#+AUTHOR: Tom Berg
#+OPTIONS: num:nil

* Lexical Binding
#+BEGIN_SRC emacs-lisp 
  ;;; ...  -*- lexical-binding: t -*-
#+END_SRC

* Package
#+BEGIN_SRC emacs-lisp 
    ;; Initialize package sources
    (require 'package)

    (setq package-archives '(("melpa" . "https://melpa.org/packages/")
                             ("org" . "https://orgmode.org/elpa/")
                             ("elpa" . "https://elpa.gnu.org/packages/")))

    (unless package-archive-contents
      (package-refresh-contents))

  ;; Bootstrap use-package
  (unless (package-installed-p 'use-package)
    (package-refresh-contents)
    (package-install 'use-package))
  (require 'use-package)
  (setq use-package-always-ensure t)
#+END_SRC

* UI
** Clean up
#+BEGIN_SRC emacs-lisp
  (setq inhibit-startup-message t)

  (scroll-bar-mode -1)        ; Disable visible scrollbar
  (tool-bar-mode -1)          ; Disable the toolbar
  (tooltip-mode -1)           ; Disable tooltips
  (set-fringe-mode 10)        ; Give some breathing room

  (menu-bar-mode -1)            ; Disable the menu bar

  ;; Better defaults
  (setq ring-bell-function 'ignore)  ; No bell sound
  (setq use-dialog-box nil)
  (setq truncate-lines nil)
  (setq truncate-partial-width-windows nil)
#+END_SRC

** Fonts
#+BEGIN_SRC emacs-lisp
  ;; Set fonts with better distinction for dysgraphia
  (set-face-attribute 'default nil :font "MesloLGS NF" :height 140)

  ;; Variable pitch font for Org prose
  (set-face-attribute 'variable-pitch nil
                      :font "Inter"  ; or "Georgia", "Source Sans Pro"
                      :height 150)

  ;; Fixed pitch font
  (set-face-attribute 'fixed-pitch nil
                      :font "MesloLGS NF"
                      :height 140)

#+END_SRC

** Theme
#+BEGIN_SRC emacs-lisp
   (use-package doom-themes
    :ensure t
    :defer t
    :config
    ;; Fix circular face inheritance for Gnus faces
    ;; This prevents "Face inheritance results in inheritance cycle" errors
    ;; when creating new frames with emacsclient -c on pgtk builds
    ;; See: https://github.com/doomemacs/themes/issues/875
    (setcdr (assoc 'gnus-group-news-low-empty doom-themes-base-faces)
            '(:inherit 'gnus-group-mail-1-empty :weight 'normal)))

   ;; Load theme immediately (this triggers doom-themes to load with the fix applied)
   (load-theme 'doom-tokyo-night t)

   ;; Enable doom-themes integrations
   (doom-themes-visual-bell-config)
   (doom-themes-org-config)

  ;; All-the-icons for visual indicators
  ;;(use-package all-the-icons
  ;;  :if (display-graphic-p))
  (use-package nerd-icons
    :ensure t)
  #+END_SRC
** Modeline
#+BEGIN_SRC emacs-lisp
    (use-package doom-modeline
      :init (doom-modeline-mode 1)
      :config
      (setq doom-modeline-height 35)
      (setq doom-modeline-bar-width 6)
      (setq doom-modeline-lsp t)
      (setq doom-modeline-github nil)
      (setq doom-modeline-mu4e nil)
      (setq doom-modeline-irc nil)
      (setq doom-modeline-buffer-file-name-style 'truncate-except-project)
      (setq doom-modeline-major-mode-icon t))
#+END_SRC

** Dashboard
#+BEGIN_SRC emacs-lisp
  (use-package dashboard
    :config
    (dashboard-setup-startup-hook)
    (setq dashboard-banner-logo-title "Command Center")
    (setq dashboard-startup-banner 'logo)
    (setq dashboard-center-content t)
    (setq dashboard-items '((recents  . 5)
                            (agenda . 5)
                            (bookmarks . 5)))
    (setq dashboard-set-heading-icons t)
    (setq dashboard-set-file-icons t)
    (setq dashboard-week-agenda t)
    (setq initial-buffer-choice (lambda () (get-buffer "*dashboard*"))))
#+END_SRC

** Help
#+BEGIN_SRC emacs-lisp
  (use-package which-key
    :init (which-key-mode)
    :diminish which-key-mode
    :config
    (setq which-key-idle-delay 0.5))  ; Quick popup fmory
    
  (use-package helpful
    :ensure t
    :bind
    (("C-h f" . helpful-callable)
     ("C-h v" . helpful-variable)
     ("C-h k" . helpful-key)
     ("C-h x" . helpful-command)
     ("C-h ." . helpful-at-point)))
#+END_SRC

** Visual Enhancements
#+BEGIN_SRC emacs-lisp
  ;; Highlight current line - Helps with focus
  (global-hl-line-mode 1)
  
  ;; Smooth scrolling
  (setq scroll-conservatively 101)
  (setq scroll-margin 5)
  (setq mouse-wheel-scroll-amount '(1))
  (setq mouse-wheel-progressive-speed nil)
  
  ;; Remember cursor position
  (save-place-mode 1)
  
  ;; Matching parentheses
  (show-paren-mode 1)
  (setq show-paren-delay 0)
  
  ;; Electric pair mode - Auto close brackets
  (electric-pair-mode 1)
#+END_SRC

** Auto-save and Backup
#+BEGIN_SRC emacs-lisp
  ;; aggressive auto-save
  (setq backup-directory-alist '(("." . "~/.emacs.d/backups")))
  (setq auto-save-file-name-transforms '((".*" "~/.emacs.d/auto-saves/" t)))
  (setq auto-save-default t)
  (setq auto-save-timeout 20)
  (setq auto-save-interval 200)
  
