Re: [O] org-babel export table from R to LaTeX

[Riccardo Romoli]

Thanks for your suggestion, I solved the problem using:

#+headers: :results output latex
#+begin_src R :session *R* :exports results
...
print(xtable(summary(mypca)))
#+end_src

Regards
Riccardo




2012/2/14 Andreas Leha andreas.l...@med.uni-goettingen.de

 Christophe Pouzat christophe.pou...@gmail.com writes:

  Sorry,
 
  Checking foo.org
  (
 http://orgmode.org/w/?p=worg.git;a=blob_plain;f=org-contrib/babel/examples/foo.org;hb=HEAD
 )
  I got the correct way to do it:
 
  #+begin_src R :results output latex :exports results
library(xtable)
xtable(foo, caption = ANOVA Table, label = tab:one,
digits = c(0, 0, 2, 0, 2, 3, 3))
  #+end_src
 
  Does it solve your problem?
 
  Christophe
 
  Riccardo Romoli ric.rom...@gmail.com writes:
 
  If I set :export latex when I exports to LaTeX I have only the R code,
 not the
  table.
 
  Best
 
  2012/2/14 Christophe Pouzat christophe.pou...@gmail.com
 
  Riccardo Romoli ric.rom...@gmail.com writes:
 
   Hi, I work with org-babel and R.
   In the R session I create a table that I have to export to LaTeX.
   This is the code I use:
  
   #+headers: :results latex
   #+begin_src R :session *R* :exports results
   .
 print(xtable(summary(mypca)))
   #+end_src
  
   I do not understand why the exported table is delimited by |:
  
   |% latex table generated in R 2.14.1 by xtable 1.6-0 package |
   | % Tue Feb 14 16:21:48 2012 |
   | \begin{table}[ht] |
 | \begin{center} |
   | \begin{tabular}{r} |
 | \hline |
 |  PC1  PC2  PC3  PC4  PC5  PC6  PC7  PC8  PC9 
 PC10 
 PC11  PC12  PC13  PC14  PC15  PC16 \\ |
 | \hline |
 | Standard deviation  3.4693  2.8113  2.5561  2.2668 
 2.0015  1.9236  1.7287  1.6220  1.4288  1.3456 
 1.2596 
 1.2195  1.1278  1.0778  0.8390  0. \\ |
 | Proportion of Variance  0.2188  0.1437  0.1188 
 0.0934 
 0.0728  0.0673  0.0543  0.0478  0.0371  0.0329 
 0.0289 
 0.0270  0.0231  0.0211  0.0128  0. \\ |
 | Cumulative Proportion  0.2188  0.3625  0.4813  0.5747
 
 0.6476  0.7149  0.7692  0.8170  0.8541  0.8871 
 0.9159 
 0.9429  0.9661  0.9872  1.  1. \\ |
 | \hline |
 | \end{tabular} |
   | \end{center} |
 | \end{table} |
   | |
  
   Should I change some headers settings??
  
   Best
  
 
  Hi Riccardo,
 
  Try :exports latex instead of :exports results
 
  Christophe
  --
 
  Most people are not natural-born statisticians. Left to our own
  devices we are not very good at picking out patterns from a sea of
  noisy data. To put it another way, we are all too good at picking
 out
  non-existent patterns that happen to suit our purposes.
  Bradley Efron  Robert Tibshirani (1993) An Introduction to the
 Bootstrap
 
  --
 
  Christophe Pouzat
  MAP5 - Mathématiques Appliquées à Paris 5
  CNRS UMR 8145
  45, rue des Saints-Pères
  75006 PARIS
  France
 
  tel: +33142863828
  mobile: +33662941034
  web: http://www.biomedicale.univ-paris5.fr/physcerv/C_Pouzat.html
 
 

 Hi Riccardo,

 additionally, if you do not want to get too tightly bound to LaTeX, check
 out the ascii-package, e.g.

 #+begin_src R :results output org wrap :exports results
  library(ascii)

  ## from the lm help page:
  ctl - c(4.17,5.58,5.18,6.11,4.50,4.61,5.17,4.53,5.33,5.14)
  trt - c(4.81,4.17,4.41,3.59,5.87,3.83,6.03,4.89,4.32,4.69)
  group - gl(2,10,20, labels=c(Ctl,Trt))
  weight - c(ctl, trt)
  lm.D9 - lm(weight ~ group)
  lm.D90 - lm(weight ~ group - 1) # omitting intercept

  print(ascii(anova(lm.D9)), type=org)
 #+end_src


 Cheers,
 Andreas

[O] highlight latex code

[Riccardo Romoli]

Hi, is there a way to highlight latex code like \ref{},  \si{}, \ce{},  
and so on, such as in org *bold* and /emph/?


