoding nil)
+(setq doom-modeline-major-mode-icon t
+      doom-modeline-persp-name t
+      doom-modeline-buffer-encoding nil)
+;; Hide direnv environment variables popup
+(setq direnv-always-show-summary nil)
 ;; Change splash-screen banner
 (setq fancy-splash-image "~/.doom.d/assets/emacs.svg")
+;; Disable LSP documentation popup
+(after! lsp-ui
+  (setq lsp-ui-doc-enable nil
+        lsp-signature-auto-activate nil
+        lsp-enable-symbol-highlighting nil
+        lsp-ui-sideline-show-code-actions nil
+        lsp-modeline-code-actions-enable nil))
 ;; Shrink minibuffer
-(after! vertico
-  (setq vertico-count 8))
+(after! ivy
+  (setq ivy-height 10))
 ;; Eliminate gaps between windows
 (after! frame
  (remove-hook 'doom-init-ui-hook #'window-divider-mode))
-;; Show matching parenthesis on the minibuffer
-(after! smartparens (show-smartparens-global-mode t))
-;; Modify the splash screen actions
-(setq +doom-dashboard-menu-sections
-      '(("Reload last session"
-         :icon (nerd-icons-octicon "nf-oct-history" :face 'doom-dashboard-menu-title)
-         :when (cond ((modulep! :ui workspaces)
-                      (file-exists-p (expand-file-name persp-auto-save-fname persp-save-dir)))
-                     ((require 'desktop nil t)
-                      (file-exists-p (desktop-full-file-name))))
-         :face (:inherit (doom-dashboard-menu-title bold))
-         :action doom/quickload-session)
-        ("Open org-agenda"
-         :icon (nerd-icons-octicon "nf-oct-calendar" :face 'doom-dashboard-menu-title)
-         :when (fboundp 'org-agenda)
-         :action org-agenda)
-        ("Recently opened files"
-         :icon (nerd-icons-faicon "nf-fa-file_text" :face 'doom-dashboard-menu-title)
-         :action recentf-open-files)))
-;; Restore previous session without confirmation
-(defadvice! restore-no-confirm-session-quickload-a ()
-  :override #'doom/quickload-session
-  (message "Restoring session...")
-  (doom-load-session)
-  (message "Session restored. Welcome back."))
-;; Decrease size of icons in the modeline
-(setq nerd-icons-scale-factor 1.0)
+;; Disable lsp header line
+(after! lsp-mode
+  (setq lsp-headerline-breadcrumb-enable nil))
+;; Shrink terminal buffer
+(set-popup-rule! "^\\*vterm" :size 0.1 :vslot -4 :select t :quit nil :ttl 0)
--- a/config.el
+++ b/config.el
@@ -4,58 +4,58 @@
 ;;
 ;; Load appearance configuration
 (load! "+ui")
-;; Load custom keybindings
-(load! "+keybindings")
-;; Auto cleanup recentf
+;; Set projects directories
+(setq projectile-project-search-path '("~/Projects" "~/Documents/Work" "~/Documents/Typesetting"))
+; Auto cleanup recentf
 (setq recentf-auto-cleanup 300)
-;; Save backup files to ~/.cache and autosave files to ~/.cache/emacs
+; Save backup files to ~/.cache and autosave files to ~/.cache/emacs
 (setq backup-directory-alist `(("." . "~/.cache"))
-      auto-save-list-file-prefix (concat "~/.cache"))
+      auto-save-list-file-prefix
+        (concat "~/.cache/emacs"))
+;; Set Magit repositories
+(setq magit-repository-directories '(("~/Projects" . 3)
+                                     ("~/.dotfiles" . 0)
+                                     ("~/.doom.d" . 0)))
 ;; Load org configuration
 (after! org (load! "+org"))
-;; Disable completion and line numbers in Markdown
-(add-hook! 'markdown-mode-hook (display-line-numbers-mode -1))
+;; Enter writeroom and disable completion and line numbers in Markdown
+(add-hook 'markdown-mode-hook (lambda () (display-line-numbers-mode -1)))
 (after! markdown
-  (set-company-backend! 'markdown-mode nil))
