emacs_el/configuration/org-mode-configuration.el

   1 (require 'org-id)
   2 (require 'reftex)
   3 (require 'gnus)
   4
   5 ;; The following lines are always needed. Choose your own keys.
   6 (add-to-list 'auto-mode-alist '("\\.\\(org\\|org_archive\\|txt\\)$" . org-mode))
   7 (require 'org)
   8 (global-set-key "\C-cl" 'org-store-link)
   9 (global-set-key "\C-ca" 'org-agenda)
  10 (global-set-key "\C-cb" 'org-iswitchb)
  11 (setq-default org-log-done 'time)
  12 (setq-default org-agenda-ndays 5)
  13
  14 ;; agenda configuration
  15 ;; Do not dim blocked tasks
  16 (setq org-agenda-dim-blocked-tasks nil)
  17
  18 ;; Compact the block agenda view
  19 (setq org-agenda-compact-blocks t)
  20
  21 ;; Custom agenda command definitions
  22 (setq org-agenda-custom-commands
  23       (quote (("N" "Notes" tags "NOTE"
  24                ((org-agenda-overriding-header "Notes")
  25                 (org-tags-match-list-sublevels t)))
  26               ("h" "Habits" tags-todo "STYLE=\"habit\""
  27                ((org-agenda-overriding-header "Habits")
  28                 (org-agenda-sorting-strategy
  29                  '(todo-state-down effort-up category-keep))))
  30               (" " "Agenda"
  31                ((agenda "" nil)
  32                 (tags "REFILE"
  33                       ((org-agenda-overriding-header "Tasks to Refile")
  34                        (org-tags-match-list-sublevels nil)))
  35                 (tags-todo "-CANCELLED/!"
  36                            ((org-agenda-overriding-header "Stuck Projects")
  37                             (org-agenda-skip-function 'bh/skip-non-stuck-projects)
  38                             (org-agenda-sorting-strategy
  39                              '(category-keep))))
  40                 (tags-todo "-HOLD-CANCELLED/!"
  41                            ((org-agenda-overriding-header "Projects")
  42                             (org-agenda-skip-function 'bh/skip-non-projects)
  43                             (org-tags-match-list-sublevels 'indented)
  44                             (org-agenda-sorting-strategy
  45                              '(category-keep))))
  46                 (tags-todo "-CANCELLED/!NEXT"
  47                            ((org-agenda-overriding-header (concat "Project Next Tasks"
  48                                                                   (if bh/hide-scheduled-and-waiting-next-tasks
  49                                                                       ""
  50                                                                     " (including WAITING and SCHEDULED tasks)")))
  51                             (org-agenda-skip-function 'bh/skip-projects-and-habits-and-single-tasks)
  52                             (org-tags-match-list-sublevels t)
  53                             (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
  54                             (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
  55                             (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
  56                             (org-agenda-sorting-strategy
  57                              '(todo-state-down effort-up category-keep))))
  58                 (tags-todo "-REFILE-CANCELLED-WAITING-HOLD/!"
  59                            ((org-agenda-overriding-header (concat "Project Subtasks"
  60                                                                   (if bh/hide-scheduled-and-waiting-next-tasks
  61                                                                       ""
  62                                                                     " (including WAITING and SCHEDULED tasks)")))
  63                             (org-agenda-skip-function 'bh/skip-non-project-tasks)
  64                             (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
  65                             (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
  66                             (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
  67                             (org-agenda-sorting-strategy
  68                              '(category-keep))))
  69                 (tags-todo "-REFILE-CANCELLED-WAITING-HOLD/!"
  70                            ((org-agenda-overriding-header (concat "Standalone Tasks"
  71                                                                   (if bh/hide-scheduled-and-waiting-next-tasks
  72                                                                       ""
  73                                                                     " (including WAITING and SCHEDULED tasks)")))
  74                             (org-agenda-skip-function 'bh/skip-project-tasks)
  75                             (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
  76                             (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
  77                             (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
  78                             (org-agenda-sorting-strategy
  79                              '(category-keep))))
  80                 (tags-todo "-CANCELLED+WAITING|HOLD/!"
