Literate Configuration

(setq
 org-directory "~/Notes/"
 )

;; full screen it
(add-to-list 'initial-frame-alist '(fullscreen . maximized))

;; the following function brings Emacs to the front if on macOS
(defun bring-emacs-to-front ()
  "Bring Emacs to the front using AppleScript."
  (when (eq system-type 'darwin)
    (ns-do-applescript "tell application \"Emacs\" to activate")))
;; Run after startup
(add-hook 'after-init-hook 'bring-emacs-to-front)
;; Optional: Also run when restarting Emacs (if using `restart-emacs`)
(advice-add 'restart-emacs :after #'bring-emacs-to-front)

(defun my-open (filepath)
  (cond
   ((eq system-type 'gnu/linux) (shell-command (format "xdg-open %s &" filepath) nil nil))
   ((eq system-type 'darwin) (shell-command (format "open %s &" filepath) nil nil))
   )
  )

(setq-default require-final-newline nil)

(setq auth-sources '("~/.authinfo.gpg"))

(after! org
  ;; only load after org-mode is loaded

  (require 'org-id)

  ;; org directories
  (setq
   org-default-notes-file (expand-file-name "refile.org" org-directory)
   org-default-meeting-file (expand-file-name "roam/meetings.org" org-directory)
   org-roam-directory (expand-file-name "roam" org-directory)
   )
  ;; org-roam-db-location (expand-file-name "org-roam.db" org-roam-directory)

  ;; count all descendent checkboxes
  ;; Non-nil means checkbox statistics counts only the state of direct children.
  (setq org-checkbox-hierarchical-statistics nil)
  ;; https://orgmode.org/manual/Breaking-down-tasks.html
  (setq org-hierarchical-todo-statistics nil)

  ;; turn on auto-fill-mode for org files
  (add-hook 'org-mode-hook 'turn-on-auto-fill)

  ;; turn on auto-fill-mode for org files
  (add-hook 'org-mode-hook '(lambda () (display-line-numbers-mode 0)))

  ;; when change todo state, save the file
  (add-hook 'org-trigger-hook 'save-buffer)

  ;; create id when copy an link
  (setq org-id-link-to-org-use-id 'create-if-interactive)
  (setq org-id-locations-file (expand-file-name ".orgids" org-directory))
  (setq org-attach-preferred-new-method 'id)

  (setq org-journal-dir (expand-file-name "journal" org-directory))

  (defun weekly-dates()
    "insert dates of current Monday and Sunday for weekly purpose"
    ;; reference: https://sachachua.com/blog/2015/08/org-mode-date-arithmetic/
    ;; reference: https://www.gnu.org/software/emacs/manual/html_node/elisp/Insertion.html
    (interactive)
    (insert
     (concat
      "** "
      (org-read-date nil nil "this monday")
      " "
      (org-read-date nil nil "this sunday")
      "\n"
      "*** log\n"
      "**** Monday\n"
      "**** Tuesday\n"
      "**** Wednesday\n"
      "**** Thursday\n"
      "**** Friday\n"
      )
     )
    )

  ;; automaticall refresh inline images after executing babel block.
  ;; (add-hook! 'org-babel-after-execute-hook 'org-display-inline-images)

  ;; plantuml integration
  (setq org-plantuml-jar-path
        (setq plantuml-jar-path (expand-file-name "~/.dotfiles/plantuml.1.2021.0.jar")))
  (add-to-list
   'org-src-lang-modes '("plantuml" . plantuml))

  (defun my-org-confirm-babel-evaluate (lang body)
    ;; return nil for the languages that don't need confirm
    (cond
     ((string= lang "plantuml") nil)
     ((string= lang "emacs-lisp") nil)
     ((string= lang "http") nil)
     ;; all other languages
     (t t)
     ))
  (setq org-confirm-babel-evaluate #'my-org-confirm-babel-evaluate)

  (add-to-list 'org-structure-template-alist
               '("p" "#+BEGIN_SRC ipython :session :exports both :results raw drawer \n\n#+END_SRC"))


  ;;
  ;; indentation
  ;;
  ;; http://orgmode.org/manual/In_002dbuffer-settings.html#In_002dbuffer-settings
  ;; enable auto-indentation (indent mode)
  (setq org-startup-indented t)
  ;; disable truncated
  (setq org-startup-truncated nil)
  ;; startup folding configuration (see table below)
  (setq org-startup-folded t)

  ;;
  ;; beautification
  ;;

  ;; not leaving empty lines when in collapsed view
  (setq org-cycle-separator-lines 0)
  (setq outline-blank-line nil)

  ;; golden ratio mode https://github.com/roman/golden-ratio.el
  ;; (setq golden-ratio-mode t)

