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add function to repair property drawers
[lib.git] / emacs_el / configuration / org-mode-configuration.el
1 (require 'org-id)
2 (require 'reftex)
3 (require 'gnus)
4
5 (require 'org)
6 (require 'org-agenda)
7 (require 'org-habit)
8 ;; The following lines are always needed. Choose your own keys.
9 (add-to-list 'auto-mode-alist '("\\.\\(org\\|org_archive\\|txt\\)$" . org-mode))
10 (eval-when-compile
11   (require 'cl))
12 (global-set-key "\C-cl" 'org-store-link)
13 (global-set-key "\C-ca" 'org-agenda)
14 (global-set-key "\C-cb" 'org-iswitchb)
15 (setq-default org-log-done 'time)
16 (setq-default org-agenda-ndays 5)
17
18 ;; agenda configuration
19 ;; Do not dim blocked tasks
20 (setq org-agenda-dim-blocked-tasks nil)
21
22 ;; Compact the block agenda view
23 (setq org-agenda-compact-blocks t)
24
25 ;; Custom agenda command definitions
26 (setq org-agenda-custom-commands
27       (quote (("N" "Notes" tags "NOTE"
28                ((org-agenda-overriding-header "Notes")
29                 (org-tags-match-list-sublevels t)))
30               ("h" "Habits" tags-todo "STYLE=\"habit\""
31                ((org-agenda-overriding-header "Habits")
32                 (org-agenda-sorting-strategy
33                  '(todo-state-down effort-up category-keep))))
34               (" " "Agenda"
35                ((agenda "" nil)
36                 (tags "REFILE"
37                       ((org-agenda-overriding-header "Tasks to Refile")
38                        (org-tags-match-list-sublevels nil)))
39                 (tags-todo "-CANCELLED/!"
40                            ((org-agenda-overriding-header "Stuck Projects")
41                             (org-agenda-skip-function 'bh/skip-non-stuck-projects)
42                             (org-agenda-sorting-strategy
43                              '(category-keep))))
44                 (tags-todo "-HOLD-CANCELLED/!"
45                            ((org-agenda-overriding-header "Projects")
46                             (org-agenda-skip-function 'bh/skip-non-projects)
47                             (org-tags-match-list-sublevels 'indented)
48                             (org-agenda-sorting-strategy
49                              '(category-keep))))
50                 (tags-todo "-CANCELLED/!NEXT"
51                            ((org-agenda-overriding-header (concat "Project Next Tasks"
52                                                                   (if bh/hide-scheduled-and-waiting-next-tasks
53                                                                       ""
54                                                                     " (including WAITING and SCHEDULED tasks)")))
55                             (org-agenda-skip-function 'bh/skip-projects-and-habits-and-single-tasks)
56                             (org-tags-match-list-sublevels t)
57                             (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
58                             (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
59                             (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
60                             (org-agenda-sorting-strategy
61                              '(todo-state-down effort-up category-keep))))
62                 (tags-todo "-REFILE-CANCELLED-WAITING-HOLD/!"
63                            ((org-agenda-overriding-header (concat "Project Subtasks"
64                                                                   (if bh/hide-scheduled-and-waiting-next-tasks
65                                                                       ""
66                                                                     " (including WAITING and SCHEDULED tasks)")))
67                             (org-agenda-skip-function 'bh/skip-non-project-tasks)
68                             (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
69                             (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
70                             (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
71                             (org-agenda-sorting-strategy
72                              '(category-keep))))
73                 (tags-todo "-REFILE-CANCELLED-WAITING-HOLD/!"
74                            ((org-agenda-overriding-header (concat "Standalone Tasks"
75                                                                   (if bh/hide-scheduled-and-waiting-next-tasks
76                                                                       ""
77                                                                     " (including WAITING and SCHEDULED tasks)")))
78                             (org-agenda-skip-function 'bh/skip-project-tasks)
79                             (org-agenda-todo-ignore-scheduled bh/hide-scheduled-and-waiting-next-tasks)
80                             (org-agenda-todo-ignore-deadlines bh/hide-scheduled-and-waiting-next-tasks)
81                             (org-agenda-todo-ignore-with-date bh/hide-scheduled-and-waiting-next-tasks)
82                             (org-agenda-sorting-strategy
83                              '(category-keep))))
84                 (tags-todo "-CANCELLED+WAITING|HOLD/!"
