[babel] Emitting both text & graphics output

[babel] Emitting both text & graphics output

[Ken.Williams]

Hi,

Suppose I have a source block like the following, which both 'print's some
text output and 'plot's to a graphics device:

------------------------------
#+begin_src R :file tp.png :exports both :results output graphics
dat <-  matrix(runif(12), 6, 2)
print(dat)
plot(dat)
#+end_src
------------------------------



I can't seem to get the print() output to display, either by exporting to
HTML or by simple evaluation of the code block.

'C-c C-c' results in the following 'results' section:

------------------------------
#+results:
[[file:tp.png]]
------------------------------



And 'C-c C-e b' results in HTML output like this:

------------------------------
<pre class="src src-R">dat <span style="color: #008b8b;">&lt;-</span>
matrix(runif(12), 6, 2)
print(dat)
plot(dat)
</pre>
<p>
<img src="tp.png"  alt="tp.png" />
</p>

------------------------------



Neither of those have the actual printed matrix output, which would be
something like this:

------------------------------
#+begin_src R :exports both :results output
dat <-  matrix(runif(12), 6, 2)
print(dat)
#+end_src

#+results:
:           [,1]      [,2]
: [1,] 0.3675202 0.1995134
: [2,] 0.9221087 0.1225686
: [3,] 0.6534830 0.6986238
: [4,] 0.3523151 0.1299406
: [5,] 0.7207582 0.5494278
: [6,] 0.3665547 0.6328452
------------------------------




Any clues?  Thanks.



--
Ken Williams
Senior Research Scientist
Thomson Reuters
http://labs.thomsonreuters.com

RE: [babel] Emitting both text & graphics output

[Mikhail Titov]

I'm just a newbie user of org & babel, but as a workaround I'd split it into
several blocks and use session based work. For instance I have the following
in my dot emacs:

(setq org-babel-default-header-args:R
  '((:results . "output") (:session . "*R*")))

This way I can always see what is going on within ESS in *R* buffer and all
variables are preserved.

Mikhail

> -----Original Message-----
> From: emacs-orgmode-bounces+mlt=gmx.us@gnu.org [mailto:emacs-orgmode-
> bounces+mlt=gmx.us@gnu.org] On Behalf Of Ken.Williams@thomsonreuters.com
> Sent: Tuesday, March 22, 2011 3:03 PM
> To: emacs-orgmode@gnu.org
> Subject: [O] [babel] Emitting both text & graphics output
> 
> Hi,
> 
> Suppose I have a source block like the following, which both 'print's
> some
> text output and 'plot's to a graphics device:
> 
> ------------------------------
> #+begin_src R :file tp.png :exports both :results output graphics
> dat <-  matrix(runif(12), 6, 2)
> print(dat)
> plot(dat)
> #+end_src
> ------------------------------
> 
> 
> 
> I can't seem to get the print() output to display, either by exporting
> to
> HTML or by simple evaluation of the code block.
> 
> 'C-c C-c' results in the following 'results' section:
> 
> ------------------------------
> #+results:
> [[file:tp.png]]
> ------------------------------
> 
> 
> 
> And 'C-c C-e b' results in HTML output like this:
> 
> ------------------------------
> <pre class="src src-R">dat <span style="color: #008b8b;">&lt;-</span>
> matrix(runif(12), 6, 2)
> print(dat)
> plot(dat)
> </pre>
> <p>
> <img src="tp.png"  alt="tp.png" />
> </p>
> 
> ------------------------------
> 
> 
> 
> Neither of those have the actual printed matrix output, which would be
> something like this:
> 
> ------------------------------
> #+begin_src R :exports both :results output
> dat <-  matrix(runif(12), 6, 2)
> print(dat)
> #+end_src
> 
> #+results:
> :           [,1]      [,2]
> : [1,] 0.3675202 0.1995134
> : [2,] 0.9221087 0.1225686
> : [3,] 0.6534830 0.6986238
> : [4,] 0.3523151 0.1299406
> : [5,] 0.7207582 0.5494278
> : [6,] 0.3665547 0.6328452
> ------------------------------
> 
> 
> 
> 
> Any clues?  Thanks.
> 
> 
> 
> --
> Ken Williams
> Senior Research Scientist
> Thomson Reuters
> http://labs.thomsonreuters.com
> 

Re: [babel] Emitting both text & graphics output

[suvayu ali]

On Tue, Mar 22, 2011 at 1:02 PM,  <Ken.Williams@thomsonreuters.com> wrote:
> ------------------------------
> #+begin_src R :file tp.png :exports both :results output graphics
> dat <-  matrix(runif(12), 6, 2)
> print(dat)
> plot(dat)
> #+end_src
> ------------------------------
>
>
>
> I can't seem to get the print() output to display, either by exporting to
> HTML or by simple evaluation of the code block.


Exporting to HTML includes a plot for me. Are you sure you activated R properly?

This is my settings for babel,

https://github.com/suvayu/.emacs.d/blob/master/lisp/org-mode-settings.el#L282

-- 
Suvayu

Open source is the future. It sets us free.

Re: [babel] Emitting both text & graphics output

[Nick Dokos]

suvayu ali <fatkasuvayu+linux@gmail.com> wrote:

> On Tue, Mar 22, 2011 at 1:02 PM,  <Ken.Williams@thomsonreuters.com> wrote:
> > ------------------------------
> > #+begin_src R :file tp.png :exports both :results output graphics
> > dat <- =A0matrix(runif(12), 6, 2)
> > print(dat)
> > plot(dat)
> > #+end_src
> > ------------------------------
> >
> >
> >
> > I can't seem to get the print() output to display, either by exporting to
> > HTML or by simple evaluation of the code block.
> 
> 
> Exporting to HTML includes a plot for me. Are you sure you activated R prop=
> erly?
> 

... but it doesn't include the print(dat) output. That's what the OP wanted
I think.

Nick

PS. the session trick that Mikhail Titov suggested works well:

--8<---------------cut here---------------start------------->8---

* Foo

#+begin_src R :session *R* :exports both :results output
 dat <-  matrix(runif(12), 6, 2)
 print(dat)
#+end_src

#+results:
:           [,1]       [,2]
: [1,] 0.3459181 0.04018971
: [2,] 0.9300838 0.75353098
: [3,] 0.4234347 0.51248641
: [4,] 0.3713377 0.23556420
: [5,] 0.2572491 0.73720994
: [6,] 0.7233642 0.58195861


#+begin_src R :session *R* :exports both :results graphics :file tp.png
 plot(dat)
#+end_src

#+results:
[[file:tp.png]]

--8<---------------cut here---------------end--------------->8---