  ;; Misc tips from https://lepisma.github.io/2017/10/28/ricing-org-mode/
  ;; Unicode symbols: https://zhangda.wordpress.com/2016/02/15/configurations-for-beautifying-emacs-org-mode/
  (setq org-startup-indented t
        ;; org-bullets-bullet-list '(" ") ;; no bullets, needs org-bullets package
        ;; org-bullets-bullet-list '("◉" "◎" "◆" "○" "►" "◇")
        ;; org-ellipsis " ⤵ " ;; folding symbol, backup: ⚡
        org-pretty-entities t
        org-hide-emphasis-markers nil ;; show actually italicized text instead of /italicized text/
        org-fontify-whole-heading-line t
        org-fontify-done-headline t
        org-fontify-quote-and-verse-blocks t
        )
  ;; a blank line at the end of the content of each task entry
  ;; https://blog.aaronbieber.com/2016/01/30/dig-into-org-mode.html
  (setq org-blank-before-new-entry (quote ((heading) (plain-list-item))))


  ;; HUGO
  (setq org-hugo-default-section-directory "post")
  )

(after! org
  (setq org-refile-use-outline-path 'file)
  (setq org-outline-path-complete-in-steps nil)
  ;; Targets include this file and any file contributing to the agenda - up to 2 levels deep
  (setq org-refile-targets (quote
                            (
                             (nil :maxlevel . 2)
                             (org-agenda-files :maxlevel . 4)
                             )
                            )
        )

  ;; when refile, put the note on top of the headings
  (setq org-reverse-note-order t)
  )

;; (after! org
;;   (defun my/org-add-ids-to-headlines-in-file ()
;;     "Add ID properties to all headlines in the current file which
;; do not already have one."
;;     (interactive)
;;     (org-map-entries 'org-id-get-create))
;;   (add-hook 'org-mode-hook
;;             (lambda ()
;;               (add-hook 'before-save-hook 'my/org-add-ids-to-headlines-in-file)))
;;   )

(after! org
  (setq org-export-with-toc nil)

  ;; disable smart quote typography changes for markdown
  (setq org-export-with-smart-quotes nil)
  ;; The following doesn't work
  ;; (setq org-pandoc-format-extensions '(markdown-typography))
  (setq org-pandoc-format-extensions '(markdown_strict+pipe_tables))
  (setq org-pandoc-markdown-extension "+yaml_metadata_block")

  ;; HTML
  ;; set default export scope
  (setq org-export-initial-scope 'subtree)
  ;; disable default CSS style
  (setq org-html-head-include-default-style nil)
  ;; include my own CSS style
  (setq org-html-head "<link rel=\"stylesheet\" href=\"https://mingwei.gitlab.io/doom.d/org.css\" type=\"text/css\" />")
  ;; (setq org-html-head "<link rel=\"stylesheet\" href=\"https://sandyuraz.com/styles/org.css\">")
)

(after! org
  ;; capture items
  (setq org-capture-templates
        '(

          ("r" "Radar Group Meeting" entry (file+headline "roam/cloudflare_radar.org" "Group Meetings")
           "*** Group meeting on %t\n**** Topic:\n\n**** Notes\n\n")

          ("c" "Individual Meeting" entry (file+headline "roam/cloudflare_radar.org" "Individual Meetings")
           "*** Meeting with %^{Person} on %t\n**** Topic\n\n**** Notes\n\n")

          )
        )
  (add-hook 'org-capture-mode-hook 'delete-other-windows)
  )

;; org-agenda shortcut
(define-key global-map "\C-cl" 'org-store-link)
(define-key global-map "\C-cc" 'org-capture)
(define-key global-map "\C-ca" 'org-agenda)

(after! org
  (setq
   org-roam-directory (expand-file-name "roam" org-directory)
   org-roam-db-location (expand-file-name "org-roam.db" org-roam-directory)
   ;; make sure new agenda files do not have the date time prefix in file name
   org-roam-capture-templates '(
                               ("d" "default" plain "%?" :target
                                (file+head "${slug}.org" "#+title: ${title}\n")
                                :unnarrowed t)
                               )
   )
  )

(after! org
  (setq org-fold-core-style 'overlays)
  (evil-select-search-module 'evil-search-module 'evil-search)
  )

(map!
 (:leader

  ;; SPC-SPC to run commands
  :desc "M-x"                     :nv "SPC"  #'execute-extended-command
  :desc "Find file in project"    :n  ":"    #'projectile-find-file

  (:prefix "TAB"
   :desc "Previous workspace"    :n  "h" #'+workspace/switch-left
   :desc "Next workspace"        :n  "l" #'+workspace/switch-right
   :desc "Load workspace"        :n  "L" #'+workspace/load
   )

  (:desc "git" :prefix "g"
   :desc "Git status"            :n  "s" #'magit-status
   :desc "Git stage hunk"        :n  "S" #'git-gutter:stage-hunk
   )

  (:desc "+toggle" :prefix "t"
   :desc "Flycheck"              :n  "c" #'flycheck-mode
   :desc "Focus"                 :n  "f" #'focus-mode
   :desc "Center"                :n  "w" #'centered-window-mode
   :desc "LSP iMenu"             :n  "i" #'lsp-ui-imenu
   )
  )
 )