85                            ((org-agenda-overriding-header "Waiting and Postponed Tasks")
86                             (org-agenda-skip-function 'bh/skip-stuck-projects)
87                             (org-tags-match-list-sublevels nil)
88                             (org-agenda-todo-ignore-scheduled t)
89                             (org-agenda-todo-ignore-deadlines t)))
90                 (tags "-REFILE/"
91                       ((org-agenda-overriding-header "Tasks to Archive")
92                        (org-agenda-skip-function 'bh/skip-non-archivable-tasks)
93                        (org-tags-match-list-sublevels nil))))
94                nil))))
95
96 ; org mode agenda files
97 (setq org-agenda-files
98       (quote ("~/projects/org-notes/debbugs.org"
99               "~/projects/org-notes/notes.org"
100               "~/projects/org-notes/refile.org"
101               "~/projects/org-notes/diary.org"
102               "~/projects/org-notes/ool.org"
103               "~/projects/org-notes/sndservers.org"
104               "~/projects/org-notes/chaim.org"
105               "~/projects/org-notes/wildman.org"
106               "~/projects/org-notes/uddin.org"
107           "~/projects/org-notes/reviews.org"
108           "~/projects/org-notes/hpcbio.org"
109               "~/projects/org-notes/fh.org")))
110
111 (set-register ?n (cons 'file "~/projects/org-notes/notes.org"))
112 (set-register ?r (cons 'file "~/projects/org-notes/refile.org"))
113 (set-register ?o (cons 'file "~/projects/org-notes/ool.org"))
114 (set-register ?s (cons 'file "~/projects/org-notes/sndservers.org"))
115 (set-register ?c (cons 'file "~/projects/org-notes/chaim.org"))
116 (set-register ?w (cons 'file "~/projects/org-notes/wildman.org"))
117 (set-register ?u (cons 'file "~/projects/org-notes/uddin.org"))
118 (set-register ?R (cons 'file "~/projects/reviews/reviews.org"))
119 (set-register ?d (cons 'file "~/projects/org-notes/diary.org"))
120
121 (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")))
122 (setq org-columns-default-format "%40ITEM(Task) %6Effort{:} %CLOCKSUM %PRIORITY %TODO %13SCHEDULED %13DEADLINE %TAGS")
123
124 (setq org-default-notes-file "~/projects/org-notes/notes.org")
125 (setq org-id-link-to-org-use-id t)
126 (setq org-capture-templates  ;; mail-specific note template, identified by "m"
127       '(("m" "Mail" entry (file+headline "~/projects/org-notes/refile.org" "Mail")
128          "* %?\n\n  Source: %u, %c\n  %i")
129         ("t" "todo" entry (file "~/projects/org-notes/refile.org")
130          "* TODO %?\n  :PROPERTIES:\n  :END:\n  :LOGBOOK:\n  :END:\n%U\n%a\n" :clock-in t :clock-resume t)
131         ("r" "respond" entry (file "~/projects/org-notes/refile.org")
132          "* NEXT Respond to %:from on %:subject\nSCHEDULED: %t\n%U\n%a\n" :clock-in t :clock-resume t :immediate-finish t)
133         ("n" "note" entry (file "~/projects/org-notes/refile.org")
134          "* %? :NOTE:\n%U\n%a\n" :clock-in t :clock-resume t)
135         ("s" "schedule" entry (file "~/projects/org-notes/refile.org")
136          "* %? :cal:\n%^{scheduled:}t\n%U\n%a\n" :clock-in t :clock-resume t)
137         ("j" "Journal" entry (file+datetree "~/projects/org-notes/diary.org")
138          "* %?\n%U\n" :clock-in t :clock-resume t)
139         ("w" "org-protocol" entry (file "~/projects/org-notes/refile.org")
140          "* TODO Review %c\n%U\n" :immediate-finish t)
141         ("M" "Meeting" entry (file "~/projects/org-notes/refile.org")
142          "* MEETING with %? :MEETING:\n%U" :clock-in t :clock-resume t)
143         ("S" "Seminar" entry (file "~/projects/org-notes/refile.org")
144          "* SEMINAR notes %? :SEMINAR:\n%U" :clock-in t :clock-resume t)
145         ("P" "Paper to read" entry (file+headline "~/projects/research/papers_to_read.org" "Refile")
146          "* TODO Get/Read %? \n%U" :clock-in t :clock-resume t)
147         ("p" "Phone call" entry (file "~/projects/org-notes/refile.org")
148          "* PHONE %? :PHONE:\n%U" :clock-in t :clock-resume t)
149         ("J" "job" entry (file "~/projects/org-notes/refile.org")
150          "* 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)
151         ("h" "Habit" entry (file "~/projects/org-notes/refile.org")
152          "* 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")
153         )
154       )
155
156 ;; Remove empty LOGBOOK drawers on clock out
157 (defun bh/remove-empty-drawer-on-clock-out ()
158   (interactive)
159   (save-excursion
160     (beginning-of-line 0)
161     (org-remove-empty-drawer-at (point))))
162
163 (defun my/org-add-id ()
164   (interactive)
165   (save-excursion
166     (if (org-current-level)
167         ()
168       (forward-char 1)
169       )
170     (org-id-get-create)
171     )
172 )
173
174 ; org mode configuration from http://doc.norang.ca/org-mode.html
175 ;; Custom Key Bindings
176 (global-set-key (kbd "<f12>") 'org-agenda)
177 (global-set-key (kbd "<f5>") 'bh/org-todo)
178 (global-set-key (kbd "<S-f5>") 'bh/widen)
179 (global-set-key (kbd "<f7>") 'bh/set-truncate-lines)
180 (global-set-key (kbd "<f8>") 'org-cycle-agenda-files)
181 (global-set-key (kbd "<f9> <f9>") 'bh/show-org-agenda)
182 (global-set-key (kbd "<f9> b") 'bbdb)
183 (global-set-key (kbd "<f9> c") 'calendar)
184 (global-set-key (kbd "<f9> f") 'boxquote-insert-file)
185 (global-set-key (kbd "<f9> h") 'bh/hide-other)
186 (global-set-key (kbd "<f9> n") 'bh/toggle-next-task-display)
187 (global-set-key (kbd "<f9> w") 'widen)
188
189 ; change the outline mode prefix from C-c @ to C-c C-2
190 (setq outline-minor-mode-prefix "C-c C-2")
191 ;(add-hook 'outline-minor-mode-hook
192 ;          (lambda () (local-set-key (kbd "C-c C-2")
193 ;                                    outline-mode-prefix-map)))
194
195 (global-set-key (kbd "<f9> I") 'bh/punch-in)
196 (global-set-key (kbd "<f9> O") 'bh/punch-out)
197
198 (global-set-key (kbd "<f9> o") 'bh/make-org-scratch)
199
200 (global-set-key (kbd "<f9> r") 'boxquote-region)
201 (global-set-key (kbd "<f9> s") 'bh/switch-to-scratch)
202
203 (global-set-key (kbd "<f9> t") 'bh/insert-inactive-timestamp)
204 (global-set-key (kbd "<f9> T") 'bh/toggle-insert-inactive-timestamp)
205
206 (global-set-key (kbd "<f9> v") 'visible-mode)
207 (global-set-key (kbd "<f9> l") 'org-toggle-link-display)
208 (global-set-key (kbd "<f9> SPC") 'bh/clock-in-last-task)
209 (global-set-key (kbd "C-<f9>") 'previous-buffer)
210 (global-set-key (kbd "M-<f9>") 'org-toggle-inline-images)
211 (global-set-key (kbd "C-x n r") 'narrow-to-region)
212 (global-set-key (kbd "C-<f10>") 'next-buffer)
213 (global-set-key (kbd "<f11>") 'org-clock-goto)
214 (global-set-key (kbd "C-<f11>") 'org-clock-in)
215 (global-set-key (kbd "C-s-<f12>") 'bh/save-then-publish)
216 (global-set-key (kbd "C-c c") 'org-capture)
217
218 (defun bh/hide-other ()
219   (interactive)
220   (save-excursion
221     (org-back-to-heading 'invisible-ok)
222     (hide-other)
223     (org-cycle)
224     (org-cycle)
225     (org-cycle)))
226
227 (defun bh/set-truncate-lines ()
228   "Toggle value of truncate-lines and refresh window display."