-;; Enable writeroom-mode for text modes
-(setq writeroom-major-modes '(org-mode markdown-mode)
-      +zen-text-scale 1.5)
-(add-hook! 'markdown-mode-hook 'global-writeroom-mode)
+  (set-company-backend! 'markdown-mode nil)
+  (add-hook 'markdown-mode-hook 'global-writeroom-mode))
 ;; Reload file from disk without confirmation
 (defun revert-buffer-no-confirm ()
  (interactive)
  (revert-buffer :ignore-auto :noconfirm))
+;; Select target in Makefile compilation as default
+(map! :leader :n "c c" #'makefile-executor-execute-project-target)
 ;; Align columns in CSV mode
-(add-hook! 'csv-mode-hook 'csv-align-mode)
-(add-hook! 'csv-mode-hook 'csv-header-line)
+(add-hook 'csv-mode-hook 'csv-align-mode)
 ;; Close compilation buffer if successful
-(defun close-compilation-buffer-if-successful (buffer string)
-  "Bury a compilation buffer if succeeded without warnings "
-  (when (and (eq major-mode 'compilation-mode)
-             (string-match "finished" string)
-             (not
-              (with-current-buffer buffer
-                (search-forward "warning" nil t))))
-    (run-with-timer 1 nil
-                    (lambda (buf)
-                      (let ((window (get-buffer-window buf)))
-                        (when (and (window-live-p window)
-                                   (eq buf (window-buffer window)))
-                          (delete-window window))))
-                    buffer)))
-(add-hook 'compilation-finish-functions #'close-compilation-buffer-if-successful)
+(setq compilation-finish-functions
+      (lambda (buf str)
+        (if (null (string-match ".*exited abnormally.*" str))
+            (progn
+              (run-at-time
+               "0.5 sec" nil 'delete-windows-on
+               (get-buffer-create "*compilation*"))
+              (message "No Compilation Errors!")))))
+;; Enable writeroom for text modes
+(setq writeroom-major-modes '(markdown-mode org-mode))
 ;; Map leader key for major mode to ,
-(setq evil-snipe-override-evil-repeat-keys nil)
 (setq doom-localleader-key ",")
+;; Show matching parenthesis on the minibuffer
+(after! smartparens (show-smartparens-global-mode t))
+;; Disable company mode in Nix
+(setq-hook! 'nix-mode-hook company-idle-delay nil)
 ;; Trigger flycheck after save
 (setq flycheck-check-syntax-automatically '(save))
-;; Use relative line numbers (Usage: number <j/k>)
-(setq display-line-numbers-type 'relative)
-;; Set indentation level to 2
-(setq tab-width 2)
-;; Move buffer while maintaining cursor centered
-(use-package! centered-cursor-mode
-  :config
-  (global-centered-cursor-mode))
-;; Restore previous session on startup
-(add-hook 'window-setup-hook #'doom/quickload-session)
+;; Ignore development databases folders
+(after! lsp-mode
+  (add-to-list 'lsp-file-watch-ignored-directories "[/\\\\]\\.mysql\\'")
+  (add-to-list 'lsp-file-watch-ignored-directories "[/\\\\]\\.pgdata\\'"))
+;; Ignore empty files
+(after! projectile
+  (add-to-list 'projectile-globally-ignored-files ".gitkeep"))
+;; Set org-mode as the default
+(setq-default major-mode 'org-mode)
--- a/init.el
+++ b/init.el
@@ -11,192 +11,178 @@
 (doom! :input
       ;;chinese
       ;;japanese
-                                        ;layout            ; auie,ctsrnm is the superior home row

       :completion
-       (company +tng)      ; the ultimate code completion backend
+       (company + tng)     ; the ultimate code completion backend
       ;;helm              ; the *other* search engine for love and life
       ;;ido               ; the other *other* search engine...
