yambar: increase height and font size for hidpi

dot_bash_profile

@@ -19,16 +19,12 @@ export XDG_STATE_HOME="${HOME}/.local/state"
 export _JAVA_AWT_WM_NONREPARENTING=1
 
 # GPG passphrase prompt
-export GPG_TTY=$(tty)
+GPG_TTY=$(tty)
+export GPG_TTY
 
 # Mozilla + Wayland
 export MOZ_ENABLE_WAYLAND=1
 
-{{ if eq .chezmoi.hostname "helix" -}}
-# Scale GTK applicatons
-export GDK_SCALE=2 GDK_DPI_SCALE=0.50
-{{- end }}
-
 ## No littering in $HOME!
 
 # bash
@@ -81,4 +77,4 @@ export XAUTHORITY="${XDG_RUNTIME_DIR}/Xauthority"
 [[ -f ~/.bashrc ]] && . ~/.bashrc
 
 # start river
-[[ -z $DISPLAY && $(tty) = "/dev/tty1" ]] && exec dbus-run-session river
+[[ -z $DISPLAY && $(tty) = "/dev/tty1" ]] && exec dbus-run-session river 2> "${XDG_STATE_HOME}"/river.log >/dev/null

dot_config/alacritty/alacritty.toml.tmpl

@@ -17,8 +17,12 @@ y = 20
 shape = "Block"
 blinking = "On"
 
+{{ if eq .chezmoi.hostname "helix" -}}
 [font]
+size = 16
+{{- else }}
 size = 13
+{{- end }}
 
 [font.bold]
 family = "Hack"

dot_config/emacs/early-init.el.tmpl

@@ -62,7 +62,7 @@
 (unless (file-directory-p xdg_cache_home)
   (make-directory xdg_cache_home))
 
-;; Move `eln-cache' to XDG_CACHE_HOME
+;; Move eln-cache to XDG_CACHE_HOME
 (when (fboundp 'startup-redirect-eln-cache)
   (if (< emacs-major-version 29)
       (push (expand-file-name "eln-cache/" xdg_cache_home) native-comp-eln-load-path)
@@ -73,7 +73,7 @@
 
 ;; Enable async native compilation and suppress warnings
 (when (featurep 'native-compile)
-  (setq native-comp-deferred-compilation t
+  (setq native-comp-jit-compilation t
         native-comp-async-report-warnings-errors nil))
 
 ;; Don't advertise instructions for frame exit
@@ -102,10 +102,10 @@
 
 ;; Fonts
 {{- if eq .chezmoi.hostname "helix" }}
-(push '(font . "Hack-24") default-frame-alist)
+(push '(font . "Hack-14") default-frame-alist)
-(set-face-font 'default "Hack-24")
+(set-face-font 'default "Hack-14")
-(set-face-font 'fixed-pitch "Hack-24")
+(set-face-font 'fixed-pitch "Hack-14")
-(set-face-font 'variable-pitch "DejaVu Sans-24")
+(set-face-font 'variable-pitch "DejaVu Sans-14")
 {{- else }}
 (push '(font . "Hack-11") default-frame-alist)
 (set-face-font 'default "Hack-11")

dot_config/emacs/init.el

@@ -90,7 +90,7 @@
 (add-hook 'after-init-hook #'elpaca-process-queues)
 (elpaca `(,@elpaca-order))
 
-;; Configure `use-package' with `Elpaca'
+;; Ensure `Elpaca' doesn't pull built-in packages from source
 (defmacro use-feature (name &rest args)
   "Like `use-package' but accounting for asynchronous installation.
   NAME and ARGS are in `use-package'. Credit to @progfolio:
@@ -103,7 +103,10 @@
 (elpaca elpaca-use-package
   (require 'elpaca-use-package)
   (elpaca-use-package-mode)
-  (setopt use-package-always-ensure t))
+  (setopt use-package-always-ensure t
+          ;; REVIEW - apparently `use-package-always-pin' doesn't work with `Elpaca'
+          ;; TODO - remove stats when done profiling startup
+          use-package-compute-statistics t))
 
 (if debug-on-error
     (setopt use-package-verbose t
@@ -112,9 +115,6 @@
   (setopt use-package-verbose nil
           use-package-expand-minimally t))
 
-;; TODO - remove this when done profiling startup
-(setopt use-package-compute-statistics t)
-
 ;; Wait for `Elpaca' to process current queue
 (elpaca-wait)
 
@@ -122,26 +122,65 @@
 
 ;; Revert a buffer if the file has changed
 (use-feature autorevert
-  :config (global-auto-revert-mode t)
+  :config
-  :defer 3
+  (setopt auto-revert-interval 10)
+  (global-auto-revert-mode)
+  :defer 5
   :init (setopt auto-revert-interval 0.01))
 
+(use-feature bibtex
+  :after (ebib)
+  :config (setopt bibtex-autokey-additional-names "EtAl"
+                  bibtex-autokey-edit-before-use t ; "t" by default
+                  bibtex-autokey-expand-strings t
+                  bibtex-autokey-name-case-convert-function #'capitalize
+                  bibtex-autokey-name-year-separator ""
+                  bibtex-autokey-names-stretch 1
+                  bibtex-autokey-titlewords 2
+                  bibtex-autokey-titlewords-stretch 1
+                  bibtex-autokey-titleword-length #'infty
+                  bibtex-autokey-titleword-separator ""
+                  bibtex-autokey-titleword-case-convert-function #'capitalize
+                  bibtex-autokey-year-length 4
+                  bibtex-autokey-year-length 4
+                  bibtex-autokey-year-title-separator ""))
+
+(use-feature c-ts-mode
+  :commands (c-ts-mode)
+  :config
+  (setopt c-ts-mode-indent-style 'linux
+          c-ts-mode-indent-offset 8
+          indent-tabs-mode t))
+
+
+(use-feature c++-ts-mode
+  :commands (c++-ts-mode)
+  :config
+  (setopt c++-ts-mode-indent-style 'gnu
+          c-ts-mode-indent-offset 4))
+
 ;; Customize compilation & related buffers
 (use-feature compile
-  :bind
-  (:map prog-mode-map
-        ("C-c r" . recompile))
   :commands (compile recompile)
   :config (setopt compilation-ask-about-save nil
-                  compilation-scroll-output 'first-error))
+                  compilation-scroll-output 'first-error)
+  :hook (compilation-filter . ansi-color-compilation-buffer))
 
 ;; Write external customizations to /dev/null
 (use-feature cus-edit
   :init (setopt custom-file null-device))
 
+;; Library for creating/customizing user options
 (use-feature custom
   :config (setopt custom-safe-themes t))
 
