+#+PROPERTY: header-args:emacs-lisp :tangle don-configuration.el
+* Load debugger
+
+# if for some reason, things get pear-shaped, we want to be able to
+# enter the debugger by sending -USR2 to emacs
+
+#+BEGIN_SRC emacs-lisp
+(setq debug-on-event 'siguser2)
+#+END_SRC
* Add library paths
-#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
+#+BEGIN_SRC emacs-lisp
(add-to-list 'load-path '"~/lib/emacs_el/")
- (add-to-list 'load-path '"~/lib/emacs_el/helm")
(add-to-list 'load-path '"~/lib/emacs_el/tiny-tools/lisp/tiny")
(add-to-list 'load-path '"~/lib/emacs_el/tiny-tools/lisp/other")
+ (add-to-list 'load-path '"~/lib/emacs_el/magit-annex")
#+END_SRC
-
+* Package management
+** package repositories and package manager
+#+BEGIN_SRC emacs-lisp
+ (require 'package)
+ (setq package-archives '(("gnu" . "https://elpa.gnu.org/packages/")
+ ("melpa" . "https://melpa.org/packages/")
+ ("org" . "http://orgmode.org/elpa/") ))
+#+END_SRC
+** [[https://github.com/jwiegley/use-package/][use-package]]
+#+BEGIN_SRC emacs-lisp
+ (package-initialize)
+ (condition-case nil
+ (require 'use-package)
+ (progn (package-install 'use-package)
+ (require 'use-package)))
+#+END_SRC
+** Paradox
+#+BEGIN_SRC emacs-lisp
+ (use-package paradox
+ :ensure paradox
+ )
+#+END_SRC
+* Disable custom-vars
+#+BEGIN_SRC emacs-lisp
+ ;; Set the custom file to /dev/null and don't bother to load it
+ (setq custom-file "/dev/null")
+#+END_SRC
* Misc functions
** with-library
-#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
+#+BEGIN_SRC emacs-lisp
;; From http://www.emacswiki.org/emacs/LoadingLispFiles
;; execute conditional code when loading libraries
(defmacro with-library (symbol &rest body)
(put 'with-library 'lisp-indent-function 1)
#+END_SRC
+* Variables
+** Safe Local Variables
+#+BEGIN_SRC emacs-lisp
+ (setq safe-local-variable-values
+ (quote ((auto-save-default)
+ (make-backup-files)
+ (cperl-indent-level . 4)
+ (indent-level . 4)
+ (indent-tabs-mode . f)
+ )))
+#+END_SRC
+* Memory
+#+BEGIN_SRC emacs-lisp
+ (setq global-mark-ring-max 128
+ mark-ring-max 128
+ kill-ring-max 128)
+
+ (defun don/minibuffer-setup-hook ()
+ (setq gc-cons-threshold most-positive-fixnum))
+ (defun don/minibuffer-exit-hook ()
+ (setq gc-cons-threshold 1048576))
+ (add-hook 'minibuffer-setup-hook #'don/minibuffer-setup-hook)
+ (add-hook 'minibuffer-exit-hook #'don/minibuffer-exit-hook)
+#+END_SRC
* Modules
+** Flyspell 🐝
+#+BEGIN_SRC emacs-lisp
+ (use-package flyspell
+ :ensure t
+ :diminish flyspell-mode 🐝
+ :config
+ (add-hook 'message-mode-hook 'turn-on-flyspell)
+ (add-hook 'text-mode-hook 'turn-on-flyspell)
+ (add-hook 'c-mode-common-hook 'flyspell-prog-mode)
+ (add-hook 'cperl-mode-hook 'flyspell-prog-mode)
+ (add-hook 'tcl-mode-hook 'flyspell-prog-mode)
+ :init
+ (setq ispell-program-name "ispell")
+ )
+
+#+END_SRC
+** Winnermode
+#+BEGIN_SRC emacs-lisp
+ (winner-mode 1)
+#+END_SRC
+** Eyebrowse
+
+#+BEGIN_SRC emacs-lisp
+ ;; (use-package eyebrowse
+ ;; :ensure t
+ ;; :diminish eyebrowse-mode
+ ;; :init (setq eyebrowse-keymap-prefix (kbd "C-c C-\\"))
+ ;; :config (progn
+ ;; (setq eyebrowse-wrap-around t)
+ ;; (eyebrowse-mode t)
+ ;;
+ ;; (defun my/eyebrowse-new-window-config ()
+ ;; (interactive)
+ ;; (let ((done nil))
+ ;; (dotimes (i 10)
+ ;; ;; start at 1 run till 0
+ ;; (let ((j (mod (+ i 1) 10)))
+ ;; (when (and (not done)
+ ;; (not (eyebrowse--window-config-present-p j)))
+ ;; (eyebrowse-switch-to-window-config j)
+ ;; (call-interactively 'eyebrowse-rename-window-config2 j)
+ ;; (setq done t)
+ ;; ))
+ ;; )))
+ ;;
+ ;; ;; I don't use latex-preview-pane
+ ;; ;; (require 'latex-preview-pane)
+ ;; ;; (defun my/close-latex-preview-pane-before-eyebrowse-switch ()
+ ;; ;; ;; latex-preview-pane uses window-parameters which are
+ ;; ;; ;; not preserved by eyebrowse, so we close the preview
+ ;; ;; ;; pane before switching, it will be regenerated when we
+ ;; ;; ;; edit the TeX file.
+ ;; ;; (when (lpp/window-containing-preview)
+ ;; ;; (delete-window (lpp/window-containing-preview))))
+ ;;
+ ;; ;; (add-to-list 'eyebrowse-pre-window-switch-hook
+ ;; ;; #'my/close-latex-preview-pane-before-eyebrowse-switch)
+ ;;
+ ;; ;; (my/set-menu-key "[" #'my/eyebrowse-new-window-config)
+ ;; ;; (my/set-menu-key ";" #'eyebrowse-prev-window-config)
+ ;; ;; (my/set-menu-key "'" #'eyebrowse-next-window-config)
+ ;; ;; (my/set-menu-key "]" #'eyebrowse-close-window-config)
+ ;; ;; (my/set-menu-key "\\" #'eyebrowse-rename-window-config)
+ ;; )
+ ;; )
+#+END_SRC
+
+** Window handling
+
+*** Splitting
+#+BEGIN_SRC emacs-lisp
+ (defun my/vsplit-last-buffer ()
+ "Split the window vertically and display the previous buffer."
+ (interactive)
+ (split-window-vertically)
+ (other-window 1 nil)
+ (switch-to-next-buffer))
+
+ (defun my/hsplit-last-buffer ()
+ "Split the window horizontally and display the previous buffer."
+ (interactive)
+ (split-window-horizontally)
+ (other-window 1 nil)
+ (switch-to-next-buffer))
+
+ (bind-key "C-x 2" 'my/vsplit-last-buffer)
+ (bind-key "C-x 3" 'my/hsplit-last-buffer)
+
+ (setq split-width-threshold 100)
+ (setq split-height-threshold 60)
+
+ (defun my/split-window-prefer-vertically (window)
+ "If there's only one window (excluding any possibly active
+ minibuffer), then split the current window horizontally."
+ (if (and (one-window-p t)
+ (not (active-minibuffer-window))
+ ( < (frame-width) (frame-height))
+ )
+ (let ((split-width-threshold nil))
+ (split-window-sensibly window))
+ (split-window-sensibly window)))
+
+ (setq split-window-preferred-function #'my/split-window-prefer-vertically)
+ (setq window-combination-resize t)
+#+END_SRC
+
+*** Compilation window
+
+If there is no compilation window, open one at the bottom, spanning
+the complete width of the frame. Otherwise, reuse existing window. In
+the former case, if there was no error the window closes
+automatically.
+
+#+BEGIN_SRC emacs-lisp
+ (add-to-list 'display-buffer-alist
+ `(,(rx bos "*compilation*" eos)
+ (display-buffer-reuse-window
+ display-buffer-in-side-window)
+ (reusable-frames . visible)
+ (side . bottom)
+ (window-height . 0.4)))
+#+END_SRC
+
+#+BEGIN_SRC emacs-lisp
+ (defun my/compilation-exit-autoclose (status code msg)
+ ;; If M-x compile exists with a 0
+ (when (and (eq status 'exit) (zerop code))
+ ;; and delete the *compilation* window
+ (let ((compilation-window (get-buffer-window (get-buffer "*compilation*"))))
+ (when (and (not (window-at-side-p compilation-window 'top))
+ (window-at-side-p compilation-window 'left)
+ (window-at-side-p compilation-window 'right))
+ (delete-window compilation-window))))
+ ;; Always return the anticipated result of compilation-exit-message-function
+ (cons msg code))
+
+ ;; Specify my function (maybe I should have done a lambda function)
+ (setq compilation-exit-message-function #'my/compilation-exit-autoclose)
+#+END_SRC
+
+If you change the variable ~compilation-scroll-output~ to a ~non-nil~
+value, the compilation buffer scrolls automatically to follow the
+output. If the value is ~first-error~, scrolling stops when the first
+error appears, leaving point at that error. For any other non-nil
+value, scrolling continues until there is no more output.