  81                            ((org-agenda-overriding-header "Waiting and Postponed Tasks")
  82                             (org-agenda-skip-function 'bh/skip-stuck-projects)
  83                             (org-tags-match-list-sublevels nil)
  84                             (org-agenda-todo-ignore-scheduled t)
  85                             (org-agenda-todo-ignore-deadlines t)))
  86                 (tags "-REFILE/"
  87                       ((org-agenda-overriding-header "Tasks to Archive")
  88                        (org-agenda-skip-function 'bh/skip-non-archivable-tasks)
  89                        (org-tags-match-list-sublevels nil))))
  90                nil))))
  91
  92 ; org mode agenda files
  93 (setq org-agenda-files
  94       (quote ("~/projects/debbugs/debbugs.org"
  95               "~/projects/notes/notes.org"
  96               "~/projects/notes/refile.org"
  97               "~/projects/notes/diary.org"
  98               "~/projects/origins_of_life/ool.org"
  99               "~/projects/sysadmin/sndservers/sndservers.org"
 100               "~/projects/chaim/chaim.org"
 101               "~/projects/chaim/papers/gwas_paper_2012/gwas_paper.org"
 102           "~/projects/reviews/reviews.org"
 103               "~/projects/fh/fh.org")))
 104
 105 (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")))
 106 (setq org-columns-default-format "%40ITEM(Task) %TAGS %PRIORITY %TODO %13SCHEDULED %13DEADLINE %6Effort{:}  %CLOCKSUM")
 107
 108 (setq org-default-notes-file "~/projects/notes/notes.org")
 109 (setq org-capture-templates  ;; mail-specific note template, identified by "m"
 110       '(("m" "Mail" entry (file+headline "~/projects/notes/refile.org" "Mail")
 111          "* %?\n\n  Source: %u, %c\n  %i")
 112         ("t" "todo" entry (file "~/projects/notes/refile.org")
 113          "* TODO %?\n%U\n%a\n" :clock-in t :clock-resume t)
 114         ("r" "respond" entry (file "~/projects/notes/refile.org")
 115          "* NEXT Respond to %:from on %:subject\nSCHEDULED: %t\n%U\n%a\n" :clock-in t :clock-resume t :immediate-finish t)
 116         ("n" "note" entry (file "~/projects/notes/refile.org")
 117          "* %? :NOTE:\n%U\n%a\n" :clock-in t :clock-resume t)
 118         ("s" "schedule" entry (file "~/projects/notes/refile.org")
 119          "* %? \n%^{scheduled:}t\n%U\n%a\n" :clock-in t :clock-resume t)
 120         ("j" "Journal" entry (file+datetree "~/projects/notes/diary.org")
 121          "* %?\n%U\n" :clock-in t :clock-resume t)
 122         ("w" "org-protocol" entry (file "~/projects/notes/refile.org")
 123          "* TODO Review %c\n%U\n" :immediate-finish t)
 124         ("m" "Meeting" entry (file "~/projects/notes/refile.org")
 125          "* MEETING with %? :MEETING:\n%U" :clock-in t :clock-resume t)
 126         ("p" "Phone call" entry (file "~/projects/notes/refile.org")
 127          "* PHONE %? :PHONE:\n%U" :clock-in t :clock-resume t)
 128         ("J" "job" entry (file "~/projects/notes/refile.org")
 129          "* TODO Apply for %a%? :job:\n%U\n" :clock-in t :clock-resume t)
 130         ("h" "Habit" entry (file "~/projects/notes/refile.org")
 131          "* NEXT %?\n%U\n%a\nSCHEDULED: %(format-time-string \"<%Y-%m-%d %a .+1d/3d>\")\n:PROPERTIES:\n:STYLE: habit\n:REPEAT_TO_STATE: NEXT\n:END:\n")
 132         )
 133       )
 134
 135 ;; Remove empty LOGBOOK drawers on clock out
 136 (defun bh/remove-empty-drawer-on-clock-out ()
 137   (interactive)
 138   (save-excursion
 139     (beginning-of-line 0)
 140     (org-remove-empty-drawer-at "LOGBOOK" (point))))
 141
 142 (defun my/org-add-id ()
 143   (interactive)
 144   (save-excursion
 145     (if (org-current-level)
 146         ()
 147       (forward-char 1)
 148       )
 149     (org-id-get-create)
 150     )
 151 )
 152
 153 ; org mode configuration from http://doc.norang.ca/org-mode.html
 154 ;; Custom Key Bindings
 155 (global-set-key (kbd "<f12>") 'org-agenda)
 156 (global-set-key (kbd "<f5>") 'bh/org-todo)
 157 (global-set-key (kbd "<S-f5>") 'bh/widen)
 158 (global-set-key (kbd "<f7>") 'bh/set-truncate-lines)
 159 (global-set-key (kbd "<f8>") 'org-cycle-agenda-files)
 160 (global-set-key (kbd "<f9> <f9>") 'bh/show-org-agenda)
 161 (global-set-key (kbd "<f9> b") 'bbdb)
 162 (global-set-key (kbd "<f9> c") 'calendar)
 163 (global-set-key (kbd "<f9> f") 'boxquote-insert-file)
 164 (global-set-key (kbd "<f9> h") 'bh/hide-other)
 165 (global-set-key (kbd "<f9> n") 'bh/toggle-next-task-display)
 166 (global-set-key (kbd "<f9> w") 'widen)
 167
 168 ; change the outline mode prefix from C-c @ to C-c C-2
 169 (setq outline-minor-mode-prefix "C-c C-2")
 170 (add-hook 'outline-minor-mode-hook
 171           (lambda () (local-set-key (kbd "C-c C-2")
 172                                     outline-mode-prefix-map)))
 173
 174 (global-set-key (kbd "<f9> I") 'bh/punch-in)
 175 (global-set-key (kbd "<f9> O") 'bh/punch-out)
 176
 177 (global-set-key (kbd "<f9> o") 'bh/make-org-scratch)
 178
 179 (global-set-key (kbd "<f9> r") 'boxquote-region)
 180 (global-set-key (kbd "<f9> s") 'bh/switch-to-scratch)
 181
 182 (global-set-key (kbd "<f9> t") 'bh/insert-inactive-timestamp)
 183 (global-set-key (kbd "<f9> T") 'bh/toggle-insert-inactive-timestamp)
 184
 185 (global-set-key (kbd "<f9> v") 'visible-mode)
 186 (global-set-key (kbd "<f9> l") 'org-toggle-link-display)
 187 (global-set-key (kbd "<f9> SPC") 'bh/clock-in-last-task)
 188 (global-set-key (kbd "C-<f9>") 'previous-buffer)
 189 (global-set-key (kbd "M-<f9>") 'org-toggle-inline-images)
 190 (global-set-key (kbd "C-x n r") 'narrow-to-region)
 191 (global-set-key (kbd "C-<f10>") 'next-buffer)
 192 (global-set-key (kbd "<f11>") 'org-clock-goto)
 193 (global-set-key (kbd "C-<f11>") 'org-clock-in)
 194 (global-set-key (kbd "C-s-<f12>") 'bh/save-then-publish)
 195 (global-set-key (kbd "C-c c") 'org-capture)
 196
 197 (defun bh/hide-other ()
 198   (interactive)
 199   (save-excursion
 200     (org-back-to-heading 'invisible-ok)
 201     (hide-other)
 202     (org-cycle)
 203     (org-cycle)
 204     (org-cycle)))
 205
 206 (defun bh/set-truncate-lines ()
 207   "Toggle value of truncate-lines and refresh window display."