  ;; Recent files
  (recentf-mode 1)
  (setq recentf-max-menu-items 25)
  (setq recentf-max-saved-items 25)
#+END_SRC

* Evil Mode
#+BEGIN_SRC emacs-lisp 
    (use-package evil
      :ensure t
      :init
      (setq evil-want-integration t)
      (setq evil-want-keybinding nil)
      (setq evil-want-C-u-scroll t)
      (setq evil-want-C-i-jump nil)
      :config
      (evil-mode 1)
      
    (define-key evil-normal-state-map (kbd "n") 'evil-backward-char)
    (define-key evil-normal-state-map (kbd "e") 'evil-next-line)
    (define-key evil-normal-state-map (kbd "i") 'evil-previous-line)
    (define-key evil-normal-state-map (kbd "o") 'evil-forward-char)
    
    (define-key evil-visual-state-map (kbd "n") 'evil-backward-char)
    (define-key evil-visual-state-map (kbd "e") 'evil-next-line)
    (define-key evil-visual-state-map (kbd "i") 'evil-previous-line)
    (define-key evil-visual-state-map (kbd "o") 'evil-forward-char)
    
    (define-key evil-visual-state-map (kbd "h") 'evil-ex-search-next)
    (define-key evil-visual-state-map (kbd "H") 'evil-ex-search-previous)
    (define-key evil-visual-state-map (kbd "l") 'evil-forward-word-end)
    
    (define-key evil-motion-state-map (kbd "n") 'evil-backward-char)
    (define-key evil-motion-state-map (kbd "e") 'evil-next-line)
    (define-key evil-motion-state-map (kbd "i") 'evil-previous-line)
    (define-key evil-motion-state-map (kbd "o") 'evil-forward-char)
    
    (define-key evil-motion-state-map (kbd "h") 'evil-ex-search-next)
    (define-key evil-motion-state-map (kbd "H") 'evil-ex-search-previous)
    (define-key evil-motion-state-map (kbd "l") 'evil-forward-word-end)
    
    (define-key evil-normal-state-map (kbd "m") 'evil-insert)
    (define-key evil-normal-state-map (kbd "M") 'evil-insert-line)
    (define-key evil-normal-state-map (kbd "j") 'evil-open-below)
    (define-key evil-normal-state-map (kbd "J") 'evil-open-above)
    (define-key evil-normal-state-map (kbd "h") 'evil-ex-search-next)
    (define-key evil-normal-state-map (kbd "H") 'evil-ex-search-previous)
    (define-key evil-normal-state-map (kbd "l") 'evil-forward-word-end)
    ;;(define-key evil-normal-state-map (kbd "") 'evil-end-of-line)
    (define-key evil-normal-state-map (kbd "k") 'evil-set-marker)
    
    (define-key evil-normal-state-map (kbd "C-w n") 'evil-window-left)
    (define-key evil-normal-state-map (kbd "C-w e") 'evil-window-down)
    (define-key evil-normal-state-map (kbd "C-w i") 'evil-window-up)
    (define-key evil-normal-state-map (kbd "C-w o") 'evil-window-right))

    (use-package evil-collection
      :after evil
      :ensure t
      :config
      (evil-collection-init))
      
    ;; Use hook to ensure our bindings always take precedence
    (add-hook 'evil-collection-setup-hook
      (lambda (_mode keymaps)
        (define-key evil-normal-state-map (kbd "n") 'evil-backward-char)
        (define-key evil-normal-state-map (kbd "e") 'evil-next-line)
        (define-key evil-normal-state-map (kbd "i") 'evil-previous-line)
        (define-key evil-normal-state-map (kbd "o") 'evil-forward-char)
        (define-key evil-normal-state-map (kbd "h") 'evil-ex-search-next)
        (define-key evil-normal-state-map (kbd "H") 'evil-ex-search-previous)
        (define-key evil-normal-state-map (kbd "l") 'evil-forward-word-end)
        
        (define-key evil-visual-state-map (kbd "n") 'evil-backward-char)
        (define-key evil-visual-state-map (kbd "e") 'evil-next-line)
        (define-key evil-visual-state-map (kbd "i") 'evil-previous-line)
        (define-key evil-visual-state-map (kbd "o") 'evil-forward-char)
        (define-key evil-visual-state-map (kbd "h") 'evil-ex-search-next)
        (define-key evil-visual-state-map (kbd "H") 'evil-ex-search-previous)
        (define-key evil-visual-state-map (kbd "l") 'evil-forward-word-end)
        
        (define-key evil-motion-state-map (kbd "n") 'evil-backward-char)
        (define-key evil-motion-state-map (kbd "e") 'evil-next-line)
        (define-key evil-motion-state-map (kbd "i") 'evil-previous-line)
        (define-key evil-motion-state-map (kbd "o") 'evil-forward-char)
        (define-key evil-motion-state-map (kbd "h") 'evil-ex-search-next)
        (define-key evil-motion-state-map (kbd "H") 'evil-ex-search-previous)
        (define-key evil-motion-state-map (kbd "l") 'evil-forward-word-end)))
      
    (use-package evil-org
      :after (evil org)
      :hook (org-mode . evil-org-mode)
      :config
      (evil-org-set-key-theme '(navigation insert textobjects additional calendar))
      
      ;; Use hook to ensure our org bindings work
      (add-hook 'org-mode-hook
        (lambda ()
          (evil-define-key 'normal evil-org-mode-map
            (kbd "n") 'evil-backward-char
            (kbd "e") 'evil-next-line  
            (kbd "i") 'evil-previous-line
            (kbd "o") 'evil-forward-char
            (kbd "h") 'evil-ex-search-next
            (kbd "H") 'evil-ex-search-previous
            (kbd "l") 'evil-forward-word-end
            (kbd "m") 'evil-insert
            (kbd "M") 'evil-insert-line
            (kbd "j") 'evil-open-below
            (kbd "J") 'evil-open-above)
          
