User:Timothee Flutre/Notebook/Postdoc/2012/07/25: Difference between revisions
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== | ==About Emacs== | ||
* '''Motivation''': when analyzing data for any research project, it's essential to know well a good text editor. Indeed, it's very efficient to be able to program in several languages (eg. Python, C/C++, R), interact with the shell like in a terminal, manipulate data and plot exploratory analyzes in R, ''all this within the same editor''! One such editor is [http://en.wikipedia.org/wiki/Emacs Emacs], and is available on Linux, Mac OS and Windows. For Mac OS X users, I recommend [http://vgoulet.act.ulaval.ca/en/emacs/mac/ this distribution]. | |||
* '''Documentation''': | |||
** official [https://www.gnu.org/software/emacs/manual/html_node/emacs/index.html manual] | |||
** I haven't found yet any good tutorial, outside of the official [https://www.gnu.org/software/emacs/tour/ tour] | |||
** [http://www.emacswiki.org/ wiki] (with many tips) | |||
** [https://github.com/emacsmirror/p code] (mirrors packages) | |||
* '''Important packages''': | |||
** [http://orgmode.org/) org-mode] (already included in recent versions of emacs) | |||
** [http://cx4a.org/software/auto-complete/ Auto-Complete] | |||
** [http://ess.r-project.org/ ESS] | |||
** [http://www.gnu.org/software/auctex/ AUCTeX] | |||
* '''Configuration''': my own file <nowiki>~/.emacs</nowiki> (I try to avoid customizing it too much) | |||
<nowiki> | |||
;; .emacs | |||
(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. | |||
'(column-number-mode t) ;; in the mode line | |||
'(size-indication-mode t) ;; in the mode line | |||
'(display-time-mode 1) ;; in the mode line | |||
'(display-time-day-and-date t) ;; in the mode line | |||
'(display-time-24hr-format t) ;; in the mode line | |||
'(case-fold-search t) | |||
'(current-language-environment "UTF-8") | |||
'(default-input-method "rfc1345") | |||
'(global-font-lock-mode t nil (font-lock)) | |||
'(show-paren-mode t)) | |||
(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. | |||
) | |||
(setq inhibit-startup-message t) | |||
(add-to-list 'load-path "~/.emacs.d/") | |||
(setq latex-run-command "pdflatex") | |||
;; config for C/C++ code | |||
(setq c-default-style "bsd" | |||
c-basic-offset 2 | |||
tab-width 2 | |||
indent-tabs-mode t) | |||
;;-------------------------------------------------------------------- | |||
;; START config Auto-Complete | |||
(require 'auto-complete-config) | |||
(add-to-list 'ac-dictionary-directories "~/.emacs.d/ac-dict") | |||
(ac-config-default) | |||
;; END config Auto-Complete | |||
;;-------------------------------------------------------------------- | |||
;; START config ESS | |||
(require 'ess-site) | |||
;;(load "~/src_ext_nb/ESS/ess-12.09-2/lisp/ess-site") | |||
;; tips from http://emacswiki.org/emacs/EmacsSpeaksStatistics | |||
(setq ess-eval-visibly-p nil) ;otherwise C-c C-r (eval region) takes forever | |||
(setq ess-ask-for-ess-directory nil) ;otherwise you are prompted each time you start an interactive R session | |||
;; tips source: http://www.emacswiki.org/emacs/ESSAuto-complete | |||
(setq ess-use-auto-complete t) | |||
;; END config ESS | |||
;; clear R console (http://stackoverflow.com/a/3450038/597069) | |||
(defun clear-shell () | |||
(interactive) | |||
(let ((old-max comint-buffer-maximum-size)) | |||
(setq comint-buffer-maximum-size 0) | |||
(comint-truncate-buffer) | |||
(setq comint-buffer-maximum-size old-max))) | |||
;;-------------------------------------------------------------------- | |||
;; START config AUCTeX | |||
;;(load "/home/tflutre/src/LATEX_PKGS/AUCTEX/auctex.el" nil t t) | |||
;;(load "/home/tflutre/src/LATEX_PKGS/AUCTEX/preview-latex.el" nil t t) | |||
;;(add-to-list 'load-path "/home/tflutre/src/LATEX_PKGS/AUCTEX") | |||
(setq TeX-auto-save t) | |||
(setq TeX-parse-self t) | |||
(setq-default TeX-master nil) | |||
(setq TeX-save-query nil) | |||
(setq TeX-PDF-mode t) ;; to have a pdf output for all LaTeX documents | |||
;; END config AUCTeX | |||
;;-------------------------------------------------------------------- | |||
;; START config org-mode | |||
(global-set-key "\C-cl" 'org-store-link) | |||
(global-set-key "\C-cc" 'org-capture) | |||
(global-set-key "\C-ca" 'org-agenda) | |||
(global-set-key "\C-cb" 'org-iswitchb) | |||
(org-babel-do-load-languages | |||
'org-babel-load-languages | |||
'((R . t) | |||
(sh . t) | |||
(python . t) | |||
)) | |||
(setq org-confirm-babel-evaluate nil) | |||
(require 'org-latex) | |||
(add-to-list 'org-export-latex-packages-alist '("" "listings")) | |||
(setq org-export-latex-listings t) | |||
(setq org-export-latex-listings-options | |||
'(("breaklines"))) | |||
(setq org-log-done 'time) | |||
(setq org-startup-truncated nil) ;so that lines longer than the screen are not truncated | |||
;; END config org-mode | |||
;;-------------------------------------------------------------------- | |||
;; START config python-mode | |||
(setq | |||
python-shell-interpreter "ipython" | |||
python-shell-interpreter-args "" | |||
python-shell-prompt-regexp "In \\[[0-9]+\\]: " | |||
python-shell-prompt-output-regexp "Out\\[[0-9]+\\]: " | |||
python-shell-completion-setup-code | |||
"from IPython.core.completerlib import module_completion" | |||
python-shell-completion-module-string-code | |||
"';'.join(module_completion('''%s'''))\n" | |||
python-shell-completion-string-code | |||
"';'.join(get_ipython().Completer.all_completions('''%s'''))\n") | |||
;; END config python-mode | |||
</nowiki> | |||
* '''Tips''': | |||
** from the office computer (desktop), log interactively to a cluster node, launch <code>emacs --daemon</code> and keep the terminal open indefinitely; then access this session from any computer, e.g. a laptop, with <code>emacsclient -t</code> | |||
** especially useful with [http://en.wikipedia.org/wiki/PuTTY PuTTY] on Windows, launch emacs so that its window is the terminal itself, via <code>emacs -nw</code> | |||
<!-- ##### DO NOT edit below this line unless you know what you are doing. ##### --> | <!-- ##### DO NOT edit below this line unless you know what you are doing. ##### --> | ||
Revision as of 08:59, 13 January 2014
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About Emacs
;; .emacs
(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.