 208   (interactive)
 209   (setq truncate-lines (not truncate-lines))
 210   ;; now refresh window display (an idiom from simple.el):
 211   (save-excursion
 212     (set-window-start (selected-window)
 213                       (window-start (selected-window)))))
 214
 215 (defun bh/make-org-scratch ()
 216   (interactive)
 217   (find-file "/tmp/publish/scratch.org")
 218   (gnus-make-directory "/tmp/publish"))
 219
 220 (defun bh/switch-to-scratch ()
 221   (interactive)
 222   (switch-to-buffer "*scratch*"))
 223
 224 (setq org-use-fast-todo-selection t)
 225 (setq org-treat-S-cursor-todo-selection-as-state-change nil)
 226
 227 (setq org-todo-keywords
 228       (quote ((sequence "TODO(t)" "NEXT(n)" "|" "DONE(d)")
 229               (sequence "WAITING(w@/!)" "HOLD(h@/!)" "|" "CANCELLED(c@/!)" "PHONE" "MEETING"))))
 230
 231 (setq org-todo-keyword-faces
 232       (quote (("TODO" :foreground "red" :weight bold)
 233               ("NEXT" :foreground "blue" :weight bold)
 234               ("DONE" :foreground "forest green" :weight bold)
 235               ("WAITING" :foreground "orange" :weight bold)
 236               ("HOLD" :foreground "magenta" :weight bold)
 237               ("CANCELLED" :foreground "forest green" :weight bold)
 238               ("MEETING" :foreground "forest green" :weight bold)
 239               ("PHONE" :foreground "forest green" :weight bold))))
 240
 241 (setq org-todo-state-tags-triggers
 242       (quote (("CANCELLED" ("CANCELLED" . t))
 243               ("WAITING" ("WAITING" . t))
 244               ("HOLD" ("WAITING") ("HOLD" . t))
 245               (done ("WAITING") ("HOLD"))
 246               ("TODO" ("WAITING") ("CANCELLED") ("HOLD"))
 247               ("NEXT" ("WAITING") ("CANCELLED") ("HOLD"))
 248               ("DONE" ("WAITING") ("CANCELLED") ("HOLD")))))
 249
 250
 251
 252 (add-hook 'org-clock-out-hook 'bh/remove-empty-drawer-on-clock-out 'append)
 253 ; add ids on creation of nodes
 254 (add-hook 'org-capture-prepare-finalize-hook 'my/org-add-id)
 255 ; create function to create headlines in file. This comes from
 256 ; http://stackoverflow.com/questions/13340616/assign-ids-to-every-entry-in-org-mode
 257 (defun my/org-add-ids-to-headlines-in-file ()
 258   "Add ID properties to all headlines in the current file which
 259 do not already have one."
 260   (interactive)
 261   (org-map-entries 'org-id-get-create))
 262 ; if we wanted to do this to every buffer, do the following:
 263 ; (add-hook 'org-mode-hook
 264 ;           (lambda ()
 265 ;             (add-hook 'before-save-hook 'my/org-add-ids-to-headlines-in-file nil 'local)))
 266
 267
 268 ; resolve clocks after 10 minutes of idle; use xprintidle
 269 ; (setq org-clock-idle-time 10)
 270 ; (setq org-clock-x11idle-program-name "xprintidle")
 271
 272 ; this is from http://doc.norang.ca/org-mode.html#Capture
 273 ; use C-M-r for org mode capture
 274 (global-set-key (kbd "C-M-r") 'org-capture)
 275
 276 ; Targets include this file and any file contributing to the agenda - up to 9 levels deep
 277 (setq org-refile-targets (quote ((nil :maxlevel . 9)
 278                                  (org-agenda-files :maxlevel . 9))))
 279
 280 ; Use full outline paths for refile targets - we file directly with IDO
 281 (setq org-refile-use-outline-path t)
 282
 283 ; Targets complete directly with IDO
 284 (setq org-outline-path-complete-in-steps nil)
 285
 286 ; Allow refile to create parent tasks with confirmation
 287 (setq org-refile-allow-creating-parent-nodes (quote confirm))
 288
 289 ; Use IDO for both buffer and file completion and ido-everywhere to t
 290 (setq org-completion-use-ido t)
 291 (setq ido-everywhere t)
 292 (setq ido-max-directory-size 100000)
 293 (ido-mode (quote both))
 294 ; Use the current window when visiting files and buffers with ido
 295 (setq ido-default-file-method 'selected-window)
 296 (setq ido-default-buffer-method 'selected-window)
 297 ; Use the current window for indirect buffer display
 298 (setq org-indirect-buffer-display 'current-window)
 299
 300
 301 ;;;; Refile settings
 302 ; Exclude DONE state tasks from refile targets
 303 (defun bh/verify-refile-target ()
 304   "Exclude todo keywords with a done state from refile targets"
 305   (not (member (nth 2 (org-heading-components)) org-done-keywords)))
 306
 307 (setq org-refile-target-verify-function 'bh/verify-refile-target)
 308
 309 ;; ensure that emacsclient will show just the note to be edited when invoked
 310 ;; from Mutt, and that it will shut down emacsclient once finished;
 311 ;; fallback to legacy behavior when not invoked via org-protocol.