          (evil-define-key 'visual evil-org-mode-map
            (kbd "n") 'evil-backward-char
            (kbd "e") 'evil-next-line
            (kbd "i") 'evil-previous-line
            (kbd "o") 'evil-forward-char
            (kbd "h") 'evil-ex-search-next
            (kbd "H") 'evil-ex-search-previous
            (kbd "l") 'evil-forward-word-end))))
#+END_SRC

* Programming 
** UI
#+BEGIN_SRC emacs-lisp
  (column-number-mode)
  (add-hook 'prog-mode-hook 'display-line-numbers-mode)
  (use-package rainbow-delimiters
    :hook (prog-mode . rainbow-delimiters-mode))
#+END_SRC

** Magit
#+BEGIN_SRC emacs-lisp 
  (use-package magit
    :commands (magit-status magit-get-current-branch)
    :custom
    (magit-display-buffer-function #'magit-display-buffer-same-window-except-diff-v1))
#+END_SRC

** Git Visual Indicators
#+BEGIN_SRC emacs-lisp
  ;; Show git changes in the editor fringe
  (use-package diff-hl
    :ensure t
    :hook ((prog-mode . diff-hl-mode)
           (org-mode . diff-hl-mode)
           (dired-mode . diff-hl-dired-mode))
    :config
    ;; Highlight changes on the fly
    (diff-hl-flydiff-mode)
    ;; Update diff-hl after magit operations
    (add-hook 'magit-pre-refresh-hook 'diff-hl-magit-pre-refresh)
    (add-hook 'magit-post-refresh-hook 'diff-hl-magit-post-refresh)
    ;; Better colors for visibility
    (custom-set-faces
     '(diff-hl-change ((t (:background "#3c3836" :foreground "#fabd2f"))))
     '(diff-hl-insert ((t (:background "#3c3836" :foreground "#b8bb26"))))
     '(diff-hl-delete ((t (:background "#3c3836" :foreground "#fb4934"))))))
#+END_SRC

** Format
#+BEGIN_SRC emacs-lisp
  (use-package format-all
    :commands format-all-mode
    :hook (prog-mode . format-all-mode)
    :config
    (setq-default format-all-formatters
                  '(("C"     (astyle "--mode=c"))
                    ("Shell" (shfmt "-i" "4" "-ci")))))
#+END_SRC

** treesit
#+BEGIN_SRC emacs-lisp 
  (use-package treesit-auto
    :custom
    (treesit-auto-install 'prompt)
    :config
    (treesit-auto-add-to-auto-mode-alist 'all)
    (delete 'rust treesit-auto-langs)
    (global-treesit-auto-mode))
#+END_SRC

** direnv 
#+BEGIN_SRC emacs-lisp 
  (use-package direnv
    :config
    (direnv-mode))
#+END_SRC

** Rust 
#+BEGIN_SRC emacs-lisp 
  (use-package rust-mode
    :init
    (setq rust-mode-treesitter-derive t)
    :config
    (add-hook 'rust-mode-hook 'eglot-ensure)
    (add-to-list 'auto-mode-alist '("\\.rs\\'" . rust-mode)))
#+END_SRC

** Haskell
#+BEGIN_SRC emacs-lisp 
  (use-package haskell-mode
    :config
    (add-to-list 'auto-mode-alist '("\\.hs\\'" . haskell-mode))
    (add-hook 'haskell-mode-hook 'eglot-ensure))
#+END_SRC

** Nix
#+BEGIN_SRC emacs-lisp 
  (add-to-list 'auto-mode-alist '("\\.nix\\'" . nix-ts-mode))
#+END_SRC

* Claude Code IDE Integration
** Terminal Backend
#+BEGIN_SRC emacs-lisp
  ;; Choose your preferred terminal backend (eat is lighter and faster)
  (use-package eat
    :ensure t
    :vc (:url "https://codeberg.org/akib/emacs-eat" :rev :newest)
    :config
    ;; Enhanced eat terminal integration with evil mode
    (with-eval-after-load 'evil
      (define-key eat-mode-map (kbd "C-y") 'eat-yank)
      (add-hook 'eat-mode-hook
                (lambda ()
                  (when (bound-and-true-p evil-mode)
                    (define-key evil-normal-state-local-map (kbd "p") 'eat-yank)
                    (define-key evil-normal-state-local-map (kbd "P") 'eat-yank))))))
  ;; Alternative: vterm (more features but heavier)
  ;; (use-package vterm
  ;;   :ensure t)
#+END_SRC

** Claude Code IDE
#+BEGIN_SRC emacs-lisp
  ;; Modern Claude Code integration with Model Context Protocol (MCP)
  (use-package claude-code-ide
    :ensure t
    :vc (:url "https://github.com/manzaltu/claude-code-ide.el" :rev :newest)
    :bind ("C-c a" . claude-code-ide-menu)
    :config
    ;; Enable Emacs MCP tools for Claude to access LSP, tree-sitter, etc.
    (claude-code-ide-emacs-tools-setup)
    
    ;; Window placement - opens on the right side
    (setq claude-code-ide-window-side 'right
          claude-code-ide-window-width 100
          claude-code-ide-focus-on-open t)
    
    ;; Terminal backend configuration
    (setq claude-code-ide-terminal-backend 'eat)
    
    ;; Enable better diff viewing with ediff
    (setq claude-code-ide-use-ide-diff t
          claude-code-ide-focus-claude-after-ediff nil
          claude-code-ide-show-claude-window-in-ediff t)
    