+;; File manager
+(use-feature dired
+  :commands (dired)
+  :config
+  (setopt dired-kill-when-opening-new-dired-buffer t
+          dired-mouse-drag-files t))
+
 ;; Customize fill column indicator
 (use-feature display-fill-column-indicator
   :hook ((conf-mode
@@ -157,31 +196,34 @@
 (use-feature eglot
   :bind
   (:map eglot-mode-map
-        ("C-c c a" . eglot-code-actions)
+        ("C-c e a" . eglot-code-actions)
-        ("C-c c o" . eglot-code-actions-organize-imports)
+        ("C-c e o" . eglot-code-actions-organize-imports)
-        ("C-c c r" . eglot-rename)
+        ("C-c e r" . eglot-rename)
-        ("C-c c f" . eglot-format))
+        ("C-c e f" . eglot-format))
   :config
-  (push '(astro-mode . ("astro-ls" "--stdio"
+  (add-to-list 'eglot-server-programs '(astro-mode . ("astro-ls" "--stdio"
                                                       :initializationOptions
-                        (:typescript (:tsdk "/usr/lib/node_modules/typescript/lib")))) eglot-server-programs)
+                                                      (:typescript (:tsdk "/usr/lib/node_modules/typescript/lib")))))
-  (push '((rust-ts-mode rust-mode) . ("rustup" "run" "stable" "rust-analyzer"
+  (add-to-list 'eglot-server-programs '((rust-ts-mode rust-mode) . ("rustup" "run" "stable" "rust-analyzer"
                                                                     :initializationOptions
-                                      (:check (:command "clippy")))) eglot-server-programs)
+                                                                    (:check (:command "clippy")))))
   (setopt eglot-autoshutdown t
           eglot-ignored-server-capabilities
-          '(;; :colorProvider ; "Decorate color references"
+          '(:colorProvider ; "Decorate color references"
             ;; :documentFormattingProvider ; "Format buffer"
             ;; :documentHighlightProvider ; "Highlight symbols automatically"
             :documentOnTypeFormattingProvider ; "On-type formatting"
             ;; :documentRangeFormattingProvider ; "Format portion of buffer"
-            ;; :hoverProvider ; "Documentation on hover"
+            :hoverProvider ; "Documentation on hover"
             :inlayHintProvider ; "Inlay hints"
             ))
   :hook ((astro-mode
+          bash-ts-mode
           c-ts-mode
           c++-ts-mode
+          python-ts-mode
           rust-ts-mode
+          sh-script
           zig-mode) . eglot-ensure))
 
 ;; Automatic parenthesis/brackets matching
@@ -194,8 +236,9 @@
 (use-feature emacs
   :bind
   (:map global-map
-        ;; Disable `suspend-frame' shortcut
+        ;; Disable `suspend-frame' shortcut (currently overwritten by undo-fu anyway)
         ("C-z" . nil)
+        ("C-x k" . my-kill-buffer)
         ;; Escape behaves like C-g
         ("<escape>" . keyboard-escape-quit)
         ;; Resizing buffers
@@ -204,13 +247,40 @@
         ("S-C-<down>"  . shrink-window)
         ("S-C-<up>"    . enlarge-window))
   :config
-  (setopt cursor-type 'bar
+  (setopt completion-ignore-case t
-          fill-column 80
+          cursor-type 'bar
+          enable-recursive-minibuffers t
+          fill-column 79
+          history-delete-duplicates t
+          minibuffer-prompt-properties ; Disable prompt in minibuffer
+          '(read-only t cursor-intangible t face minibuffer-prompt)
+          read-buffer-completion-ignore-case t
           scroll-step 1
           scroll-conservatively 1000
-          scroll-preserve-screen-position t)
+          scroll-preserve-screen-position t
+	  sentence-end-double-space nil
+	  tab-always-indent 'complete
+          use-short-answers t)
+  :hook (minibuffer-setup . cursor-intangible-mode)
   :init
-  ;; Vertico
+  (defun my-kill-buffer ()
+    (interactive)
+    (catch 'quit
+      (save-window-excursion
+        (let (done)
+          (when (and buffer-file-name (buffer-modified-p))
+            (while (not done)
+              (let ((response (read-char-choice
+                               (format "Save file %s? (y, n, d, q) " (buffer-file-name))
+                               '(?y ?n ?d ?q))))
+                (setq done (cond
+                            ((eq response ?q) (throw 'quit nil))
+                            ((eq response ?y) (save-buffer) t)
+                            ((eq response ?n) (set-buffer-modified-p nil) t)
+                            ((eq response ?d) (diff-buffer-with-file) nil))))))
+          (kill-buffer (current-buffer))
+          (force-mode-line-update)))))
+  ;; For Vertico
   (defun crm-indicator (args)
     (cons (format "[CRM%s] %s"
                   (replace-regexp-in-string
@@ -218,12 +288,7 @@
                    crm-separator)
                   (car args))
           (cdr args)))
-  (advice-add #'completing-read-multiple :filter-args #'crm-indicator)
+  (advice-add #'completing-read-multiple :filter-args #'crm-indicator))
-
-  (setopt enable-recursive-minibuffers t ; Recursive minibuffers
-          minibuffer-prompt-properties ; Disable prompt in minibuffer
-          '(read-only t cursor-intangible t face minibuffer-prompt))
-  (add-hook 'minibuffer-setup-hook #'cursor-intangible-mode))
 
 ;; Customize file handling & automatic backups
 (use-feature files
@@ -232,15 +297,19 @@
     (unless (file-directory-p auto_save_directory)
       (make-directory auto_save_directory))
     (setopt backup-directory-alist `((".*" . ,auto_save_directory))
-            auto-save-list-file-prefix (concat auto_save_directory "saves-"))
+            auto-save-list-file-prefix (concat auto_save_directory "saves-")
-            auto-save-file-name-transforms `((".*" ,auto_save_directory t)))
+            auto-save-file-name-transforms `((".*" ,auto_save_directory t))))
   (setopt backup-by-copying t
           confirm-kill-processes nil
           delete-old-versions t
           kept-new-versions 5
           kept-old-versions 3
           require-final-newline t
-          version-control t))
+          version-control t)
+  ;; Treesit doesn't play nice in Emacs 29
+  ;; REVIEW: Putting this here for now because `major-mode-remap-alist' belongs to `files'
+  (add-to-list 'major-mode-remap-alist '(c++-mode . c++-ts-mode))
+  (add-to-list 'major-mode-remap-alist '(python-mode . python-ts-mode)))
 
 ;; Customize syntax checking
 (use-feature flymake
@@ -255,15 +324,22 @@
 (use-feature flyspell
   :hook
   (((git-commit-mode
-     org-mode
+     org-mode) . flyspell-mode))
-     text-mode) . flyspell-mode)
+  :init (setopt flyspell-use-meta-tab nil))
-   (prog-mode . flyspell-prog-mode)))
 
 ;; Customize frame behavior/cursor blinking
 (use-feature frame
   :config (setopt blink-cursor-delay 1.0
                   blink-cursor-interval 0.75))
 
+(use-feature help
+  :config (setopt help-enable-variable-value-editing t
+                  help-window-select t)
+  :defer 3)
+
+(use-feature minibuffer
+  :config (setopt read-file-name-completion-ignore-case t))
+
 ;; Ensure UTF-8 terminal encoding
 (use-feature mule
   :config (unless (display-graphic-p)
@@ -276,6 +352,10 @@
           mouse-wheel-progressive-speed nil
           mouse-wheel-scroll-amount '(2 ((shift) . 1))))
 
+;; Customize comment insertion
+(use-feature newcomment
+  :config (setopt comment-style 'multi-line))
+
 ;; Visualize matching parenthesis/brackets
 (use-feature paren
   :hook ((conf-mode
@@ -285,25 +365,31 @@
 ;; Enable smooth mouse wheel scrolling when available
 (when (fboundp 'pixel-scroll-precision-mode)
   (use-feature pixel-scroll
-    :config (pixel-scroll-precision-mode)))
+    :config (pixel-scroll-precision-mode)
+    :defer 1))
 
+;; Customize project management
 (use-feature project
+  :commands (project-find-dir project-find-file project-switch-project)
   :config (setopt project-vc-extra-root-markers '("Cargo.toml")))
 
 ;; Customize handling of recent files
 (use-feature recentf
   :config
-  (setopt recentf-max-menu-items 100
+  (setopt recentf-auto-cleanup 600
-          recentf-max-saved-items 1000
+          recentf-max-menu-items 100
+          recentf-max-saved-items 100
           recentf-save-file (expand-file-name "recentf" xdg_cache_home))
   (recentf-mode))
 
 ;; Customize saving mini-buffer history
 (use-feature savehist
   :config
-  (setopt savehist-autosave-interval 120
+  (setopt savehist-additional-variables '(compile-command kill-buffer kill-ring)
+          savehist-autosave-interval 120
           savehist-file (expand-file-name "history" xdg_cache_home))
-  (savehist-mode))
+  (savehist-mode)
+  :defer 1)
 
