[ESS] Sweave indentation gotchas; do you see them too?

[Paul Johnson]

I'm running Emacs 23.1.1 on Ubuntu 10.04.  The version of ess is 5.8.
I have a bunch of crap in my startup files (pasted below), but I get
the same trouble if I move those out of the way when I restart emacs.


I don' t know all of the magic Emacs words, so please be patient.

1. <<>> inside code scraps are mistakenly indented.

In Sweave, the << must be flush left.  ESS knows that because you get
the automatically completed

<<>>=
@

only if cursor is far left.

However, If you start a code chunk and include another reference, it
gets indented, but should not.

<<other>>=
x <- rnorm(100)
@

<<what>>=
<<other>>
hist(x)
@

<<other>> needs to be flush left, otherwise job fails. However, ESS
wants to indent <<other>> by two spaces.



2. The indentation of items in a list or within a beamer frame is
"broken" by the insertion of scraps.  Everything gets indented as
flush left after the scrap is done.

See what I mean?  No indent after @.

\begin{frame}
  \frametitle{Output Devices.}

  \begin{itemize}
  \item You make a nice plot and view it on the screen.

    Send it to the default printer
<<eval=F,echo=T>>=
dev.print(paper="letter")
@

\item Gamble on a resizing of the image:

<<eval=F, echo=T>>=
dev.print(paper="letter", height=4, width=4)
@

\end{itemize}
\end{frame}



I've not used Emacs with Sweave and ESS very much before, and
certainly not on Beamer slides.

I noticed recently that items are not indented inside the itemize
environment, that seems to be a new-ish problem as well.

When I'm editing a file, Emacs automatically switches mode, between
LaTeX mode and ESS/R mode, depending on where the cursor is.  That's
interesting. It has one bad effect, however.  When I insert a " in
LaTeX mode, it creates a different character than an " in the ESS/R
mode.  So it is not possible to copy and paste between R and LaTeX
without manually changing the ".

That is inconvenient.

pj

My .emacs file has:
==============================================================
$ cat .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)
 '(cua-mode t nil (cua-base))
 '(inhibit-startup-screen t)
 '(show-paren-mode t)
 '(text-mode-hook (quote (turn-on-auto-fill text-mode-hook-identify))))

(setq ess-fancy-comments nil)


(setq-default TeX-master nil)
(setq TeX-parse-self t)
(setq TeX-auto-save t)

(defun Rnw-mode ()

  (require 'ess-noweb)
  (noweb-mode)
  (if (fboundp 'R-mode)
      (setq noweb-default-code-mode 'R-mode)))

(add-to-list 'auto-mode-alist '("\\.Rnw\\'" . Rnw-mode)) (add-to-list
'auto-mode-alist '("\\.Snw\\’" . Rnw-mode))

(setq reftex-file-extensions

      '(("Snw" "Rnw" "nw" "tex" ".tex" ".ltx") ("bib" ".bib")))

(setq TeX-file-extensions

      '("Snw" "Rnw" "nw" "tex" "sty" "cls" "ltx" "texi" "texinfo"))




;; suggested by
;; http://www.terminally-incoherent.com/blog/2007/12/13/emacs-with-auctex-as-a-latex-ide/

;; Math mode for LaTex
(add-hook 'LaTeX-mode-hook 'LaTeX-math-mode)

;; mouse scrolling
(mouse-wheel-mode t)


;; turns on flyspell
(add-hook 'text-mode-hook
  (lambda () (flyspell-mode 1)))


;; spellcheck in LaTex mode
(add-hook `latex-mode-hook `flyspell-mode)
(add-hook `tex-mode-hook `flyspell-mode)
(add-hook `bibtex-mode-hook `flyspell-mode)


;; Show line-number and column-number in the mode line
(line-number-mode 1)
(column-number-mode 1)

=============================================================

And the only other non-default startup options are specified in my
custom ess file:

$ cat /etc/emacs/site-start.d/50emacs-ess-ku.el
;; -*-emacs-lisp-*-
;;
;; Emacs startup file for the Debian GNU/Linux ess package
;;
;; Originally contributed by Nils Naumann <naumann at unileoben.ac.at>
;; Modified by Dirk Eddelbuettel <edd at debian.org>
;; Adapted for dh-make by Jim Van Zandt <jrv at vanzandt.mv.com>

;;Set up emacs-ess for Emacs with other things we like at KU.
;;;;;
;;;;;; This file is automatically loaded by emacs's site-start.el
;;;;;; when you start a new emacs session.
;;;

;; Windows users may need to adjust this first line
;; if emacs can't find rterm.exe

;; (setq inferior-R-program-name "c:/progra~1/R/R-2.10/bin/Rterm.exe")

;; Yes, I know, windows guys don't like /, but use them.
;; Trying to find out if the progra~1 thing is needed inWin7

(setq use-file-dialog nil)

(require 'pc-select)
(pc-selection-mode)
(custom-set-variables
 '(cua-mode t nil (cua-base))
 '(show-paren-mode t)
 '(text-mode-hook (quote (turn-on-auto-fill text-mode-hook-identify)))
 '(transient-mark-mode t))

;;;
(setq inferior-ess-own-frame t)
(setq inferior-ess-same-window nil)
;;;
;;;;;create a new frame for each help instance
;;;
(setq ess-help-own-frame t)
;;;;;If you want all help
;;;;; buffers to go into one frame do:
;;;
(setq ess-help-own-frame 'one)

(setq ess-ask-for-ess-directory nil)
(setq ess-local-process-name "R")

(setq split-window-preferred-function nil)


 (setq ansi-color-for-comint-mode 'filter)
  (setq comint-prompt-read-only t)
  (setq comint-scroll-to-bottom-on-input t)
  (setq comint-scroll-to-bottom-on-output t)
  (setq comint-move-point-for-output t)

(defun my-ess-eval ()
  (interactive)
  (if (and transient-mark-mode mark-active)
        (call-interactively 'ess-eval-region)
    (call-interactively 'ess-eval-line-and-step)))

(add-hook 'ess-mode-hook
          '(lambda()
             (local-set-key [(shift return)] 'my-ess-eval)))



-- 
Paul E. Johnson
Professor, Political Science
1541 Lilac Lane, Room 504
University of Kansas