-       ;;(ivy              ; a search engine for love and life
-       ;;+fuzzy            ; fuzzy search is a millenial thing
-       ;;+icons)           ; prettify the small thingss
-       (vertico +icons)    ; The search engine of the future
+       (ivy                ; a search engine for love and life
+       +fuzzy              ; fuzzy search is a millenial thing
+       +icons)             ; prettify the small thingss

       :ui
       ;;deft              ; notational velocity for Emacs
       doom              ; what makes DOOM look the way it does
       doom-dashboard    ; a nifty splash screen for Emacs
       doom-quit         ; DOOM quit-message prompts when you quit Emacs
+       ;;fill-column       ; a `fill-column' indicator
       hl-todo           ; highlight TODO/FIXME/NOTE/DEPRECATED/HACK/REVIEW
       ;;hydra
       ;;indent-guides     ; highlighted indent columns
       (ligatures
        +extra
        +iosevka)        ; ligatures and symbols to make your code pretty again
-       ;;minimap         ; show a map of the code on the side
       modeline          ; snazzy, Atom-inspired modeline, plus API
       nav-flash         ; blink the current line after jumping
-       ;;neotree         ; a project drawer, like NERDTree for vim
+       ;;neotree           ; a project drawer, like NERDTree for vim
       ophints           ; highlight the region an operation acts on
       (popup            ; tame sudden yet inevitable temporary windows
        +all             ; catch all popups that start with an asterix
        +defaults)       ; default popup rules
-       ;;tabs            ; an tab bar for Emacs
-       ;;treemacs        ; a project drawer, like neotree but cooler
-       ;;unicode         ; extended unicode support for various languages
-       ;;vc-gutter       ; vcs diff in the fringe
+       ;;tabs              ; an tab bar for Emacs
+       ;;treemacs          ; a project drawer, like neotree but cooler
+       ;;unicode           ; extended unicode support for various languages
+       vc-gutter         ; vcs diff in the fringe
       vi-tilde-fringe   ; fringe tildes to mark beyond EOB
       window-select     ; visually switch windows
       workspaces        ; tab emulation, persistence & separate workspaces
       zen               ; distraction-free coding or writing

       :editor
-       (evil +everywhere)  ; come to the dark side, we have cookies
-       file-templates      ; auto-snippets for empty files
-       fold                ; (nigh) universal code folding
-       (format +onsave)    ; automated prettiness
+       (evil +everywhere); come to the dark side, we have cookies
+       file-templates    ; auto-snippets for empty files
+       fold              ; (nigh) universal code folding
+       (format +onsave)  ; automated prettiness
       ;;god               ; run Emacs commands without modifier keys
       ;;lispy             ; vim for lisp, for people who don't like vim
       ;;multiple-cursors  ; editing in many places at once
       ;;objed             ; text object editing for the innocent
       ;;parinfer          ; turn lisp into python, sort of
-       rotate-text         ; cycle region at point between text candidates
-       snippets            ; my elves. They type so I don't have to
+       rotate-text       ; cycle region at point between text candidates
+       snippets          ; my elves. They type so I don't have to
       ;;word-wrap         ; soft wrapping with language-aware indent

       :emacs
       dired             ; making dired pretty [functional]
       electric          ; smarter, keyword-based electric-indent
-       ;;ibuffer         ; interactive buffer management
-       ;;vc              ; version-control and Emacs, sitting in a tree
+       ;;ibuffer           ; interactive buffer management
+       vc                ; version-control and Emacs, sitting in a tree

       :term
-       ;;eshell            ; the elisp shell that works everywhere
-       ;;shell             ; simple shell REPL for Emacs
-       ;;term              ; basic terminal emulator for Emacs
-       ;;vterm             ; the best terminal emulation in Emacs
+       ;;eshell            ; a consistent, cross-platform shell (WIP)
+       ;;shell             ; a terminal REPL for Emacs
+       ;;term                ; terminals in Emacs
+       vterm             ; another terminals in Emacs

       :checkers
       syntax              ; tasing you for every semicolon you forget
-       ;;(spell +flyspell) ; tasing you for misspelling mispelling
+       ;;spell             ; tasing you for misspelling mispelling
       ;;grammar           ; tasing grammar mistake every you make

       :tools
       ;;ansible