 312 (require 'org-protocol)
 313 (add-hook 'org-capture-mode-hook 'delete-other-windows)
 314 (setq my-org-protocol-flag nil)
 315 (defadvice org-capture-finalize (after delete-frame-at-end activate)
 316   "Delete frame at remember finalization"
 317   (progn (if my-org-protocol-flag (delete-frame))
 318          (setq my-org-protocol-flag nil)))
 319 (defadvice org-capture-refile (around delete-frame-after-refile activate)
 320   "Delete frame at remember refile"
 321   (if my-org-protocol-flag
 322       (progn
 323         (setq my-org-protocol-flag nil)
 324         ad-do-it
 325         (delete-frame))
 326     ad-do-it)
 327   )
 328 (defadvice org-capture-kill (after delete-frame-at-end activate)
 329   "Delete frame at remember abort"
 330   (progn (if my-org-protocol-flag (delete-frame))
 331          (setq my-org-protocol-flag nil)))
 332 (defadvice org-protocol-capture (before set-org-protocol-flag activate)
 333   (setq my-org-protocol-flag t))
 334
 335 (defadvice org-insert-todo-heading (after dla/create-id activate)
 336   (org-id-get-create)
 337   )
 338
 339 ;; org modules
 340 (add-to-list 'org-modules 'org-habit)
 341
 342 ; this comes from http://upsilon.cc/~zack/blog/posts/2010/02/integrating_Mutt_with_Org-mode/
 343 (defun open-mail-in-mutt (message)
 344   "Open a mail message in Mutt, using an external terminal.
 345
 346 Message can be specified either by a path pointing inside a
 347 Maildir, or by Message-ID."
 348   (interactive "MPath or Message-ID: ")
 349   (shell-command
 350    (format "faf xterm -e \"%s %s\""
 351        (substitute-in-file-name "$HOME/bin/mutt_open") message)))
 352
 353 ;; add support for "mutt:ID" links
 354 (org-add-link-type "mutt" 'open-mail-in-mutt)
 355
 356 (defun my-org-mode-setup ()
 357   (load-library "reftex")
 358   (and (buffer-file-name)
 359        (file-exists-p (buffer-file-name))
 360        (progn
 361          (reftex-parse-all)
 362          (reftex-set-cite-format
 363           '((?b . "[[bib:%l][%l-bib]]")
 364             (?n . "[[notes:%l][%l-notes]]")
 365             (?c . "\\cite{%l}")
 366             (?h . "*** %t\n:PROPERTIES:\n:Custom_ID: %l\n:END:\n[[papers:%l][%l paper]]")))
 367          ))
 368   (define-key org-mode-map (kbd "C-c )") 'reftex-citation)
 369   (define-key org-mode-map (kbd "C-c [") 'reftex-citation)
 370   (define-key org-mode-map (kbd "C-c (") 'org-mode-reftex-search)
 371   (define-key org-mode-map (kbd "C-c 0") 'reftex-view-crossref)
 372   )
 373 (add-hook 'org-mode-hook 'my-org-mode-setup)
 374
 375 (defun org-mode-reftex-search ()
 376   (interactive)
 377   (org-open-link-from-string (format "[[notes:%s]]" (first (reftex-citation t)))))
 378
 379 (defun open-research-paper (bibtexkey)
 380   "Open a paper by bibtex key"
 381   (interactive "bibtex key: ")
 382   (shell-command
 383    (format "%s %s"
 384        (substitute-in-file-name "$HOME/bin/bibtex_to_paper") bibtexkey)))
 385 (org-add-link-type "papers" 'open-research-paper)
 386
 387 (add-to-list 'org-link-abbrev-alist
 388              '("notes" .