+
+#+BEGIN_SRC emacs-lisp
+ (setq compilation-scroll-output 'first-error)
+#+END_SRC
+
+** Mode line cleaning
+*** Diminish
+#+BEGIN_SRC emacs-lisp
+ (use-package diminish
+ :ensure t)
+#+END_SRC
+
+*** Delight
+#+BEGIN_SRC emacs-lisp
+ (use-package delight
+ :ensure t)
+#+END_SRC
+
+** Jumping
+*** Avy
+#+BEGIN_SRC emacs-lisp
+ (use-package avy
+ :ensure t
+ :bind (("C-c C-<SPC>" . avy-goto-word-or-subword-1)
+ ("C-c j j" . avy-goto-word-or-subword-1)
+ ("M-g g" . avy-goto-line))
+ :config (progn (setq avy-background t))
+ )
+#+END_SRC
+*** Ace-link (jumping to links)
+#+BEGIN_SRC emacs-lisp
+ (use-package ace-link
+ :ensure t
+ ; bind o in most modes
+ :config (ace-link-setup-default))
+#+END_SRC
+*** Jumping through edit points (goto-chg)
+#+BEGIN_SRC emacs-lisp
+ (use-package goto-chg
+ :ensure t
+ :bind (("C-c j ," . goto-last-change)
+ ("C-c j ." . goto-last-change-reverse))
+ )
+#+END_SRC
+*** Jumping to bookmarks (visible bookmarks, bm)
+#+BEGIN_SRC emacs-lisp
+ (use-package bm
+ :ensure t
+ :bind (("C-c j b ." . bm-next)
+ ("C-c j b ," . bm-previous)
+ ("C-c j b SPC" . bm-toggle)))
+#+END_SRC
+
+** Snippets
+*** Yasnippet
+#+BEGIN_SRC emacs-lisp
+ (use-package yasnippet
+ :ensure t
+ :diminish yas-minor-mode
+ :config (progn
+ (yas-global-mode)
+ (setq yas-verbosity 1)
+ (define-key yas-minor-mode-map (kbd "<tab>") nil)
+ (define-key yas-minor-mode-map (kbd "TAB") nil)
+ (define-key yas-minor-mode-map (kbd "<backtab>") 'yas-expand)
+ (setq yas-snippet-dirs '("~/lib/emacs_el/snippets/"
+ "~/lib/emacs_el/yasnippet-snippets/snippets/"))
+ (add-to-list 'hippie-expand-try-functions-list
+ 'yas-hippie-try-expand)
+ )
+ )
+#+END_SRC
+*** Auto-YASnippet
+#+BEGIN_SRC emacs-lisp
+ (use-package auto-yasnippet
+ :bind (("H-w" . aya-create)
+ ("H-y" . aya-expand)
+ )
+ )
+#+END_SRC
** Tinyprocmail
-#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
+#+BEGIN_SRC emacs-lisp
;; load tinyprocmail
- (with-library 'tinyprocmail
- ; (setq tinyprocmail--procmail-version "v3.22")
- (add-hook 'tinyprocmail--load-hook 'tinyprocmail-install))
+ (use-package tinyprocmail
+ :ensure f
+ :config (with-library 'tinyprocmail
+ ;; (setq tinyprocmail--procmail-version "v3.22")
+ (add-hook 'tinyprocmail--load-hook 'tinyprocmail-install))
+ )
+#+END_SRC
+
+** Magit
+#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
+ (use-package magit
+ :ensure t
+ :bind (("C-x g" . magit-status)
+ ("C-x C-g" . magit-status))
+ :config
+ ;; don't verify where we are pushing
+ (setq magit-push-always-verify nil)
+ ;; refine diffs always (hilight words)
+ (setq magit-diff-refine-hunk nil)
+ ;; load magit-annex
+ (setq load-path
+ (append '("~/lib/emacs_el/magit-annex")
+ load-path))
+ ;; load magit-vcsh
+ (setq load-path
+ (append '("~/lib/emacs_el/magit-vcsh")
+ load-path))
+ )
+ (use-package magit-annex
+ :ensure t
+ )
+ (use-package magit-vcsh
+ :ensure f ; currently not in melpa, so don't try to install
+ )
#+END_SRC
** Perl
-#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
- (require 'cperl-mode)
- ;; Use c-mode for perl .xs files
- (add-to-list 'auto-mode-alist '("\\.xs\\'" . c-mode))
- (add-to-list 'auto-mode-alist '("\\.\\([pP][Llm]\\|al\\)\\'" . cperl-mode))
- (add-to-list 'interpreter-mode-alist '("perl" . cperl-mode))
- (add-to-list 'interpreter-mode-alist '("perl5" . cperl-mode))
- (add-to-list 'interpreter-mode-alist '("miniperl" . cperl-mode))
- (setq cperl-hairy t
- cperl-indent-level 4
- cperl-auto-newline nil
- cperl-auto-newline-after-colon nil
- cperl-continued-statement-offset 4
- cperl-brace-offset -1
- cperl-continued-brace-offset 0
- cperl-label-offset -4
- cperl-highlight-variables-indiscriminately t
- cperl-electric-lbrace-space nil
- cperl-indent-parens-as-block nil
- cperl-close-paren-offset -1
- cperl-tab-always-indent t)
- ;(add-hook 'cperl-mode-hook (lambda () (cperl-set-style "PerlStyle")))
+#+BEGIN_SRC emacs-lisp
+ (use-package cperl-mode
+ :config
+ (progn
+ ;; Use c-mode for perl .xs files
+ (add-to-list 'auto-mode-alist '("\\.xs\\'" . c-mode))
+ (add-to-list 'auto-mode-alist '("\\.\\([pP][Llm]\\|al\\)\\'" . cperl-mode))
+ (add-to-list 'interpreter-mode-alist '("perl" . cperl-mode))
+ (add-to-list 'interpreter-mode-alist '("perl5" . cperl-mode))
+ (add-to-list 'interpreter-mode-alist '("miniperl" . cperl-mode))
+ (setq cperl-hairy t
+ cperl-indent-level 4
+ cperl-auto-newline nil
+ cperl-auto-newline-after-colon nil
+ cperl-continued-statement-offset 4
+ cperl-brace-offset -1
+ cperl-continued-brace-offset 0
+ cperl-label-offset -4
+ cperl-highlight-variables-indiscriminately t
+ cperl-electric-lbrace-space nil
+ cperl-indent-parens-as-block nil
+ cperl-close-paren-offset -1
+ cperl-tab-always-indent t)
+ ;;(add-hook 'cperl-mode-hook (lambda () (cperl-set-style "PerlStyle")))
+ ))
#+END_SRC
** Helm
-#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
-(require 'don-helm)
+#+BEGIN_SRC emacs-lisp
+ (use-package helm
+ :ensure t
+ :config
+ (helm-mode 1)
+ (define-key global-map [remap find-file] 'helm-find-files)
+ (define-key global-map [remap occur] 'helm-occur)
+ (define-key global-map [remap list-buffers] 'helm-buffers-list)
+ (define-key global-map [remap dabbrev-expand] 'helm-dabbrev)
+ (global-set-key (kbd "M-x") 'helm-M-x)
+ (unless (boundp 'completion-in-region-function)
+ (define-key lisp-interaction-mode-map [remap completion-at-point] 'helm-lisp-completion-at-point)
+ (define-key emacs-lisp-mode-map [remap completion-at-point] 'helm-lisp-completion-at-point))
+ (add-hook 'kill-emacs-hook #'(lambda () (and (file-exists-p "$TMP") (delete-file "$TMP"))))
+ )
+#+END_SRC
+*** Helm Flx
+
+ [[https://github.com/PythonNut/helm-flx][helm-flx]] implements intelligent helm fuzzy sorting, provided by [[https://github.com/lewang/flx][flx]].
+
+ #+BEGIN_SRC emacs-lisp
+ (use-package helm-flx
+ :ensure t
+ :config (progn
+ ;; these are helm configs, but they kind of fit here nicely
+ (setq helm-M-x-fuzzy-match t
+ helm-bookmark-show-location t
+ helm-buffers-fuzzy-matching t
+ helm-completion-in-region-fuzzy-match t
+ helm-file-cache-fuzzy-match t
+ helm-imenu-fuzzy-match t
+ helm-mode-fuzzy-match t
+ helm-locate-fuzzy-match nil
+ helm-quick-update t
+ helm-recentf-fuzzy-match nil
+ helm-semantic-fuzzy-match t)
+ (helm-flx-mode +1)))
+ #+END_SRC
+*** Helm Swoop
+#+BEGIN_SRC emacs-lisp
+
+ ;;; stolen from https://github.com/malb/emacs.d/blob/master/malb.org
+ (defun malb/helm-swoop-pre-fill ()
+ (thing-at-point 'symbol))
+ (setq malb/helm-swoop-ignore-major-mode '(dired-mode
+ paradox-menu-mode doc-view-mode pdf-view-mode
+ mu4e-headers-mode org-mode markdown-mode latex-mode
+ ein:notebook-multilang-mode))
+
+ (defun malb/swoop-or-search ()
+ (interactive)
+ (if (or (> (buffer-size) 1048576) ;; helm-swoop can be slow on big buffers
+ (memq major-mode malb/helm-swoop-ignore-major-mode))
+ (isearch-forward)
+ (helm-swoop)))
+
+ (use-package helm-swoop
+ :ensure t
+ :bind (("C-c o" . helm-multi-swoop-org)
+ ("C-s" . malb/swoop-or-search)
+ ("C-M-s" . helm-multi-swoop-all))
+ :config (progn
+
+ (setq helm-swoop-pre-input-function #'malb/helm-swoop-pre-fill
+ helm-swoop-split-with-multiple-windows nil
+ helm-swoop-split-direction #'split-window-horizontally
+ helm-swoop-split-window-function 'helm-default-display-buffer
+ helm-swoop-speed-or-color t)
+
+ ;; https://emacs.stackexchange.com/questions/28790/helm-swoop-how-to-make-it-behave-more-like-isearch
+ (defun malb/helm-swoop-C-s ()
+ (interactive)
+ (if (boundp 'helm-swoop-pattern)
+ (if (equal helm-swoop-pattern "")
+ (previous-history-element 1)
+ (helm-next-line))
+ (helm-next-line)))
+
+ (bind-key "C-S-s" #'helm-swoop-from-isearch isearch-mode-map)
+ (bind-key "C-S-s" #'helm-multi-swoop-all-from-helm-swoop helm-swoop-map)
+ (bind-key "C-r" #'helm-previous-line helm-swoop-map)
+ (bind-key "C-s" #'malb/helm-swoop-C-s helm-swoop-map)
+ (bind-key "C-r" #'helm-previous-line helm-multi-swoop-map)
+ (bind-key "C-s" #'malb/helm-swoop-C-s helm-multi-swoop-map))
+ )
+
+#+END_SRC
+*** Helm Ag
+#+BEGIN_SRC emacs-lisp
+(use-package helm-ag
+ :ensure t
+ :config (setq helm-ag-base-command "ag --nocolor --nogroup"
+ helm-ag-command-option "--all-text"
+ helm-ag-insert-at-point 'symbol
+ helm-ag-fuzzy-match t
+ helm-ag-use-temp-buffer t
+ helm-ag-use-grep-ignore-list t
+ helm-ag-use-agignore t))
+#+END_SRC
+*** Helm Descbinds
+#+BEGIN_SRC emacs-lisp
+ (use-package helm-descbinds
+ :ensure t
+ :bind ("C-h b" . helm-descbinds)
+ :init (fset 'describe-bindings 'helm-descbinds))
+#+END_SRC
+
+*** Helm YaSnippet
+#+BEGIN_SRC emacs-lisp
+ (use-package helm-c-yasnippet
+ :ensure t
+ :bind ("C-c h y" . helm-yas-complete)
+ :config (progn
+ (setq helm-yas-space-match-any-greedy t)))
+#+END_SRC
+*** Helm Org Rifle
+#+BEGIN_SRC emacs-lisp
+ (use-package helm-org-rifle
+ :ensure t
+ :config (progn
+ (defun malb/helm-org-rifle-agenda-files (arg)
+ (interactive "p")
+ (let ((current-prefix-arg nil))
+ (cond
+ ((equal arg 4) (call-interactively #'helm-org-rifle-agenda-files nil))
+ ((equal arg 16) (helm-org-rifle-occur-agenda-files))
+ (t (helm-org-agenda-files-headings)))))))
+#+END_SRC
+
+** Hydra
+#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
+(require 'don-hydra)
+#+END_SRC
+
+** Tramp
+#+BEGIN_SRC emacs-lisp
+ (add-to-list 'tramp-methods '("vcsh"
+ (tramp-login-program "vcsh")
+ (tramp-login-args
+ (("enter")
+ ("%h")))
+ (tramp-remote-shell "/bin/sh")
+ (tramp-remote-shell-args
+ ("-c"))))
+#+END_SRC
+** Reftex
+#+BEGIN_SRC emacs-lisp
+ (use-package reftex
+ :ensure t
+ :config