    ;; Better diff colors and settings
    (with-eval-after-load 'ediff
      ;; Split windows horizontally for better diff viewing
      (setq ediff-split-window-function 'split-window-horizontally)
      (setq ediff-window-setup-function 'ediff-setup-windows-plain)
      
      ;; Better diff highlighting
      (custom-set-faces
       '(ediff-current-diff-A ((t (:background "#2d1b1b" :foreground "#fb4934"))))
       '(ediff-current-diff-B ((t (:background "#1b2d1b" :foreground "#b8bb26"))))
       '(ediff-fine-diff-A ((t (:background "#4d2d2d" :foreground "#ff6b6b"))))
       '(ediff-fine-diff-B ((t (:background "#2d4d2d" :foreground "#4ecdc4"))))
       '(ediff-even-diff-A ((t (:background "#1c1c1c"))))
       '(ediff-even-diff-B ((t (:background "#1c1c1c"))))
       '(ediff-odd-diff-A ((t (:background "#262626"))))
       '(ediff-odd-diff-B ((t (:background "#262626"))))))
    
    ;; Auto-focus settings
    (setq claude-code-ide-focus-on-open t))
#+END_SRC

** Alternative Diff Viewer
#+BEGIN_SRC emacs-lisp
  ;; Alternative: vdiff for even better diff viewing
  (use-package vdiff
    :ensure t
    :commands (vdiff-buffers vdiff-files)
    :config
    ;; Better diff colors for Tokyo Night theme
    (custom-set-faces
     '(vdiff-addition-face ((t (:background "#1b2d1b" :foreground "#b8bb26"))))
     '(vdiff-change-face ((t (:background "#2d1b1b" :foreground "#fabd2f"))))
     '(vdiff-closed-fold-face ((t (:background "#3c3836"))))
     '(vdiff-open-fold-face ((t (:background "#504945"))))
     '(vdiff-subtraction-face ((t (:background "#2d1b1b" :foreground "#fb4934")))))
    
    ;; Keybindings for vdiff
    (define-key vdiff-mode-map (kbd "C-c v n") 'vdiff-next-hunk)
    (define-key vdiff-mode-map (kbd "C-c v p") 'vdiff-previous-hunk)
    (define-key vdiff-mode-map (kbd "C-c v q") 'vdiff-quit))
#+END_SRC

** MCP Server Setup
#+BEGIN_SRC emacs-lisp
  ;; Helper function to set up MCP server for Claude Code
  (defun setup-claude-code-mcp ()
    "Set up MCP server for Claude Code IDE integration."
    (interactive)
    (let ((setup-commands
           '("npm install -g claude-code-mcp-server"
             "claude mcp add-json emacs '{\"type\": \"stdio\", \"command\": \"claude-code-mcp\"}'")))
      (message "Run these commands in your terminal to set up MCP:")
      (dolist (cmd setup-commands)
        (message "  %s" cmd))
      (with-temp-buffer
        (insert "# Claude Code MCP Setup Commands\n\n")
        (dolist (cmd setup-commands)
          (insert (format "%s\n" cmd)))
        (insert "\n# After running these commands, restart Emacs and try C-c a")
        (switch-to-buffer-other-window (current-buffer))
        (markdown-mode))))
#+END_SRC

** Font Configuration for Claude Code
#+BEGIN_SRC emacs-lisp
  ;; Ensure Claude Code's unicode characters display properly
  (defun setup-claude-code-fonts ()
    "Configure font fallbacks for Claude Code's unicode characters."
    (when (display-graphic-p)
      ;; Disable default font for symbols to use our fallbacks
      (setq use-default-font-for-symbols nil)
      
      ;; Add fallback fonts for unicode characters Claude Code uses
      (set-fontset-font t 'symbol "DejaVu Sans" nil 'prepend)
      (set-fontset-font t 'unicode "Noto Color Emoji" nil 'prepend)
      (set-fontset-font t 'unicode "Symbola" nil 'prepend)
      
      ;; Keep your main font as primary
      (set-fontset-font t 'symbol "MesloLGS NF" nil 'prepend)))

  ;; Apply font setup after Emacs starts
  (add-hook 'emacs-startup-hook #'setup-claude-code-fonts)
#+END_SRC

** Project and Directory Setup
#+BEGIN_SRC emacs-lisp
  ;; Automatically create Claude Code directories and config files
  (defun setup-claude-code-directories ()
    "Create necessary Claude Code directories and example files."
    (let ((claude-dirs '("~/.claude"
                         "~/.claude/commands" 
                         "~/.claude/local"))
          (example-prompt "~/.claude-code.prompt.md")
          (example-command "~/.claude/commands/understand-guidelines.md"))
      
      ;; Create directories
      (dolist (dir claude-dirs)
        (unless (file-exists-p dir)
          (make-directory dir t)))
      
      ;; Create example project prompt
      (unless (file-exists-p example-prompt)
        (with-temp-buffer
          (insert "# Project Context\n\n")
          (insert "This is an Emacs configuration focused on productivity and brain-friendly workflows.\n\n")
          (insert "## Key Features\n")
          (insert "- Evil mode for Vim-like editing\n")
          (insert "- Org-roam for knowledge management\n") 
          (insert "- Doom themes and modeline\n")
          (insert "- Focus modes for editing\n\n")
          (insert "Please maintain consistency with existing patterns and conventions.\n")
          (write-file example-prompt)))
      
      ;; Create example command
      (unless (file-exists-p example-command)
        (with-temp-buffer
          (insert "# Understand Guidelines\n\n")
          (insert "Please review the project context and understand the coding style.\n")
          (insert "Focus on:\n")
          (insert "- Emacs Lisp best practices\n")
          (insert "- use-package configuration patterns\n") 
          (insert "- Evil mode compatibility\n")
          (insert "- User experience for friendly workflows\n")
          (write-file example-command)))))