 389                "~/projects/research/paper_notes.org::#%s"))
 390
 391 ; I pretty much always want hiearchical checkboxes
 392 (setq org-hierachical-checkbox-statistics nil)
 393
 394 ;; stolen from
 395 ;; http://www-public.it-sudparis.eu/~berger_o/weblog/2012/03/23/how-to-manage-and-export-bibliographic-notesrefs-in-org-mode/
 396 (defun my-rtcite-export-handler (path desc format)
 397   (message "my-rtcite-export-handler is called : path = %s, desc = %s, format = %s" path desc format)
 398   (let* ((search (when (string-match "::#?\\(.+\\)\\'" path)
 399                    (match-string 1 path)))
 400          (path (substring path 0 (match-beginning 0))))
 401     (cond ((eq format 'latex)
 402            (if (or (not desc)
 403                    (equal 0 (search "rtcite:" desc)))
 404                (format "\\cite{%s}" search)
 405              (format "\\cite[%s]{%s}" desc search))))))
 406
 407 (org-add-link-type "rtcite"
 408                    'org-bibtex-open
 409                    'my-rtcite-export-handler)
 410
 411
 412 (setq-default org-mobile-directory "/rzlab.ucr.edu:/sites/dav.donarmstrong.com/root/org/")
 413 (setq-default org-directory "/home/don/org-mode/")
 414 (setq-default org-mobile-inbox-for-pull "/home/don/org-mode/from-mobile.org")
 415
 416 ;; org mode ical export
 417 (setq org-icalendar-timezone "America/Los_Angeles")
 418 (setq org-icalendar-use-scheduled '(todo-start event-if-todo))
 419 (setq org-icalendar-store-UID t)
 420
 421 ;; org babel support
 422 (org-babel-do-load-languages
 423  'org-babel-load-languages
 424  '((emacs-lisp . t )
 425    (R . t)
 426    (latex . t)))
 427 ;; org-babel-by-backend
 428 (defmacro org-babel-by-backend (&rest body)
 429    `(case (if (boundp 'backend)
 430               (org-export-backend-name backend)
 431             nil) ,@body))
 432
 433
 434
 435 ;; org latex
 436 ;; stolen from http://kieranhealy.org/esk/kjhealy.html
 437 (require 'org-latex)
 438 ;; Choose either listings or minted for exporting source code blocks.
 439 ;; Using minted (as here) requires pygments be installed. To use the
 440 ;; default listings package instead, use
 441 ;; (setq org-latex-listings t)
 442 ;; and change references to "minted" below to "listings"
 443 ; (setq org-latex-listings 'minted)
 444
 445 ;; default settings for minted code blocks
 446 (setq org-latex-minted-options
 447       '(;("frame" "single")
 448         ("bgcolor" "bg") ; bg will need to be defined in the preamble of your document. It's defined in org-preamble-pdflatex.sty and org-preamble-xelatex.sty below.
 449         ("fontsize" "\\small")
 450         ))
 451 ;; turn off the default toc behavior; deal with it properly in headers to files.
 452 (defun org-latex-no-toc (depth)
 453   (when depth
 454     (format "%% Org-mode is exporting headings to %s levels.\n"
 455             depth)))
 456 (setq org-latex-format-toc-function 'org-latex-no-toc)
 457
 458 (require 'ox-latex)
 459 (add-to-list 'org-latex-classes
 460              '("memarticle"
 461                "\\documentclass[11pt,oneside,article]{memoir}\n"
 462                ("\\section{%s}" . "\\section*{%s}")
 463                ("\\subsection{%s}" . "\\subsection*{%s}")
 464                ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
 465                ("\\paragraph{%s}" . "\\paragraph*{%s}")
 466                ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
 467
 468 (add-to-list 'org-latex-classes
 469              '("membook"
 470                "\\documentclass[11pt,oneside]{memoir}\n"
 471                ("\\chapter{%s}" . "\\chapter*{%s}")
 472                ("\\section{%s}" . "\\section*{%s}")
 473                ("\\subsection{%s}" . "\\subsection*{%s}")
 474                ("\\subsubsection{%s}" . "\\subsubsection*{%s}")))
 475
 476 (add-to-list 'org-latex-classes
 477              '("letter"
 478                "\\documentclass[11pt]{letter}
 479 [NO-DEFAULT-PACKAGES]
 480 [PACKAGES]
 481 [EXTRA]"
 482        ("\\section{%s}" . "\\section*{%s}")
 483                ("\\subsection{%s}" . "\\subsection*{%s}")
 484                ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
 485                ("\\paragraph{%s}" . "\\paragraph*{%s}")
 486                ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
 487
 488 ;; Originally taken from Bruno Tavernier: http://thread.gmane.org/gmane.emacs.orgmode/31150/focus=31432
 489 ;; but adapted to use latexmk 4.22 or higher.
 490 (setq org-latex-pdf-process '("latexmk -pdflatex=xelatex -bibtex -use-make -pdf %f"))
 491
 492 ;; Default packages included in /every/ tex file, latex, pdflatex or xelatex
 493 (setq org-latex-default-packages-alist
 494       '())
 495 (setq org-latex-packages-alist
 496       '(("" "graphicx" t)
 497         ("" "fontspec" t)
 498         ("" "xunicode" t)
 499         ("" "hyperref" t)
 500         ("" "url" t)
 501         ("" "rotating" t)
 502         ("" "longtable" nil)
 503         ("" "float" )))
 504
 505 (defun org-create-formula--latex-header ()
 506   "Return LaTeX header appropriate for previewing a LaTeX snippet."