-       ;; biblio           ; Writes a PhD for you (citation needed)
-       ;; debugger         ; FIXME stepping through code, to help you add bugs
-       ;; direnv
+       biblio              ; Writes a PhD for you[citation needed]
+       debugger            ; FIXME stepping through code, to help you add bugs
+       direnv
       ;;docker
       ;;editorconfig      ; let someone else argue about tabs vs spaces
       ;;ein               ; tame Jupyter notebooks with emacs
-       ;;(eval +overlay)   ; run code, run (also, repls)
+       (eval +overlay)     ; run code, run (also, repls)
       ;;gist              ; interacting with github gists
-       lookup              ; navigate your code and its documentation
+       lookup              ; helps you navigate your code and documentation
       ;;+docsets)         ; ...or in Dash docsets locally
-       ;;lsp                 ; M-x vscode
+       lsp
       ;;macos             ; MacOS-specific commands
-       ;;magit               ; a git porcelain for Emacs
-       ;;make                ; run make tasks from Emacs
+       magit               ; a git porcelain for Emacs
+       make                ; run make tasks from Emacs
       ;;pass              ; password manager for nerds
-       ;;pdf                 ; pdf enhancements
+       pdf                 ; pdf enhancements
       ;;prodigy           ; FIXME managing external services & code builders
       ;;rgb               ; creating color strings
       ;;terraform         ; infrastructure as code
       ;;tmux              ; an API for interacting with tmux
-       ;;tree-sitter         ; syntax and parsing, sitting in a tree...
-       ;;upload              ; map local to remote projects via ssh/ftp
+       upload              ; map local to remote projects via ssh/ftp

       :lang
       ;;agda              ; types of types of types of types...
       ;;assembly          ; assembly for fun or debugging
-       ;;beancount         ; mind the GAAP
-       ;;(cc +lsp
-       ;;    +tree-sitter) ; C > C++ == 1
+       (cc +lsp)           ; C/C++/Obj-C madness
       ;;clojure           ; java with a lisp
       ;;common-lisp       ; if you've seen one lisp, you've seen them all
       ;;coq               ; proofs-as-programs
       ;;crystal           ; ruby at the speed of c
       ;;csharp            ; unity, .NET, and mono shenanigans
       data                ; config/data formats
-       ;;(dart +flutter)   ; paint ui and not much else
-       ;;dhall
+       ;;(dart
+       ;;+flutter
+       ;;+lsp)             ; paint ui and not much else
       ;;elixir            ; erlang done right
       ;;elm               ; care for a cup of TEA?
       emacs-lisp          ; drown in parentheses
       ;;erlang            ; an elegant language for a more civilized age
-       ;;(ess +lsp)        ; emacs speaks statistics
+       (ess +lsp)          ; emacs speaks statistics
       ;;faust             ; dsp, but you get to keep your soul
-       ;;fortran           ; in FORTRAN, GOD is REAL (unless declared INTEGER)
       ;;fsharp            ; ML stands for Microsoft's Language
-       ;;fstar             ; (dependent) types and (monadic) effects and Z3
-       ;;gdscript          ; the language you waited for
-       ;;(go +lsp
-       ;;    +tree-sitter) ; the hipster dialect
-       ;;(graphql +lsp)    ; Give queries a REST
-       ;;(haskell +lsp)    ; a language that's lazier than I am
+       (go +lsp)           ; the hipster dialect
+       ;;(haskell +dante)  ; a language that's lazier than I am
       ;;hy                ; readability of scheme w/ speed of python
-       ;;idris             ; a language you can depend on
-       ;;(json +tree-sitter) ; At least it ain't XML
-       ;;(java +lsp
-       ;;+tree-sitter) ; the poster child for carpal tunnel syndrome
+       ;;idris             ;
+       json                ; At least it ain't XML
+       (java +lsp)         ; the poster child for carpal tunnel syndrome
       ;;(javascript +lsp) ; all(hope(abandon(ye(who(enter(here))))))
       ;;julia             ; a better, faster MATLAB
       ;;kotlin            ; a better, slicker Java(Script)
-       ;;(latex +lsp)      ; writing papers in Emacs has never been so fun
-       ;;lean              ; for folks with too much to prove
+       latex               ; writing papers in Emacs has never been so fun
+       ;;lean
+       ;;factor
       ;;ledger            ; an accounting system in Emacs
       ;;lua               ; one-based indices? one-based indices
       markdown            ; writing docs for people to ignore
       ;;nim               ; python + lisp at the speed of c
-       ;;(nix +tree-sitter); I hereby declare "nix geht mehr!"
