Recommendations for developing Sweave documents

 

I'm looking to streamline my Sweave document creation, and I'd like to hear about people's current setups. I feel like the holy grail goes something like this:

  • Editing Rnw code on one half of the screen
  • Single keybinding compiles Sweave document and runs pdflatex
  • View PDF on the other half of the screen; once compiled, PDF is refreshed and centered around the portion of the document you're editing
  • If compilation has errors, replace the PDF with the results of the compilation (eg latex errors or Sweave errors)

    • I am guessing/hoping that the solution is part Emacs/ESS combined with some code for the Emacs profile and/or a nice Makefile. But I would really like to hear about everybody's preferred way of creating Sweave and/or Latex documents.

    A few other R users I talked to use a 'one-directory-per-project' setup, and a simple Makefile. As you suspected, that works well with Emacs/ESS.

    I tend to just call a simple shell script sweave which I wrote before before 'R CMD Sweave' was added (as I find re-creating or copying the Makefile unappealing, YMMV). I also use Emacs and an auto-refreshing pdf viewer (like okular or kpdf ). Emacs23 can preview pdf files directly too but I have yet to switch my work flow to that. 

    edd@ron:~$ cat bin/sweave
#!/bin/bash -e

function errorexit () {
    echo "Error: $1"
    exit 1
}

function filetest () {
    if [ ! -f $1 ]; then
       errorexit "File $1 not found"
    fi
    return 0
}


if [ "$#" -lt 1 ]; then
    errorexit "Need to specify argument file"
fi


BASENAME=$(basename $1 .Rnw)

RNWFILE=$BASENAME.Rnw
filetest $RNWFILE
echo "library(tools); Sweave("$RNWFILE")" 
      | R --no-save --no-restore --slave

LATEXFILE=$BASENAME.tex
filetest $LATEXFILE && pdflatex $LATEXFILE

    You can do everything that you suggest there with the StatET plugin for Eclipse. That's what I use for Sweave development; it understands both latex and R very well, including syntax highlighting, etc.

    You can get it here: http://www.walware.de/goto/statet.

    Longhow Lam has written a nice guide: http://www.splusbook.com/Rintro/R_Eclipse_StatET.pdf.

    http://www.statalgo.com/?p=93

    I use TeXShop on OS X to produce all of my LaTeX and Sweave reports. For me, a new compilation pipeline is as simple as adding a file, called Sweave.engine to ~/Library/TeXShop/Engines/ which contains the following: 

    #!/usr/bin/env Rscript
args <- commandArgs(T)

fname <- strsplit(args[1],'.')[[1]][2]

Sweave(paste(fname,'Rnw',sep='.'))

system(paste('pdflatex',paste(fname,'tex',sep='.')))

    Sweave is now a selectable method of compiling a document inside TeXShop. I can set it to be the default for a document by adding the following TeX hash-bang to the top of the file: 

    % !TEX TS-program = Sweave

    Hitting Cmd-T will typeset the document- the pdf automatically pops up in a separate window. TeXShop also incorporates SyncTeX technology so a Cmd-Click in the Rnw source will highlight the corresponding output in the PDF window and a Cmd-Click in the PDF window will highlight the corresponding input in the Rnw source.

    TeXShop is mac-only but a great Qt/poppler-based clone, TeXworks, is available for Linux, Windows and Mac and supports many of the same features-- including TeX hash-bangs and SyncTeX. TeXworks has reached a level of maturity where it is included in version 2.8 of the MikTeX package for Windows.

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