 507   (let ((info (org-combine-plists (org-export--get-global-options
 508                                    (org-export-get-backend 'latex))
 509                                   (org-export--get-inbuffer-options
 510                                    (org-export-get-backend 'latex)))))
 511     (org-latex-guess-babel-language
 512      (org-latex-guess-inputenc
 513       (org-splice-latex-header
 514        org-format-latex-header
 515        org-latex-default-packages-alist
 516        nil t
 517        (plist-get info :latex-header)))
 518      info)))
 519
 520
 521 ; support ignoring headers in org mode export to latex
 522 ; from http://article.gmane.org/gmane.emacs.orgmode/67692
 523 (defadvice org-latex-headline (around my-latex-skip-headlines
 524                                       (headline contents info) activate)
 525   (if (member "ignoreheading" (org-element-property :tags headline))
 526       (setq ad-return-value contents)
 527     ad-do-it))
 528
 529
 530 ;; helper functions
 531 (defun bh/is-project-p ()
 532   "Any task with a todo keyword subtask"
 533   (save-restriction
 534     (widen)
 535     (let ((has-subtask)
 536           (subtree-end (save-excursion (org-end-of-subtree t)))
 537           (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
 538       (save-excursion
 539         (forward-line 1)
 540         (while (and (not has-subtask)
 541                     (< (point) subtree-end)
 542                     (re-search-forward "^\*+ " subtree-end t))
 543           (when (member (org-get-todo-state) org-todo-keywords-1)
 544             (setq has-subtask t))))
 545       (and is-a-task has-subtask))))
 546
 547 (defun bh/is-project-subtree-p ()
 548   "Any task with a todo keyword that is in a project subtree.
 549 Callers of this function already widen the buffer view."
 550   (let ((task (save-excursion (org-back-to-heading 'invisible-ok)
 551                               (point))))
 552     (save-excursion
 553       (bh/find-project-task)
 554       (if (equal (point) task)
 555           nil
 556         t))))
 557
 558 (defun bh/is-task-p ()
 559   "Any task with a todo keyword and no subtask"
 560   (save-restriction
 561     (widen)
 562     (let ((has-subtask)
 563           (subtree-end (save-excursion (org-end-of-subtree t)))
 564           (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
 565       (save-excursion
 566         (forward-line 1)
 567         (while (and (not has-subtask)
 568                     (< (point) subtree-end)
 569                     (re-search-forward "^\*+ " subtree-end t))
 570           (when (member (org-get-todo-state) org-todo-keywords-1)
 571             (setq has-subtask t))))
 572       (and is-a-task (not has-subtask)))))
 573
 574 (defun bh/is-subproject-p ()
 575   "Any task which is a subtask of another project"
 576   (let ((is-subproject)
 577         (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
 578     (save-excursion
 579       (while (and (not is-subproject) (org-up-heading-safe))
 580         (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
 581           (setq is-subproject t))))
 582     (and is-a-task is-subproject)))
 583
 584 (defun bh/list-sublevels-for-projects-indented ()
 585   "Set org-tags-match-list-sublevels so when restricted to a subtree we list all subtasks.
 586   This is normally used by skipping functions where this variable is already local to the agenda."
 587   (if (marker-buffer org-agenda-restrict-begin)
 588       (setq org-tags-match-list-sublevels 'indented)
 589     (setq org-tags-match-list-sublevels nil))
 590   nil)
 591
 592 (defun bh/list-sublevels-for-projects ()
 593   "Set org-tags-match-list-sublevels so when restricted to a subtree we list all subtasks.
 594   This is normally used by skipping functions where this variable is already local to the agenda."
 595   (if (marker-buffer org-agenda-restrict-begin)
 596       (setq org-tags-match-list-sublevels t)
 597     (setq org-tags-match-list-sublevels nil))
 598   nil)
 599
 600 (defvar bh/hide-scheduled-and-waiting-next-tasks t)
 601
 602 (defun bh/toggle-next-task-display ()
 603   (interactive)
 604   (setq bh/hide-scheduled-and-waiting-next-tasks (not bh/hide-scheduled-and-waiting-next-tasks))
 605   (when  (equal major-mode 'org-agenda-mode)
 606     (org-agenda-redo))
 607   (message "%s WAITING and SCHEDULED NEXT Tasks" (if bh/hide-scheduled-and-waiting-next-tasks "Hide" "Show")))
 608
 609 (defun bh/skip-stuck-projects ()
 610   "Skip trees that are not stuck projects"
 611   (save-restriction
 612     (widen)
 613     (let ((next-headline (save-excursion (or (outline-next-heading) (point-max)))))
 614       (if (bh/is-project-p)
 615           (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
 616                  (has-next ))
 617             (save-excursion
 618               (forward-line 1)
 619               (while (and (not has-next) (< (point) subtree-end) (re-search-forward "^\\*+ NEXT " subtree-end t))
 620                 (unless (member "WAITING" (org-get-tags-at))
 621                   (setq has-next t))))
 622             (if has-next
 623                 nil
 624               next-headline)) ; a stuck project, has subtasks but no next task
 625         nil))))
 626
 627 (defun bh/skip-non-stuck-projects ()
 628   "Skip trees that are not stuck projects"
 629   ;; (bh/list-sublevels-for-projects-indented)
 630   (save-restriction
 631     (widen)
 632     (let ((next-headline (save-excursion (or (outline-next-heading) (point-max)))))
 633       (if (bh/is-project-p)
 634           (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
 635                  (has-next ))
 636             (save-excursion
 637               (forward-line 1)
 638               (while (and (not has-next) (< (point) subtree-end) (re-search-forward "^\\*+ NEXT " subtree-end t))
 639                 (unless (member "WAITING" (org-get-tags-at))
 640                   (setq has-next t))))
 641             (if has-next
 642                 next-headline
 643               nil)) ; a stuck project, has subtasks but no next task
 644         next-headline))))
 645
 646 (defun bh/skip-non-projects ()
 647   "Skip trees that are not projects"
 648   ;; (bh/list-sublevels-for-projects-indented)
 649   (if (save-excursion (bh/skip-non-stuck-projects))
 650       (save-restriction
 651         (widen)
 652         (let ((subtree-end (save-excursion (org-end-of-subtree t))))
 653           (cond
 654            ((bh/is-project-p)
 655             nil)
 656            ((and (bh/is-project-subtree-p) (not (bh/is-task-p)))
 657             nil)
 658            (t
 659             subtree-end))))
 660     (save-excursion (org-end-of-subtree t))))
 661
 662 (defun bh/skip-project-trees-and-habits ()
 663   "Skip trees that are projects"
 664   (save-restriction
 665     (widen)
 666     (let ((subtree-end (save-excursion (org-end-of-subtree t))))
 667       (cond
 668        ((bh/is-project-p)
 669         subtree-end)
 670        ((org-is-habit-p)
 671         subtree-end)
 672        (t
 673         nil)))))
 674
 675 (defun bh/skip-projects-and-habits-and-single-tasks ()
 676   "Skip trees that are projects, tasks that are habits, single non-project tasks"
 677   (save-restriction
 678     (widen)
 679     (let ((next-headline (save-excursion (or (outline-next-heading) (point-max)))))
 680       (cond
 681        ((org-is-habit-p)
 682         next-headline)
 683        ((and bh/hide-scheduled-and-waiting-next-tasks
 684              (member "WAITING" (org-get-tags-at)))
 685         next-headline)
 686        ((bh/is-project-p)
 687         next-headline)
 688        ((and (bh/is-task-p) (not (bh/is-project-subtree-p)))
 689         next-headline)
 690        (t
 691         nil)))))
 692
 693 (defun bh/skip-project-tasks-maybe ()
 694   "Show tasks related to the current restriction.