229   (interactive)
230   (setq truncate-lines (not truncate-lines))
231   ;; now refresh window display (an idiom from simple.el):
232   (save-excursion
233     (set-window-start (selected-window)
234                       (window-start (selected-window)))))
235
236 (defun bh/make-org-scratch ()
237   (interactive)
238   (find-file "/tmp/publish/scratch.org")
239   (gnus-make-directory "/tmp/publish"))
240
241 (defun bh/switch-to-scratch ()
242   (interactive)
243   (switch-to-buffer "*scratch*"))
244
245 (setq org-use-fast-todo-selection t)
246 (setq org-treat-S-cursor-todo-selection-as-state-change nil)
247
248 (setq org-todo-keywords
249       (quote ((sequence "TODO(t)" "NEXT(n)" "|" "DONE(d)")
250               (sequence "WAITING(w@/!)" "HOLD(h@/!)" "|" "CANCELLED(c@/!)" "PHONE" "MEETING"))))
251
252 (setq org-todo-keyword-faces
253       (quote (("TODO" :foreground "red" :weight bold)
254               ("NEXT" :foreground "blue" :weight bold)
255               ("DONE" :foreground "forest green" :weight bold)
256               ("WAITING" :foreground "orange" :weight bold)
257               ("HOLD" :foreground "magenta" :weight bold)
258               ("CANCELLED" :foreground "forest green" :weight bold)
259               ("MEETING" :foreground "forest green" :weight bold)
260               ("PHONE" :foreground "forest green" :weight bold))))
261
262 (setq org-todo-state-tags-triggers
263       (quote (("CANCELLED" ("CANCELLED" . t))
264               ("WAITING" ("WAITING" . t))
265               ("HOLD" ("WAITING") ("HOLD" . t))
266               (done ("WAITING") ("HOLD"))
267               ("TODO" ("WAITING") ("CANCELLED") ("HOLD"))
268               ("NEXT" ("WAITING") ("CANCELLED") ("HOLD"))
269               ("DONE" ("WAITING") ("CANCELLED") ("HOLD")))))
270
271
272
273 ; (add-hook 'org-clock-out-hook 'bh/remove-empty-drawer-on-clock-out 'append)
274 ; add ids on creation of nodes
275 (add-hook 'org-capture-prepare-finalize-hook 'my/org-add-id)
276 ; create function to create headlines in file. This comes from
277 ; http://stackoverflow.com/questions/13340616/assign-ids-to-every-entry-in-org-mode
278 (defun my/org-add-ids-to-headlines-in-file ()
279   "Add ID properties to all headlines in the current file which
280 do not already have one."
281   (interactive)
282   (org-map-entries 'org-id-get-create))
283 ; if we wanted to do this to every buffer, do the following:
284 ; (add-hook 'org-mode-hook
285 ;           (lambda ()
286 ;             (add-hook 'before-save-hook 'my/org-add-ids-to-headlines-in-file nil 'local)))
287
288
289 ; resolve clocks after 10 minutes of idle; use xprintidle
290 ; (setq org-clock-idle-time 10)
291 ; (setq org-clock-x11idle-program-name "xprintidle")
292
293 ; this is from http://doc.norang.ca/org-mode.html#Capture
294 ; use C-M-r for org mode capture
295 (global-set-key (kbd "C-M-r") 'org-capture)
296
297 ; Targets include this file and any file contributing to the agenda - up to 9 levels deep
298 (setq org-refile-targets (quote ((nil :maxlevel . 9)
299                                  (org-agenda-files :maxlevel . 9))))
300
301 ; Use full outline paths for refile targets - we file directly with IDO
302 (setq org-refile-use-outline-path t)
303
304 ; Targets complete directly with IDO
305 (setq org-outline-path-complete-in-steps nil)
306
307 ; Allow refile to create parent tasks with confirmation
308 (setq org-refile-allow-creating-parent-nodes (quote confirm))
309
310 ; ; Use IDO for both buffer and file completion and ido-everywhere to t
311 ; (setq org-completion-use-ido t)
312 ; (setq ido-everywhere t)
313 ; (setq ido-max-directory-size 100000)
314 ; (ido-mode (quote both))
315 ; ; Use the current window when visiting files and buffers with ido
316 ; (setq ido-default-file-method 'selected-window)
317 ; (setq ido-default-buffer-method 'selected-window)
318 ; ; Use the current window for indirect buffer display
319 ; (setq org-indirect-buffer-display 'current-window)
320
321
322 ;;;; Refile settings
323 ; Exclude DONE state tasks from refile targets
324 (defun bh/verify-refile-target ()
325   "Exclude todo keywords with a done state from refile targets"
326   (not (member (nth 2 (org-heading-components)) org-done-keywords)))
327
328 (setq org-refile-target-verify-function 'bh/verify-refile-target)
329
330 ;; ensure that emacsclient will show just the note to be edited when invoked
331 ;; from Mutt, and that it will shut down emacsclient once finished;
332 ;; fallback to legacy behavior when not invoked via org-protocol.