+       nix                 ; I hereby declare "nix geht mehr!"
       ;;ocaml             ; an objective camel
       (org                ; organize your plain life in plain text
        +dragndrop         ; drag & drop files/images into org buffers
        ;;+hugo            ; use Emacs for hugo blogging
-        ;;+jupyter         ; jupyter support for babel
-        +noter
+        ;;+ipython         ; ipython/jupyter support for babel
        +pandoc            ; export-with-pandoc support
-        +pomodoro          ; be fruitful with the tomato technique
-        +present)          ; using org-mode for presentations
-       ;;+pretty)
+        ;;+pomodoro        ; be fruitful with the tomato technique
+        +present           ; using org-mode for presentations
+        +pretty
+        +ref)
+       ;;perl              ; write code no one else can comprehend
       ;;php               ; perl's insecure younger brother
       ;;plantuml          ; diagrams for confusing people more
       ;;purescript        ; javascript, but functional
-       ;;(python +lsp      ; beautiful is better than ugly
-       ;;+pyright
-       ;;+poetry
-       ;;+tree-sitter)
+       (python +lsp        ; beautiful is better than ugly
+        +pyright
+        +poetry)
       ;;qt                ; the 'cutest' gui framework ever
       ;;racket            ; a DSL for DSLs
-       ;;raku              ; the artist formerly known as perl6
-       ;;rest                ; Emacs as a REST client
+       rest                ; Emacs as a REST client
       ;;rst               ; ReST in peace
-       ;;(ruby +rails)     ; 1.step {|i| p "Ruby is #{i.even? ? 'love' : 'life'}"}
+       ;;ruby              ; 1.step {|i| p "Ruby is #{i.even? ? 'love' : 'life'}"}
       ;;rust              ; Fe2O3.unwrap().unwrap().unwrap().unwrap()
       ;;scala             ; java, but good
       ;;scheme            ; a fully conniving family of lisps
-       ;;(sh +tree-sitter) ; she sells {ba,z,fi}sh shells on the C xor
-       ;;sml
+       sh                  ; she sells {ba,z,fi}sh shells on the C xor
       ;;solidity          ; do you need a blockchain? No.
-       ;;swift             ; who asked for emoji variables?
+       ;;swift               ; who asked for emoji variables?
       ;;terra             ; Earth and Moon in alignment for performance.
-       ;;(web +tree-sitter); the tubes
-       ;;yaml              ; JSON, but readable
-       ;;zig               ; C, but simpler
-
+       web                 ; the tubes
+       yaml                ; JSON, but readable

       :email
-       ;;(mu4e +org +gmail)
+       ;;(mu4e +gmail)
       ;;notmuch
       ;;(wanderlust +gmail)

       :app
       ;;calendar
-       ;;emms
-       ;;everywhere        ; *leave* Emacs!? You must be joking
       ;;irc               ; how neckbeards socialize
-       ;;rss                 ; emacs as an RSS reader
+       ;;(rss +org)        ; emacs as an RSS reader
       ;;twitter           ; twitter client https://twitter.com/vnought
+       ;;write             ; emacs for writers (fiction, notes, papers, etc.)