  ;; Set up directories when claude-code-ide loads
  (with-eval-after-load 'claude-code-ide
    (setup-claude-code-directories))
#+END_SRC

** Evil Mode Integration
#+BEGIN_SRC emacs-lisp
  ;; Evil keybindings for Claude Code IDE
  (with-eval-after-load 'claude-code-ide
    ;; Add Evil-friendly keybindings using leader key
    (with-eval-after-load 'evil
      (define-key evil-normal-state-map (kbd "SPC a c") 'claude-code-ide)
      (define-key evil-normal-state-map (kbd "SPC a m") 'claude-code-ide-menu)
      (define-key evil-normal-state-map (kbd "SPC a r") 'claude-code-ide-resume))
    
    ;; Configure Claude Code buffers for Evil
    (add-hook 'claude-code-ide-mode-hook
              (lambda ()
                (when (bound-and-true-p evil-mode)
                  (define-key evil-normal-state-local-map (kbd "q") 'quit-window)
                  (define-key evil-normal-state-local-map (kbd "r") 'revert-buffer)))))
#+END_SRC

** Custom Tools for Claude Code
#+BEGIN_SRC emacs-lisp
  ;; Example of exposing custom Emacs functions to Claude via MCP
  (with-eval-after-load 'claude-code-ide
    ;; Example: Expose org-roam functions to Claude
    (with-eval-after-load 'org-roam
      (claude-code-ide-make-tool
       :function #'org-roam-node-find
       :name "find_roam_node"
       :description "Find and open an org-roam node"
       :args '((:name "query"
                :type string
                :description "Search query for the node"
                :optional t)))
      
      (claude-code-ide-make-tool
       :function #'org-roam-capture
       :name "create_roam_note"
       :description "Create a new org-roam note"
       :args '((:name "title"
                :type string
                :description "Title for the new note"
                :optional t)))))
#+END_SRC
* Org
** Agenda Configuration
#+BEGIN_SRC emacs-lisp
  ;; Simple agenda setup for habits
  (setq org-agenda-custom-commands
        '(("h" "Habits" agenda ""
           ((org-agenda-show-log t)
            (org-agenda-ndays 7)
            (org-agenda-log-mode-items '(closed clock state))
            (org-agenda-skip-function '(org-agenda-skip-entry-if 'notregexp ":habit:"))))
          ("d" "Daily agenda and habits"
           ((agenda "" ((org-agenda-ndays 1)
                       (org-agenda-overriding-header "Today's Schedule")))
            (tags-todo "+habit" ((org-agenda-overriding-header "Daily Habits")))))
          ("w" "Weekly Review"
           ((agenda "" ((org-agenda-ndays 7)
                       (org-agenda-overriding-header "This Week")))
            (todo "TODO" ((org-agenda-overriding-header "All TODOs")))))))
  
  ;; Better agenda display
  (setq org-agenda-prefix-format
        '((agenda . " %i %-12:c%?-12t% s")
          (todo . " %i %-12:c")
          (tags . " %i %-12:c")
          (search . " %i %-12:c")))
#+END_SRC

** Setup
#+BEGIN_SRC emacs-lisp 
  (defun dw/org-mode-setup ()
    (org-indent-mode)
    (variable-pitch-mode 1)
    (auto-fill-mode 0)
    (visual-line-mode 1)
    (setq evil-auto-indent nil)
    (setq auto-save-timeout 10))

  (use-package org
    :hook (org-mode . dw/org-mode-setup)
    :config
    (setq org-ellipsis " ▾"
          org-hide-emphasis-markers t
          org-fontify-whole-heading-line t
          org-startup-folded 'content)
    
    ;; Bigger headings for better visual hierarchy
    (custom-set-faces
     '(org-level-1 ((t (:inherit outline-1 :height 1.4))))
     '(org-level-2 ((t (:inherit outline-2 :height 1.3))))
     '(org-level-3 ((t (:inherit outline-3 :height 1.2))))
     '(org-level-4 ((t (:inherit outline-4 :height 1.1))))
     '(org-level-5 ((t (:inherit outline-5 :height 1.0)))))
    
    ;; Keep some things fixed-pitch in Org
    (set-face-attribute 'org-table nil :inherit 'fixed-pitch)
    (set-face-attribute 'org-code nil :inherit 'fixed-pitch)
    (set-face-attribute 'org-block nil :inherit 'fixed-pitch)
    (set-face-attribute 'org-checkbox nil :inherit 'fixed-pitch)
    
    ;; TODO states with emojis
    (setq org-todo-keywords
          '((sequence 
             "📥 INBOX(i)" 
             "📋 TODO(t)" 
             "⚡ NEXT(n)" 
             "🚀 DOING(s!)" 
             "⏸️  WAIT(w@)" 
             "🔄 ROUTINE(r)" 
             "|" 
             "✅ DONE(d!)" 
             "❌ CANCEL(c@)")))
    
    ;; Colors for visual processing
    (setq org-todo-keyword-faces
          '(("📥 INBOX" . (:foreground "gray" :weight bold))
            ("📋 TODO" . (:foreground "lightblue" :weight bold))
            ("⚡ NEXT" . (:foreground "orange" :weight bold))
            ("🚀 DOING" . (:foreground "red" :weight bold :underline t))
            ("⏸️  WAIT" . (:foreground "magenta" :weight bold))
            ("🔄 ROUTINE" . (:foreground "cyan" :weight bold))
            ("✅ DONE" . (:foreground "green" :weight bold))
            ("❌ CANCEL" . (:foreground "gray" :strike-through t)))))
#+END_SRC