 695 When restricted to a project, skip project and sub project tasks, habits, NEXT tasks, and loose tasks.
 696 When not restricted, skip project and sub-project tasks, habits, and project related tasks."
 697   (save-restriction
 698     (widen)
 699     (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
 700            (next-headline (save-excursion (or (outline-next-heading) (point-max))))
 701            (limit-to-project (marker-buffer org-agenda-restrict-begin)))
 702       (cond
 703        ((bh/is-project-p)
 704         next-headline)
 705        ((org-is-habit-p)
 706         subtree-end)
 707        ((and (not limit-to-project)
 708              (bh/is-project-subtree-p))
 709         subtree-end)
 710        ((and limit-to-project
 711              (bh/is-project-subtree-p)
 712              (member (org-get-todo-state) (list "NEXT")))
 713         subtree-end)
 714        (t
 715         nil)))))
 716
 717 (defun bh/skip-project-tasks ()
 718   "Show non-project tasks.
 719 Skip project and sub-project tasks, habits, and project related tasks."
 720   (save-restriction
 721     (widen)
 722     (let* ((subtree-end (save-excursion (org-end-of-subtree t))))
 723       (cond
 724        ((bh/is-project-p)
 725         subtree-end)
 726        ((org-is-habit-p)
 727         subtree-end)
 728        ((bh/is-project-subtree-p)
 729         subtree-end)
 730        (t
 731         nil)))))
 732
 733 (defun bh/skip-non-project-tasks ()
 734   "Show project tasks.
 735 Skip project and sub-project tasks, habits, and loose non-project tasks."
 736   (save-restriction
 737     (widen)
 738     (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
 739            (next-headline (save-excursion (or (outline-next-heading) (point-max)))))
 740       (cond
 741        ((bh/is-project-p)
 742         next-headline)
 743        ((org-is-habit-p)
 744         subtree-end)
 745        ((and (bh/is-project-subtree-p)
 746              (member (org-get-todo-state) (list "NEXT")))
 747         subtree-end)
 748        ((not (bh/is-project-subtree-p))
 749         subtree-end)
 750        (t
 751         nil)))))
 752
 753 (defun bh/skip-projects-and-habits ()
 754   "Skip trees that are projects and tasks that are habits"
 755   (save-restriction
 756     (widen)
 757     (let ((subtree-end (save-excursion (org-end-of-subtree t))))
 758       (cond
 759        ((bh/is-project-p)
 760         subtree-end)
 761        ((org-is-habit-p)
 762         subtree-end)
 763        (t
 764         nil)))))
 765
 766 (defun bh/skip-non-subprojects ()
 767   "Skip trees that are not projects"
 768   (let ((next-headline (save-excursion (outline-next-heading))))
 769     (if (bh/is-subproject-p)
 770         nil
 771       next-headline)))
 772 ;
 773 ;; Resume clocking task when emacs is restarted
 774 (org-clock-persistence-insinuate)
 775 ;;
 776 ;; Show lot of clocking history so it's easy to pick items off the C-F11 list
 777 (setq org-clock-history-length 23)
 778 ;; Resume clocking task on clock-in if the clock is open
 779 (setq org-clock-in-resume t)
 780 ;; Change tasks to NEXT when clocking in
 781 (setq org-clock-in-switch-to-state 'bh/clock-in-to-next)
 782 ;; Separate drawers for clocking and logs
 783 (setq org-drawers (quote ("PROPERTIES" "LOGBOOK")))
 784 ;; Save clock data and state changes and notes in the LOGBOOK drawer
 785 (setq org-clock-into-drawer t)
 786 (setq org-log-into-drawer t)
 787 ;; Sometimes I change tasks I'm clocking quickly - this removes clocked tasks with 0:00 duration
 788 (setq org-clock-out-remove-zero-time-clocks t)
 789 ;; Clock out when moving task to a done state
 790 (setq org-clock-out-when-done t)
 791 ;; Save the running clock and all clock history when exiting Emacs, load it on startup
 792 (setq org-clock-persist t)
 793 ;; Do not prompt to resume an active clock
 794 (setq org-clock-persist-query-resume nil)
 795 ;; Enable auto clock resolution for finding open clocks
 796 (setq org-clock-auto-clock-resolution (quote when-no-clock-is-running))
 797 ;; Include current clocking task in clock reports
 798 (setq org-clock-report-include-clocking-task t)
 799
 800
 801 (defvar bh/keep-clock-running nil)
 802
 803 (defun bh/clock-in-to-next (kw)
 804   "Switch a task from TODO to NEXT when clocking in.