 ;; Customize saving place in files
 (use-feature saveplace
@@ -325,6 +411,9 @@
 (use-package seq
   :ensure `(seq :build ,(+elpaca-seq-build-steps)))
 
+(use-feature shell
+  :hook (shell-mode . ansi-color-for-comint-mode-on))
+
 ;; "A grab-bag of basic Emacs commands"
 (use-feature simple
   :config
@@ -335,15 +424,15 @@
      prog-mode) . column-number-mode)
    (text-mode . auto-fill-mode)))
 
-;; Customize text buffers
-(use-feature text-mode
-  :config (setq-local fill-column 120))
-
 ;; Customize tree-sitter parsing
 (use-feature treesit
-  :config
+  :config (setopt treesit-font-lock-level 4)
-  (push '(c++-mode . c++-ts-mode) major-mode-remap-alist)
+  :defer 1)
-  (setopt treesit-font-lock-level 4))
+
+;;  Remember to take breaks
+(use-feature type-break
+  :config (setopt type-break-keystroke-threshold '(nil . nil))
+  :commands (type-break-mode))
 
 ;; Customize whitespace visualization & cleanup
 (use-feature whitespace
@@ -363,6 +452,11 @@
 
 ;;; Packages:
 
+;; `other-window' replacement
+(use-package ace-window
+  :commands (ace-window)
+  :bind ("C-c w" . ace-window))
+
 ;; Shows current/total matches in mode line
 (use-package anzu
   :config (global-anzu-mode)
@@ -372,10 +466,15 @@
 (use-package apheleia
   :defer t)
 
+(use-package biblio
+  :after (ebib)
+  :config (setopt biblio-bibtex-use-autokey t))
+
 ;; Extensions for `completion-at-point'
 (use-package cape
   :bind ("M-p" . cape-prefix-map))
 
+;; TODO: pick a theme
 ;; Catppuccin theme
 (use-package catppuccin-theme
   :disabled
@@ -473,9 +572,9 @@
   :after (eglot)
   :bind
   (:map eglot-mode-map
-        ("C-c c s" . consult-eglot-symbols)))
+        ("C-c e s" . consult-eglot-symbols)))
 
-;; In-buffer completion
+;; In-buffer completion with popup menu
 (use-package company
   :disabled
   :bind
@@ -491,44 +590,116 @@
           company-tooltip-align-annotations t)
   :hook (prog-mode . company-mode))
 
-;; FIXME - I crash emacs
+;; In-buffer completion with popup menu
 (use-package corfu
-  ;; :disabled
-  :bind
-  (:map corfu-map
-        ("M-SPC" . corfu-insert-separator)
-        ("RET" . nil))
   :config
-  (setopt corfu-auto t
+  (advice-add 'eglot-completion-at-point :around #'cape-wrap-buster)
-          corfu-cycle t)
+  (advice-add 'eglot-completion-at-point :around #'cape-wrap-noninterruptible)
+  (setopt corfu-auto nil
+          corfu-cycle t
+          corfu-preview-current nil)
   (global-corfu-mode)
+  (corfu-history-mode)
   (corfu-popupinfo-mode)
   :defer 3
   :ensure (corfu :files (:defaults "extensions/*")))
 
-(use-package doom-themes
+(use-package ebib
-  :disabled
+  ;;; Functions:
-  :config
+  ;; ebib-list-recent ; list entries added within the given # of days
-  (setopt doom-themes-enable-bold t
+  ;; ebib-download-url ; attempt to download file, rename, and save to target directory, filename determined by `ebib-name-transform-function'
-          doom-themes-enable-italic t))
+  ;; ebib-import-file ; import a local file, file is renamed and moved, works for more than pdf, name deterined by `ebib-name-transform-function'
+  ;;; ebib-biblio
+  ;; ebib-biblio-selection-import ; function to import entry from biblio into ebib
+  ;; ebib-biblio-import-doi ; function to import an entry while in ebib UI, can also choose different key
 
-(use-package nimbus-theme
+  ;;; keymaps
-  :config (load-theme 'nimbus))
+  ;; ebib-index-mode-map
-
+  ;; ebib-entry-mode-map
-(use-package ef-themes
+  ;; ebib-strings-mode-map
-  :disabled
+  ;; ebib-multiline-mode-map
+  ;; ebib-search-map
+  ;; ebib-filters-map
+  ;; ebib-keywords-map
+  ;; ebib-reading-list-map
+  ;; ebib-log-mode-map
+  :commands (ebib)
   :config
-  (setopt ef-themes-headings '((0 variable-pitch light 1.9)
+
-                               (1 variable-pitch light 1.8)
+  ;; ebib-autogenerate-keys ; default t
-                               (2 variable-pitch regular 1.7)
+  (setopt ebib-bibtex-dialect 'biblatex
-                               (3 variable-pitch regular 1.6)
+          ebib-use-timestamp t ; create timestamp when entry added to db, note that "When importing or exporting entries, existing timestamps are overwritten."
-                               (4 variable-pitch regular 1.5)
+          ebib-filters-default-file (expand-file-name "ebib-filters" user-emacs-directory) ; file location to save filters
-                               (5 variable-pitch 1.4) ; absence of weight means `bold'
+          ebib-allow-identical-fields t ; merge repeated fields into one, separated by `ebib-keywords-separator'
-                               (6 variable-pitch 1.3)
+          ebib-file-associations '(("pdf" . nil)
-                               (7 variable-pitch 1.2)
+                                   ("ps" . "gs")) ; specify which programs to use for which file types, or remove to open in emacs
-                               (t variable-pitch 1.1))
+          ebib-import-target-directory "~/Nextcloud/Library/" ; set directory for `ebib-download-url' and `ebib-import-file'
-          ef-themes-mixed-fonts t
+          ;; ebib-default-directory "~/Nextcloud/Library/"; "This mainly determines which directory is the default directory when reading a file name from the user"
-          ef-themes-variable-pitch-ui t))
+          ebib-preload-bib-files '("~/Nextcloud/Library/bib/library.bib") ; autoload list of .bib files when started
+          ;; ebib-bib-search dirs ; specify directory to search for multiple bib files when starting
+          ;; ebib-extra-fields ; probably not needed
+
+          ;;; UI
+          ;; ebib-index-columns ; change displayed UI fields
+          ;; ebib-field-transformation-functions ; new/change UI fields
+          ;; ebib-field-sort-functions-alist ; customize UI sorting
+          ;; ebib-edit-fields-functions ; disable/enable completion for different UI fields
+          ;; ebib-multiline-display-function ; customize multiline values in UI
+          ;; ebib-multiline-display-max-lines ; customize multiline values in UI
+          ;; ebib-hidden-fields ; control which UI fields are hidden
+          ;; ebib-save-indent-as-bibtex ; spaces instead of tabs in bib files, uses value of `bibtex-entry-offset' and `bibtex-field-indentation' to compute # of spaces
+          ;; ebib-biblatex-ineritances ; customize biblatex inheritance
+
+          ;;; Editing
+          ;; ebib-save-xrefs-first ; must be enabled for cross-referencing to work, unless sort order changed?
+          ;; ebib-sort-order ; change sort order of bib file - default is by key - make sure to unset `ebib-save-xrefs-first'
+          ;; ebib-multiline-major-mode ; customize major mode for `ebib-multiline-edit-mode'
+          ;; ebib-citation-commands ; might need to customize if using BibTex, which I'm not
+          ;; ebib-citations-insert-multiple ; enable adding multiple citations at once, likely not needed
+          ;; ebib-filters-ignore-case ; case-insensitive search filters are default
+
+          ;;; Downloading/Filenames
+          ;; ebib-name-transform-function ; modify file name that ebib searches for when associating a file with an entry
+          ;; ebib-url-download-transformations ; sets how URLs are converted when attempting to download
+
+          ;;; Notes
+          ;; ebib-notes-storage 'multiple-notes-per-file ; probabably set to `multiple-notes-per-file' for org?
+          ;; ebib-notes-locations ; files/directories containing notes
+          ;; ebib-notes-default-file ; not used if creating note via org capture, but can still be set
+
+          ;;; Org-capture
+          ;; ebib-notes-use-org-capture ; set to desired keybind for ebib to skip org capture selection and use the one specified
+          ;; ebib-org-capture ; function to call org capture from ebib
+
+          ;;; Reading list
+          ;; ebib-reading-list-file ; location of reading list
+          ;; ebib-reading-list-todo-marker ; change default todo state for reading list items
+          ;; ebib-reading-list-template ; change format of reading list items, available options in `ebib-reading-list-template-specifiers'
+          ;; ebib-reading-list-add-item-function ; change where new items should be added
+          ;; ebib-reading-list-remove-item ; by default only set to `ebib-reading-list-mark-item-as-done' - doesn't actually remove anything
+
+          ;;; Keywords
+          ;; ebib-keywords ; specify named keywords always available for completion
+
+          ;;; Display options
+          ;; ebib-windows ; customization group to change display
+
+          ;;; Copying from ebib
+          ;; ebib-reference-templates and ebib-citation-template ; change how entries are copied into kill ring
+
+          ;;; org-ebib
+          ;; org-ebib-link-type 'multiple-notes-per-file ; specify type of link produced by `org-store-link' on bib entries
+          )
+  )
+
+(use-package ebib-biblio
+  :after (ebib biblio)
+  :bind
+  (:map ebib-index-mode-map
+        ("B" . ebib-biblio-import-doi))
+  (:map biblio-selection-mode-map
+        ("e" . ebib-biblio-selection-import))
+  :ensure nil)
 