** Org Bullets
#+BEGIN_SRC emacs-lisp
  (use-package org-bullets
    :after org
    :hook (org-mode . org-bullets-mode)
    :config
    (setq org-bullets-bullet-list '("◉" "○" "●" "○" "●" "○" "●")))
#+END_SRC

** Org Appear
#+BEGIN_SRC emacs-lisp
  (use-package org-appear
    :after org
    :hook (org-mode . org-appear-mode)
    :config
    (setq org-appear-autoemphasis t)
    (setq org-appear-autolinks t)
    (setq org-appear-autosubmarkers t))
#+END_SRC

** Org Roam
#+BEGIN_SRC emacs-lisp
  (use-package org-roam
    :ensure t
    :init
    (setq org-roam-v2-ack t)
    :custom
    (org-roam-directory "~/roam/")
    (org-roam-completion-everywhere t)
    
    ;; Simple capture templates
    (org-roam-capture-templates
     '(("d" "default" plain "%?"
        :target (file+head "%<%Y%m%d%H%M%S>-${slug}.org"
                          "#+title: ${title}\n")
        :unnarrowed t)
       
       ("n" "note" plain "%?"
        :target (file+head "%<%Y%m%d%H%M%S>-${slug}.org"
                          "#+title: ${title}\n#+date: %U\n\n")
        :unnarrowed t)))
    
    ;; Simple daily notes
    (org-roam-dailies-capture-templates
     '(("d" "default" entry
        "* %<%H:%M> %?"
        :target (file+head "%<%Y-%m-%d>.org"
                          "#+title: %<%Y-%m-%d>\n\n"))))
    
    :bind (("C-c n n" . org-roam-buffer-toggle)
           ("C-c n f" . org-roam-node-find)
           ("C-c n g" . org-roam-graph)
           ("C-c n i" . org-roam-node-insert)
           ("C-c n c" . org-roam-capture)
           ("C-c n j" . org-roam-dailies-capture-today)
           ("C-c n t" . org-roam-dailies-goto-today)
           ("C-c n y" . org-roam-dailies-capture-yesterday)
           ("C-c n d" . org-roam-dailies-goto-date))
    
    :config
    (org-roam-db-autosync-mode)
    
    ;; show context in completions
    (setq org-roam-node-display-template "${title:*} ${tags:20}")
    
    ;; Zettelkasten node type indicators
    (cl-defmethod org-roam-node-type ((node org-roam-node))
      "Return the type of node based on its tags."
      (cond
       ((member "literature" (org-roam-node-tags node)) "📚")
       ((member "fleeting" (org-roam-node-tags node)) "🦋")
       ((member "connection" (org-roam-node-tags node)) "🔗")
       ((member "question" (org-roam-node-tags node)) "❓")
       ((member "dump" (org-roam-node-tags node)) "🧠")
       ((member "journal" (org-roam-node-tags node)) "📝")
       ((member "daily" (org-roam-node-tags node)) "📅")
       ((member "habits" (org-roam-node-tags node)) "🔄")
       (t "💡")))
    
    ;; add type to display
    (setq org-roam-node-display-template "${type} ${title:*} ${tags:20}"))
#+end_src

** org roam ui
#+begin_src emacs-lisp
  (use-package websocket
    :after org-roam)
  
  (use-package org-roam-ui
    :after org-roam
    :config
    (setq org-roam-ui-sync-theme t
          org-roam-ui-follow t
          org-roam-ui-update-on-save t
          org-roam-ui-open-on-start nil))
#+end_src

** focus modes
#+begin_src emacs-lisp
  ;; olivetti - centers text for better focus
  (use-package olivetti
    :hook (org-mode . olivetti-mode)
    :config
    (setq olivetti-body-width 100)
    (setq olivetti-minimum-body-width 80))
  
  ;; focus mode - dims other sections
  (use-package focus
    :commands focus-mode
    :config
    (setq focus-dimness 0.3))
  
  ;; writeroom mode - distraction free writing
  (use-package writeroom-mode
    :commands writeroom-mode
    :config
    (setq writeroom-width 100))
#+end_src

** Simple Habit Tracking
#+begin_src emacs-lisp
  ;; Simple habit tracking with org-agenda + org-habit
  (with-eval-after-load 'org
    (require 'org-habit)
    (add-to-list 'org-modules 'org-habit)
    
    ;; Habit display settings - cleaner view
    (setq org-habit-graph-column 50)
    (setq org-habit-preceding-days 14)
    (setq org-habit-following-days 3)
    (setq org-habit-show-habits-only-for-today t)
    
    ;; Agenda configuration for habits
    (setq org-agenda-files '("~/roam/habits.org"))
    (setq org-agenda-include-diary nil)
    (setq org-habit-show-all-today t)
    
    ;; Create habits.org if it doesn't exist
    (let ((habits-file "~/roam/habits.org"))
      (unless (file-exists-p habits-file)
        (with-temp-buffer
          (insert "#+title: Habits\n#+filetags: :habits:\n\n")
          (insert "* Daily Habits\n\n")
          (insert "** TODO Exercise :habit:daily:\n")
          (insert "SCHEDULED: <" (format-time-string "%Y-%m-%d %a") " .+1d>\n")
          (insert ":PROPERTIES:\n:STYLE: habit\n:END:\n\n")
          (insert "** TODO Read 20min :habit:daily:\n")
          (insert "SCHEDULED: <" (format-time-string "%Y-%m-%d %a") " .+1d>\n")
          (insert ":PROPERTIES:\n:STYLE: habit\n:END:\n\n")
          (insert "** TODO Reflect/Journal :habit:daily:\n")
          (insert "SCHEDULED: <" (format-time-string "%Y-%m-%d %a") " .+1d>\n")
          (insert ":PROPERTIES:\n:STYLE: habit\n:END:\n\n")
          (insert "* Weekly Habits\n\n")
          (insert "** TODO Weekly review :habit:weekly:\n")
          (insert "SCHEDULED: <" (format-time-string "%Y-%m-%d %a") " .+1w>\n")
          (insert ":PROPERTIES:\n:STYLE: habit\n:END:\n\n")
          (write-file habits-file)))))
#+end_src

