Re: Babel-R TBLFM example

[Shiyuan <gshy2014@gmail.com>]

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Yes, it works. Thanks, Sebastien.

Shiyuan


On Mon, Aug 25, 2014 at 12:51 AM, Sebastien Vauban <sva-news@mygooglest.com>
wrote:

> Shiyuan wrote:
> > I am looking at a simpler example, the pie-chart example as in this link:
> >
> http://orgmode.org/worg/org-contrib/babel/intro.html#literate-programming
> >
> > This example(src code attached in the end) first generates a table by a
> > shell command and then run a R one-liner which uses the table.  However,
> > when the R code is evaluated, I got an error about the object dirs not
> > found.  This is what I got in the buffer running R:
> > -------------------------------
> > options(STERM='iESS', str.dendrogram.last="'", editor='emacsclient',
> > show.error.locations=TRUE)
> >>
> > Error in pie(dirs[, 1], labels = dirs[, 2]) (from
> > test-org-babe-meta-programming.org@24170fIx#1) : object 'dirs' not found
> > -----------------------------------------------
> >
> > It looks like that the conversion is wrong.  When I run
> > `org-babel-expand-src-block`
> > on the R source code, I don't see the R object dirs is expanded to
> > anything. I don't understand how the conversion works, and how Babel
> passes
> > the table to R. Any explanation is appreciated. Which function/file
> should
> > I look at? Are there working examples for passing a table to R? Thanks.
> >
> > #+name: directories
> > #+begin_src shell :results replace
> >   cd ~ && du -sc * |grep -v total
> > #+end_src
> >
> > #+RESULTS: directories
> > |       8 | #*message*-20140319-231047# |
> > | 1168376 | Documents                   |
> > | 9952288 | Downloads                   |
> > |       8 | xmodmap2~                   |
> >
> > #+name: directory-pie-chart(dirs = directories)
> > #+begin_src R :session R-pie-example :file ~/tmp/dirs.png
> >   pie(dirs[,1], labels = dirs[,2])
> > #+end_src
>
> AFAICT, the arguments to code blocks may not be defined and set in the
> `name' line anymore: this must be done on the `begin_src' line.
>
> So, the following should work:
>
>   #+name: directory-pie-chart
>   #+begin_src R :var dirs=directories :session R-pie-example :file
> ~/tmp/dirs.png
>     pie(dirs[,1], labels = dirs[,2])
>   #+end_src
>
> Best regards,
>   Seb
>
> --
> Sebastien Vauban
>
>
>

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