 ;; Use `emacs-lsp-booster' with `Eglot'
 (use-package eglot-booster
@@ -544,12 +715,13 @@
    ("C-h B" . embark-bindings))
   :config
   ;; Hide the Embark live/completions buffer mode line
-  (push '("\\`\\*Embark Collect \\(Live\\|Completions\\)\\*"
+  (add-to-list 'display-buffer-alist '("\\`\\*Embark Collect \\(Live\\|Completions\\)\\*"
                                        nil
-          (window-parameters (mode-line-format . none))) display-buffer-alist)
+                                       (window-parameters (mode-line-format . none))))
   :defer 3
   :init (setopt prefix-help-command #'embark-prefix-help-command))
 
+;; Integration between `embark' and `consult'
 (use-package embark-consult
   :hook (embark-collect-mode . consult-preview-at-point-mode))
 
@@ -565,13 +737,13 @@
            ("Find File" find-file "f")
            ("Recent Files" consult-recent-file "r")
            ("Projects" project-switch-project "p")
-           ("Open Project Buffer" consult-project-buffer "o"))))
+           ("Treemacs" treemacs "t"))))
       "    "
       ,(enlight-menu
         '(("Org"
-           ("Agenda" (org-agenda nil "a") "a")
+           ("My Agenda" (org-agenda nil "y") "y")
+           ("Work Agenda" (org-agenda nil "w") "w")
            ("Time blocking" org-timeblock "b")
-           ("Super agenda" (org-agenda nil "u") "u")
            ("Match Tags" (org-agenda nil "m") "m"))))
       "    "
       ,(enlight-menu
@@ -608,31 +780,41 @@
 (use-package hl-todo
   :bind
   (:map hl-todo-mode-map
-        ("C-c t p" . hl-todo-previous)
+        ("C-c C-t p" . hl-todo-previous)
-        ("C-c t n" . hl-todo-next)
+        ("C-c C-t n" . hl-todo-next)
-        ("C-c t o" . hl-todo-occur)
+        ("C-c C-t o" . hl-todo-occur)
-        ("C-c t i" . hl-todo-insert))
+        ("C-c C-t i" . hl-todo-insert))
   :config
   (setopt hl-todo-highlight-punctuation ":!?"
           hl-todo-keyword-faces '(("DEBUG" warning bold)
                                   ("HACK" warning bold)
                                   ("FIXME" error bold)
-                                  ("NOTE" highlight italic)
+                                  ("NOTE" homoglyph italic)
-                                  ("REVIEW" highlight italic)
+                                  ("REVIEW" homoglyph italic)
-                                  ("TODO" highlight bold)))
+                                  ("TODO" homoglyph bold)))
   :ensure (hl-todo :depth nil)
   :hook (prog-mode . hl-todo-mode))
 
+;; Search `hl-todo' buffers with `consult'
+(use-package consult-todo
+  :after (hl-todo)
+  :bind
+  (:map hl-todo-mode-map
+        ("C-c C-t c" . consult-todo)
+        ("C-c C-t C-c" . consult-todo-all)))
+
 ;; Icons for `corfu'
 (use-package kind-icon
   :disabled
   :after (corfu)
   :config
-  (push #'kind-icon-margin-formatter corfu-margin-formatters)
+  ;; Using nerd icons below
+  ;; (add-to-list 'corfu-margin-formatters #'kind-icon-margin-formatter)
   (setopt kind-icon-default-face 'corfu-default))
 
 ;; Git
-(use-package transient ; Must declare before magit
+;; Required by `magit' for menus
+(use-package transient
   :defer t)
 
 (use-package magit
@@ -641,6 +823,7 @@
   (setopt magit-display-buffer-function #'magit-display-buffer-same-window-except-diff-v1
           transient-history-file (expand-file-name "transient-history" xdg_cache_home)))
 
+;; Show `hl-todo' keywords in `magit' status buffers
 (use-package magit-todos
   :hook (magit-mode . magit-todos-mode))
 
@@ -649,10 +832,12 @@
   :config (marginalia-mode)
   :defer 1)
 
-;;; File format/markup support
+;; File format/markup support
 (use-package markdown-mode
-  :commands (markdown-mode)
+  :bind
-  :config (setq-local fill-column 120))
+  (:map markdown-mode-map
+        ("C-M-i" . fill-paragraph))
+  :commands (markdown-mode))
 
 ;; Better C++ font locking
 (use-package modern-cpp-font-lock
@@ -668,11 +853,12 @@
   (moody-replace-vc-mode)
   :defer 1)
 
+;; Menu for minor modes in `minor-mode-list'
 (use-package minions
   :after (moody)
   :config (minions-mode))
 
-;; Various nerd icon packages
+;; Nerd icons for various modes & packages
 (use-package nerd-icons
   :defer 1)
 
@@ -683,7 +869,8 @@
 
 (use-package nerd-icons-corfu
   :after (nerd-icons corfu)
-  :config (push #'nerd-icons-corfu-formatter corfu-margin-formatters))
+  :config
+  (add-to-list 'corfu-margin-formatters #'nerd-icons-corfu-formatter))
 
 (use-package nerd-icons-dired
   :hook (dired-mode . nerd-icons-dired-mode))
@@ -691,6 +878,15 @@
 (use-package nerd-icons-ibuffer
   :hook (ibuffer-mode . nerd-icons-ibuffer-mode))
 
+;; TODO: pick a theme
+(use-package nimbus-theme
+  :config (load-theme 'nimbus))
+
+;; EPUB
+(use-package nov
+  :config (setopt nov-text-width 100)
+  :mode ("\\.epub\\'" . nov-mode))
+
 ;; Completion style
 (use-package orderless
   :config
@@ -701,14 +897,24 @@
                                       orderless-initialism))
   :defer 1)
 