** org clock
#+begin_src emacs-lisp
  ;; time tracking configuration
  (with-eval-after-load 'org
    (setq org-clock-persist 'history)
    (org-clock-persistence-insinuate)
    
    ;; clock settings
    (setq org-clock-in-resume t)
    (setq org-clock-into-drawer t)
    (setq org-clock-out-remove-zero-time-clocks t)
    (setq org-clock-report-include-clocking-task t)
    
    ;; save clock history across sessions
    (setq org-clock-persist-file "~/.emacs.d/org-clock-save.el")
    ;; Suppress lexical-binding warnings for auto-generated files
    (setq warning-suppress-types '((files)))
    
    ;; keybindings for clocking
    (global-set-key (kbd "C-c C-x C-i") 'org-clock-in)
    (global-set-key (kbd "C-c C-x C-o") 'org-clock-out)
    (global-set-key (kbd "C-c C-x C-x") 'org-clock-in-last)
    (global-set-key (kbd "C-c C-x C-r") 'org-clock-report))
#+end_src

** org pomodoro
#+begin_src emacs-lisp
  (use-package org-pomodoro
    :commands org-pomodoro
    :config
    (setq org-pomodoro-length 25)
    (setq org-pomodoro-short-break-length 5)
    (setq org-pomodoro-long-break-length 15)
    (setq org-pomodoro-play-sounds t))
#+end_src

* command center
#+begin_src emacs-lisp
  (use-package hydra)

  ;; Simple command center
  (defhydra hydra-capture-menu (:color blue :hint nil)
    "
    command center
    -----------------------------------------------
    capture:  _d_: default note  _n_: note with date
    navigate: _f_: find note     _t_: today note   _g_: roam graph
    focus:    _F_: focus mode    _w_: writeroom    _o_: olivetti
    tools:    _a_: agenda        _P_: pomodoro     _C_: claude code
    _x_: exit
    "
      ;; Capture templates
      ("d" (lambda () (interactive) (require 'org-roam) (org-roam-capture nil "d")))  ; default note
      ("n" (lambda () (interactive) (require 'org-roam) (org-roam-capture nil "n")))  ; note with date
      
      ;; Navigation
      ("f" (lambda () (interactive) (require 'org-roam) (org-roam-node-find)))
      ("t" (lambda () (interactive) (require 'org-roam) (org-roam-dailies-goto-today)))
      ("g" (lambda () (interactive) (require 'org-roam) (org-roam-ui-open)))
      
      ;; Focus modes
      ("F" focus-mode)
      ("w" writeroom-mode)
      ("o" olivetti-mode)
      
      ;; Tools
      ("a" org-agenda)
      ("P" org-pomodoro)
      ("C" claude-code-ide-menu)
      
      ("x" nil))

  (global-set-key (kbd "C-c h") 'hydra-capture-menu/body)
#+end_src

* Completion Stack 
** Marginalia
#+BEGIN_SRC emacs-lisp 
  ;; Enable rich annotations using the Marginalia package
  (use-package marginalia
    ;; Bind `marginalia-cycle' locally in the minibuffer.  To make the binding
    ;; available in the *Completions* buffer, add it to the
    ;; `completion-list-mode-map'.
    :bind (:map minibuffer-local-map
                ("M-A" . marginalia-cycle))

    ;; The :init section is always executed.
    :init

    ;; Marginalia must be activated in the :init section of use-package such that
    ;; the mode gets enabled right away. Note that this forces loading the
    ;; package.
    (marginalia-mode))
#+END_SRC

** Orderless
#+BEGIN_SRC emacs-lisp 
  (use-package orderless
    :ensure t
    :custom
    (completion-styles '(orderless basic))
    (completion-category-defaults nil)
    (completion-category-overrides '((file (styles basic partial-completion)))))
#+END_SRC

** Vertico
#+BEGIN_SRC emacs-lisp 
  ;; Enable Vertico.
  (use-package vertico
    :custom
    (vertico-cycle t) ;; Enable cycling
    :init
    (vertico-mode))

  ;; Persist history over Emacs restarts. Vertico sorts by history position.
  (use-package savehist
    :init
    (savehist-mode))

  ;; Emacs minibuffer configurations.
  (use-package emacs
    :custom
    ;; Support opening new minibuffers from inside existing minibuffers.
    (enable-recursive-minibuffers t)
    ;; Hide commands in M-x which do not work in the current mode.  Vertico
    ;; commands are hidden in normal buffers. This setting is useful beyond
    ;; Vertico.
    (read-extended-command-predicate #'command-completion-default-include-p)
    ;; Do not allow the cursor in the minibuffer prompt
    (minibuffer-prompt-properties
     '(read-only t cursor-intangible t face minibuffer-prompt)))
#+END_SRC

** Embark
#+BEGIN_SRC emacs-lisp 
  (use-package embark
    :ensure t

    :bind
    (("C-." . embark-act)         ;; pick some comfortable binding
     ("C-;" . embark-dwim)        ;; good alternative: M-.
     ("C-h B" . embark-bindings)) ;; alternative for `describe-bindings'

    :init

    ;; Optionally replace the key help with a completing-read interface
    (setq prefix-help-command #'embark-prefix-help-command)