 805 Skips capture tasks, projects, and subprojects.
 806 Switch projects and subprojects from NEXT back to TODO"
 807   (when (not (and (boundp 'org-capture-mode) org-capture-mode))
 808     (cond
 809      ((and (member (org-get-todo-state) (list "TODO"))
 810            (bh/is-task-p))
 811       "NEXT")
 812      ((and (member (org-get-todo-state) (list "NEXT"))
 813            (bh/is-project-p))
 814       "TODO"))))
 815
 816 (defun bh/find-project-task ()
 817   "Move point to the parent (project) task if any"
 818   (save-restriction
 819     (widen)
 820     (let ((parent-task (save-excursion (org-back-to-heading 'invisible-ok) (point))))
 821       (while (org-up-heading-safe)
 822         (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
 823           (setq parent-task (point))))
 824       (goto-char parent-task)
 825       parent-task)))
 826
 827 (defun bh/punch-in (arg)
 828   "Start continuous clocking and set the default task to the
 829 selected task.  If no task is selected set the Organization task
 830 as the default task."
 831   (interactive "p")
 832   (setq bh/keep-clock-running t)
 833   (if (equal major-mode 'org-agenda-mode)
 834       ;;
 835       ;; We're in the agenda
 836       ;;
 837       (let* ((marker (org-get-at-bol 'org-hd-marker))
 838              (tags (org-with-point-at marker (org-get-tags-at))))
 839         (if (and (eq arg 4) tags)
 840             (org-agenda-clock-in '(16))
 841           (bh/clock-in-organization-task-as-default)))
 842     ;;
 843     ;; We are not in the agenda
 844     ;;
 845     (save-restriction
 846       (widen)
 847       ; Find the tags on the current task
 848       (if (and (equal major-mode 'org-mode) (not (org-before-first-heading-p)) (eq arg 4))
 849           (org-clock-in '(16))
 850         (bh/clock-in-organization-task-as-default)))))
 851
 852 (defun bh/punch-out ()
 853   (interactive)
 854   (setq bh/keep-clock-running nil)
 855   (when (org-clock-is-active)
 856     (org-clock-out))
 857   (org-agenda-remove-restriction-lock))
 858
 859 (defun bh/clock-in-default-task ()
 860   (save-excursion
 861     (org-with-point-at org-clock-default-task
 862       (org-clock-in))))
 863
 864 (defun bh/clock-in-parent-task ()
 865   "Move point to the parent (project) task if any and clock in"
 866   (let ((parent-task))
 867     (save-excursion
 868       (save-restriction
 869         (widen)
 870         (while (and (not parent-task) (org-up-heading-safe))
 871           (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
 872             (setq parent-task (point))))
 873         (if parent-task
 874             (org-with-point-at parent-task
 875               (org-clock-in))
 876           (when bh/keep-clock-running
 877             (bh/clock-in-default-task)))))))
 878
 879 (defvar bh/organization-task-id "e22cb8bf-07c7-408b-8f60-ff3aadac95e4")
 880
 881 (defun bh/clock-in-organization-task-as-default ()
 882   (interactive)
 883   (org-with-point-at (org-id-find bh/organization-task-id 'marker)
 884     (org-clock-in '(16))))
 885
 886 (defun bh/clock-out-maybe ()
 887   (when (and bh/keep-clock-running
 888              (not org-clock-clocking-in)
 889              (marker-buffer org-clock-default-task)
 890              (not org-clock-resolving-clocks-due-to-idleness))
 891     (bh/clock-in-parent-task)))
 892
 893 (add-hook 'org-clock-out-hook 'bh/clock-out-maybe 'append)
 894
 895 (require 'org-id)
 896 (defun bh/clock-in-task-by-id (id)
 897   "Clock in a task by id"
 898   (org-with-point-at (org-id-find id 'marker)
 899     (org-clock-in nil)))
 900
 901 (defun bh/clock-in-last-task (arg)
 902   "Clock in the interrupted task if there is one
 903 Skip the default task and get the next one.
 904 A prefix arg forces clock in of the default task."
 905   (interactive "p")
 906   (let ((clock-in-to-task
 907          (cond
 908           ((eq arg 4) org-clock-default-task)
 909           ((and (org-clock-is-active)
 910                 (equal org-clock-default-task (cadr org-clock-history)))
 911            (caddr org-clock-history))
 912           ((org-clock-is-active) (cadr org-clock-history))
 913           ((equal org-clock-default-task (car org-clock-history)) (cadr org-clock-history))
 914           (t (car org-clock-history)))))
 915     (widen)
 916     (org-with-point-at clock-in-to-task
 917       (org-clock-in nil))))
 918