333 (require 'org-protocol)
334 ; (add-hook 'org-capture-mode-hook 'delete-other-windows)
335 (setq my-org-protocol-flag nil)
336 (defadvice org-capture-finalize (after delete-frame-at-end activate)
337   "Delete frame at remember finalization"
338   (progn (if my-org-protocol-flag (delete-frame))
339          (setq my-org-protocol-flag nil)))
340 (defadvice org-capture-refile (around delete-frame-after-refile activate)
341   "Delete frame at remember refile"
342   (if my-org-protocol-flag
343       (progn
344         (setq my-org-protocol-flag nil)
345         ad-do-it
346         (delete-frame))
347     ad-do-it)
348   )
349 (defadvice org-capture-kill (after delete-frame-at-end activate)
350   "Delete frame at remember abort"
351   (progn (if my-org-protocol-flag (delete-frame))
352          (setq my-org-protocol-flag nil)))
353 (defadvice org-protocol-capture (before set-org-protocol-flag activate)
354   (setq my-org-protocol-flag t))
355
356 (defadvice org-insert-todo-heading (after dla/create-id activate)
357   (org-id-get-create)
358   )
359
360 ;; org modules
361 (add-to-list 'org-modules 'org-habit)
362
363 ; this comes from http://upsilon.cc/~zack/blog/posts/2010/02/integrating_Mutt_with_Org-mode/
364 (defun open-mail-in-mutt (message)
365   "Open a mail message in Mutt, using an external terminal.
366
367 Message can be specified either by a path pointing inside a
368 Maildir, or by Message-ID."
369   (interactive "MPath or Message-ID: ")
370   (shell-command
371    (format "faf xterm -e \"%s %s\""
372        (substitute-in-file-name "$HOME/bin/mutt_open") message)))
373
374 ;; add support for "mutt:ID" links
375 (org-add-link-type "mutt" 'open-mail-in-mutt)
376
377 (defun my-org-mode-setup ()
378   (load-library "reftex")
379   (and (buffer-file-name)
380        (file-exists-p (buffer-file-name))
381        (progn
382          (reftex-parse-all)
383          (reftex-set-cite-format
384           '((?b . "[[bib:%l][%l-bib]]")
385             (?n . "[[notes:%l][%l-notes]]")
386             (?c . "\\cite{%l}")
387             (?h . "*** %t\n:PROPERTIES:\n:Custom_ID: %l\n:END:\n[[papers:%l][%l xoj]] [[papers-pdf:%l][pdf]]")))
388          ))
389   (define-key org-mode-map (kbd "C-c )") 'reftex-citation)
390   (define-key org-mode-map (kbd "C-c [") 'reftex-citation)
391   (define-key org-mode-map (kbd "C-c (") 'org-mode-reftex-search)
392   (define-key org-mode-map (kbd "C-c 0") 'reftex-view-crossref)
393   )
394 (add-hook 'org-mode-hook 'my-org-mode-setup)
395
396 (defun org-mode-reftex-search ()
397   (interactive)
398   (org-open-link-from-string (format "[[notes:%s]]" (first (reftex-citation t)))))
399
400 (defun open-research-paper (bibtexkey)
401   "Open a paper by bibtex key"
402   (interactive "bibtex key: ")
403   (shell-command
404    (format "%s %s"
405        (substitute-in-file-name "$HOME/bin/bibtex_to_paper") bibtexkey)))
406 (org-add-link-type "papers" 'open-research-paper)
407 (defun open-research-paper-pdf (bibtexkey)
408   "Open a paper pdf by bibtex key"
409   (interactive "bibtex key: ")
410   (shell-command
411    (format "%s -p evince %s"
412        (substitute-in-file-name "$HOME/bin/bibtex_to_paper") bibtexkey)))
413 (org-add-link-type "papers-pdf" 'open-research-paper-pdf)
414
415 (add-to-list 'org-link-abbrev-alist
416              '("notes" .
417                "~/projects/research/paper_notes.org::#%s"))
418
419 ; I pretty much always want hiearchical checkboxes
420 (setq org-hierachical-checkbox-statistics nil)
421
422 ;; Add \begin{equation}\end{equation} templates to the org mode easy templates
423 (add-to-list 'org-structure-template-alist
424              '("E" "\\begin{equation}\n?\n\\end{equation}"))
425
426  ;; stolen from
427 ;; http://www-public.it-sudparis.eu/~berger_o/weblog/2012/03/23/how-to-manage-and-export-bibliographic-notesrefs-in-org-mode/
428 (defun my-rtcite-export-handler (path desc format)
429   (message "my-rtcite-export-handler is called : path = %s, desc = %s, format = %s" path desc format)
430   (let* ((search (when (string-match "::#?\\(.+\\)\\'" path)
431                    (match-string 1 path)))
432          (path (substring path 0 (match-beginning 0))))
433     (cond ((eq format 'latex)
434            (if (or (not desc) 
435                    (equal 0 (search "rtcite:" desc)))
436                (format "\\cite{%s}" search)
437              (format "\\cite[%s]{%s}" desc search))))))
438
439 (org-add-link-type "rtcite" 
440                    'org-bibtex-open
441                    'my-rtcite-export-handler)
442
443
444 (setq-default org-mobile-directory "/rzlab.ucr.edu:/sites/dav.donarmstrong.com/root/org/")
445 (when (string= system-name "rzlab.ucr.edu")
446   (setq-default org-mobile-directory "/sites/dav.donarmstrong.com/root/org/"))
447 (setq-default org-directory "/home/don/org-mode/")
448 (setq-default org-mobile-inbox-for-pull "/home/don/org-mode/from-mobile.org")
449
450 ;; org mode ical export
451 (setq org-icalendar-timezone "America/Los_Angeles")
452 (setq org-icalendar-use-scheduled '(todo-start event-if-todo))
453 ;; we already add the id manually
454 ;; (setq org-icalendar-store-UID t)
455
456 ;; org babel support
457 (org-babel-do-load-languages
458  'org-babel-load-languages
459  '((emacs-lisp . t )
460    (R . t)
461    (latex . t)
462    (ditaa . t)
463    (dot . t)
464    ))
465 ;; org-babel-by-backend
466 (defmacro org-babel-by-backend (&rest body)
467    `(case (if (boundp 'backend) 
468               (org-export-backend-name backend)
469             nil) ,@body))
470
471
472
473 ;; ;; org latex
474 ;; ;; stolen from http://kieranhealy.org/esk/kjhealy.html
475 ;; (require 'org-latex)   
476 ;; ;; Choose either listings or minted for exporting source code blocks.