+ (setq-default reftex-default-bibliography
+ '("~/projects/research/references.bib")))
+#+END_SRC
+** BibTex
+#+BEGIN_SRC emacs-lisp
+ (use-package bibtex
+ :config (setq bibtex-user-optional-fields
+ (quote (("annote" "Personal annotation (ignored)")
+ ("abstract" "")
+ ("pmid" "")
+ ("doi" ""))))
+ )
+
+#+END_SRC
+** LaTeX
+#+BEGIN_SRC emacs-lisp
+ (use-package tex
+ :defer t
+ :ensure auctex
+ :config
+ ; (add-to-list 'TeX-style-path '"/home/don/lib/emacs_el/auctex/style")
+ ;; REFTEX (much enhanced management of cross-ref, labels, etc)
+ ;; http://www.strw.leidenuniv.nl/~dominik/Tools/reftex/
+ ; (autoload 'reftex-mode "reftex" "RefTeX Minor Mode" t)
+ ; (autoload 'turn-on-reftex "reftex" "RefTeX Minor Mode" nil)
+ ; (autoload 'reftex-citation "reftex-cite" "Make citation" nil)
+ ; (autoload 'reftex-index-phrase-mode "reftex-index" "Phrase mode" t)
+ (add-hook 'LaTeX-mode-hook 'turn-on-reftex) ; with AUCTeX LaTeX mode
+ (add-hook 'latex-mode-hook 'turn-on-reftex) ; with Emacs latex mode
+ (add-hook 'LaTeX-mode-hook 'outline-minor-mode) ; with AUCTeX LaTeX mode
+ (add-hook 'latex-mode-hook 'outline-minor-mode) ; with Emacs latex mode
+
+ (setq-default reftex-plug-into-AUCTeX t)
+ ;; support fake section headers
+ (setq TeX-outline-extra
+ '(("%chapter" 1)
+ ("%section" 2)
+ ("%subsection" 3)
+ ("%subsubsection" 4)
+ ("%paragraph" 5)))
+ ;; add font locking to the headers
+ (font-lock-add-keywords
+ 'latex-mode
+ '(("^%\\(chapter\\|\\(sub\\|subsub\\)?section\\|paragraph\\)"
+ 0 'font-lock-keyword-face t)
+ ("^%chapter{\\(.*\\)}" 1 'font-latex-sectioning-1-face t)
+ ("^%section{\\(.*\\)}" 1 'font-latex-sectioning-2-face t)
+ ("^%subsection{\\(.*\\)}" 1 'font-latex-sectioning-3-face t)
+ ("^%subsubsection{\\(.*\\)}" 1 'font-latex-sectioning-4-face t)
+ ("^%paragraph{\\(.*\\)}" 1 'font-latex-sectioning-5-face t)))
+
+ ;; use smart quotes by default instead of `` and ''
+ ;; taken from http://kieranhealy.org/esk/kjhealy.html
+ (setq TeX-open-quote "“")
+ (setq TeX-close-quote "”")
+
+ ;; (TeX-add-style-hook
+ ;; "latex"
+ ;; (lambda ()
+ ;; (TeX-add-symbols
+ ;; '("DLA" 1))))
+ ;; (custom-set-variables
+ ;; '(font-latex-user-keyword-classes
+ ;; '(("fixme"
+ ;; ("DLA" "RZ")
+ ;; font-lock-function-name-face 2 (command 1 t))))
+ ;; )
+ (setq-default TeX-parse-self t)
+ (setq-default TeX-auto-save t)
+ (setq-default TeX-master nil)
+ (eval-after-load
+ "latex"
+ '(TeX-add-style-hook
+ "cleveref"
+ (lambda ()
+ (if (boundp 'reftex-ref-style-alist)
+ (add-to-list
+ 'reftex-ref-style-alist
+ '("Cleveref" "cleveref"
+ (("\\cref" ?c) ("\\Cref" ?C) ("\\cpageref" ?d) ("\\Cpageref" ?D)))))
+ (reftex-ref-style-activate "Cleveref")
+ (TeX-add-symbols
+ '("cref" TeX-arg-ref)
+ '("Cref" TeX-arg-ref)
+ '("cpageref" TeX-arg-ref)
+ '("Cpageref" TeX-arg-ref)))))
+ (eval-after-load
+ "latex"
+ '(add-to-list 'LaTeX-fill-excluded-macros
+ '("Sexpr")))
+
+ (use-package font-latex
+ :config
+ (setq font-latex-match-reference-keywords
+ '(
+ ("fref" "{")
+ ("Fref" "{")
+ ("citep" "{")
+ ("citet" "{")
+ ("acs" "{")
+ ("acsp" "{")
+ ("ac" "{")
+ ("acp" "{")
+ ("acl" "{")
+ ("aclp" "{")
+ ("acsu" "{")
+ ("aclu" "{")
+ ("acused" "{")
+ ("DLA" "{")
+ ("RZ" "{")
+ ("OM" "{")
+ ("DL" "{")
+ ("fixme" "{"))
+ )
+ )
+ (setq font-latex-fontify-script nil)
+ (setq font-latex-fontify-sectioning (quote color))
+ (setq font-latex-script-display (quote (nil)))
+ )
+
+#+END_SRC
+** ESS
+#+BEGIN_SRC emacs-lisp
+ (use-package ess
+ :ensure t
+ :config
+ (defun ess-change-directory (path)
+ "Set the current working directory to PATH for both *R* and Emacs."
+ (interactive "DDirectory to change to: ")
+
+ (when (file-exists-p path)
+ (ess-command (concat "setwd(\"" path "\")\n"))
+ ;; use file-name-as-directory to ensure it has trailing /
+ (setq default-directory (file-name-as-directory path))))
+ (add-hook 'ess-mode-hook 'flyspell-prog-mode)
+ ;; outlining support for ess modes
+ (add-hook
+ 'ess-mode-hook
+ '(lambda ()
+ (outline-minor-mode)
+ (setq outline-regexp "\\(^#\\{4,5\\} \\)\\|\\(^[a-zA-Z0-9_\.]+ ?<- ?function\\)")
+ (defun outline-level ()
+ (cond ((looking-at "^##### ") 1)
+ ((looking-at "^#### ") 2)
+ ((looking-at "^[a-zA-Z0-9_\.]+ ?<- ?function(.*{") 3)
+ (t 1000)))
+ ))
+ (add-hook 'ess-mode-hook
+ '(lambda ()
+ (local-set-key (kbd "C-c C-R")
+ 'dla/ess-region-remote-eval)))
+
+ ;; Don't restore history or save workspace image
+ '(inferior-R-args "--no-restore-history --no-save")
+ )
+#+END_SRC
+
+** Rainbowmode
+From http://julien.danjou.info/projects/emacs-packages#rainbow-mode, this colorizes color strings
+
+#+BEGIN_SRC emacs-lisp
+ (use-package rainbow-mode
+ ;; add ess to the x major mode
+ :config (add-to-list 'rainbow-x-colors-major-mode-list 'ESS[S])
+ (add-to-list 'rainbow-x-colors-major-mode-list 'ESS[R])
+ )
+#+END_SRC
+
+** Polymode
+#+BEGIN_SRC emacs-lisp
+ (use-package polymode
+ :config
+ (use-package poly-R)
+ (use-package poly-noweb)
+ (use-package poly-markdown)
+ :mode ("\\.Snw" . poly-noweb+r-mode)
+ :mode ("\\.Rnw" . poly-noweb+r-mode)
+ :mode ("\\.Rmd" . poly-markdown+r-mode)
+ )
+#+END_SRC
+
+** Outlining
+*** Outline magic
+#+BEGIN_SRC emacs-lisp
+ (use-package outline-magic)
+#+END_SRC
+** Writeroom Mode
+#+BEGIN_SRC emacs-lisp
+ (use-package writeroom-mode
+ :config
+ (defun my/writing-mode ()
+ "Start my writing mode; enable visual-line-mode and auto-fill-mode"
+ (interactive)
+ (if writeroom-mode
+ (progn
+ (writeroom-mode -1)
+ (visual-line-mode -1)
+ (auto-fill-mode -1)
+ (visual-fill-column-mode -1)
+ )
+ (visual-line-mode 1)
+ (auto-fill-mode 1)
+ (visual-fill-column-mode 1)
+ (writeroom-mode 1))
+ )
+ )
+#+END_SRC
+** GhostText/Atomic Chrome
+#+BEGIN_SRC emacs-lisp
+ (use-package atomic-chrome
+ :config
+ (ignore-errors (atomic-chrome-start-server))
+ (setq atomic-chrome-buffer-open-style 'full)
+ )
+#+END_SRC
+** Multiple Cursors
+ :PROPERTIES:
+ :ID: 6fcf218b-a762-4c37-9339-a8202ddeb544
+ :END:
+[[https://github.com/magnars/multiple-cursors.el][Multiple Cursors]]
+#+BEGIN_SRC emacs-lisp
+ (use-package multiple-cursors
+ :bind (("C-;" . mc/mark-all-dwim)
+ ("C-<" . mc/mark-previous-like-this)
+ ("C->" . mc/mark-next-like-this)
+ ("C-S-c C-S-c" . mc/edit-lines))
+ )
+#+END_SRC
+** Web Mode
+#+BEGIN_SRC emacs-lisp
+ (use-package web-mode
+ :config
+ (add-to-list 'auto-mode-alist '("\\.tmpl\\'" . web-mode))
+ (setq web-mode-enable-engine-detection t)
+ (setq web-mode-engines-alist
+ '(("template-toolkit" . "\\.tmpl\\'")))
+ )
+#+END_SRC
+* Email
+** Message Mode
+#+BEGIN_SRC emacs-lisp
+ (use-package post
+ :config
+ (setq post-email-address "don@donarmstrong.com")
+ (setq post-kill-quoted-sig nil)
+ (setq post-mail-message "mutt\\(ng\\|\\)-[a-z0-9]+-[0-9]+-.*")
+ (setq post-uses-fill-mode nil)
+ )
+#+END_SRC
+** Mutt
+*** Message-mode
+#+BEGIN_SRC emacs-lisp
+ (use-package message-mode
+
+ :mode "muttng-[a-z0-9]+-[0-9]+-"
+ :mode "mutt-[a-z0-9]+-[0-9]+-"
+ :hook 'my/message-mode-settings
+ :hook 'turn-on-flyspell
+ :bind (:map message-mode-map
+ ("C-c C-a" . my/post-attach-file))
+ :config
+ (defun my/message-mode-settings ()
+ (font-lock-add-keywords nil
+ '(("^[ \t]*>[ \t]*>[ \t]*>.*$"
+ (0 'message-multiply-quoted-text-face))
+ ("^[ \t]*>[ \t]*>.*$"
+ (0 'message-double-quoted-text-face))))
+ )
+
+ (defun my/post-attach-file ()
+ "Prompt for an attachment."
+ (interactive)
+ (let ((file (read-file-name "Attach file: " nil nil t nil))
+ (description (string-read "Description: ")))
+ (my/header-attach-file file description)))
+
+ (defun my/header-attach-file (file description)
+ "Attach a FILE to the current message (works with Mutt).
+ Argument DESCRIPTION MIME description."
+ (interactive "fAttach file: \nsDescription: ")
+ (when (> (length file) 0)
+ (save-excursion
+ (save-match-data
+ (save-restriction
+ (widen)
+ (goto-char (point-min))
+ (search-forward-regexp "^$")
+ (insert (concat "Attach: " (replace-regexp-in-string "\\([[:space:]\\]\\)" "\\\\\\1" (file-truename file)) " "
+ description "\n"))
+ (message (concat "Attached '" file "'."))
+ (setq post-has-attachment t))))))
+
+ (setq mail-yank-prefix "> ")
+ )
+#+END_SRC
+*** Muttrc mode
+#+BEGIN_SRC emacs-lisp
+ (use-package muttrc-mode
+ :mode "muttngrc"
+ :mode "muttrc"
+ )
+
+#+END_SRC
+* Org Mode
+** Use-package and load things
+#+BEGIN_SRC emacs-lisp
+
+ (use-package org
+ :config
+
+#+END_SRC
+** Agenda Configuration
+#+BEGIN_SRC emacs-lisp
+ ;; The following lines are always needed. Choose your own keys.
+ (add-to-list 'auto-mode-alist '("\\.\\(org\\|org_archive\\|txt\\)$" . org-mode))
+ (global-set-key "\C-cl" 'org-store-link)
+ (global-set-key "\C-ca" 'org-agenda)
+ (global-set-key "\C-cb" 'org-iswitchb)
+ (setq-default org-log-done 'time)
+ (setq-default org-agenda-ndays 5)
+
+ ;; agenda configuration
+ ;; Do not dim blocked tasks
+ (setq org-agenda-dim-blocked-tasks nil)
+ (setq org-agenda-inhibit-startup t)
+ (setq org-agenda-use-tag-inheritance nil)
+
+ ;; Compact the block agenda view
+ (setq org-agenda-compact-blocks t)
+
+ ;; Custom agenda command definitions
+ (setq org-agenda-custom-commands
+ (quote (("N" "Notes" tags "NOTE"
+ ((org-agenda-overriding-header "Notes")
+ (org-tags-match-list-sublevels t)))
+ ("h" "Habits" tags-todo "STYLE=\"habit\""
+ ((org-agenda-overriding-header "Habits")
+ (org-agenda-sorting-strategy
+ '(todo-state-down effort-up category-keep))))
+ (" " "Agenda"
+ ((agenda "" nil)
+ (tags "REFILE"
+ ((org-agenda-overriding-header "Tasks to Refile")
+ (org-tags-match-list-sublevels nil)))
+ (tags-todo "-CANCELLED/!"