-;; Project Management
+;; Better PDF viewing and navigation
+(use-package pdf-tools
+  :config
+  (setopt pdf-info-epdfinfo-program (expand-file-name "pdf-tools/server/epdfinfo" elpaca-builds-directory)
+          pdf-view-resize-factor 1.1
+          pdf-view-display-size 'fit-page)
+  :ensure (pdf-tools :pre-build ("./server/autobuild") :files (:defaults ("lisp/*" "server/epdfinfo")))
+  :hook (pdf-view-mod . pdf-view-midnight-minor-mode)
+  :mode  ("\\.pdf\\'" . pdf-view-mode))
+
+;; Project Management - disabled, see `project' built-in package
 (use-package projectile
   :disabled
   :bind ("C-c p" . projectile-command-map)
   :config
   (setopt projectile-known-projects-file (expand-file-name "projectile-bookmarks" xdg_cache_home)
           projectile-project-search-path '(("~/Nextcloud/Projects/src/" . 2)))
-  (push "*node_modules" projectile-globally-ignored-directories)
+  (add-to-list 'projectile-globally-ignored-directories "*node_modules")
   (projectile-mode))
 
 ;; Visualize color names
@@ -729,6 +935,39 @@
   :init (setopt rust-mode-treesitter-derive t)
   :commands (rust-mode))
 
+(use-package treemacs
+  :defer t
+  :commands (treemacs)
+  :config
+  (setopt treemacs-eldoc-display 'simple
+          treemacs-hide-dot-git-directory nil
+          treemacs-is-never-other-window t
+          treemacs-persist-file (expand-file-name "treemacs-persist" xdg_cache_home)
+          treemacs-text-scale 2
+          treemacs-width-is-initially-locked t)
+  (add-to-list 'treemacs-litter-directories "./zig-cache")
+  (treemacs-resize-icons 22)
+  (treemacs-follow-mode t)
+  (treemacs-filewatch-mode t)
+  (treemacs-fringe-indicator-mode 'always)
+  (treemacs-git-commit-diff-mode t)
+  (treemacs-git-mode 'deferred)
+  ;; (treemacs-hide-gitignored-files-mode nil)
+  (treemacs-indent-guide-mode)
+  :init
+  (bind-keys :prefix-map as/treemacs-prefix-map
+             :prefix "C-c t"
+             ("0"   . treemacs-select-window)
+             ("1"   . treemacs-delete-other-windows)
+             ("t"   . treemacs)
+             ("d"   . treemacs-select-directory)
+             ("B"   . treemacs-bookmark)
+             ("C-f" . treemacs-find-file)
+             ("M-t" . treemacs-find-tag)))
+
+(use-package treemacs-magit
+  :after (treemacs magit))
+
 ;; Automatically download tree-sitter grammars
 (use-package treesit-auto
   :defer 1
@@ -750,17 +989,18 @@
          :url "https://github.com/tree-sitter/tree-sitter-cpp"
          :revision "v0.21.0"
          :ext "\\.cpp\\'"))
-  (push as/c-tsauto-config treesit-auto-recipe-list)
+  (add-to-list 'treesit-auto-recipe-list as/c-tsauto-config)
-  (push as/cpp-tsauto-config treesit-auto-recipe-list)
+  (add-to-list 'treesit-auto-recipe-list as/cpp-tsauto-config)
-  ;;(add-to-list 'treesit-auto-recipe-list as/cpp-tsauto-config)
+  ;; (push as/c-tsauto-config treesit-auto-recipe-list)
+  ;; (push as/cpp-tsauto-config treesit-auto-recipe-list)
   (treesit-auto-add-to-auto-mode-alist 'all)
   (global-treesit-auto-mode))
 
 ;; Better undo/redo
 (use-package undo-fu
   :bind (("C-z" . undo-fu-only-undo)
-         ("C-M-z" . undo-fu-only-redo))
+         ("C-S-z" . undo-fu-only-redo))
-  :defer 1)
+  :defer 3)
 
 (use-package undo-fu-session
   :after (undo-fu)
@@ -775,10 +1015,7 @@
   (setopt vertico-cycle t
           vertico-count 10
           vertico-resize t
-          vertico-scroll-margin 1
+          vertico-scroll-margin 1)
-          completion-ignore-case t
-          read-buffer-completion-ignore-case t
-          read-file-name-completion-ignore-case t)
   :init (vertico-mode))
 
 ;; Web and SSG
@@ -808,17 +1045,18 @@
 ;; Expand abbreviations to templates
 (use-package yasnippet
   :bind
-  (:map yas-minor-mode-map
+  (;; :map yas-minor-mode-map ; need to enable mode with something other than `:commands'
    ("C-c y i" . yas-insert-snippet)
    ("C-c y v" . yas-visit-snippet-file))
-  :config (yas-reload-all)
+  :config
-  :hook (prog-mode . yas-minor-mode))
+  (yas-reload-all) ; needed if not using `yas-global-mode'
+  (yas-minor-mode))
 
 (use-package yasnippet-snippets
   :after (yasnippet))
 
 (use-package consult-yasnippet
-  :after (yasnippet)
+  :after (consult yasnippet)
   :bind
   (:map yas-minor-mode-map
         ("C-c y c" . consult-yasnippet)))
@@ -834,12 +1072,14 @@
   :commands (zig-mode)
   :config
   (defun zig-compile ()
+    "Save buffer and compile using `zig build`. Overrides `zig-compile' in 'zig-mode.el'."
     (interactive)
     (save-buffer)
     (zig--run-cmd "build"))
-  (setq-local fill-column 100)
+  (setopt fill-column 100
-  (setopt zig-format-on-save nil))
+          zig-format-on-save nil))
 
-(push "~/.config/emacs/lisp/" load-path)
+(add-to-list 'load-path "~/.config/emacs/lisp/")
 (require 'init-org)
+
 ;;; init.el ends here

dot_config/emacs/lisp/init-org.el

@@ -29,6 +29,49 @@
 
 ;;; Code:
 
