Re: Generating plot with org-babel-R

[tsd@tsdye.com (Thomas S. Dye)]

Hi Riccardo,

Thanks for the URL.  Org mode has evolved since this article was
written.  It should probably be revised or taken off Worg.  I've copied
Eric Schulte, who is better able than me to determine the correct course
of action here.

In the meantime, an up-to-date description of how Org mode can be used
to write literate programs has appeared in the Journal of Statistical
Software.  You can find it here: http://www.jstatsoft.org/v46/i03

Perhaps you could use the examples in the JSS article to get started?
If these don't work for you, or if they raise questions that are difficult
to answer, please do come back to the list with your queries.

All the best,
Tom

Riccardo Romoli <ric.romoli@gmail.com> writes:

> Hi, this is the URL:
>
> http://orgmode.org/worg/org-contrib/babel/how-to-use-Org-Babel-for-R.html
>
> Best
> R
>
> 2012/2/5 Thomas S. Dye <tsd@tsdye.com>
>
>> Hi Riccardo,
>>
>> This code appears to be outdated.  I don't recall this code on the org
>> site.  Could you send a URL?
>>
>> All the best,
>> Tom
>>
>> Riccardo Romoli <ric.romoli@gmail.com> writes:
>>
>> > Hi, I'm trying to generate some figure with R, into an org session.
>> Firstly
>> > I use the code in the org site. The problem is that the code do not
>> > generate any figure.
>> >
>> > This is the code:
>> >
>> > #+TITLE:Test
>> > #+AUTHOR: Your Name
>> > #+EMAIL: your-email@server.com
>> > #+BABEL: :session *R* :cache yes :results output graphics :exports
>> > both :tangle yes
>> >
>> > * Example of Org-Babel for R Literate Programming
>> > ** R text output
>> > A simple summary.
>> > #+begin_src R
>> >   x <- rnorm(10)
>> >   summary(x)
>> > #+end_src
>> >
>> > ** R graphics output
>> > Note we use the object =x= generated in previous code block, thanks to
>> > the header option =:session *R*=.  The output graphics file is
>> > =a.png=.
>> >
>> > #+begin_src R  :file a.png
>> >   y <- rnorm(10)
>> >   plot(x, y)
>> > #+end_src
>> >
>> > Same plot with larger dimension:
>> >
>> > #+begin_src R  :file b.png :width 800 :height 800
>> >   plot(x, y)
>> > #+end_src
>> >
>> >
>> > Where do I wrong?
>> >
>> > Best
>> > Riccardo
>> > Hi, I&#39;m trying to generate some figure with R, into an org session.
>> Firstly I use the code in the org site. The problem is that the code do not
>> generate any figure. This is the code:
>> > #+TITLE:Test
>> > #+AUTHOR: Your Name
>> > #+EMAIL: mailto:your-email@server.com
>> > #+BABEL: :session *R* :cache yes :results output graphics :exports both
>> :tangle yes
>> >
>> > * Example of Org-Babel for R Literate Programming
>> > ** R text output
>> > A simple summary.
>> > #+begin_src R
>> >   x <- rnorm(10)
>> >   summary(x)
>> > #+end_src
>> >
>> > ** R graphics output
>> > Note we use the object =x= generated in previous code block, thanks to
>> > the header option =:session *R*=.  The output graphics file is
>> > =a.png=.
>> >
>> > #+begin_src R  :file a.png
>> >   y <- rnorm(10)
>> >   plot(x, y)
>> > #+end_src
>> >
>> > Same plot with larger dimension:
>> >
>> > #+begin_src R  :file b.png :width 800 :height 800
>> >   plot(x, y)
>> > #+end_src
>> > Where do I wrong?BestRiccardo
>>
>> --
>> Thomas S. Dye
>> http://www.tsdye.com
>>
> Hi, this is the URL:http://orgmode.org/worg/org-contrib/babel/how-to-use-Org-Babel-for-R.htmlBestR
> 2012/2/5 Thomas S. Dye <span dir="ltr"><mailto:tsd@tsdye.com></span>Hi Riccardo,
>
>
> This code appears to be outdated.  I don&#39;t recall this code on the org
> site.  Could you send a URL?
>
> All the best,
> Tom
>
> Riccardo Romoli <mailto:ric.romoli@gmail.com> writes:
>
>> Hi, I&#39;m trying to generate some figure with R, into an org session. Firstly
>> I use the code in the org site. The problem is that the code do not
>> generate any figure.
>>
>> This is the code:
>>
>> #+TITLE:Test
>> #+AUTHOR: Your Name
>> #+EMAIL: mailto:your-email@server.com
>> #+BABEL: :session *R* :cache yes :results output graphics :exports
>> both :tangle yes
>>
>> * Example of Org-Babel for R Literate Programming
>> ** R text output
>> A simple summary.
>> #+begin_src R
>>   x <- rnorm(10)
>>   summary(x)
>> #+end_src
>>
>> ** R graphics output
>> Note we use the object =x= generated in previous code block, thanks to
>> the header option =:session *R*=.  The output graphics file is
>> =a.png=.
>>
>> #+begin_src R  :file a.png
>>   y <- rnorm(10)
>>   plot(x, y)
>> #+end_src
>>
>> Same plot with larger dimension:
>>
>> #+begin_src R  :file b.png :width 800 :height 800
>>   plot(x, y)
>> #+end_src
>>
>>
>> Where do I wrong?
>>
>> Best
>> Riccardo
>> Hi, I&#39;m trying to generate some figure with R, into an org session. Firstly I use the code in the org site. The problem is that the code do not generate any figure. This is the code:
>> #+TITLE:Test
>> #+AUTHOR: Your Name
>> #+EMAIL: mailto:mailto:your-email@server.com
>> #+BABEL: :session *R* :cache yes :results output graphics :exports both :tangle yes
>>
>> * Example of Org-Babel for R Literate Programming
>> ** R text output
>> A simple summary.
>> #+begin_src R
>>   x <- rnorm(10)
>>   summary(x)
>> #+end_src
>>
>> ** R graphics output
>> Note we use the object =x= generated in previous code block, thanks to
>> the header option =:session *R*=.  The output graphics file is
>> =a.png=.
>>
>> #+begin_src R  :file a.png
>>   y <- rnorm(10)
>>   plot(x, y)
>> #+end_src
>>
>> Same plot with larger dimension:
>>
>> #+begin_src R  :file b.png :width 800 :height 800
>>   plot(x, y)
>> #+end_src
>> Where do I wrong?BestRiccardo
>
> <span class="HOEnZb">--
> Thomas S. Dye
> http://www.tsdye.com
> </span>

-- 
Thomas S. Dye
http://www.tsdye.com