(custom-set-variables
- ;; custom-set-variables 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.
+ ;; custom-set-variables 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.
'(bibtex-user-optional-fields (quote (("annote" "Personal annotation (ignored)") ("abstract" "") ("pmid" "") ("doi" ""))))
'(calendar-latitude [33 57 north])
'(calendar-longitude [117 24 west])
'(case-fold-search t)
'(confirm-kill-emacs (quote y-or-n-p))
'(cperl-lazy-help-time nil)
- '(debian-changelog-mailing-address "don@debian.org")
+ '(debian-changelog-mailing-address "don@debian.org" t)
'(display-time t)
'(display-time-24hr-format t)
'(display-time-day-and-date t)
"~/projects/origins_of_life/ool.org"
"~/projects/sysadmin/sndservers/sndservers.org"
"~/projects/chaim/chaim.org"
+ "~/projects/chaim/papers/gwas_paper_2012/gwas_paper.org"
"~/projects/fh/fh.org")))
(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")))
cperl-auto-newline-after-colon nil
cperl-continued-statement-offset 4
cperl-brace-offset -4
+ cperl-continued-brace-offset 0
cperl-label-offset -4
cperl-highlight-variables-indiscriminately t
cperl-electric-lbrace-space nil
- )
-(add-hook 'cperl-mode-hook (lambda () (cperl-set-style "PerlStyle")))
+ cperl-indent-parens-as-block t
+ cperl-tab-always-indent t)
+;(add-hook 'cperl-mode-hook (lambda () (cperl-set-style "PerlStyle")))
;; )
(require 'font-latex)
-(add-to-list 'font-latex-match-reference-keywords "fref")
-(add-to-list 'font-latex-match-reference-keywords "Fref")
-(add-to-list 'font-latex-match-reference-keywords "citep")
-(add-to-list 'font-latex-match-reference-keywords "citet")
-(font-latex-match-reference-make)
-(add-to-list 'font-latex-match-function-keywords "DLA")
-(add-to-list 'font-latex-match-function-keywords "RZ")
-(add-to-list 'font-latex-match-function-keywords "OM")
-(add-to-list 'font-latex-match-function-keywords "DL")
-(add-to-list 'font-latex-match-function-keywords "fixme")
-(add-to-list 'font-latex-match-function-keywords "acs")
-(add-to-list 'font-latex-match-function-keywords "acsp")
-(add-to-list 'font-latex-match-function-keywords "ac")
-(add-to-list 'font-latex-match-function-keywords "acp")
-(add-to-list 'font-latex-match-function-keywords "acl")
-(add-to-list 'font-latex-match-function-keywords "aclp")
-(add-to-list 'font-latex-match-function-keywords "acsu")
-(add-to-list 'font-latex-match-function-keywords "aclu")
-(add-to-list 'font-latex-match-function-keywords "acused")
-(font-latex-match-function-make)
+(setq font-latex-match-reference-keywords
+ '(
+ ("fref" "{")
+ ("Fref" "{")
+ ("citep" "{")
+ ("citet" "{")
+ ("acs" "{")
+ ("acsp" "{")
+ ("ac" "{")
+ ("acp" "{")
+ ("acl" "{")
+ ("aclp" "{")
+ ("acsu" "{")
+ ("aclu" "{")
+ ("acused" "{")
+; ))
+; (setq font-latex-match-warning-keywords
+; '(
+ ("DLA" "{")
+ ("RZ" "{")
+ ("OM" "{")
+ ("DL" "{")
+ ("fixme" "{")))
+
(setq-default TeX-parse-self t)
(setq-default TeX-auto-save t)
(setq-default TeX-master nil)
+;; this doesn't seem to work; not currently sure why
+; (setq font-latex-user-keyword-classes
+; '(("my-warning-commands"
+; (("DLA" "{")
+; ("RZ" "{")
+; ("OM" "{")
+; ("DL" "{")
+; ("fixme" "{")
+; )
+; (:foreground "red" :weight bold :underline (:color foreground-color :style line)))
+; ))
+
+
(defun insert-date ()
"Insert date at point."
(interactive)
(desktop-read)
'(iswitchb-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.
+ ;; 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")))))
(defun ess-change-directory (path)
(reftex-set-cite-format
'((?b . "[[bib::%l][%l-bib]]")
(?n . "[[note::%l][%l-notes]]")
- (?h . "** %t\n:PROPERTIES:\n:Custom_ID: %l\n:END:\n[[papers:%l][%l-paper]]")))
+ (?c . "\\cite{%l}")
+ (?h . "*** %t\n:PROPERTIES:\n:Custom_ID: %l\n:END:\n[[papers:%l][%l paper]]")))
))
(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)
(org-open-link-from-string (format "[[notes:%s]]" (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)))
+
+;; 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)
+
+
(setq-default org-mobile-directory "/rzlab.ucr.edu:/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")
(setq flymake-mode-line mode-line)
(force-mode-line-update)))
+; fix up tmux xterm keys
+; stolen from http://unix.stackexchange.com/questions/24414/shift-arrow-not-working-in-emacs-within-tmux
+(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))
+ ))
+ )
+ )
+
; 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
projects / emacs.git / blobdiff