+ ((org-agenda-overriding-header "Stuck Projects")
+ (org-agenda-skip-function 'bh/skip-non-stuck-projects)
+ (org-agenda-sorting-strategy
+ '(category-keep))))
+ (tags-todo "-HOLD-CANCELLED/!"
+ ((org-agenda-overriding-header "Projects")
+ (org-agenda-skip-function 'bh/skip-non-projects)
+ (org-tags-match-list-sublevels 'indented)
+ (org-agenda-sorting-strategy
+ '(category-keep))))
+ (tags-todo "-CANCELLED/!NEXT"
+ ((org-agenda-overriding-header (concat "Project Next Tasks"
+ (if bh/hide-scheduled-and-waiting-next-tasks
+ ""
+ " (including WAITING and SCHEDULED tasks)")))
+ (org-agenda-skip-function 'bh/skip-projects-and-habits-and-single-tasks)
+ (org-tags-match-list-sublevels t)
+ (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-sorting-strategy
+ '(todo-state-down effort-up category-keep))))
+ (tags-todo "-REFILE-CANCELLED-WAITING-HOLD/!"
+ ((org-agenda-overriding-header (concat "Project Subtasks"
+ (if bh/hide-scheduled-and-waiting-next-tasks
+ ""
+ " (including WAITING and SCHEDULED tasks)")))
+ (org-agenda-skip-function 'bh/skip-non-project-tasks)
+ (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-sorting-strategy
+ '(category-keep))))
+ (tags-todo "-REFILE-CANCELLED-WAITING-HOLD/!"
+ ((org-agenda-overriding-header (concat "Standalone Tasks"
+ (if bh/hide-scheduled-and-waiting-next-tasks
+ ""
+ " (including WAITING and SCHEDULED tasks)")))
+ (org-agenda-skip-function 'bh/skip-project-tasks)
+ (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
+ (org-agenda-sorting-strategy
+ '(category-keep))))
+ (tags-todo "-CANCELLED+WAITING|HOLD/!"
+ ((org-agenda-overriding-header "Waiting and Postponed Tasks")
+ (org-agenda-skip-function 'bh/skip-stuck-projects)
+ (org-tags-match-list-sublevels nil)
+ (org-agenda-todo-ignore-scheduled t)
+ (org-agenda-todo-ignore-deadlines t)))
+ (tags "-REFILE/"
+ ((org-agenda-overriding-header "Tasks to Archive")
+ (org-agenda-skip-function 'bh/skip-non-archivable-tasks)
+ (org-tags-match-list-sublevels nil))))
+ nil))))
+
+ ; org mode agenda files
+ (setq org-agenda-files
+ (quote ("~/projects/org-notes/debbugs.org"
+ "~/projects/org-notes/notes.org"
+ "~/projects/org-notes/holidays.org"
+ "~/projects/org-notes/refile.org"
+ "~/projects/org-notes/diary.org"
+ "~/projects/org-notes/ool.org"
+ "~/projects/org-notes/sndservers.org"
+ "~/projects/org-notes/chaim.org"
+ "~/projects/org-notes/wildman.org"
+ "~/projects/org-notes/uddin.org"
+ "~/projects/org-notes/reviews.org"
+ "~/projects/org-notes/hpcbio.org"
+ "~/org-mode/from-mobile.org"
+ "~/projects/org-notes/fh.org")))
+
+ (set-register ?n (cons 'file "~/projects/org-notes/notes.org"))
+ (set-register ?r (cons 'file "~/projects/org-notes/refile.org"))
+ (set-register ?o (cons 'file "~/projects/org-notes/ool.org"))
+ (set-register ?s (cons 'file "~/projects/org-notes/sndservers.org"))
+ (set-register ?c (cons 'file "~/projects/org-notes/chaim.org"))
+ (set-register ?w (cons 'file "~/projects/org-notes/wildman.org"))
+ (set-register ?u (cons 'file "~/projects/org-notes/uddin.org"))
+ (set-register ?R (cons 'file "~/projects/reviews/reviews.org"))
+ (set-register ?d (cons 'file "~/projects/org-notes/diary.org"))
+ ; from https://emacs.stackexchange.com/questions/909/how-can-i-have-an-agenda-timeline-view-of-multiple-files
+ (defun org-agenda-timeline-all (&optional arg)
+ (interactive "P")
+ (with-temp-buffer
+ (dolist (org-agenda-file org-agenda-files)
+ (insert-file-contents org-agenda-file nil)
+ (end-of-buffer)
+ (newline))
+ (write-file "/tmp/timeline.org")
+ (org-agenda arg "L")))
+ (define-key org-mode-map (kbd "C-c t") 'org-agenda-timeline-all)
+ ;; add automatic reminders for appointments
+ (defadvice org-agenda-redo (after org-agenda-redo-add-appts)
+ "Pressing `r' on the agenda will also add appointments."
+ (progn
+ (setq appt-time-msg-list nil)
+ (org-agenda-to-appt)))
+
+#+END_SRC
+** General config
+#+BEGIN_SRC emacs-lisp
+ (setq org-global-properties '(("Effort_ALL 0 0:10 0:30 1:00 2:00 3:00 4:00 5:00 6:00 7:00")))
+ (setq org-columns-default-format "%40ITEM(Task) %6Effort{:} %CLOCKSUM %PRIORITY %TODO %13SCHEDULED %13DEADLINE %TAGS")
+
+ (setq org-default-notes-file "~/projects/org-notes/notes.org")
+ (setq org-id-link-to-org-use-id 'use-existing)
+#+END_SRC
+** Capture Templates
+#+BEGIN_SRC emacs-lisp
+ (setq org-capture-templates ;; mail-specific note template, identified by "m"
+ '(("m" "Mail" entry (file "~/projects/org-notes/refile.org")
+ "* %?\n\n Source: %u, [[%:link][%:description]]\n %:initial")
+ ("t" "todo" entry (file "~/projects/org-notes/refile.org")
+ "* TODO %?\n :PROPERTIES:\n :END:\n :LOGBOOK:\n :END:\n%U\n%a\n" :clock-in t :clock-resume t)
+ ("r" "respond" entry (file "~/projects/org-notes/refile.org")
+ "* NEXT Respond to %:from on %:subject\nSCHEDULED: %t\n%U\n%a\n" :clock-in t :clock-resume t :immediate-finish t)
+ ("n" "note" entry (file "~/projects/org-notes/refile.org")
+ "* %? :NOTE:\n%U\n%a\n" :clock-in t :clock-resume t)
+ ("s" "schedule" entry (file "~/projects/org-notes/refile.org")
+ "* %? :cal:\n%^{scheduled:}t\n%U\n%a\n" :clock-in t :clock-resume t)
+ ("j" "Journal" entry (file+datetree "~/projects/org-notes/diary.org")
+ "* %?\n%U\n" :clock-in t :clock-resume t)
+ ("w" "org-protocol" entry (file "~/projects/org-notes/refile.org")
+ "* TODO Review %c\n%U\n" :immediate-finish t)
+ ("M" "Meeting" entry (file "~/projects/org-notes/refile.org")
+ "* MEETING with %? :MEETING:\n%U" :clock-in t :clock-resume t)
+ ("S" "Seminar" entry (file "~/projects/org-notes/refile.org")
+ "* SEMINAR notes %? :SEMINAR:\n%U" :clock-in t :clock-resume t)
+ ("P" "Paper to read" entry (file+headline "~/projects/research/papers_to_read.org" "Refile")
+ "* TODO Get/Read %? \n%U" :clock-in t :clock-resume t)
+ ("p" "Phone call" entry (file "~/projects/org-notes/refile.org")
+ "* PHONE %? :PHONE:\n%U" :clock-in t :clock-resume t)
+ ("J" "job" entry (file "~/projects/org-notes/refile.org")
+ "* TODO Apply for %a%? :job:\nSCHEDULED: %(format-time-string \"<%Y-%m-%d 17:00-17:30>\")\n%U\n%a\n" :clock-in t :clock-resume t)
+ ("h" "Habit" entry (file "~/projects/org-notes/refile.org")
+ "* NEXT %?\n%U\n%a\nSCHEDULED: %(format-time-string \"<%Y-%m-%d .+1d/3d>\")\n:PROPERTIES:\n:STYLE: habit\n:REPEAT_TO_STATE: NEXT\n:END:\n%a\n")
+ )
+ )
+
+ ;; Remove empty LOGBOOK drawers on clock out
+ (defun bh/remove-empty-drawer-on-clock-out ()
+ (interactive)
+ (save-excursion
+ (beginning-of-line 0)
+ (org-remove-empty-drawer-at (point))))
+
+ (defun my/org-add-id ()
+ (interactive)
+ (save-excursion
+ (if (org-current-level)
+ ()
+ (forward-char 1)
+ )
+ (org-id-get-create)
+ )
+ )
+
+#+END_SRC
+** Org mode key bindings
+#+BEGIN_SRC emacs-lisp
+ ; org mode configuration from http://doc.norang.ca/org-mode.html
+ ;; Custom Key Bindings
+ (global-set-key (kbd "<f12>") 'org-agenda)
+ (global-set-key (kbd "<f5>") 'bh/org-todo)
+ (global-set-key (kbd "<S-f5>") 'bh/widen)
+ (global-set-key (kbd "<f7>") 'bh/set-truncate-lines)
+ (global-set-key (kbd "<f8>") 'org-cycle-agenda-files)
+ (global-set-key (kbd "<f9> <f9>") 'bh/show-org-agenda)
+ (global-set-key (kbd "<f9> b") 'bbdb)
+ (global-set-key (kbd "<f9> c") 'calendar)
+ (global-set-key (kbd "<f9> f") 'boxquote-insert-file)
+ (global-set-key (kbd "<f9> h") 'bh/hide-other)
+ (global-set-key (kbd "<f9> n") 'bh/toggle-next-task-display)
+ (global-set-key (kbd "<f9> w") 'widen)
+
+ ; change the outline mode prefix from C-c @ to C-c C-2
+ (setq outline-minor-mode-prefix "C-c C-2")
+ ;(add-hook 'outline-minor-mode-hook
+ ; (lambda () (local-set-key (kbd "C-c C-2")
+ ; outline-mode-prefix-map)))
+
+ (global-set-key (kbd "<f9> I") 'bh/punch-in)
+ (global-set-key (kbd "<f9> O") 'bh/punch-out)
+
+ (global-set-key (kbd "<f9> o") 'bh/make-org-scratch)
+
+ (global-set-key (kbd "<f9> r") 'boxquote-region)
+ (global-set-key (kbd "<f9> s") 'bh/switch-to-scratch)
+
+ (global-set-key (kbd "<f9> t") 'bh/insert-inactive-timestamp)
+ (global-set-key (kbd "<f9> T") 'bh/toggle-insert-inactive-timestamp)
+
+ (global-set-key (kbd "<f9> v") 'visible-mode)
+ (global-set-key (kbd "<f9> l") 'org-toggle-link-display)
+ (global-set-key (kbd "<f9> SPC") 'bh/clock-in-last-task)
+ (global-set-key (kbd "C-<f9>") 'previous-buffer)
+ (global-set-key (kbd "M-<f9>") 'org-toggle-inline-images)
+ (global-set-key (kbd "C-x n r") 'narrow-to-region)
+ (global-set-key (kbd "C-<f10>") 'next-buffer)
+ (global-set-key (kbd "<f11>") 'org-clock-goto)
+ (global-set-key (kbd "C-<f11>") 'org-clock-in)
+ (global-set-key (kbd "C-s-<f12>") 'bh/save-then-publish)
+ (global-set-key (kbd "C-c c") 'org-capture)
+
+#+END_SRC
+** Utility Functions
+#+BEGIN_SRC emacs-lisp
+ (defun bh/hide-other ()
+ (interactive)
+ (save-excursion
+ (org-back-to-heading 'invisible-ok)
+ (hide-other)
+ (org-cycle)
+ (org-cycle)
+ (org-cycle)))
+
+ (defun bh/set-truncate-lines ()
+ "Toggle value of truncate-lines and refresh window display."