       :config
       ;;literate
@@ -206,7 +192,9 @@
 ;; If you edit it by hand, you could mess it up, so be careful.
 ;; Your init file should contain only one such instance.
 ;; If there is more than one, they won't work right.
- )
+ '(org-agenda-files
+   (quote
+    ("~/Sync/Notes/Personal.org" "~/Sync/Notes/Education.org" "~/Sync/Projects/Titank/Organization.org" "~/Sync/Notes/Uni.org" "~/Sync/Notes/Projects.org"))))
 (custom-set-faces
 ;; custom-set-faces was added by Custom.
 ;; If you edit it by hand, you could mess it up, so be careful.
--- a/modules/biblio/config.el
+++ b/modules/biblio/config.el
@@ -0,0 +1,116 @@
+;;; tools/biblio/config.el -*- lexical-binding: t; -*-
+
+;; Internal function to set the various paths used in the
+;; reference packages.
+(defun +biblio-set-paths-fn (&optional symbol value)
+  (when symbol
+    (set-default symbol value))
+  (when value
+    (cond ((eq symbol '+biblio-pdf-library-dir)
+           (when (featurep! :lang org)
+             (setq org-ref-pdf-directory value))
+           (setq bibtex-completion-library-path value))
+          ((eq symbol '+biblio-default-bibliography-files)
+           (when (featurep! :lang org)
+             (setq reftex-default-bibliography value
+                   org-ref-default-bibliography value))
+           (setq bibtex-completion-bibliography value))
+          ((eq symbol '+biblio-notes-path)
+           (when (featurep! :lang org)
+             (if (directory-name-p value)
+                 (setq org-ref-notes-directory value)
+               (setq org-ref-bibliography-notes value)))
+           (setq bibtex-completion-notes-path value)))))
+
+
+(defcustom +biblio-pdf-library-dir nil
+  "Directory where pdf files are stored. Must end with a slash."
+  :type 'string
+  :set #'+biblio-set-paths-fn)
+
+(defcustom +biblio-default-bibliography-files nil
+  "A list of default bibtex files to use."
+  :type '(repeat :tag "List of bibtex files" file)
+  :set #'+biblio-set-paths-fn)
+
+(defcustom +biblio-notes-path nil
+  "The place where you will store your notes for bibliography files.
+
+This can be either a single file or directory of files.
+In case of directory the path must end with a slash."
+  :type 'string
+  :set #'+biblio-set-paths-fn)
+
+
+(use-package! bibtex-completion
+  :defer t
+  :preface
+  ;; Allow the user to set a template of their own via (setq). if the user does
+  ;; not set one fall back to the +biblio variants which have a reasonable
+  ;; fallback.
+  (defvar bibtex-completion-notes-template-multiple-files nil)
+   :config
+
+  (when (featurep! :completion ivy)
+    (add-to-list 'ivy-re-builders-alist '(ivy-bibtex . ivy--regex-plus)))
+
+  (setq bibtex-completion-additional-search-fields '(keywords)
+        ;; This tell bibtex-completion to look at the File field of the bibtex
+        ;; to figure out which pdf to open
+        bibtex-completion-pdf-field "file")
+  (unless bibtex-completion-notes-template-multiple-files
+    (setq bibtex-completion-notes-template-multiple-files
+          "${title} : (${=key=})
+
+- tags ::
+- keywords :: ${keywords}
+
+\n* ${title}\n  :PROPERTIES:\n  :Custom_ID: ${=key=}\n  :URL: ${url}\n  :AUTHOR: ${author-or-editor}\n  :NOTER_DOCUMENT: /${file}\n  :NOTER_PAGE: \n  :END:\n\n")))
+
+
+;; TODO which set of keys that should be bound for commonly used functions
+;; see https://github.com/jkitchin/org-ref/blob/master/org-ref-core.el#L3998
+(use-package! org-ref
+  :when (featurep! :lang org +ref)
+  :after org
+  :preface
+  ;; This need to be set before the package is loaded, because org-ref will
+  ;; automatically `require' an associated package during its loading.