+(use-package citar
+  :after (oc)
+  :config
+  (setopt citar-bibliography org-cite-global-bibliography
+          citar-library-paths '("~/Nextcloud/Library/"))
+  ;; (when (elpaca-installed-p 'citar-embark)
+  ;;   (setopt citar-at-point-function 'embark-act))
+  :hook (org-mode . citar-capf-setup))
+
+(use-package citar-embark
+  :after (citar embark)
+  :config (citar-embark-mode))
+
+(use-package citar-org-roam
+  :after (citar org-roam)
+  :config
+  (setopt citar-org-roam-capture-template-key "r"
+          citar-org-roam-note-title-template "${title} - ${author}"
+          citar-org-roam-subdir "references")
+  (citar-org-roam-mode))
+
+(use-package citeproc
+  :after (oc))
+
+(use-feature oc
+  :after (org)
+  :config
+  (setopt org-cite-export-processors '((latex biblatex)
+                                       (t csl))
+          org-cite-global-bibliography '("~/Nextcloud/Library/bib/library.bib"))
+  (when (elpaca-installed-p 'citar)
+    (setopt org-cite-activate-processor 'citar
+            org-cite-follow-processor 'citar
+            org-cite-insert-processor 'citar)))
+
+(use-feature oc-csl
+  :after (citeproc oc)
+  :config
+  (let ((zotero_styles (expand-file-name
+                        "Zotero/styles/" (or (getenv "XDG_DATA_HOME") "~/.local/share/"))))
+    (if (file-directory-p zotero_styles)
+        (setopt org-cite-csl-styles-dir zotero_styles))))
+
 (use-package org
   :bind
   (:map global-map
@@ -38,83 +81,85 @@
   :config
   ;; General options TODO: Comment various options more descriptively
   (setopt org-agenda-block-separator nil
+          ;; org-agenda-files (list org-directory)
           org-agenda-files (directory-files-recursively org-directory "org$")
-          org-agenda-skip-deadline-if-done t
+          org-agenda-skip-deadline-if-done nil
           org-agenda-skip-scheduled-if-deadline-is-shown t
-          org-agenda-skip-scheduled-if-done t
+          org-agenda-skip-scheduled-if-done nil
           org-agenda-start-on-weekday nil
           org-agenda-tags-column 0
-          org-archive-location (concat org-directory "/archive/archive.org::* From %s")
+          org-archive-location (expand-file-name "archive/%s_archive.org::" org-directory)
           org-blank-before-new-entry '((heading . auto)
                                        (plain-list-item . auto))
+          org-deadline-warning-days 5
           org-enforce-todo-dependencies t
           org-fold-catch-invisible-edits 'show-and-error
-          org-fontify-done-headline nil
+          org-fontify-done-headline t
           org-fontify-quote-and-verse-blocks t
           org-fontify-todo-headline t
           org-goto-interface 'outline-path-completion
           org-hide-emphasis-markers t
           org-insert-heading-respect-content t
           org-log-done 'time
+          org-log-into-drawer t
+          org-log-redeadline 'time
+          org-log-refile 'note
+          org-log-reschedule 'time
           org-outline-path-complete-in-steps nil
           org-pretty-entities t
           org-refile-allow-creating-parent-nodes 'confirm
           org-refile-targets '((nil :maxlevel . 3)
                                (org-agenda-files :maxlevel . 2))
-          org-refile-use-outline-path nil
+          org-refile-use-outline-path 'file
           org-return-follows-link t
           org-reverse-note-order t    ; Add/refile notes at the beginning of an entry
+          org-special-ctrl-a/e t
           org-src-preserve-indentation t
           org-startup-folded 'fold
           org-tags-column 0
-          org-todo-keywords '((sequence "BLOCKED(b@/!)" "IN-PROGRESS(i@/!)"
+          org-todo-keywords '((sequence "TODO(t)"
-                                        "TODO(t)" "WAITING(w@/!)" "|" "DONE(d!)"
+                                        "NEXT(n)"
-                                        "WONT-DO(n@/!)"))
+                                        "PROG(p)"
-          ;; org-todo-keyword-faces '(("TODO"  . (icon-button))
+                                        "|"
-          ;;                          ("IN-PROGRESS" . (tool-bar))
+                                        "DONE(d!)"
-          ;;                          ("BLOCKED" . (match))
+                                        "WONT(w@/!)")
-          ;;                          ("WONT-DO" . (org-done)))
+                              (sequence "IDEA(i)" "|"))
+          org-todo-keyword-faces '(("TODO" . (dired-mark))
+                                   ("PROG" . (success))
+                                   ("NEXT" . (dired-special))
+                                   ("WONT" . (org-done)))
           org-todo-repeat-to-state "TODO")
 
   (setq org-capture-templates
         `(
-          ("m" "Personal")
+          ("i" "Inbox" entry (file "roam/inbox.org")
-          ("mj" "Log Entry"
+           "* %?"
-           entry (file+datetree ,(concat org-directory "/personal_log.org"))
+           :empty-lines 1
+           )
+
+          ("j" "Log Entry"
+           entry (file+datetree "log.org")
            "** %?"
            :empty-lines 1)
 
-          ("mn" "Note"
+          ("n" "Note"
-           entry (file+headline ,(concat org-directory "/notes.org") "Note to self...")
+           entry (file+headline "inbox.org" "Notes")
-           "** %?"
+           "** %?
+:PROPERTIES:
+:CREATED: %U
+:END:"
            :empty-lines 1)
 
-          ("mt" "Todo"
+          ("t" "Todo" entry (file+headline "inbox.org" "Tasks")
-           entry (file+headline  ,(concat org-directory "/inbox.org") "You can do it!")
+           "** TODO [#B] %?
-           "** TODO [#B] %?\n:CREATED: %U\n "
+:PROPERTIES:
+:CREATED: %U
+:END:
+%i\n%a
+Notes: "
            :empty-lines 1)
-
+          )
-          ("p" "Projects")
+        )
-          ("pn" "Note"
-           entry (file+headline ,(concat org-directory "/notes.org") "Project Notes")
-           "** %?"
-           :empty-lines 1)
-
-          ("pt" "Todo"
-           entry (file+headline ,(concat org-directory "/inbox.org") "Project Tasks")
-           "** TODO [#B] %?\n:CREATED: %U\n%i\n%a\nNotes: "
-           :empty-lines 1)
-
-          ("w" "Work")
-          ("wn" "Note"
-           entry (file+headline ,(concat org-directory "/notes.org") "Work Notes")
-           "** %?"
-           :empty-lines 1)
-
-          ("wt" "Todo"
-           entry (file+headline  ,(concat org-directory "/inbox.org") "Work Tasks")
-           "** TODO [#B] %?\n:CREATED: %U\n%i\n%a\nNotes: "
-           :empty-lines 1)))
 
   ;; Headline appearance
   (custom-set-faces
@@ -133,92 +178,328 @@
              ("f" . org-shiftmetaright)
              ("b" . org-shiftmetaleft)
              ("v" . org-tags-view)
+             ("y" . org-todo-yesterday)
+             ("l" . org-toggle-link-display)
              ("C-n" . org-priority-down)
              ("C-p" . org-priority-up)))
 
+(use-feature org-agenda
+  :after (org)
+  :bind
+  (:map org-agenda-mode-map
+        ("C-c C-r" . as/org-agenda-reconcile-inbox-item))
+  :config (setopt org-agenda-start-with-log-mode '(clock closed state))
+  :init
+  (defun as/org-agenda-reconcile-inbox-item ()
+    "Process and refile an org-agenda item"
+    (interactive)
+    (org-with-wide-buffer
+     (org-agenda-set-tags)
+     (org-agenda-priority)
+     (if (y-or-n-p "Schedule item?")
+         (org-agenda-schedule nil nil))
+     (org-agenda-refile nil nil t))))
+
 (use-package org-appear
   :config
   (setopt org-appear-autoentities t
-          org-appear-autolinks t
+          org-appear-autolinks nil
           org-appear-autosubmarkers t
           org-appear-trigger 'on-change)
   :hook (org-mode . org-appear-mode))
 
-(use-package org-modern
+(use-feature org-clock
-  :disabled
+  :after (org)
   :config
-  (setopt org-modern-symbol "Hack")
+  (setopt org-clock-in-resume t
+          org-clock-in-switch-to-state "PROG"
+          org-clock-persist t
+          org-clock-rounding-minutes 5))
+
+(use-package org-edna
+  :config (setopt org-edna-finder-use-cache t)
+  :hook (org-mode . org-edna-mode))
+
+(use-feature org-habit
+  :after (org)
+  ;; REVIEW: do I need to add to modules if it loads after org anyway?
+  :init (add-to-list 'org-modules 'org-habit t))
+
+(use-feature org-id
+  :after (org)
+  :config
+  (setopt org-id-link-to-org-use-id t
+          org-id-locations-file (locate-user-emacs-file "org-id-locations")
+          org-id-method 'ts
+          org-id-ts-format "%Y%m%dT%H%M%S.%2N%z")
+  ;; REVIEW: do I need to add to modules if it loads after org anyway?
+  :init (add-to-list 'org-modules 'org-id t))
+
+(use-package org-modern
+  :disabled t
+  :config
+  (setopt org-modern-block-name nil
+          org-modern-priority nil
+          org-modern-symbol "DejaVu Sans"
+          org-modern-todo nil
+          org-modern-tag nil
+          org-modern-timestamp nil)
   :hook
   (org-mode . org-modern-mode)
   (org-agenda-finalize . org-modern-agenda))
 