+ (interactive)
+ (setq truncate-lines (not truncate-lines))
+ ;; now refresh window display (an idiom from simple.el):
+ (save-excursion
+ (set-window-start (selected-window)
+ (window-start (selected-window)))))
+
+ (defun bh/make-org-scratch ()
+ (interactive)
+ (find-file "/tmp/publish/scratch.org")
+ (gnus-make-directory "/tmp/publish"))
+
+ (defun bh/switch-to-scratch ()
+ (interactive)
+ (switch-to-buffer "*scratch*"))
+
+ (setq org-use-fast-todo-selection t)
+ (setq org-treat-S-cursor-todo-selection-as-state-change nil)
+
+ ; create function to create headlines in file. This comes from
+ ; http://stackoverflow.com/questions/13340616/assign-ids-to-every-entry-in-org-mode
+ (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))
+ ; if we wanted to do this to every buffer, do the following:
+ ; (add-hook 'org-mode-hook
+ ; (lambda ()
+ ; (add-hook 'before-save-hook 'my/org-add-ids-to-headlines-in-file nil 'local)))
+#+END_SRC
+** Keywords (TODO)
+#+BEGIN_SRC emacs-lisp
+ (setq org-todo-keywords
+ (quote ((sequence "TODO(t)" "NEXT(n)" "|" "DONE(d)")
+ (sequence "WAITING(w@/!)" "HOLD(h@/!)" "|" "CANCELLED(c@/!)" "PHONE" "MEETING"))))
+
+ (setq org-todo-keyword-faces
+ (quote (("TODO" :foreground "red" :weight bold)
+ ("NEXT" :foreground "blue" :weight bold)
+ ("DONE" :foreground "forest green" :weight bold)
+ ("WAITING" :foreground "orange" :weight bold)
+ ("HOLD" :foreground "magenta" :weight bold)
+ ("CANCELLED" :foreground "forest green" :weight bold)
+ ("MEETING" :foreground "forest green" :weight bold)
+ ("PHONE" :foreground "forest green" :weight bold))))
+
+ (setq org-todo-state-tags-triggers
+ (quote (("CANCELLED" ("CANCELLED" . t))
+ ("WAITING" ("WAITING" . t))
+ ("HOLD" ("WAITING") ("HOLD" . t))
+ (done ("WAITING") ("HOLD"))
+ ("TODO" ("WAITING") ("CANCELLED") ("HOLD"))
+ ("NEXT" ("WAITING") ("CANCELLED") ("HOLD"))
+ ("DONE" ("WAITING") ("CANCELLED") ("HOLD")))))
+
+
+
+ ; (add-hook 'org-clock-out-hook 'bh/remove-empty-drawer-on-clock-out 'append)
+ ; add ids on creation of nodes
+ (add-hook 'org-capture-prepare-finalize-hook 'my/org-add-id)
+
+
+ ; resolve clocks after 10 minutes of idle; use xprintidle
+ ; (setq org-clock-idle-time 10)
+ ; (setq org-clock-x11idle-program-name "xprintidle")
+
+ ; this is from http://doc.norang.ca/org-mode.html#Capture
+ ; use C-M-r for org mode capture
+ (global-set-key (kbd "C-M-r") 'org-capture)
+
+ ; Targets include this file and any file contributing to the agenda - up to 9 levels deep
+ (setq org-refile-targets (quote ((nil :maxlevel . 9)
+ (org-agenda-files :maxlevel . 9))))
+
+ ; Use full outline paths for refile targets - we file directly with IDO
+ (setq org-refile-use-outline-path t)
+
+ ; Targets complete directly with IDO
+ (setq org-outline-path-complete-in-steps nil)
+
+ ; Allow refile to create parent tasks with confirmation
+ (setq org-refile-allow-creating-parent-nodes (quote confirm))
+
+ ; ; Use IDO for both buffer and file completion and ido-everywhere to t
+ ; (setq org-completion-use-ido t)
+ ; (setq ido-everywhere t)
+ ; (setq ido-max-directory-size 100000)
+ ; (ido-mode (quote both))
+ ; ; Use the current window when visiting files and buffers with ido
+ ; (setq ido-default-file-method 'selected-window)
+ ; (setq ido-default-buffer-method 'selected-window)
+ ; ; Use the current window for indirect buffer display
+ ; (setq org-indirect-buffer-display 'current-window)
+
+
+ ;;;; Refile settings
+ ; Exclude DONE state tasks from refile targets
+ (defun bh/verify-refile-target ()
+ "Exclude todo keywords with a done state from refile targets"
+ (not (member (nth 2 (org-heading-components)) org-done-keywords)))
+
+ (setq org-refile-target-verify-function 'bh/verify-refile-target)
+
+ ;; ensure that emacsclient will show just the note to be edited when invoked
+ ;; from Mutt, and that it will shut down emacsclient once finished;
+ ;; fallback to legacy behavior when not invoked via org-protocol.
+ (require 'org-protocol)
+ ; (add-hook 'org-capture-mode-hook 'delete-other-windows)
+ (setq my-org-protocol-flag nil)
+ (defadvice org-capture-finalize (after delete-frame-at-end activate)
+ "Delete frame at remember finalization"
+ (progn (if my-org-protocol-flag (delete-frame))
+ (setq my-org-protocol-flag nil)))
+ (defadvice org-capture-refile (around delete-frame-after-refile activate)
+ "Delete frame at remember refile"
+ (if my-org-protocol-flag
+ (progn
+ (setq my-org-protocol-flag nil)
+ ad-do-it
+ (delete-frame))
+ ad-do-it)
+ )
+ (defadvice org-capture-kill (after delete-frame-at-end activate)
+ "Delete frame at remember abort"
+ (progn (if my-org-protocol-flag (delete-frame))
+ (setq my-org-protocol-flag nil)))
+ (defadvice org-protocol-capture (before set-org-protocol-flag activate)
+ (setq my-org-protocol-flag t))
+
+ (defadvice org-insert-todo-heading (after dla/create-id activate)
+ (org-id-get-create)
+ )
+
+ ;; org modules
+ (add-to-list 'org-modules 'org-habit)
+
+ ; this comes from http://upsilon.cc/~zack/blog/posts/2010/02/integrating_Mutt_with_Org-mode/
+ (defun open-mail-in-mutt (message)
+ "Open a mail message in Mutt, using an external terminal.
+
+ Message can be specified either by a path pointing inside a
+ Maildir, or by Message-ID."
+ (interactive "MPath or Message-ID: ")
+ (shell-command
+ (format "faf xterm -e \"%s %s\""
+ (substitute-in-file-name "$HOME/bin/mutt_open") message)))
+
+ ;; add support for "mutt:ID" links
+ (org-add-link-type "mutt" 'open-mail-in-mutt)
+
+ (defun my-org-mode-setup ()
+ ; (load-library "reftex")
+ (and (buffer-file-name)
+ (file-exists-p (buffer-file-name))
+ (progn
+ ; (reftex-parse-all)
+ (reftex-set-cite-format
+ '((?b . "[[bib:%l][%l-bib]]")
+ (?n . "[[notes:%l][%l-notes]]")
+ (?c . "\\cite{%l}")
+ (?h . "*** %t\n:PROPERTIES:\n:Custom_ID: %l\n:END:\n[[papers:%l][%l xoj]] [[papers-pdf:%l][pdf]]")))
+ ))
+ (define-key org-mode-map (kbd "C-c )") 'reftex-citation)
+ (define-key org-mode-map (kbd "C-c [") 'reftex-citation)
+ (define-key org-mode-map (kbd "C-c (") 'org-mode-reftex-search)
+ (define-key org-mode-map (kbd "C-c 0") 'reftex-view-crossref)
+ )
+ (add-hook 'org-mode-hook 'my-org-mode-setup)
+
+ (defun org-mode-reftex-search ()
+ (interactive)
+ (org-open-link-from-string (format "[[notes:%s]]" (first (reftex-citation t)))))
+
+ (defun open-research-paper (bibtexkey)
+ "Open a paper by bibtex key"
+ (interactive "bibtex key: ")
+ (shell-command
+ (format "%s %s"
+ (substitute-in-file-name "$HOME/bin/bibtex_to_paper") bibtexkey)))
+ (org-add-link-type "papers" 'open-research-paper)
+ (defun open-research-paper-pdf (bibtexkey)
+ "Open a paper pdf by bibtex key"
+ (interactive "bibtex key: ")
+ (shell-command
+ (format "%s -p evince_annot %s"
+ (substitute-in-file-name "$HOME/bin/bibtex_to_paper") bibtexkey)))
+ (org-add-link-type "papers-pdf" 'open-research-paper-pdf)
+
+ (add-to-list 'org-link-abbrev-alist
+ '("notes" .
+ "~/projects/research/paper_notes.org::#%s"))
+
+ ; I pretty much always want hiearchical checkboxes
+ (setq org-hierachical-checkbox-statistics nil)
+
+ ;; Add \begin{equation}\end{equation} templates to the org mode easy templates
+ (add-to-list 'org-structure-template-alist
+ '("E" "\\begin{equation}\n?\n\\end{equation}"))
+
+ ;; stolen from
+ ;; http://www-public.it-sudparis.eu/~berger_o/weblog/2012/03/23/how-to-manage-and-export-bibliographic-notesrefs-in-org-mode/
+ (defun my-rtcite-export-handler (path desc format)
+ (message "my-rtcite-export-handler is called : path = %s, desc = %s, format = %s" path desc format)
+ (let* ((search (when (string-match "::#?\\(.+\\)\\'" path)
+ (match-string 1 path)))
+ (path (substring path 0 (match-beginning 0))))
+ (cond ((eq format 'latex)
+ (if (or (not desc)
+ (equal 0 (search "rtcite:" desc)))
+ (format "\\cite{%s}" search)
+ (format "\\cite[%s]{%s}" desc search))))))
+
+ (org-add-link-type "rtcite"
+ 'org-bibtex-open
+ 'my-rtcite-export-handler)
+
+
+#+END_SRC
+** Org Mobile Configuration
+#+BEGIN_SRC emacs-lisp
+ (setq-default org-mobile-directory "/linnode.donarmstrong.com:/sites/dav.donarmstrong.com/root/org/")
+ (when (string= system-name "linnode")
+ (setq-default org-mobile-directory "/sites/dav.donarmstrong.com/root/org/"))
+ (setq-default org-directory "/home/don/org-mode/")
+ (setq-default org-mobile-inbox-for-pull "/home/don/org-mode/from-mobile.org")
+
#+END_SRC
+** Org iCal Support
+#+BEGIN_SRC emacs-lisp
+ ;; org mode ical export
+ (setq org-icalendar-timezone "America/Los_Angeles")
+ (setq org-icalendar-use-scheduled '(todo-start event-if-todo))
+ ;; we already add the id manually
+ (setq org-icalendar-store-UID t)
+
+#+END_SRC
+** General Org Babel Configuration
+#+BEGIN_SRC emacs-lisp
+ ;; org babel support
+ (org-babel-do-load-languages
+ 'org-babel-load-languages
+ '((emacs-lisp . t )
+ (R . t)
+ (latex . t)
+ (ditaa . t)
+ (dot . t)
+ ))
+ ;; use graphviz-dot for dot things
+ (add-to-list 'org-src-lang-modes '("dot" . graphviz-dot))
+ ;; org-babel-by-backend
+ (defmacro org-babel-by-backend (&rest body)
+ `(case (if (boundp 'backend)
+ (org-export-backend-name backend)
+ nil) ,@body))
+
+ (defun my/fix-inline-images ()
+ (when org-inline-image-overlays
+ (org-redisplay-inline-images)))
+
+ (add-hook 'org-babel-after-execute-hook
+ 'my/fix-inline-images)
+
+#+END_SRC
+** LaTeX configuration
+ :PROPERTIES:
+ :ID: 7135ba17-6a50-4eed-84ca-b90afa5b12f8
+ :END:
+#+BEGIN_SRC emacs-lisp
+ (require 'ox-latex)
+ (add-to-list 'org-latex-classes
+ '("memarticle"
+ "\\documentclass[11pt,oneside,article]{memoir}\n"
+ ("\\section{%s}" . "\\section*{%s}")
+ ("\\subsection{%s}" . "\\subsection*{%s}")
+ ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
+ ("\\paragraph{%s}" . "\\paragraph*{%s}")
+ ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
+
+ (setq org-beamer-outline-frame-options "")
+ (add-to-list 'org-latex-classes
+ '("beamer"
+ "\\documentclass[ignorenonframetext]{beamer}
+ [NO-DEFAULT-PACKAGES]
+ [PACKAGES]
+ [EXTRA]"
+ ("\\section{%s}" . "\\section*{%s}")
+ ("\\subsection{%s}" . "\\subsection*{%s}")
+ ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
+ ("\\paragraph{%s}" . "\\paragraph*{%s}")
+ ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
+
+ (add-to-list 'org-latex-classes
+ '("membook"
+ "\\documentclass[11pt,oneside]{memoir}\n"
+ ("\\chapter{%s}" . "\\chapter*{%s}")
+ ("\\section{%s}" . "\\section*{%s}")
+ ("\\subsection{%s}" . "\\subsection*{%s}")
+ ("\\subsubsection{%s}" . "\\subsubsection*{%s}")))
+
+ (add-to-list 'org-latex-classes
+ '("letter"
+ "\\documentclass[11pt]{letter}
+ [NO-DEFAULT-PACKAGES]
+ [PACKAGES]
+ [EXTRA]"
+ ("\\section{%s}" . "\\section*{%s}")
+ ("\\subsection{%s}" . "\\subsection*{%s}")
+ ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
+ ("\\paragraph{%s}" . "\\paragraph*{%s}")
+ ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
+
+ (add-to-list 'org-latex-classes
+ '("dlacv"
+ "\\documentclass{dlacv}
+ [NO-DEFAULT-PACKAGES]
+ [NO-PACKAGES]
+ [NO-EXTRA]"
+ ("\\section{%s}" . "\\section*{%s}")
+ ("\\subsection{%s}" . "\\subsection*{%s}")
+ ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
+ ("\\paragraph{%s}" . "\\paragraph*{%s}")
+ ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
+
+
+ (add-to-list 'org-latex-classes
+ '("dlaresume"
+ "\\documentclass{dlaresume}
+ [NO-DEFAULT-PACKAGES]
+ [NO-PACKAGES]
+ [NO-EXTRA]"
+ ("\\section{%s}" . "\\section*{%s}")
+ ("\\subsection{%s}" . "\\subsection*{%s}")
+ ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
+ ("\\paragraph{%s}" . "\\paragraph*{%s}")
+ ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
+
+
+ ;; Originally taken from Bruno Tavernier: http://thread.gmane.org/gmane.emacs.orgmode/31150/focus=31432
+ ;; but adapted to use latexmk 4.22 or higher.