+  (setq org-ref-completion-library (cond ((featurep! :completion ivy)  #'org-ref-ivy-cite)
+                                         ((featurep! :completion helm) #'org-ref-helm-bibtex)
+                                         (t                            #'org-ref-reftex)))
+  :config
+  ;; Although the name is helm-bibtex, it is actually a bibtex-completion function
+  ;; it is the legacy naming of the project helm-bibtex that causes confusion.
+  (setq org-ref-open-pdf-function 'org-ref-get-pdf-filename-helm-bibtex)
+  ;; orb will define handlers for note taking so not needed to use the
+  ;; ones set for bibtex-completion
+  (unless (featurep! :lang org +roam)
+    ;; Allow org-ref to use the same template mechanism as {helm,ivy}-bibtex for
+    ;; multiple files if the user has chosen to spread their notes.
+    (setq org-ref-notes-function (if (and org-ref-notes-directory (directory-name-p org-ref-notes-directory))
+                                     #'org-ref-notes-function-many-files
+                                   #'org-ref-notes-function-one-file))))
+
+(use-package! org-roam-bibtex
+  :when (featurep! :lang org +roam)
+  :preface
+  ;; if the user has not set a template mechanism set a reasonable one of them
+  ;; The package already tests for nil itself so we define a dummy tester
+  (defvar orb-preformat-keywords
+    '("=key=" "title" "url" "file" "author-or-editor" "keywords"))
+  (defvar orb-templates nil)
+  :hook (org-roam-mode . org-roam-bibtex-mode)
+  :config
+  (unless orb-templates
+    (setq orb-templates
+          '(("r" "ref" plain (function org-roam-capture--get-point)
+             ""
+             :file-name "${slug}"
+             :head "#+TITLE: ${=key=}: ${title}\n#+roam_key: ${ref}\n#+roam_tags: lit
+
+- tags ::
+- keywords :: ${keywords}
+
+\n* ${title}\n  :PROPERTIES:\n  :Custom_ID: ${=key=}\n  :URL: ${url}\n  :AUTHOR: ${author-or-editor}\n  :NOTER_DOCUMENT: %(orb-process-file-field \"${=key=}\")\n  :NOTER_PAGE: \n  :END:\n\n"
+             :unnarrowed t)))))
--- a/modules/biblio/packages.el
+++ b/modules/biblio/packages.el
@@ -0,0 +1,12 @@
+;; -*- no-byte-compile: t; -*-
+;;; tools/biblio/packages.el
+
+(package! bibtex-completion :pin "9f6ea920a49457d85096caa0e61f086a42b2908e")
+(when (featurep! :completion ivy)
+  (package! ivy-bibtex :pin "9f6ea920a49457d85096caa0e61f086a42b2908e"))
+(when (featurep! :completion helm)
+  (package! helm-bibtex :pin "9f6ea920a49457d85096caa0e61f086a42b2908e"))
+(when (featurep! :lang org +ref)
+  (package! org-ref :pin "8aa2bb45268f660956151547533689d4ec30378d"))
+(when (featurep! :lang org +roam)
+  (package! org-roam-bibtex :pin "f7b5be2ce0b43dd4d842484fc0ec37fdc8526907"))
--- a/packages.el
+++ b/packages.el
@@ -5,13 +5,4 @@
 ;; (package! some-package)
 ;; (package! another-package :recipe (:host github :repo "username/repo"))