477 ;; ;; Using minted (as here) requires pygments be installed. To use the
478 ;; ;; default listings package instead, use
479 ;; ;; (setq org-latex-listings t)
480 ;; ;; and change references to "minted" below to "listings"
481 ;; ; (setq org-latex-listings 'minted)
482 ;; 
483 ;; ;; default settings for minted code blocks
484 ;; (setq org-latex-minted-options
485 ;;       '(;("frame" "single")
486 ;;         ("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.
487 ;;         ("fontsize" "\\small")
488 ;;         ))
489 ;; ;; turn off the default toc behavior; deal with it properly in headers to files.
490 ;; (defun org-latex-no-toc (depth)  
491 ;;   (when depth
492 ;;     (format "%% Org-mode is exporting headings to %s levels.\n"
493 ;;             depth)))
494 ;; (setq org-latex-format-toc-function 'org-latex-no-toc)
495
496 (require 'ox-latex)
497 (add-to-list 'org-latex-classes
498              '("memarticle"
499                "\\documentclass[11pt,oneside,article]{memoir}\n"
500                ("\\section{%s}" . "\\section*{%s}")
501                ("\\subsection{%s}" . "\\subsection*{%s}")
502                ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
503                ("\\paragraph{%s}" . "\\paragraph*{%s}")
504                ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
505
506 (setq org-beamer-outline-frame-options "")
507 (require 'ox-beamer)
508 (add-to-list 'org-latex-classes
509              '("beamer"
510                "\\documentclass[ignorenonframetext]{beamer}
511 [NO-DEFAULT-PACKAGES]
512 [PACKAGES]
513 [EXTRA]"
514                ("\\section{%s}" . "\\section*{%s}")
515                ("\\subsection{%s}" . "\\subsection*{%s}")
516                ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
517                ("\\paragraph{%s}" . "\\paragraph*{%s}")
518                ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
519
520 (add-to-list 'org-latex-classes
521              '("membook"
522                "\\documentclass[11pt,oneside]{memoir}\n"
523                ("\\chapter{%s}" . "\\chapter*{%s}")
524                ("\\section{%s}" . "\\section*{%s}")
525                ("\\subsection{%s}" . "\\subsection*{%s}")
526                ("\\subsubsection{%s}" . "\\subsubsection*{%s}")))
527
528 (add-to-list 'org-latex-classes
529              '("letter"
530                "\\documentclass[11pt]{letter}
531 [NO-DEFAULT-PACKAGES]
532 [PACKAGES]
533 [EXTRA]"
534        ("\\section{%s}" . "\\section*{%s}")
535                ("\\subsection{%s}" . "\\subsection*{%s}")
536                ("\\subsubsection{%s}" . "\\subsubsection*{%s}")
537                ("\\paragraph{%s}" . "\\paragraph*{%s}")
538                ("\\subparagraph{%s}" . "\\subparagraph*{%s}")))
539
540 ;; Originally taken from Bruno Tavernier: http://thread.gmane.org/gmane.emacs.orgmode/31150/focus=31432
541 ;; but adapted to use latexmk 4.22 or higher.  
542 (setq org-latex-pdf-process '("latexmk -pdflatex=xelatex -bibtex -use-make -pdf %f"))
543
544 ;; Default packages included in /every/ tex file, latex, pdflatex or xelatex
545 (setq org-latex-default-packages-alist
546       '(("" "amsmath" t)))
547 (setq org-latex-packages-alist
548       '(("" "graphicx" t)
549         ("" "fontspec" t)
550         ("" "xunicode" t)
551         ("" "hyperref" t)
552         ("" "url" t)
553         ("" "rotating" t)
554         ("" "longtable" nil)
555         ("" "float" )))
556
557 (defun org-create-formula--latex-header ()
558   "Return LaTeX header appropriate for previewing a LaTeX snippet."
559   (let ((info (org-combine-plists (org-export--get-global-options
560                                    (org-export-get-backend 'latex))
561                                   (org-export--get-inbuffer-options
562                                    (org-export-get-backend 'latex)))))
563     (org-latex-guess-babel-language
564      (org-latex-guess-inputenc
565       (org-splice-latex-header
566        org-format-latex-header
567        org-latex-default-packages-alist
568        nil t
569        (plist-get info :latex-header)))
570      info)))
571
572
573 ; support ignoring headers in org mode export to latex
574 ; from http://article.gmane.org/gmane.emacs.orgmode/67692
575 (defadvice org-latex-headline (around my-latex-skip-headlines
576                                       (headline contents info) activate)
577   (if (member "ignoreheading" (org-element-property :tags headline))
578       (setq ad-return-value contents)
579     ad-do-it))
580
581 ;; keep latex logfiles
582
583 (setq org-latex-remove-logfiles nil)
584
585 ;; helper functions
586 (defun bh/is-project-p ()
587   "Any task with a todo keyword subtask"
588   (save-restriction
589     (widen)
590     (let ((has-subtask)
591           (subtree-end (save-excursion (org-end-of-subtree t)))
592           (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
593       (save-excursion
594         (forward-line 1)
595         (while (and (not has-subtask)
596                     (< (point) subtree-end)
597                     (re-search-forward "^\*+ " subtree-end t))
598           (when (member (org-get-todo-state) org-todo-keywords-1)
599             (setq has-subtask t))))
600       (and is-a-task has-subtask))))
601
602 (defun bh/is-project-subtree-p ()
603   "Any task with a todo keyword that is in a project subtree.