+ (setq org-latex-pdf-process '("latexmk -f -pdflatex=xelatex -bibtex -use-make -pdf %f"))
+
+ ;; Default packages included in /every/ tex file, latex, pdflatex or xelatex
+ (setq org-latex-default-packages-alist
+ '(("" "amsmath" t)
+ ("" "unicode-math" t)
+ ))
+ (setq org-latex-packages-alist
+ '(("" "graphicx" t)
+ ("" "fontspec" t)
+ ("" "xunicode" t)
+ ("" "hyperref" t)
+ ("" "url" t)
+ ("" "rotating" t)
+ ("" "longtable" nil)
+ ("" "float" )))
+
+ ;; make equations larger
+ (setq org-format-latex-options (plist-put org-format-latex-options :scale 2.0))
+
+ (defun org-create-formula--latex-header ()
+ "Return LaTeX header appropriate for previewing a LaTeX snippet."
+ (let ((info (org-combine-plists (org-export--get-global-options
+ (org-export-get-backend 'latex))
+ (org-export--get-inbuffer-options
+ (org-export-get-backend 'latex)))))
+ (org-latex-guess-babel-language
+ (org-latex-guess-inputenc
+ (org-splice-latex-header
+ org-format-latex-header
+ org-latex-default-packages-alist
+ nil t
+ (plist-get info :latex-header)))
+ info)))
+
+
+ ; support ignoring headers in org mode export to latex
+ ; from http://article.gmane.org/gmane.emacs.orgmode/67692
+ (defadvice org-latex-headline (around my-latex-skip-headlines
+ (headline contents info) activate)
+ (if (member "ignoreheading" (org-element-property :tags headline))
+ (setq ad-return-value contents)
+ ad-do-it))
+
+ ;; keep latex logfiles
+
+ (setq org-latex-remove-logfiles nil)
+
+ ;; Resume clocking task when emacs is restarted
+ (org-clock-persistence-insinuate)
+ ;;
+ ;; Show lot of clocking history so it's easy to pick items off the C-F11 list
+ (setq org-clock-history-length 23)
+ ;; Resume clocking task on clock-in if the clock is open
+ (setq org-clock-in-resume t)
+ ;; Change tasks to NEXT when clocking in; this avoids clocking in when
+ ;; there are things like PHONE calls
+ (setq org-clock-in-switch-to-state 'bh/clock-in-to-next)
+ ;; Separate drawers for clocking and logs
+ (setq org-drawers (quote ("PROPERTIES" "LOGBOOK")))
+ ;; Save clock data and state changes and notes in the LOGBOOK drawer
+ (setq org-clock-into-drawer t)
+ (setq org-log-into-drawer t)
+ ;; Sometimes I change tasks I'm clocking quickly - this removes clocked tasks with 0:00 duration
+ (setq org-clock-out-remove-zero-time-clocks t)
+ ;; Clock out when moving task to a done state
+ (setq org-clock-out-when-done t)
+ ;; Save the running clock and all clock history when exiting Emacs, load it on startup
+ (setq org-clock-persist t)
+ ;; Do not prompt to resume an active clock
+ (setq org-clock-persist-query-resume nil)
+ ;; Enable auto clock resolution for finding open clocks
+ (setq org-clock-auto-clock-resolution (quote when-no-clock-is-running))
+ ;; Include current clocking task in clock reports
+ (setq org-clock-report-include-clocking-task t)
+ ;; the cache seems to be broken
+ (setq org-element-use-cache nil)
+
+ (defvar bh/keep-clock-running nil)
+
+ (defun bh/is-task-p ()
+ "Any task with a todo keyword and no subtask"
+ (save-restriction
+ (widen)
+ (let ((has-subtask)
+ (subtree-end (save-excursion (org-end-of-subtree t)))
+ (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
+ (save-excursion
+ (forward-line 1)
+ (while (and (not has-subtask)
+ (< (point) subtree-end)
+ (re-search-forward "^\*+ " subtree-end t))
+ (when (member (org-get-todo-state) org-todo-keywords-1)
+ (setq has-subtask t))))
+ (and is-a-task (not has-subtask)))))
+ (defun bh/is-project-p ()
+ "Any task with a todo keyword subtask"
+ (save-restriction
+ (widen)
+ (let ((has-subtask)
+ (subtree-end (save-excursion (org-end-of-subtree t)))
+ (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
+ (save-excursion
+ (forward-line 1)
+ (while (and (not has-subtask)
+ (< (point) subtree-end)
+ (re-search-forward "^\*+ " subtree-end t))
+ (when (member (org-get-todo-state) org-todo-keywords-1)
+ (setq has-subtask t))))
+ (and is-a-task has-subtask))))
+
+ (defun bh/is-subproject-p ()
+ "Any task which is a subtask of another project"
+ (let ((is-subproject)
+ (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
+ (save-excursion
+ (while (and (not is-subproject) (org-up-heading-safe))
+ (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
+ (setq is-subproject t))))
+ (and is-a-task is-subproject)))
+
+
+ (defun bh/clock-in-to-next (kw)
+ "Switch a task from TODO to NEXT when clocking in.
+ Skips capture tasks, projects, and subprojects.
+ Switch projects and subprojects from NEXT back to TODO"
+ (when (not (and (boundp 'org-capture-mode) org-capture-mode))
+ (cond
+ ((and (member (org-get-todo-state) (list "TODO"))
+ (bh/is-task-p))
+ "NEXT")
+ ((and (member (org-get-todo-state) (list "NEXT"))
+ (bh/is-project-p))
+ "TODO"))))
+
+ (defun bh/punch-in (arg)
+ "Start continuous clocking and set the default task to the
+ selected task. If no task is selected set the Organization task
+ as the default task."
+ (interactive "p")
+ (setq bh/keep-clock-running t)
+ (if (equal major-mode 'org-agenda-mode)
+ ;;
+ ;; We're in the agenda
+ ;;
+ (let* ((marker (org-get-at-bol 'org-hd-marker))
+ (tags (org-with-point-at marker (org-get-tags-at))))
+ (if (and (eq arg 4) tags)
+ (org-agenda-clock-in '(16))
+ (bh/clock-in-organization-task-as-default)))
+ ;;
+ ;; We are not in the agenda
+ ;;
+ (save-restriction
+ (widen)
+ ; Find the tags on the current task
+ (if (and (equal major-mode 'org-mode) (not (org-before-first-heading-p)) (eq arg 4))
+ (org-clock-in '(16))
+ (bh/clock-in-organization-task-as-default)))))
+
+ (defun bh/punch-out ()
+ (interactive)
+ (setq bh/keep-clock-running nil)
+ (when (org-clock-is-active)
+ (org-clock-out))
+ (org-agenda-remove-restriction-lock))
+
+ (defun bh/clock-in-default-task ()
+ (save-excursion
+ (org-with-point-at org-clock-default-task
+ (org-clock-in))))
+
+ (defun bh/clock-in-parent-task ()
+ "Move point to the parent (project) task if any and clock in"
+ (let ((parent-task))
+ (save-excursion
+ (save-restriction
+ (widen)
+ (while (and (not parent-task) (org-up-heading-safe))
+ (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
+ (setq parent-task (point))))
+ (if parent-task
+ (org-with-point-at parent-task
+ (org-clock-in))
+ (when bh/keep-clock-running
+ (bh/clock-in-default-task)))))))
+
+ (defvar bh/organization-task-id "e22cb8bf-07c7-408b-8f60-ff3aadac95e4")
+
+ (defun bh/clock-in-organization-task-as-default ()
+ (interactive)
+ (org-with-point-at (org-id-find bh/organization-task-id 'marker)
+ (org-clock-in '(16))))
+
+ (defun bh/clock-out-maybe ()
+ (when (and bh/keep-clock-running
+ (not org-clock-clocking-in)
+ (marker-buffer org-clock-default-task)
+ (not org-clock-resolving-clocks-due-to-idleness))
+ (bh/clock-in-parent-task)))
+
+ ; (add-hook 'org-clock-out-hook 'bh/clock-out-maybe 'append)
+
+ (require 'org-id)
+ (defun bh/clock-in-task-by-id (id)
+ "Clock in a task by id"
+ (org-with-point-at (org-id-find id 'marker)
+ (org-clock-in nil)))
+
+ (defun bh/clock-in-last-task (arg)
+ "Clock in the interrupted task if there is one
+ Skip the default task and get the next one.
+ A prefix arg forces clock in of the default task."
