Babel and R: Call code block and output plot

Babel and R: Call code block and output plot

[Stefan Nobis]

Hi.

I'm playing a little bit with R code blocks in babel and calling them
in different parts of my document (e.g. showing output in the main
part and the code in the appendix).

With most code blocks (e.g. setting some variables or outputting a
LaTeX table with xtable) this works as expected (thanks to all working
on this; its really great).

Now I wanted to show a plot, but the associated code should also be
shown in the appendix. In this case CALL seems not to work (not plot
file is created or its empty).

Here is a small example of what I'm trying to achieve:

--8<---------------cut here---------------start------------->8---
#+TITLE: Plotting Test
#+OPTIONS: author:nil date:nil email:nil toc:nil
#+CREATOR: Emacs 24.5.1 (Org mode 8.2.10)
#+STARTUP: showall
#+PROPERTY: session *R*
#+PROPERTY: exports results

* Main Part

Here I want to show some plot:

#+CALL: myplot[:exports results]()

* Appendix

Here the code of the plot should be shown:

#+NAME: myplot
#+BEGIN_SRC R :results output graphics :exports code :file my-plot.pdf
hist(rnorm(50))
#+END_SRC
--8<---------------cut here---------------end--------------->8---

Any ideas what I'm doing wrong or how to better achieve my goal?

-- 
Until the next mail...,
Stefan.

Re: Babel and R: Call code block and output plot

[Andreas Leha]

Hi Stefan,

Stefan Nobis <stefan-ml@snobis.de> writes:
> Hi.
>
> I'm playing a little bit with R code blocks in babel and calling them
> in different parts of my document (e.g. showing output in the main
> part and the code in the appendix).
>
> With most code blocks (e.g. setting some variables or outputting a
> LaTeX table with xtable) this works as expected (thanks to all working
> on this; its really great).
>
> Now I wanted to show a plot, but the associated code should also be
> shown in the appendix. In this case CALL seems not to work (not plot
> file is created or its empty).
>
> Here is a small example of what I'm trying to achieve:
>
> #+TITLE: Plotting Test
> #+OPTIONS: author:nil date:nil email:nil toc:nil
> #+CREATOR: Emacs 24.5.1 (Org mode 8.2.10)
> #+STARTUP: showall
> #+PROPERTY: session *R*
> #+PROPERTY: exports results
>
> * Main Part
>
> Here I want to show some plot:
>
> #+CALL: myplot[:exports results]()
>
> * Appendix
>
> Here the code of the plot should be shown:
>
> #+NAME: myplot
> #+BEGIN_SRC R :results output graphics :exports code :file my-plot.pdf
> hist(rnorm(50))
> #+END_SRC
>
> Any ideas what I'm doing wrong or how to better achieve my goal?


You still have to specify the format of the results of the #+CALL line, as in
#+CALL: myplot[:exports results]() :results file

BTW, I also think the 'output' in :results is spurious.

This work for me:


--8<---------------cut here---------------start------------->8---
#+TITLE: Plotting Test
#+OPTIONS: author:nil date:nil email:nil toc:nil
#+CREATOR: Emacs 24.5.1 (Org mode 8.2.10)
#+STARTUP: showall
#+PROPERTY: session *R*
#+PROPERTY: exports results

* Main Part

Here I want to show some plot:

#+CALL: myplot[:exports results]() :results file

#+results:
[[file:my-plot.pdf]]

* Appendix

Here the code of the plot should be shown:

#+NAME: myplot
#+BEGIN_SRC R :results graphics :exports code :file my-plot.pdf
hist(rnorm(50))
#+END_SRC
--8<---------------cut here---------------end--------------->8---

Best,
Andreas

Re: Babel and R: Call code block and output plot

[Stefan Nobis]

Andreas Leha <andreas.leha@med.uni-goettingen.de> writes:

> You still have to specify the format of the results of the #+CALL
> line, as in #+CALL: myplot[:exports results]() :results file

Works like a charm, thank you very much.

-- 
Until the next mail...,
Stefan.