604 Callers of this function already widen the buffer view."
605   (let ((task (save-excursion (org-back-to-heading 'invisible-ok)
606                               (point))))
607     (save-excursion
608       (bh/find-project-task)
609       (if (equal (point) task)
610           nil
611         t))))
612
613 (defun bh/is-task-p ()
614   "Any task with a todo keyword and no subtask"
615   (save-restriction
616     (widen)
617     (let ((has-subtask)
618           (subtree-end (save-excursion (org-end-of-subtree t)))
619           (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
620       (save-excursion
621         (forward-line 1)
622         (while (and (not has-subtask)
623                     (< (point) subtree-end)
624                     (re-search-forward "^\*+ " subtree-end t))
625           (when (member (org-get-todo-state) org-todo-keywords-1)
626             (setq has-subtask t))))
627       (and is-a-task (not has-subtask)))))
628
629 (defun bh/is-subproject-p ()
630   "Any task which is a subtask of another project"
631   (let ((is-subproject)
632         (is-a-task (member (nth 2 (org-heading-components)) org-todo-keywords-1)))
633     (save-excursion
634       (while (and (not is-subproject) (org-up-heading-safe))
635         (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
636           (setq is-subproject t))))
637     (and is-a-task is-subproject)))
638
639 (defun bh/list-sublevels-for-projects-indented ()
640   "Set org-tags-match-list-sublevels so when restricted to a subtree we list all subtasks.
641   This is normally used by skipping functions where this variable is already local to the agenda."
642   (if (marker-buffer org-agenda-restrict-begin)
643       (setq org-tags-match-list-sublevels 'indented)
644     (setq org-tags-match-list-sublevels nil))
645   nil)
646
647 (defun bh/list-sublevels-for-projects ()
648   "Set org-tags-match-list-sublevels so when restricted to a subtree we list all subtasks.
649   This is normally used by skipping functions where this variable is already local to the agenda."
650   (if (marker-buffer org-agenda-restrict-begin)
651       (setq org-tags-match-list-sublevels t)
652     (setq org-tags-match-list-sublevels nil))
653   nil)
654
655 (defvar bh/hide-scheduled-and-waiting-next-tasks t)
656
657 (defun bh/toggle-next-task-display ()
658   (interactive)
659   (setq bh/hide-scheduled-and-waiting-next-tasks (not bh/hide-scheduled-and-waiting-next-tasks))
660   (when  (equal major-mode 'org-agenda-mode)
661     (org-agenda-redo))
662   (message "%s WAITING and SCHEDULED NEXT Tasks" (if bh/hide-scheduled-and-waiting-next-tasks "Hide" "Show")))
663
664 (defun bh/skip-stuck-projects ()
665   "Skip trees that are not stuck projects"
666   (save-restriction
667     (widen)
668     (let ((next-headline (save-excursion (or (outline-next-heading) (point-max)))))
669       (if (bh/is-project-p)
670           (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
671                  (has-next ))
672             (save-excursion
673               (forward-line 1)
674               (while (and (not has-next) (< (point) subtree-end) (re-search-forward "^\\*+ NEXT " subtree-end t))
675                 (unless (member "WAITING" (org-get-tags-at))
676                   (setq has-next t))))
677             (if has-next
678                 nil
679               next-headline)) ; a stuck project, has subtasks but no next task
680         nil))))
681
682 (defun bh/skip-non-stuck-projects ()
683   "Skip trees that are not stuck projects"
684   ;; (bh/list-sublevels-for-projects-indented)
685   (save-restriction
686     (widen)
687     (let ((next-headline (save-excursion (or (outline-next-heading) (point-max)))))
688       (if (bh/is-project-p)
689           (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
690                  (has-next ))
691             (save-excursion
692               (forward-line 1)
693               (while (and (not has-next) (< (point) subtree-end) (re-search-forward "^\\*+ NEXT " subtree-end t))
694                 (unless (member "WAITING" (org-get-tags-at))
695                   (setq has-next t))))
696             (if has-next
697                 next-headline
698               nil)) ; a stuck project, has subtasks but no next task
699         next-headline))))
700
701 (defun bh/skip-non-projects ()
702   "Skip trees that are not projects"
703   ;; (bh/list-sublevels-for-projects-indented)
704   (if (save-excursion (bh/skip-non-stuck-projects))
705       (save-restriction
706         (widen)
707         (let ((subtree-end (save-excursion (org-end-of-subtree t))))
708           (cond
709            ((bh/is-project-p)
710             nil)
711            ((and (bh/is-project-subtree-p) (not (bh/is-task-p)))
712             nil)
713            (t
714             subtree-end))))
715     (save-excursion (org-end-of-subtree t))))
716
717 (defun bh/skip-project-trees-and-habits ()
718   "Skip trees that are projects"
719   (save-restriction
720     (widen)
721     (let ((subtree-end (save-excursion (org-end-of-subtree t))))
722       (cond
723        ((bh/is-project-p)
724         subtree-end)
725        ((org-is-habit-p)
726         subtree-end)
727        (t
728         nil)))))
729
730 (defun bh/skip-projects-and-habits-and-single-tasks ()
731   "Skip trees that are projects, tasks that are habits, single non-project tasks"
732   (save-restriction
733     (widen)
734     (let ((next-headline (save-excursion (or (outline-next-heading) (point-max)))))
735       (cond
736        ((org-is-habit-p)
737         next-headline)
738        ((and bh/hide-scheduled-and-waiting-next-tasks
739              (member "WAITING" (org-get-tags-at)))
740         next-headline)
741        ((bh/is-project-p)
742         next-headline)
743        ((and (bh/is-task-p) (not (bh/is-project-subtree-p)))
744         next-headline)
745        (t
746         nil)))))
747
748 (defun bh/skip-project-tasks-maybe ()
749   "Show tasks related to the current restriction.
