[R] Input encoding problem when using sweave with xetex

[Duncan Murdoch]

On 12/05/2010 3:55 PM, Erich Studerus wrote:
> Thanks again. Putting options(encoding="") into the R code chunk before 
> calling the read.xls function indeed did the trick. Now, I have one last 
> question: How can I edit the LyX preference file to call R with 
> options(encoding='UTF-8'). I prefer to edit the LyX preference file rather 
> than the Sweave.sh file, because I want to run R with UTF-8 only when I use 
>  XeTeX. By editing the LyX preference file, I assume it would be possible to 
> define different R encoding setups for different converters.
>   

One way would be to change

R CMD Sweave $$i

in

\converter "literate" "latex"    "R CMD Sweave $$i"  ""

to

echo "library(\"utils\"); options(encoding=\"UTF-8\"); Sweave(\"$$i\")" | R --no-restore --slave

but you may run into trouble because there's an extra set of "" to go around there, and I don't know how 
Lyx handles escaping all those quotes.  So probably an easier way to go would be to take the Sweave.sh file
that you've already edited, and copy it into UTF8Sweave.sh in the same directory.  Then you can change the Lyx 
preference line to

\converter "literate" "latex"    "R CMD UTF8Sweave $$i"  ""

and things should work.  (Then you can restore the original Sweave.sh file for cases where you don't
want UTF-8.)

Duncan Murdoch

> Erich
>
>
> On Wed, 12 May 2010 14:43:52 -0400
>   Duncan Murdoch <murdoch.duncan at gmail.com> wrote:
> > On 12/05/2010 2:29 PM, Erich Studerus wrote:
> >> Thank you! I edited the Sweave.sh file and it works now for reading data 
> >> stored as R data files, but the read.xls function from the gdata-package 
> >> does no longer work.
> >>
> >> options('encoding'='UTF-8')
> >> require(gdata)
> >> read.xls("http://www.schwerhoerigkeit.pop.ch/hoergeraete_test.xls", 
> >> stringsAsFactors = F)[2,2]
> >>
> >> This gives NA as output and a warning that there was an invalid entry for 
> >> the connection. Is there a way to use read.xls with UTF-8 encoding?
> >>   
> > 
> > I don't know, you'd have to ask its authors.  But you can probably set 
> >options(encoding="") before calling it.  (I'm assuming the read.xls() is in 
> >a code chunk in your Sweave file.  I would guess that you don't need to set 
> >the encoding back to UTF-8 afterwards, but you might:  it all depends on 
> >when Sweave() opens its
> > output file.)
> > 
> > Duncan Murdoch
> >>
> >>
> >>
> >>
> >> On Wed, 12 May 2010 12:45:51 -0400
> >>   Duncan Murdoch <murdoch.duncan at gmail.com> wrote:
> >> > On 12/05/2010 11:36 AM, Erich Studerus wrote:
> >> >> Putting \usepackage[cp1252]{inputenc} into my preamble is not an 
> >>option,
> >> >> because XeTeX unlike LaTeX needs UTF-8 has input encoding. My goal is 
> >>also
> >> >> to have a LyX document that can be compiled both on Mac and Windows.
> >> >>
> >> >> I usually compile my Lyx-Sweave documents by one click of a button from
> >> >> within Lyx. R code chunks are therefore executed by calling R from the
> >> >> command line. If anybody knows how to run R with 
> >>options(encoding="UTF-8")
> >> >> from the command line under windows, that would be helpful.
> >> >>
> >> >> The command that calls R during compilation is contained in this file:
> >> >> http://cran.r-project.org/contrib/extra/lyx/preferences
> >> >>   
> >> > 
> >> > 
> >> > You can do it with a little work.  If you look at the 
> >>rhome/bin/Sweave.sh 
> >> >file, you'll see that
> >> > 
> >> > R CMD Sweave file.Rnw
> >> > 
> >> > just executes something like
> >> > 
> >> > echo "library(\"utils\"); Sweave(\"file.Rnw\")" | R --no-restore --slave
> >> > 
> >> > What you want is to execute
> >> > 
> >> > echo "library(\"utils\"); options(encoding="UTF-8"); 
> >>Sweave(\"file.Rnw\")" 
> >> >| R --no-restore --slave
> >> > 
> >> > You could edit the rhome/bin/Sweave.sh file appropriately if you always 
> >> >want Sweave to use UTF-8, or you could edit your Lyx preference file to 
> >>put 
> >> >in a line like this instead of what it had.
> >> > 
> >> > Duncan Murdoch
> >>
> >> ______________________________________________
> >> R-help at r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/r-help
> >> PLEASE do read the posting guide 
> >>http://www.R-project.org/posting-guide.html
> >> and provide commented, minimal, self-contained, reproducible code.
> >>   
> >
>
> ______________________________________________
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> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>