+ (interactive "p")
+ (let ((clock-in-to-task
+ (cond
+ ((eq arg 4) org-clock-default-task)
+ ((and (org-clock-is-active)
+ (equal org-clock-default-task (cadr org-clock-history)))
+ (caddr org-clock-history))
+ ((org-clock-is-active) (cadr org-clock-history))
+ ((equal org-clock-default-task (car org-clock-history)) (cadr org-clock-history))
+ (t (car org-clock-history)))))
+ (widen)
+ (org-with-point-at clock-in-to-task
+ (org-clock-in nil))))
+
+
+ (defun org-export-to-ods ()
+ (interactive)
+ (let ((csv-file "data.csv"))
+ (org-table-export csv-file "orgtbl-to-csv")
+ (org-odt-convert csv-file "ods" 'open)))
+
+ ; allow for zero-width-space to be a break in regexp too
+ ; (setcar org-emphasis-regexp-components " [:space:] \t('\"{")
+ ; (setcar (nthcdr 1 org-emphasis-regexp-components) " [:space:]- \t.,:!?;'\")}\\")
+ ; (org-set-emph-re 'org-emphasis-regexp-components org-emphasis-regexp-components)
+
+ ;; support inserting screen shots
+ (defun my/org-insert-screenshot ()
+ "Take a screenshot into a time stamped unique-named file in the
+ same directory as the org-buffer and insert a link to this file."
+ (interactive)
+ (defvar my/org-insert-screenshot/filename)
+ (setq my/org-insert-screenshot/filename
+ (read-file-name
+ "Screenshot to insert: "
+ nil
+ (concat (buffer-file-name) "_" (format-time-string "%Y%m%d_%H%M%S") ".png")
+ )
+ )
+ (call-process "import" nil nil nil my/org-insert-screenshot/filename)
+ (insert (concat "[[" my/org-insert-screenshot/filename "]]"))
+ (org-display-inline-images))
+
+ (defun my/fix-inline-images ()
+ (when org-inline-image-overlays
+ (org-redisplay-inline-images)))
+
+ (add-hook 'org-babel-after-execute-hook 'my/fix-inline-images)
+
+ ;; use xelatex to preview with imagemagick
+ (add-to-list 'org-preview-latex-process-alist
+ '(xelateximagemagick
+ :programs ("xelatex" "convert")
+ :description "pdf > png"
+ :message "you need to install xelatex and imagemagick"
+ :use-xcolor t
+ :image-input-type "pdf"
+ :image-output-type "png"
+ :image-size-adjust (1.0 . 1.0)
+ :latex-compiler ("xelatex -interaction nonstopmode -output-directory %o %f")
+ :image-converter ("convert -density %D -trim -antialias %f -quality 100 %O"))
+ )
+ ;; use xelatex by default
+ (setq org-preview-latex-default-process 'xelateximagemagick)
+
+ ; from http://orgmode.org/Changes.html
+ (defun my/org-repair-property-drawers ()
+ "Fix properties drawers in current buffer.
+ Ignore non Org buffers."
+ (interactive)
+ (when (eq major-mode 'org-mode)
+ (org-with-wide-buffer
+ (goto-char (point-min))
+ (let ((case-fold-search t)
+ (inline-re (and (featurep 'org-inlinetask)
+ (concat (org-inlinetask-outline-regexp)
+ "END[ \t]*$"))))
+ (org-map-entries
+ (lambda ()
+ (unless (and inline-re (org-looking-at-p inline-re))
+ (save-excursion
+ (let ((end (save-excursion (outline-next-heading) (point))))
+ (forward-line)
+ (when (org-looking-at-p org-planning-line-re) (forward-line))
+ (when (and (< (point) end)
+ (not (org-looking-at-p org-property-drawer-re))
+ (save-excursion
+ (and (re-search-forward org-property-drawer-re end t)
+ (eq (org-element-type
+ (save-match-data (org-element-at-point)))
+ 'drawer))))
+ (insert (delete-and-extract-region
+ (match-beginning 0)
+ (min (1+ (match-end 0)) end)))
+ (unless (bolp) (insert "\n"))))))))))))
+
+#+END_SRC
+** Org-Gcal
+#+BEGIN_SRC emacs-lisp
+ (use-package calfw
+ :ensure f
+ )
+ (use-package calfw-org
+ :ensure f
+ )
+ (use-package org-gcal
+ :ensure f
+ :config '((if (file-readable-p "~/.hide/org_gcal.el")
+ (load-file "~/.hide/org_gcal.el"))
+ )
+ )
+#+END_SRC
+** End use-package
+#+BEGIN_SRC emacs-lisp
+ )
+#+END_SRC
* Keybindings
** Override other things
-#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
+#+BEGIN_SRC emacs-lisp
; apparently things like to step on C-;, so we'll use a hack from
; http://stackoverflow.com/questions/683425/globally-override-key-binding-in-emacs/5340797#5340797 to fix this
(defvar my-keys-minor-mode-map (make-keymap) "my-keys-minor-mode keymap.")
- ; use iedit everywhere
- (define-key my-keys-minor-mode-map (kbd "C-;") 'iedit-mode)
+ ; use mc everywhere
+ (define-key my-keys-minor-mode-map (kbd "C-;") 'mc/mark-all-dwim)
;; use outline mode keybindings everywhere
- (define-key my-keys-minor-mode-map (kbd "C-;") 'my/mydra-outline/body)
+ ;; (define-key my-keys-minor-mode-map (kbd "C-;") 'my/mydra-outline/body)
(define-minor-mode my-keys-minor-mode
"A minor mode so that my key settings override annoying major modes."
(add-to-list 'minor-mode-map-alist mykeys))))
(ad-activate 'load)
#+END_SRC
+** Goto line
+#+BEGIN_SRC emacs-lisp
+ (global-unset-key "\M-g")
+ (global-set-key (kbd "M-g l") 'goto-line)
+#+END_SRC
+* Misc (uncharacterized)
+#+BEGIN_SRC emacs-lisp
+ (setq calendar-latitude 40.11)
+ (setq calendar-longitude -88.24)
+ (setq case-fold-search t)
+ (setq confirm-kill-emacs (quote y-or-n-p))
+ (setq cperl-lazy-help-time nil)
+ (setq debian-changelog-mailing-address "don@debian.org")
+ (display-time)
+ (setq display-time-24hr-format t)
+ (setq display-time-day-and-date t)
+ (display-time-mode 1)
+ (global-auto-revert-mode 1)
+ (global-font-lock-mode 1)
+ (icomplete-mode 1)
+ (setq log-edit-keep-buffer t)
+ (setq mail-user-agent (quote sendmail-user-agent))
+ (setq markdown-enable-math t)
+ (setq markdown-follow-wiki-link-on-enter nil)
+ (setq mutt-alias-file-list (quote ("~/.mutt/aliases" "~/.mail_aliases")))
+ (setq ps-footer-font-size (quote (8 . 10)))
+ (setq ps-header-font-size (quote (8 . 10)))
+ (setq ps-header-title-font-size (quote (10 . 10)))
+ (setq ps-line-number-color "blue")
+ (setq ps-print-footer t)
+ (setq ps-print-footer-frame nil)
+ (setq ps-print-only-one-header t)
+ (setq sentence-end "[.?!][]\"')]*\\($\\| \\| \\)[
+ ]*")
+ (setq sentence-end-double-space nil)
+ ; enable matching parenthesis
+ (show-paren-mode 1)
+ (tool-bar-mode -1)
+ (setq user-mail-address "don@donarmstrong.com")
+ (setq vc-delete-logbuf-window nil)
+ (setq vc-follow-symlinks t)
+
+ ;; use git before SVN; use CVS earlier, because I have CVS
+ ;; repositories inside of git directories
+ (setq vc-handled-backends (quote (CVS Git RCS SVN SCCS Bzr Hg Mtn Arch)))
+
+ ;; switch back to the old primary selection method
+ (setq x-select-enable-clipboard nil)
+ (setq x-select-enable-primary t)
+ ; (setq mouse-drag-copy-region t)
+
+ (fset 'perl-mode 'cperl-mode)
+ ;;(load-file "cperl-mode.el")
+
+ (require 'vcl-mode)
+
+ (global-set-key "\C-xp" 'server-edit)
+
+ (setq-default auto-mode-alist (cons '("\.wml$" .
+ (lambda () (html-mode) (auto-fill-mode)))
+ auto-mode-alist))
+
+
+ ; use markdown mode for mdwn files
+ (add-to-list 'auto-mode-alist '("\\.mdwn$" . markdown-mode))
+ (add-to-list 'auto-mode-alist '("\\.md$" . markdown-mode))
+
+
+ ;; tramp configuration
+ (setq tramp-use-ssh-controlmaster-options nil)
+
+ ;; self-insert-command hack.
+ ;; Without this, "if<SP>" expands to
+ ;; if ( -!-) {
+ ;; }
+ ;; which really should be,
+ ;; if (-!-) {
+ ;; }
+
+
+
+ ;(load-library "php-mode")
+
+ (setq-default c-indent-level 4)
+ (setq-default c-brace-imaginary-offset 0)
+ (setq-default c-brace-offset -4)
+ (setq-default c-argdecl-indent 4)
+ (setq-default c-label-offset -4)
+ (setq-default c-continued-statement-offset 4)
+ ; tabs are annoying
+ (setq-default indent-tabs-mode nil)
+ (setq-default tab-width 4)
+
+
+ ;; (autoload 'php-mode "php-mode" "PHP editing mode" t)
+ ;; (add-to-list 'auto-mode-alist '("\\.php3?\\'" . php-mode))
+ ;; (add-to-list 'auto-mode-alist '("\\.phtml?\\'" . php-mode))
+ ;; (add-to-list 'auto-mode-alist '("\\.php?\\'" . php-mode))
+ ;; (add-to-list 'auto-mode-alist '("\\.php4?\\'" . php-mode))
+
+
+ (defun insert-date ()
+ "Insert date at point."
+ (interactive)
+ (insert (format-time-string "%A, %B %e, %Y %k:%M:%S %Z")))
+ (global-set-key "\C-[d" 'insert-date)
+
+ (defun unfill-paragraph (arg)
+ "Pull this whole paragraph up onto one line."
+ (interactive "*p")
+ (let ((fill-column 10000))
+ (fill-paragraph arg))
+ )
+
+ (column-number-mode t)
+
+ ; (require 'mode-compile)
+
+ (defadvice server-process-filter (after post-mode-message first activate)
+ "If the buffer is in post mode, overwrite the server-edit
+ message with a post-save-current-buffer-and-exit message."
+ (if (eq major-mode 'post-mode)
+ (message
+ (substitute-command-keys "Type \\[describe-mode] for help composing; \\[post-save-current-buffer-and-exit] when done."))))
+ ; This is also needed to see the magic message. Set to a higher
+ ; number if you have a faster computer or read slower than me.
+ '(font-lock-verbose 1000)
+ ;(setq-default server-temp-file-regexp "mutt\(-\|ng-\)")
+ ; (add-hook 'server-switch-hook
+ ; (function (lambda()
+ ; (cond ((string-match "Post" mode-name)
+ ; (post-goto-body)))
+ ; set-buffer-file-coding-system 'utf-8
+ ; )))
+ ;
+
+ (add-hook 'post-mode-hook
+ (auto-fill-mode nil)
+ )
+ ; abbrev mode settings
+ ; load abbreviations from
+ (setq abbrev-file-name
+ "~/.emacs_abbrev_def")
+
+ ; read the abbrev file if it exists
+ (if (file-exists-p abbrev-file-name)
+ (quietly-read-abbrev-file))
+
+ ; for now, use abbrev mode everywhere
+ (setq default-abbrev-mode t)
+
+
+ (defun insert-function-documentation ()
+ "Insert function documentation"
+ (interactive)
+ (insert-file-contents "/home/don/lib/templates/perl_function_documentation" nil))
+ (global-set-key "\M-f" 'insert-function-documentation)
+
+ (eval-after-load "lilypond-mode"
+ '(progn
+ (load-library "lyqi-mode")
+ (define-key LilyPond-mode-map "\C-cq" 'lyqi-mode)))
+
+ (autoload 'spamassassin-mode "spamassassin-mode" nil t)
+
+ (desktop-load-default)
+ (desktop-read)
+ '(icomplete-mode on)
+ (custom-set-faces
+ ;; custom-set-faces was added by Custom.
+ ;; If you edit it by hand, you could mess it up, so be careful.
+ ;; Your init file should contain only one such instance.