+(use-package org-noter
+  :after (org)
+  :config
+  (setopt org-noter-notes-search-path (list (concat org-directory "/roam")))
+  (org-noter-enable-org-roam-integration))
+
+(use-package org-pomodoro
+  :after (org-clock)
+  :commands (org-pomodoro)
+  :config
+  ;; (defun as/org-pomodoro-started-todo-update ()
+  ;;   "Update todo state when starting a pomodoro"
+  ;;     (when (or (string= org-state "NEXT")
+  ;;               (string= org-state "TODO"))
+  ;;       (org-todo "PROG")))
+  ;;   (defun as/org-todo-state-maybe-update-pomodoro ()
+  ;;     "Update or start a pomodoro when changing todo state
+
+  ;; REVIEW: This could be updated to always trigger a pomodoro change, like when
+  ;; changing state to PROG. This has the added benefit of making the above function
+  ;; redundent, as I could just use `org-todo' as a single start and end point for
+  ;; all pomodoros"
+  ;;       (when (and (or (string= org-state "TODO")
+  ;;                   (string= org-state "DONE"))
+  ;;                  (org-pomodoro-active-p))
+  ;;         (org-pomodoro-kill)))
+  ;;   (add-to-list 'org-after-todo-state-change-hook #'as/org-todo-state-change-maybe-kill-pomodoro)
+  ;; (add-to-list 'org-pomodoro-started-hook #'as/org-pomodoro-started-todo-update)
+  (setopt alert-user-configuration ; Send mesages to libnotify
+          '((((:category . "org-pomodoro")) libnotify nil))
+          org-pomodoro-audio-player (executable-find "pw-cat")
+	  org-pomodoro-keep-killed-pomodoro-time t
+          org-pomodoro-length 50
+          org-pomodoro-short-break-length 10
+          org-pomodoro-manual-break t)
+  :init
+  ;; (defun as/org-pomodoro-todo-state-trigger ()
+  ;;   "Starts or stops a pomodoro when todo state changes"
+  ;;   (cond
+  ;;    ((when (string= org-state "PROG")
+  ;;       (if (org-pomodoro-active-p)
+  ;;           ((org-pomodoro-kill)
+  ;;            (org-pomodoro nil))
+  ;;         (org-pomodoro nil)))
+  ;;     ((when (and (or (string= org-state "DONE") (string= org-state "TODO"))
+  ;;                 (org-pomodoro-active-p))
+  ;;        (org-pomodoro-kill))))))
+  ;; (with-eval-after-load 'org-clock
+  ;;   (add-to-list 'org-after-todo-state-change-hook #'as/org-pomodoro-todo-state-trigger))
+  )
+
+(use-package org-roam
+  :after (org)
+  :bind
+  (:map as/org-prefix-map
+        ("r i" . org-roam-node-insert)
+        ("r f" . org-roam-node-find)
+        ("r c" . org-roam-capture)
+        ;; REVIEW: Not sure if I really need these?
+        ;;       ("r b" . org-roam-buffer-toggle)
+        ;;       ("r d" . org-roam-buffer-display-dedicated)
+        ;;       ("r a a" . org-roam-alias-add)
+        ;;       ("r a r" . org-roam-alias-remove)
+        ;;       ("r r a" . org-roam-ref-add)
+        ;;       ("r r r" . org-roam-ref-remove)
+        )
+  :config
+  (setopt org-roam-database-connector 'sqlite-builtin)
+  (setq org-roam-db-gc-threshold most-positive-fixnum) ; doesn't like the new `setopt'
+  (add-to-list 'display-buffer-alist
+               '("\\*org-roam\\*"
+                 (display-buffer-in-direction)
+                 (direction . right)
+                 (window-width . 0.33)
+                 (window-height . fit-window-to-buffer)))
+  (add-to-list 'org-roam-capture-templates
+               '("r" "reference" plain
+                 "%?"
+                 :target
+                 (file+head "references/${citar-citekey}.org"
+                            "#+title: Notes on: ${note-title}\n")
+                 :empty-lines 1
+                 :unnarrowed t
+                 ))
+  (add-to-list 'org-roam-capture-templates
+               `("p" "project" plain (file ,(concat org-roam-directory
+                                                    "/templates/projects.org"))
+                 :target
+                 (file+head "projects/%<%Y%m%d%H%M%S>-${slug}.org"
+                            "#+title: ${title}\n#+filetags: projects")
+                 :empty-lines 1
+                 :unnarrowed t))
+  (org-roam-db-autosync-mode)
+  :ensure (org-roam :files (:defaults "extensions/*"))
+  :init
+  (setopt org-roam-directory (file-name-as-directory (expand-file-name "roam" org-directory))))
+
 (use-package org-super-agenda
   :hook (org-agenda-mode . org-super-agenda-mode)
   :init
   (setq org-agenda-custom-commands
-        '(("u" "Super agenda"
+        '(("w" "Work agenda"
 
            ((agenda "" ((org-agenda-prefix-format "  %?-12t  %s")
-                        ;; (org-agenda-prefix-format "  %-20:c%?-12t %s")
                         (org-agenda-remove-tags t)
                         (org-agenda-skip-function '(org-agenda-skip-entry-if
-                                                    'todo '("DONE" "WONT-DO")))
+                                                    'todo '("WONT")))
-                        (org-agenda-span 5)))
+                        (org-agenda-span 'day)
+                        (org-habit-show-habits nil)))
 
             (alltodo "" ((org-agenda-overriding-header "")
                          (org-agenda-prefix-format "  %?-12t  %s")
                          (org-agenda-remove-tags t)
                          (org-super-agenda-groups
-                          '((:name "Important"
+                          '((:discard
-                                   :priority "A"
+                             (:deadline future
-                                   :order 0)
+                                        :scheduled future
+                                        :category ("house" "me" "notes")))
 
-                            (:name "In-Progress"
+                            (:name "Done"
-                                   :todo "IN-PROGRESS"
+                                   :log state
-                                   :order 2)
+                                   :todo "DONE"
-
+                                   :order 90)
-                            (:name "Blocked"
-                                   :todo "BLOCKED"
-                                   :order 3)
 
                             (:name "Overdue"
                                    :deadline past
                                    :scheduled past
                                    :order 1)
 
-                            ;; TODO: Figure out how to organize chores/personal
+                            (:name "Inbox"
-                            (:name "Chores"
+                                   :category ("inbox" "phone_inbox")
-                                   :tag "chores"
+                                   :order 9)
-                                   :order 19)
 
-                            (:name "Personal"
+                            (:name "Important"
-                                   :habit t
+                                   :priority "A"
-                                   :order 17)
+                                   :order 0)
+
+                            (:name "In-Progress"
+                                   :todo "PROG"
+                                   :order 2)
+
+                            (:name "Next"
+                                   :todo "NEXT"
+                                   :order 3)
+
+                            (:name "Today"
+                                   :deadline today
+                                   :scheduled today
+                                   :time-grid t
+                                   :order 4)
 
                             (:name "Research"
                                    :tag "research"
                                    :order 7)
 
-                            (:name "Upcoming"
-                                   :deadline future
-                                   :scheduled future
-                                   :order 18)
-
                             (:name "Project Backlog"
-                                   :and (:todo "TODO" :tag "project")
+                                   :and (:todo "TODO" :tag "projects")
                                    :order 5)
 
                             (:name "General Backlog"
                                    :and (:todo "TODO" :priority "B")
-                                   :order 6)
+                                   :order 8)
 