750 When restricted to a project, skip project and sub project tasks, habits, NEXT tasks, and loose tasks.
751 When not restricted, skip project and sub-project tasks, habits, and project related tasks."
752   (save-restriction
753     (widen)
754     (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
755            (next-headline (save-excursion (or (outline-next-heading) (point-max))))
756            (limit-to-project (marker-buffer org-agenda-restrict-begin)))
757       (cond
758        ((bh/is-project-p)
759         next-headline)
760        ((org-is-habit-p)
761         subtree-end)
762        ((and (not limit-to-project)
763              (bh/is-project-subtree-p))
764         subtree-end)
765        ((and limit-to-project
766              (bh/is-project-subtree-p)
767              (member (org-get-todo-state) (list "NEXT")))
768         subtree-end)
769        (t
770         nil)))))
771
772 (defun bh/skip-project-tasks ()
773   "Show non-project tasks.
774 Skip project and sub-project tasks, habits, and project related tasks."
775   (save-restriction
776     (widen)
777     (let* ((subtree-end (save-excursion (org-end-of-subtree t))))
778       (cond
779        ((bh/is-project-p)
780         subtree-end)
781        ((org-is-habit-p)
782         subtree-end)
783        ((bh/is-project-subtree-p)
784         subtree-end)
785        (t
786         nil)))))
787
788 (defun bh/skip-non-project-tasks ()
789   "Show project tasks.
790 Skip project and sub-project tasks, habits, and loose non-project tasks."
791   (save-restriction
792     (widen)
793     (let* ((subtree-end (save-excursion (org-end-of-subtree t)))
794            (next-headline (save-excursion (or (outline-next-heading) (point-max)))))
795       (cond
796        ((bh/is-project-p)
797         next-headline)
798        ((org-is-habit-p)
799         subtree-end)
800        ((and (bh/is-project-subtree-p)
801              (member (org-get-todo-state) (list "NEXT")))
802         subtree-end)
803        ((not (bh/is-project-subtree-p))
804         subtree-end)
805        (t
806         nil)))))
807
808 (defun bh/skip-projects-and-habits ()
809   "Skip trees that are projects and tasks that are habits"
810   (save-restriction
811     (widen)
812     (let ((subtree-end (save-excursion (org-end-of-subtree t))))
813       (cond
814        ((bh/is-project-p)
815         subtree-end)
816        ((org-is-habit-p)
817         subtree-end)
818        (t
819         nil)))))
820
821 (defun bh/skip-non-subprojects ()
822   "Skip trees that are not projects"
823   (let ((next-headline (save-excursion (outline-next-heading))))
824     (if (bh/is-subproject-p)
825         nil
826       next-headline)))
827 ;
828 ;; Resume clocking task when emacs is restarted
829 (org-clock-persistence-insinuate)
830 ;;
831 ;; Show lot of clocking history so it's easy to pick items off the C-F11 list
832 (setq org-clock-history-length 23)
833 ;; Resume clocking task on clock-in if the clock is open
834 (setq org-clock-in-resume t)
835 ;; Change tasks to NEXT when clocking in
836 (setq org-clock-in-switch-to-state 'bh/clock-in-to-next)
837 ;; Separate drawers for clocking and logs
838 (setq org-drawers (quote ("PROPERTIES" "LOGBOOK")))
839 ;; Save clock data and state changes and notes in the LOGBOOK drawer
840 (setq org-clock-into-drawer t)
841 (setq org-log-into-drawer t)
842 ;; Sometimes I change tasks I'm clocking quickly - this removes clocked tasks with 0:00 duration
843 (setq org-clock-out-remove-zero-time-clocks t)
844 ;; Clock out when moving task to a done state
845 (setq org-clock-out-when-done t)
846 ;; Save the running clock and all clock history when exiting Emacs, load it on startup
847 (setq org-clock-persist t)
848 ;; Do not prompt to resume an active clock
849 (setq org-clock-persist-query-resume nil)
850 ;; Enable auto clock resolution for finding open clocks
851 (setq org-clock-auto-clock-resolution (quote when-no-clock-is-running))
852 ;; Include current clocking task in clock reports
853 (setq org-clock-report-include-clocking-task t)
854
855
856 (defvar bh/keep-clock-running nil)
857
858 (defun bh/clock-in-to-next (kw)
859   "Switch a task from TODO to NEXT when clocking in.
860 Skips capture tasks, projects, and subprojects.
861 Switch projects and subprojects from NEXT back to TODO"
862   (when (not (and (boundp 'org-capture-mode) org-capture-mode))
863     (cond
864      ((and (member (org-get-todo-state) (list "TODO"))
865            (bh/is-task-p))
866       "NEXT")
867      ((and (member (org-get-todo-state) (list "NEXT"))
868            (bh/is-project-p))
869       "TODO"))))
870
871 (defun bh/find-project-task ()
872   "Move point to the parent (project) task if any"
873   (save-restriction
874     (widen)
875     (let ((parent-task (save-excursion (org-back-to-heading 'invisible-ok) (point))))
876       (while (org-up-heading-safe)
877         (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
878           (setq parent-task (point))))
879       (goto-char parent-task)
880       parent-task)))
881
882 (defun bh/punch-in (arg)
883   "Start continuous clocking and set the default task to the
884 selected task.  If no task is selected set the Organization task
885 as the default task."