    :config

    ;; Hide the mode line of the Embark live/completions buffers
    (add-to-list 'display-buffer-alist
                 '("\\`\\*Embark Collect \\(Live\\|Completions\\)\\*"
                   nil
                   (window-parameters (mode-line-format . none)))))

  ;; Consult users will also want the embark-consult package.
  (use-package embark-consult
    :ensure t ; only need to install it, embark loads it after consult if found
    :hook
    (embark-collect-mode . consult-preview-at-point-mode))
#+END_SRC

** Consult
#+BEGIN_SRC emacs-lisp 
  ;; configuration for Consult
  (use-package consult
    ;; Replace bindings. Lazily loaded by `use-package'.
    :bind (;; C-c bindings in `mode-specific-map'
           ("C-c M-x" . consult-mode-command)
           ("C-c k" . consult-kmacro)
           ("C-c m" . consult-man)
           ("C-c i" . consult-info)
           ([remap Info-search] . consult-info)
           ;; C-x bindings in `ctl-x-map'
           ("C-x M-:" . consult-complex-command)     ;; orig. repeat-complex-command
           ("C-x b" . consult-buffer)                ;; orig. switch-to-buffer
           ("C-x 4 b" . consult-buffer-other-window) ;; orig. switch-to-buffer-other-window
           ("C-x 5 b" . consult-buffer-other-frame)  ;; orig. switch-to-buffer-other-frame
           ("C-x t b" . consult-buffer-other-tab)    ;; orig. switch-to-buffer-other-tab
           ("C-x r b" . consult-bookmark)            ;; orig. bookmark-jump
           ("C-x p b" . consult-project-buffer)      ;; orig. project-switch-to-buffer
           ;; Custom M-# bindings for fast register access
           ("M-#" . consult-register-load)
           ("M-'" . consult-register-store)          ;; orig. abbrev-prefix-mark (unrelated)
           ("C-M-#" . consult-register)
           ;; Other custom bindings
           ("M-y" . consult-yank-pop)                ;; orig. yank-pop
           ;; M-g bindings in `goto-map'
           ("M-g e" . consult-compile-error)
           ("M-g f" . consult-flymake)               ;; Alternative: consult-flycheck
           ("M-g g" . consult-goto-line)             ;; orig. goto-line
           ("M-g M-g" . consult-goto-line)           ;; orig. goto-line
           ("M-g o" . consult-outline)               ;; Alternative: consult-org-heading
           ("M-g m" . consult-mark)
           ("M-g k" . consult-global-mark)
           ("M-g i" . consult-imenu)
           ("M-g I" . consult-imenu-multi)
           ;; M-s bindings in `search-map'
           ("M-s d" . consult-find)                  ;; Alternative: consult-fd
           ("M-s c" . consult-locate)
           ("M-s g" . consult-grep)
           ("M-s G" . consult-git-grep)
           ("M-s r" . consult-ripgrep)
           ("M-s l" . consult-line)
           ("M-s L" . consult-line-multi)
           ("M-s k" . consult-keep-lines)
           ("M-s u" . consult-focus-lines)
           ;; Isearch integration
           ("M-s e" . consult-isearch-history)
           :map isearch-mode-map
           ("M-e" . consult-isearch-history)         ;; orig. isearch-edit-string
           ("M-s e" . consult-isearch-history)       ;; orig. isearch-edit-string
           ("M-s l" . consult-line)                  ;; needed by consult-line to detect isearch
           ("M-s L" . consult-line-multi)            ;; needed by consult-line to detect isearch
           ;; Minibuffer history
           :map minibuffer-local-map
           ("M-s" . consult-history)                 ;; orig. next-matching-history-element
           ("M-r" . consult-history))                ;; orig. previous-matching-history-element

    ;; Enable automatic preview at point in the *Completions* buffer. This is
    ;; relevant when you use the default completion UI.
    :hook (completion-list-mode . consult-preview-at-point-mode)

    ;; The :init configuration is always executed (Not lazy)
    :init

    ;; Tweak the register preview for `consult-register-load',
    ;; `consult-register-store' and the built-in commands.  This improves the
    ;; register formatting, adds thin separator lines, register sorting and hides
    ;; the window mode line.
    (advice-add #'register-preview :override #'consult-register-window)
    (setq register-preview-delay 0.5)

    ;; Use Consult to select xref locations with preview
    (setq xref-show-xrefs-function #'consult-xref
          xref-show-definitions-function #'consult-xref)

    ;; Configure other variables and modes in the :config section,
    ;; after lazily loading the package.
    :config

    ;; Configure preview for different commands
    (consult-customize
     consult-theme :preview-key '(:debounce 0.2 any)
     consult-ripgrep consult-git-grep consult-grep consult-man
     consult-bookmark consult-recent-file consult-xref
     consult--source-bookmark consult--source-file-register
     consult--source-recent-file consult--source-project-recent-file
     ;; :preview-key "M-."
     :preview-key '(:debounce 0.4 any))

    ;; Optionally configure the narrowing key.
    ;; Both < and C-+ work reasonably well.
    (setq consult-narrow-key "<")) ;; "C-+"
#+END_SRC

* Final Touches
#+BEGIN_SRC emacs-lisp
  ;; Frame title
  (setq frame-title-format '("" "%b - Tom's Emacs"))
  
  ;; Create required directories if they don't exist
  (dolist (dir '("~/.emacs.d/backups" 
                 "~/.emacs.d/auto-saves"
                 "~/roam"
                 "~/roam/fleeting"
                 "~/roam/dumps"
                 "~/roam/journal"
                 "~/roam/daily"))
    (unless (file-exists-p dir)
     (make-directory dir t)))

#+END_SRC