 ;; (package! builtin-package :disable t)
-;; Prettier LaTeX source blocks
-(package! engrave-faces)
-;; Prettier org mode
-(package! org-modern)
-;; Enable LaTeX previews automatically
-(package! org-fragtog)
-;; Light theme
-(package! os1-theme :recipe (:host github :repo "sashimacs/os1-theme"))
-;; Move buffer while maintaining cursor centered
-(package! centered-cursor-mode)
+(package! org-super-agenda)
--- a/snippets/org-mode/article
+++ b/snippets/org-mode/article
@@ -5,6 +5,7 @@
 #+TITLE: $0
 #+SUBTITLE:
 #+AUTHOR: Amin Kasrou Aouam
+#+LANGUAGE: es
 #+OPTIONS: toc:nil
 #+LATEX_CLASS: org-plain-latex
 #+LATEX_CLASS_OPTIONS: [a4paper]
--- a/snippets/org-mode/eisvogel
+++ b/snippets/org-mode/eisvogel
@@ -9,9 +9,10 @@
 #+PANDOC_OPTIONS: template:~/.pandoc/templates/eisvogel.latex
 #+PANDOC_OPTIONS: listings:t
 #+PANDOC_OPTIONS: toc:t
+#+PANDOC_METADATA: lang=es
 #+PANDOC_METADATA: titlepage:t
 #+PANDOC_METADATA: listings-no-page-break:t
 #+PANDOC_METADATA: toc-own-page:t
 #+PANDOC_METADATA: table-use-row-colors:t
 #+PANDOC_METADATA: colorlinks:t
-#+PANDOC_METADATA: logo:/home/coolneng/Photos/Logos/UGent.png
+#+PANDOC_METADATA: logo:/home/coolneng/Photos/Logos/UGR.png
--- a/snippets/org-mode/image
+++ b/snippets/org-mode/image
@@ -1,9 +0,0 @@
-# -*- mode: snippet -*-
-# name: img
-# uuid: img
-# key: trigger-key
-# condition: t
-# --
-#+CAPTION: $1
-#+LABEL: $2
-#+ATTR_HTML: :width 50%
--- a/snippets/org-mode/metropolis
+++ b/snippets/org-mode/metropolis
@@ -1,10 +0,0 @@
-# -*- mode: snippet -*-
-# name: metropolis presentation
-# key: met
-# --
-#+TITLE: $0
-#+AUTHOR: Amin Kasrou Aouam
-#+SUBTITLE:
-#+PANDOC_OPTIONS: pdf-engine:xelatex
-#+PANDOC_METADATA: theme:metropolis
-#+PANDOC_METADATA: logo:/home/coolneng/Photos/Logos/UGent.png
--- a/snippets/org-mode/reveal.js
+++ b/snippets/org-mode/reveal.js
@@ -4,6 +4,7 @@
 # --
 #+TITLE: $0
 #+SUBTITLE:
+#+LANGUAGE: es
 #+REVEAL_TITLE_SLIDE: %t <br>%s</br>
 #+REVEAL_THEME: moon
 #+OPTIONS: toc:nil ^:nil num:nil
--- a/snippets/org-mode/tufte
+++ b/snippets/org-mode/tufte
@@ -4,6 +4,7 @@
 # --
 #+TITLE: $0
 #+AUTHOR: Amin Kasrou Aouam
+#+LANGUAGE: es
 #+OPTIONS: toc:nil
 #+LATEX_CLASS: tufte-handout
 #+LATEX_CLASS_OPTIONS: [a4paper]
--- a/snippets/org-msg-edit-mode/email
+++ b/snippets/org-msg-edit-mode/email
@@ -1,8 +0,0 @@
-# -*- mode: snippet -*-
-# name: email signature
-# key: sign
-# --
-
-Best regards,
-
-Amin Kasrou Aouam
--- a/snippets/org-msg-edit-mode/formal
+++ b/snippets/org-msg-edit-mode/formal
@@ -1,5 +0,0 @@
-# -*- mode: snippet -*-
-# name: formal greeting
-# key: dear
-# --
-Dear Madam/Sir,
--- a/snippets/org-msg-edit-mode/french
+++ b/snippets/org-msg-edit-mode/french
@@ -1,8 +0,0 @@
-# -*- mode: snippet -*-
-# name: email signature
-# key: frsign
-# --
-
-Cordialement,
-
-Amin Kasrou Aouam