886   (interactive "p")
887   (setq bh/keep-clock-running t)
888   (if (equal major-mode 'org-agenda-mode)
889       ;;
890       ;; We're in the agenda
891       ;;
892       (let* ((marker (org-get-at-bol 'org-hd-marker))
893              (tags (org-with-point-at marker (org-get-tags-at))))
894         (if (and (eq arg 4) tags)
895             (org-agenda-clock-in '(16))
896           (bh/clock-in-organization-task-as-default)))
897     ;;
898     ;; We are not in the agenda
899     ;;
900     (save-restriction
901       (widen)
902       ; Find the tags on the current task
903       (if (and (equal major-mode 'org-mode) (not (org-before-first-heading-p)) (eq arg 4))
904           (org-clock-in '(16))
905         (bh/clock-in-organization-task-as-default)))))
906
907 (defun bh/punch-out ()
908   (interactive)
909   (setq bh/keep-clock-running nil)
910   (when (org-clock-is-active)
911     (org-clock-out))
912   (org-agenda-remove-restriction-lock))
913
914 (defun bh/clock-in-default-task ()
915   (save-excursion
916     (org-with-point-at org-clock-default-task
917       (org-clock-in))))
918
919 (defun bh/clock-in-parent-task ()
920   "Move point to the parent (project) task if any and clock in"
921   (let ((parent-task))
922     (save-excursion
923       (save-restriction
924         (widen)
925         (while (and (not parent-task) (org-up-heading-safe))
926           (when (member (nth 2 (org-heading-components)) org-todo-keywords-1)
927             (setq parent-task (point))))
928         (if parent-task
929             (org-with-point-at parent-task
930               (org-clock-in))
931           (when bh/keep-clock-running
932             (bh/clock-in-default-task)))))))
933
934 (defvar bh/organization-task-id "e22cb8bf-07c7-408b-8f60-ff3aadac95e4")
935
936 (defun bh/clock-in-organization-task-as-default ()
937   (interactive)
938   (org-with-point-at (org-id-find bh/organization-task-id 'marker)
939     (org-clock-in '(16))))
940
941 (defun bh/clock-out-maybe ()
942   (when (and bh/keep-clock-running
943              (not org-clock-clocking-in)
944              (marker-buffer org-clock-default-task)
945              (not org-clock-resolving-clocks-due-to-idleness))
946     (bh/clock-in-parent-task)))
947
948 ; (add-hook 'org-clock-out-hook 'bh/clock-out-maybe 'append)
949
950 (require 'org-id)
951 (defun bh/clock-in-task-by-id (id)
952   "Clock in a task by id"
953   (org-with-point-at (org-id-find id 'marker)
954     (org-clock-in nil)))
955
956 (defun bh/clock-in-last-task (arg)
957   "Clock in the interrupted task if there is one
958 Skip the default task and get the next one.
959 A prefix arg forces clock in of the default task."
960   (interactive "p")
961   (let ((clock-in-to-task
962          (cond
963           ((eq arg 4) org-clock-default-task)
964           ((and (org-clock-is-active)
965                 (equal org-clock-default-task (cadr org-clock-history)))
966            (caddr org-clock-history))
967           ((org-clock-is-active) (cadr org-clock-history))
968           ((equal org-clock-default-task (car org-clock-history)) (cadr org-clock-history))
969           (t (car org-clock-history)))))
970     (widen)
971     (org-with-point-at clock-in-to-task
972       (org-clock-in nil))))
973
974
975 (defun org-export-to-ods ()
976   (interactive)
977   (let ((csv-file "data.csv"))
978     (org-table-export csv-file "orgtbl-to-csv")
979     (org-odt-convert csv-file "ods" 'open)))
980
981 ; allow for zero-width-space to be a break in regexp too
982 ; (setcar org-emphasis-regexp-components "​ [:space:] \t('\"{")
983 ; (setcar (nthcdr 1 org-emphasis-regexp-components) "​ [:space:]- \t.,:!?;'\")}\\")
984 ; (org-set-emph-re 'org-emphasis-regexp-components org-emphasis-regexp-components)
985
986 ;; support inserting screen shots
987 (defun my/org-insert-screenshot ()
988   "Take a screenshot into a time stamped unique-named file in the
989 same directory as the org-buffer and insert a link to this file."
990   (interactive)
991   (defvar my/org-insert-screenshot/filename)
992   (setq my/org-insert-screenshot/filename
993         (read-file-name
994          "Screenshot to insert: "
995          nil
996          (concat (buffer-file-name) "_" (format-time-string "%Y%m%d_%H%M%S") ".png")
997          )
998         )
999   (call-process "import" nil nil nil my/org-insert-screenshot/filename)
1000   (insert (concat "[[" my/org-insert-screenshot/filename "]]"))
1001   (org-display-inline-images))
1002
1003 ; from http://orgmode.org/Changes.html
1004 (defun my/org-repair-property-drawers ()
1005   "Fix properties drawers in current buffer.
1006  Ignore non Org buffers."
1007   (interactive)
1008   (when (eq major-mode 'org-mode)
1009     (org-with-wide-buffer
1010      (goto-char (point-min))
1011      (let ((case-fold-search t)
1012            (inline-re (and (featurep 'org-inlinetask)
1013                            (concat (org-inlinetask-outline-regexp)
1014                                    "END[ \t]*$"))))
1015        (org-map-entries
1016         (lambda ()
1017           (unless (and inline-re (org-looking-at-p inline-re))
1018             (save-excursion
1019               (let ((end (save-excursion (outline-next-heading) (point))))
1020                 (forward-line)
1021                 (when (org-looking-at-p org-planning-line-re) (forward-line))
1022                 (when (and (< (point) end)
1023                            (not (org-looking-at-p org-property-drawer-re))
1024                            (save-excursion
1025                              (and (re-search-forward org-property-drawer-re end t)
1026                                   (eq (org-element-type
1027                                        (save-match-data (org-element-at-point)))
1028                                       'drawer))))
1029                   (insert (delete-and-extract-region
1030                            (match-beginning 0)
1031                            (min (1+ (match-end 0)) end)))
1032                   (unless (bolp) (insert "\n"))))))))))))
1033
1034 (provide 'org-mode-configuration)