(use-package! evil-escape)
(setq-default evil-escape-key-sequence "fd")
(map!
 (:after evil
  (:map evil-window-map ; prefix "C-w"
   "d"       #'+workspace/close-window-or-workspace
   "g"       #'golden-ratio
   "G"       #'balance-windows
   ;; "m"       #'delete-other-windows
   "w"       #'other-window
   "u"       #'winner-undo
   "r"       #'winner-redo
   )
  (:map evil-motion-state-map
   ";"       #'ignore
   )
  (:map evil-normal-state-map
   "zi"      #'ispell-word
   "zI"      #'ispell-buffer
   "s-["     #'evil-goto-last-change
   "s-]"     #'evil-goto-last-change-reverse
   ;; "gG"      #'centaur-tabs-counsel-switch-group
   ;; "gk"      #'centaur-tabs-kill-other-buffers-in-current-group
   ;; "gK"      #'centaur-tabs-kill-all-buffers-in-current-group
   )
  )
 )

(define-key global-map "\C-cl" 'org-store-link)
(define-key global-map "\C-ca" 'org-agenda)
(define-key global-map "\C-cc" 'org-capture)
(map!
 (:after evil-org
  (:map evil-org-mode-map
   (:localleader
    :n "n" #'org-toggle-narrow-to-subtree
    :n "A" #'org-archive-subtree
    :n "S" #'org-sort
    :n "T" #'org-babel-tangle
    :n "#" #'org-update-checkbox-count
    )
   :ni  "M-j" #'org-metadown
   :ni  "M-k" #'org-metaup
   :ni  "M-h" #'org-promote-subtree
   :ni  "M-l" #'org-demote-subtree
   :n   "t"   #'org-todo
   :n   "zi"  #'ispell-word
   )
  )
 (:map evil-org-agenda-mode-map
  (:localleader
   :n "A" #'org-agenda-archive-default-with-confirmation
   )
  )
 )

;; good font choices:
;; - JetBrains Mono font: https://www.jetbrains.com/lp/mono/
;; - Mozilla Fira Mono Font: https://github.com/mozilla/Fira
(setq doom-font (font-spec :family "Jetbrains Mono" :size 15))
;; revert to nil if font no exists
(unless (doom-font-exists-p doom-font)
  (setq doom-font nil))

;; (setq doom-unicode-font (font-spec :family "Jetbrains Mono"))
(setq doom-unicode-font
      (font-spec :family "all-the-icons" :size 15)
      ;; Fallback to your main font if icons aren't available
      doom-unicode-fallback-font (font-spec :family "JetBrains Mono"))

;; revert to nil if font no exists
(unless (doom-font-exists-p doom-unicode-font)
  (setq doom-unicode-font nil))

(setq line-spacing 0.2) ;; recommended 1.2 line spacing, `line-spacing` variable sets the *additional* space, thus 0.2

;; Global settings (defaults)
(setq doom-themes-enable-bold t    ; if nil, bold is universally disabled
      doom-themes-enable-italic t) ; if nil, italics is universally disabled
;; Load the theme (doom-one, doom-molokai, etc); keep in mind that each theme
;; may have their own settings.
;;
;; DARK THEMES
;;
;; (load-theme 'doom-vibrant t)
;; (load-theme 'doom-opera t)
(load-theme 'doom-dracula t)
;; (load-theme 'doom-tomorrow-night t)
;; (load-theme 'doom-city-lights t)
;; (load-theme 'doom-nord t)
;; (load-theme 'doom-dark+ t)
;; (load-theme 'doom-Iosvkem t)
;; (load-theme 'doom-one t)
;; (load-theme 'doom-outrun-electric t)
;; (load-theme 'doom-acario-dark t)
;; (load-theme 'leuven-dark t) ;; perfect fit for org-mode
;;
;; LIGHT THEMES
;;
;; (load-theme 'doom-acario-light t)
;; (load-theme 'leuven t) ;; perfect fit for org-mode
;; (load-theme 'doom-one-light t)
;; (load-theme 'doom-solarized-light t)

;;
;; (set-frame-parameter (selected-frame) 'alpha '(100 98))

;; (setq window-divider-default-right-width 3)
;; (setq window-divider-default-bottom-width 3)

;; Enable flashing mode-line on errors
(doom-themes-visual-bell-config)
(doom-themes-treemacs-config)

;; Corrects (and improves) org-mode's native fontification.
(doom-themes-org-config)

(setq display-line-numbers-type 'visual)

;; Change flycheck temporary file prefix to ~.flycheck~ instead of ~flycheck~.
(setq flycheck-temp-prefix ".flycheck")

(use-package! unix-ts)

(add-to-list 'auto-mode-alist '("syslog\\'" . syslog-mode) t)

(add-hook 'conf-toml-mode-hook 'visual-line-mode)

(after! rustic
  (setq
   rustic-format-on-save t
   rustic-cargo-build-arguments "--all-features"
   rustic-rustfmt-args "--edition 2024"
   lsp-rust-analyzer-display-parameter-hints t
   lsp-rust-all-features t
   lsp-ui-sideline-show-hover nil
   )
  (map!
   (:map rustic-mode-map
         (:localleader
          (:prefix ("t" . "cargo test")
           :desc "related test"     "r" #'lsp-rust-analyzer-related-tests
          :desc "current test"      "t" #'lsp-rust-analyzer-run)
         )
   )
  )
)