;; Added by Package.el.  This must come before configurations of
;; installed packages.  Don't delete this line.  If you don't want it,
;; just comment it out by adding a semicolon to the start of the line.
;; You may delete these explanatory comments.
(package-initialize)

;; Mandatory theme, being from Leuven originally
(load-theme 'leuven t)

;; ESS - for working in R
(autoload 'R-mode "ess-site.el" "Major mode for editing R source." t)

(require 'org)

;; Auctex
(load "auctex.el" nil t t)
(load "preview-latex.el" nil t t)

;; org-mode support for R and LaTeX
(org-babel-do-load-languages
 'org-babel-load-languages
 '((R . t)
   (latex . t)))
;; This needs to be fixed - option below results in error when enabled
;;(org-confirm-babel-evaluate nil)

;; Automatically switch to various modes
(setq auto-mode-alist
    '(("\\.mdwn\\'" . markdown-mode)
      ("\\.md\\'" . markdown-mode)
      ("\\.yarn\\'" . markdown-mode)
      ("\\.js\\'" . js-mode)
      ("\\.json\\'" . js-mode)
      ("Makefile" . makefile-mode)
      ("README" . markdown-mode)
      ("NEWS" . markdown-mode)
      ("COMMIT_EDITMSG\\'" . text-mode)
      ("\\.html\\'" . html-mode)
      ("\\.css\\'" . css-mode)
      ("\\.yaml\\'" . yaml-mode)
      ("\\.yml\\'" . yaml-mode)
      ("\\.ick\\'" . yaml-mode)
      ("\\.py\\'" . python-mode)
      ("\\.R\\'" . R-mode)
      ("\\.org\\'" . org-mode)
      ("\\.sh\\'" . shell-script-mode)))

;; Enable the melpa archive for packages
(require 'package)
(setq package-enable-at-startup nil)
(add-to-list 'package-archives
             '("melpa" . "http://melpa.milkbox.net/packages/") t)
(add-to-list 'package-archives '("org" . "http://orgmode.org/elpa/") t)
(add-to-list 'package-archives
             '("elpy" . "http://jorgenschaefer.github.io/packages/"))


(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.
 '(org-export-backends (quote (ascii html icalendar latex md odt)))
 '(package-selected-packages
   (quote
    (org htmlize leuven-theme lua-mode ess-R-data-view ess))))
(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.
 )