+ ;; If there is more than one, they won't work right.
+ '(menu ((((type x-toolkit)) (:background "black" :foreground "grey90")))))
+
+
+ (put 'upcase-region 'disabled nil)
+ (put 'downcase-region 'disabled nil)
+ (put 'narrow-to-region 'disabled nil)
+
+ ; (defun turn-on-flyspell ()
+ ; "Force flyspell-mode on using a positive arg. For use in hooks."
+ ; (interactive)
+ ; (flyspell-mode 1))
+
+
+ ; Outline-minor-mode key map
+ (define-prefix-command 'cm-map nil "Outline-")
+ ; HIDE
+ (define-key cm-map "q" 'hide-sublevels) ; Hide everything but the top-level headings
+ (define-key cm-map "t" 'hide-body) ; Hide everything but headings (all body lines)
+ (define-key cm-map "o" 'hide-other) ; Hide other branches
+ (define-key cm-map "c" 'hide-entry) ; Hide this entry's body
+ (define-key cm-map "l" 'hide-leaves) ; Hide body lines in this entry and sub-entries
+ (define-key cm-map "d" 'hide-subtree) ; Hide everything in this entry and sub-entries
+ ; SHOW
+ (define-key cm-map "a" 'show-all) ; Show (expand) everything
+ (define-key cm-map "e" 'show-entry) ; Show this heading's body
+ (define-key cm-map "i" 'show-children) ; Show this heading's immediate child sub-headings
+ (define-key cm-map "k" 'show-branches) ; Show all sub-headings under this heading
+ (define-key cm-map "s" 'show-subtree) ; Show (expand) everything in this heading & below
+ ; MOVE
+ (define-key cm-map "u" 'outline-up-heading) ; Up
+ (define-key cm-map "n" 'outline-next-visible-heading) ; Next
+ (define-key cm-map "p" 'outline-previous-visible-heading) ; Previous
+ (define-key cm-map "f" 'outline-forward-same-level) ; Forward - same level
+ (define-key cm-map "b" 'outline-backward-same-level) ; Backward - same level
+ (global-set-key "\M-o" cm-map)
+
+
+ ; debian stuff
+ (setq-default debian-changelog-mailing-address "don@debian.org")
+ (setq-default debian-changelog-full-name "Don Armstrong")
+
+ ; ediff configuration
+ ; don't use the multi-window configuration
+ (setq ediff-window-setup-function 'ediff-setup-windows-plain)
+
+ ; fix up css mode to not be silly
+ ; from http://www.stokebloke.com/wordpress/2008/03/21/css-mode-indent-buffer-fix/
+ (setq cssm-indent-level 4)
+ (setq cssm-newline-before-closing-bracket t)
+ (setq cssm-indent-function #'cssm-c-style-indenter)
+ (setq cssm-mirror-mode nil)
+
+ (require 'multi-web-mode)
+ (setq mweb-default-major-mode 'html-mode)
+ (setq mweb-tags '((php-mode "<\\?php\\|<\\? \\|<\\?=" "\\?>")
+ (js-mode "<script +\\(type=\"text/javascript\"\\|language=\"javascript\"\\)[^>]*>" "</script>")
+ (css-mode "<style +type=\"text/css\"[^>]*>" "</style>")))
+ (setq mweb-filename-extensions '("php" "htm" "html" "ctp" "phtml" "php4" "php5"))
+ (multi-web-global-mode 1)
+
+ ;;; alias the new `flymake-report-status-slim' to
+ ;;; `flymake-report-status'
+ (defalias 'flymake-report-status 'flymake-report-status-slim)
+ (defun flymake-report-status-slim (e-w &optional status)
+ "Show \"slim\" flymake status in mode line."
+ (when e-w
+ (setq flymake-mode-line-e-w e-w))
+ (when status
+ (setq flymake-mode-line-status status))
+ (let* ((mode-line " Φ"))
+ (when (> (length flymake-mode-line-e-w) 0)
+ (setq mode-line (concat mode-line ":" flymake-mode-line-e-w)))
+ (setq mode-line (concat mode-line flymake-mode-line-status))
+ (setq flymake-mode-line mode-line)
+ (force-mode-line-update)))
+
+ ; load sql-indent when sql is loaded
+ (eval-after-load "sql"
+ '(load-library "sql-indent"))
+
+ ; fix up tmux xterm keys
+ ; stolen from http://unix.stackexchange.com/questions/24414/shift-arrow-not-working-in-emacs-within-tmux
+ (defun fix-up-tmux-keys ()
+ "Fix up tmux xterm keys"
+ (if (getenv "TMUX")
+ (progn
+ (let ((x 2) (tkey ""))
+ (while (<= x 8)
+ ;; shift
+ (if (= x 2)
+ (setq tkey "S-"))
+ ;; alt
+ (if (= x 3)
+ (setq tkey "M-"))
+ ;; alt + shift
+ (if (= x 4)
+ (setq tkey "M-S-"))
+ ;; ctrl
+ (if (= x 5)
+ (setq tkey "C-"))
+ ;; ctrl + shift
+ (if (= x 6)
+ (setq tkey "C-S-"))
+ ;; ctrl + alt
+ (if (= x 7)
+ (setq tkey "C-M-"))
+ ;; ctrl + alt + shift
+ (if (= x 8)
+ (setq tkey "C-M-S-"))
+
+ ;; arrows
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d A" x)) (kbd (format "%s<up>" tkey)))
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d B" x)) (kbd (format "%s<down>" tkey)))
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d C" x)) (kbd (format "%s<right>" tkey)))
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d D" x)) (kbd (format "%s<left>" tkey)))
+ ;; home
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d H" x)) (kbd (format "%s<home>" tkey)))
+ ;; end
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d F" x)) (kbd (format "%s<end>" tkey)))
+ ;; page up
+ (define-key key-translation-map (kbd (format "M-[ 5 ; %d ~" x)) (kbd (format "%s<prior>" tkey)))
+ ;; page down
+ (define-key key-translation-map (kbd (format "M-[ 6 ; %d ~" x)) (kbd (format "%s<next>" tkey)))
+ ;; insert
+ (define-key key-translation-map (kbd (format "M-[ 2 ; %d ~" x)) (kbd (format "%s<delete>" tkey)))
+ ;; delete
+ (define-key key-translation-map (kbd (format "M-[ 3 ; %d ~" x)) (kbd (format "%s<delete>" tkey)))
+ ;; f1
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d P" x)) (kbd (format "%s<f1>" tkey)))
+ ;; f2
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d Q" x)) (kbd (format "%s<f2>" tkey)))
+ ;; f3
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d R" x)) (kbd (format "%s<f3>" tkey)))
+ ;; f4
+ (define-key key-translation-map (kbd (format "M-[ 1 ; %d S" x)) (kbd (format "%s<f4>" tkey)))
+ ;; f5
+ (define-key key-translation-map (kbd (format "M-[ 15 ; %d ~" x)) (kbd (format "%s<f5>" tkey)))
+ ;; f6
+ (define-key key-translation-map (kbd (format "M-[ 17 ; %d ~" x)) (kbd (format "%s<f6>" tkey)))
+ ;; f7
+ (define-key key-translation-map (kbd (format "M-[ 18 ; %d ~" x)) (kbd (format "%s<f7>" tkey)))
+ ;; f8
+ (define-key key-translation-map (kbd (format "M-[ 19 ; %d ~" x)) (kbd (format "%s<f8>" tkey)))
+ ;; f9
+ (define-key key-translation-map (kbd (format "M-[ 20 ; %d ~" x)) (kbd (format "%s<f9>" tkey)))
+ ;; f10
+ (define-key key-translation-map (kbd (format "M-[ 21 ; %d ~" x)) (kbd (format "%s<f10>" tkey)))
+ ;; f11
+ (define-key key-translation-map (kbd (format "M-[ 23 ; %d ~" x)) (kbd (format "%s<f11>" tkey)))
+ ;; f12
+ (define-key key-translation-map (kbd (format "M-[ 24 ; %d ~" x)) (kbd (format "%s<f12>" tkey)))
+ ;; f13
+ (define-key key-translation-map (kbd (format "M-[ 25 ; %d ~" x)) (kbd (format "%s<f13>" tkey)))
+ ;; f14
+ (define-key key-translation-map (kbd (format "M-[ 26 ; %d ~" x)) (kbd (format "%s<f14>" tkey)))
+ ;; f15
+ (define-key key-translation-map (kbd (format "M-[ 28 ; %d ~" x)) (kbd (format "%s<f15>" tkey)))
+ ;; f16
+ (define-key key-translation-map (kbd (format "M-[ 29 ; %d ~" x)) (kbd (format "%s<f16>" tkey)))
+ ;; f17
+ (define-key key-translation-map (kbd (format "M-[ 31 ; %d ~" x)) (kbd (format "%s<f17>" tkey)))
+ ;; f18
+ (define-key key-translation-map (kbd (format "M-[ 32 ; %d ~" x)) (kbd (format "%s<f18>" tkey)))
+ ;; f19
+ (define-key key-translation-map (kbd (format "M-[ 33 ; %d ~" x)) (kbd (format "%s<f19>" tkey)))
+ ;; f20
+ (define-key key-translation-map (kbd (format "M-[ 34 ; %d ~" x)) (kbd (format "%s<f20>" tkey)))
+
+ (setq x (+ x 1))
+ ))
+ )
+ )
+ )
+ ; (add-hook 'tty-setup-hook 'fix-up-tmux-keys)
+
+ ; procmailmode configuration
+ (load "procmail_mode")
+
+ (load "mode-line-cleaner")
+
+ (defadvice ask-user-about-supersession-threat (around ask-user-about-supersession-threat-if-necessary)
+ "Call ask-user-about-supersession-threat only if the buffer is actually obsolete."
+ (if (or (buffer-modified-p)
+ (verify-visited-file-modtime)
+ (< (* 8 1024 1024) (buffer-size))
+ (/= 0 (call-process-region 1 (+ 1 (buffer-size)) "diff" nil nil nil "-q" (buffer-file-name) "-")))
+ ad-do-it
+ (clear-visited-file-modtime)
+ (not-modified)))
+ (ad-activate 'ask-user-about-supersession-threat)
+
+ ; apparently things like to step on C-;, so we'll use a hack from
+ ; http://stackoverflow.com/questions/683425/globally-override-key-binding-in-emacs/5340797#5340797 to fix this
+
+ (defvar my-keys-minor-mode-map (make-keymap) "my-keys-minor-mode keymap.")
+
+ ; use iedit everywhere
+ (define-key my-keys-minor-mode-map (kbd "C-;") 'mc/mark-all-dwim)
+
+ (define-minor-mode my-keys-minor-mode
+ "A minor mode so that my key settings override annoying major modes."
+ t " my-keys" 'my-keys-minor-mode-map)
+
+ (my-keys-minor-mode 1)
+ (defun my-minibuffer-setup-hook ()
+ (my-keys-minor-mode 0))
+
+ (add-hook 'minibuffer-setup-hook 'my-minibuffer-setup-hook)
+ (defadvice load (after give-my-keybindings-priority)
+ "Try to ensure that my keybindings always have priority."
+ (if (not (eq (car (car minor-mode-map-alist)) 'my-keys-minor-mode))
+ (let ((mykeys (assq 'my-keys-minor-mode minor-mode-map-alist)))
+ (assq-delete-all 'my-keys-minor-mode minor-mode-map-alist)
+ (add-to-list 'minor-mode-map-alist mykeys))))
+ (ad-activate 'load)
+ (global-set-key "\M- " 'hippie-expand)
+
+#+END_SRC
+
+* Server
+#+BEGIN_SRC emacs-lisp
+ (unless (server-running-p)
+ (server-start))
+#+END_SRC
+
+
* END
-#+BEGIN_SRC emacs-lisp :tangle don-configuration.el
+#+BEGIN_SRC emacs-lisp
(provide 'don-configuration)
#+END_SRC
projects / lib.git / blobdiff