                             (:name "Less Important"
                                    :priority<= "C"
-                                   :order 20))))))))))
+                                   :order 80)
+                            ))))))
+          ("y" "My agenda"
+
+           ((agenda "" ((org-agenda-prefix-format "  %?-12t  %s")
+                        (org-agenda-remove-tags t)
+                        (org-agenda-skip-function '(org-agenda-skip-entry-if
+                                                    'todo '("WONT") 'regexp '("job")))
+                        (org-agenda-span 3)))
+
+            (alltodo "" ((org-agenda-overriding-header "")
+                         (org-agenda-prefix-format "  %?-12t  %s")
+                         (org-agenda-remove-tags t)
+                         (org-super-agenda-groups
+                          '((:discard
+                             (:not
+                              (:category ("house" "me" "notes"))))
+
+                            ;; (:discard
+                            ;;    (:deadline future :scheduled future))
+
+                            (:name "Overdue"
+                                   :deadline past
+                                   :scheduled past
+                                   :order 1)
+
+                            (:name "Upcoming"
+                                   :deadline future
+                                   :scheduled future
+                                   :order 99)
+
+                            (:name "Inbox"
+                                   :category ("inbox" "phone_inbox")
+                                   :order 8)
+
+                            (:name "Done"
+                                   :todo "DONE"
+                                   :order 99)
+
+                            (:name "Important"
+                                   :priority "A"
+                                   :order 0)
+
+                            (:name "In-Progress"
+                                   :todo "PROG"
+                                   :order 2)
+
+                            (:name "Next"
+                                   :todo "NEXT"
+                                   :order 3)
+
+                            (:name "Household"
+                                   :tag "chores"
+                                   :order 6)
+
+                            (:name "Routine"
+                                   :and (:habit t :not (:tag "chores"))
+                                   :order 5)
+
+                            (:name "Today"
+                                   :deadline today
+                                   :scheduled today
+                                   :time-grid t
+                                   :order 4)
+
+                            ;; (:name "Personal projects"
+                            ;;        :categery "me"
+                            ;;        :order 9)
+
+                            (:name "Research"
+                                   :tag "research"
+                                   :order 7)
+
+                            (:name "General Backlog"
+                                   :and (:todo "TODO" :priority "B")
+                                   :order 50)
+
+                            (:name "Less Important"
+                                   :priority<= "C"
+                                   :order 85)
+                            )))))))))
 
 (use-package org-superstar
+  ;; :disabled t
   :config
   (setopt org-indent-mode-turns-on-hiding-stars nil
+          org-superstar-headline-bullets-list '("◉" "🞛" "○" "▷")
           org-superstar-leading-bullet ?\s
           org-superstar-special-todo-items t)
   :hook (org-mode . org-superstar-mode))

dot_config/fuzzel/fuzzel.ini

@@ -2,14 +2,14 @@
 layer = top
 exit-on-keyboard-focus-loss = yes
 
-font=Hack
+font=Hack:size=18
 dpi-aware=auto
-icon-theme=Qogir-dark
+icon-theme=Colloid-Grey-Dark
 icons-enabled=yes
 letter-spacing=0
 prompt='>  '
 
-lines=15
+lines=10
 # line-height=
 width=40
 tabs=4

dot_config/gtk-2.0/gtkrc

@@ -1,4 +1,4 @@
 # GTK2 Settings
 gtk-theme-name="Colloid-Dark-Compact-Catppuccin"
 gtk-icon-theme-name="Colloid-Grey-Dark"
-gtk-font-name="DejaVu Sans 10"
+gtk-font-name="DejaVu Sans 12"

dot_config/gtk-3.0/settings.ini

@@ -1,4 +1,4 @@
 [Settings]
 gtk-theme-name = Colloid-Dark-Compact-Catppuccin
 gtk-icon-theme-name = Colloid-Grey-Dark
-gtk-font-name = DejaVu Sans 10
+gtk-font-name = "DejaVu Sans 12"

dot_config/gtk-4.0/settings.ini

@@ -2,4 +2,4 @@
 gtk-application-preferdark-theme = true
 gtk-theme-name = Colloid-Dark-Compact-Catppuccin
 gtk-icon-theme-name = Colloid-Grey-Dark
-gtk-font-name = "DejaVu Sans 10"
+gtk-font-name = "DejaVu Sans 12"

dot_config/yambar/config.yml.tmpl

@@ -43,8 +43,8 @@ transparent_black: &transparent_black 45475aaa
 # transparent_black: &transparent_black 4a555baa
 # Fonts
 {{- if eq .chezmoi.hostname "helix" }}
-hack: &hack Hack:pixelsize=28
+hack: &hack Hack:pixelsize=32
-awesome: &awesome Font Awesome 6 Free:style=solid:pixelsize=28
+awesome: &awesome Font Awesome 6 Free:style=solid:pixelsize=32
 {{- else}}
 hack: &hack Hack:pixelsize=13
 awesome: &awesome Font Awesome 6 Free:style=solid:pixelsize=12
@@ -55,7 +55,7 @@ separator:
 
 bar:
 {{- if eq .chezmoi.hostname "helix" }}
-  height: 64
+  height: 68
   location: top
 {{- else if eq .chezmoi.hostname "hydrus" }}
   monitor: DP-1

dot_local/bin/executable_river-exit

@@ -1,26 +1,41 @@
 #!/bin/sh
 
-river=$(ps -C river | awk '/river/')
+river=$(pgrep -x river)
 
 if [ -z "$river" ]; then
     echo "error: $0: River is not running"
     exit 1
-elif [ $# -ne 1 ]; then
+fi
+
+if [ $# -ne 1 ]; then
     echo "Usage: river-exit [command]"
     echo "Commands: logout, poweroff, or reboot"
     exit 1
 fi
 
-if [ "$1" = "logout" ]; then
+if [ "$1" = "logout" ] || [ "$1" = "poweroff" ] || [ "$1" = "reboot" ];then
     riverctl spawn 'reset'
+
+    if [ "$1" = logout ];then
         riverctl exit
-elif [ "$1" = "poweroff" ]; then
+    elif [ "$1" = poweroff ] || [ "$1" = reboot ];then
-  riverctl spawn 'reset'
+        loginctl "$1"
-  loginctl poweroff
+    fi
-elif [ "$1" = "reboot" ]; then
-  riverctl spawn 'reset'
-  loginctl reboot
 else
     echo "error: $0: unexpected argument"
     exit 1
 fi
+
+# if [ "$1" = "logout" ]; then
+#   riverctl spawn 'reset'
+#   riverctl exit
+# elif [ "$1" = "poweroff" ]; then
+#   riverctl spawn 'reset'
+#   loginctl poweroff
+# elif [ "$1" = "reboot" ]; then
+#   riverctl spawn 'reset'
+#   loginctl reboot
+# else
+#   echo "error: $0: unexpected argument"
+#   exit 1
+# fi

dot_local/bin/executable_toggle-wifi

@@ -1,6 +1,6 @@
 #!/bin/sh
 
-if [ $(connmanctl state | awk '/State/ {print $NF}') == 'online' ]; then
+if [ "$(connmanctl state | awk '/State/ {print $NF}')" = 'online' ]; then
   connmanctl disable wifi
 else
   connmanctl enable wifi

dot_local/bin/executable_update-all

@@ -11,8 +11,12 @@ alias zigup='zigup --install-dir "${HOME}/.local/share/zigup" --path-link "${HOM
 
 updates=$(checkupdates)
 aur_updates=$(paru -Qua)
+rust_has_update=$(rustup check | grep -c 'Update')
 
-if [ "$updates" = "" ] && [ "$aur_updates" = "" ]; then
+if [ "$updates" = "" ] \
+       && [ "$aur_updates" = "" ] \
+       && [ "$rust_has_update" -eq 0 ];
+then
   echo "System is already up to date."
   exit 0
 fi
@@ -20,6 +24,13 @@ fi
 river_has_update=$(echo "$aur_updates" | grep -c 'river-git')
 zls_has_update=$(echo "$aur_updates" | grep -c 'zls-git')
 
+
+if [ "$rust_has_update" -ne 0 ]; then
+  rustup update
+else
+  echo "$rust_has_update"
+fi
+
 if [ "$river_has_update" -ne 0 ] && [ "$zls_has_update" -ne 0 ]; then
   zigup 0.13.0
   paru -Syu river-git --ignore zls-git