'(column-number-mode t) ;; in the mode line
'(size-indication-mode t) ;; in the mode line
'(display-time-mode 1) ;; in the mode line
'(display-time-day-and-date t) ;; in the mode line
'(display-time-24hr-format t) ;; in the mode line
'(case-fold-search t)
'(current-language-environment "UTF-8")
'(default-input-method "rfc1345")
'(global-font-lock-mode t nil (font-lock))
'(show-paren-mode t))
(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.
)
(setq inhibit-startup-message t)
(add-to-list 'load-path "~/.emacs.d/")
(setq latex-run-command "pdflatex")
;; config for C/C++ code
(setq c-default-style "bsd"
c-basic-offset 2
tab-width 2
indent-tabs-mode t)
;;--------------------------------------------------------------------
;; START config Auto-Complete
(require 'auto-complete-config)
(add-to-list 'ac-dictionary-directories "~/.emacs.d/ac-dict")
(ac-config-default)
;; END config Auto-Complete
;;--------------------------------------------------------------------
;; START config ESS
(require 'ess-site)
;;(load "~/src_ext_nb/ESS/ess-12.09-2/lisp/ess-site")
;; tips from http://emacswiki.org/emacs/EmacsSpeaksStatistics
(setq ess-eval-visibly-p nil) ;otherwise C-c C-r (eval region) takes forever
(setq ess-ask-for-ess-directory nil) ;otherwise you are prompted each time you start an interactive R session
;; tips source: http://www.emacswiki.org/emacs/ESSAuto-complete
(setq ess-use-auto-complete t)
;; END config ESS
;; clear R console (http://stackoverflow.com/a/3450038/597069)
(defun clear-shell ()
(interactive)
(let ((old-max comint-buffer-maximum-size))
(setq comint-buffer-maximum-size 0)
(comint-truncate-buffer)
(setq comint-buffer-maximum-size old-max)))
;;--------------------------------------------------------------------
;; START config AUCTeX
;;(load "/home/tflutre/src/LATEX_PKGS/AUCTEX/auctex.el" nil t t)
;;(load "/home/tflutre/src/LATEX_PKGS/AUCTEX/preview-latex.el" nil t t)
;;(add-to-list 'load-path "/home/tflutre/src/LATEX_PKGS/AUCTEX")
(setq TeX-auto-save t)
(setq TeX-parse-self t)
(setq-default TeX-master nil)
(setq TeX-save-query nil)
(setq TeX-PDF-mode t) ;; to have a pdf output for all LaTeX documents
;; END config AUCTeX
;;--------------------------------------------------------------------
;; START config org-mode
(global-set-key "\C-cl" 'org-store-link)
(global-set-key "\C-cc" 'org-capture)
(global-set-key "\C-ca" 'org-agenda)
(global-set-key "\C-cb" 'org-iswitchb)
(org-babel-do-load-languages
'org-babel-load-languages
'((R . t)
(sh . t)
(python . t)
))
(setq org-confirm-babel-evaluate nil)
(require 'org-latex)
(add-to-list 'org-export-latex-packages-alist '("" "listings"))
(setq org-export-latex-listings t)
(setq org-export-latex-listings-options
'(("breaklines")))
(setq org-log-done 'time)
(setq org-startup-truncated nil) ;so that lines longer than the screen are not truncated
;; END config org-mode
;;--------------------------------------------------------------------
;; START config python-mode
(setq
python-shell-interpreter "ipython"
python-shell-interpreter-args ""
python-shell-prompt-regexp "In \\[[0-9]+\\]: "
python-shell-prompt-output-regexp "Out\\[[0-9]+\\]: "
python-shell-completion-setup-code
"from IPython.core.completerlib import module_completion"
python-shell-completion-module-string-code
"';'.join(module_completion('''%s'''))\n"
python-shell-completion-string-code
"';'.join(get_ipython().Completer.all_completions('''%s'''))\n")
;; END config python-mode
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