Regards
Riccardo

[O] org-babel export table from R to LaTeX

[Riccardo Romoli]

Hi, I work with org-babel and R.
In the R session I create a table that I have to export to LaTeX.
This is the code I use:

#+headers: :results latex
#+begin_src R :session *R* :exports results
.
  print(xtable(summary(mypca)))
#+end_src

I do not understand why the exported table is delimited by |:

|% latex table generated in R 2.14.1 by xtable 1.6-0 package |
| % Tue Feb 14 16:21:48 2012 |
| \begin{table}[ht] |
  | \begin{center} |
| \begin{tabular}{r} |
  | \hline |
  |  PC1  PC2  PC3  PC4  PC5  PC6  PC7  PC8  PC9  PC10 
  PC11  PC12  PC13  PC14  PC15  PC16 \\ |
  | \hline |
  | Standard deviation  3.4693  2.8113  2.5561  2.2668 
  2.0015  1.9236  1.7287  1.6220  1.4288  1.3456  1.2596 
  1.2195  1.1278  1.0778  0.8390  0. \\ |
  | Proportion of Variance  0.2188  0.1437  0.1188  0.0934 
  0.0728  0.0673  0.0543  0.0478  0.0371  0.0329  0.0289 
  0.0270  0.0231  0.0211  0.0128  0. \\ |
  | Cumulative Proportion  0.2188  0.3625  0.4813  0.5747 
  0.6476  0.7149  0.7692  0.8170  0.8541  0.8871  0.9159 
  0.9429  0.9661  0.9872  1.  1. \\ |
  | \hline |
  | \end{tabular} |
| \end{center} |
  | \end{table} |
| |

Should I change some headers settings??

Best

Re: [O] org-babel export table from R to LaTeX

[Riccardo Romoli]

If I set :export latex when I exports to LaTeX I have only the R code, not
the table.

Best

2012/2/14 Christophe Pouzat christophe.pou...@gmail.com

 Riccardo Romoli ric.rom...@gmail.com writes:

  Hi, I work with org-babel and R.
  In the R session I create a table that I have to export to LaTeX.
  This is the code I use:
 
  #+headers: :results latex
  #+begin_src R :session *R* :exports results
  .
print(xtable(summary(mypca)))
  #+end_src
 
  I do not understand why the exported table is delimited by |:
 
  |% latex table generated in R 2.14.1 by xtable 1.6-0 package |
  | % Tue Feb 14 16:21:48 2012 |
  | \begin{table}[ht] |
| \begin{center} |
  | \begin{tabular}{r} |
| \hline |
|  PC1  PC2  PC3  PC4  PC5  PC6  PC7  PC8  PC9  PC10 
PC11  PC12  PC13  PC14  PC15  PC16 \\ |
| \hline |
| Standard deviation  3.4693  2.8113  2.5561  2.2668 
2.0015  1.9236  1.7287  1.6220  1.4288  1.3456  1.2596 
1.2195  1.1278  1.0778  0.8390  0. \\ |
| Proportion of Variance  0.2188  0.1437  0.1188  0.0934 
0.0728  0.0673  0.0543  0.0478  0.0371  0.0329  0.0289 
0.0270  0.0231  0.0211  0.0128  0. \\ |
| Cumulative Proportion  0.2188  0.3625  0.4813  0.5747 
0.6476  0.7149  0.7692  0.8170  0.8541  0.8871  0.9159 
0.9429  0.9661  0.9872  1.  1. \\ |
| \hline |
| \end{tabular} |
  | \end{center} |
| \end{table} |
  | |
 
  Should I change some headers settings??
 
  Best
 

 Hi Riccardo,

 Try :exports latex instead of :exports results

 Christophe
 --

 Most people are not natural-born statisticians. Left to our own
 devices we are not very good at picking out patterns from a sea of
 noisy data. To put it another way, we are all too good at picking out
 non-existent patterns that happen to suit our purposes.
 Bradley Efron  Robert Tibshirani (1993) An Introduction to the Bootstrap

 --

 Christophe Pouzat
 MAP5 - Mathématiques Appliquées à Paris 5
 CNRS UMR 8145
 45, rue des Saints-Pères
 75006 PARIS
 France

 tel: +33142863828
 mobile: +33662941034
 web: http://www.biomedicale.univ-paris5.fr/physcerv/C_Pouzat.html

Re: [O] R export graphics

[Riccardo Romoli]

Hi Thomas,
thanks for your fast replay.
I had thought of this solution too but, since I have many folders that I
need to move between, I need to have a pivot to start with.

Best
Riccardo

2012/2/13 Thomas S. Dye t...@tsdye.com

 Riccardo Romoli ric.rom...@gmail.com writes:

  Hi, I have some trouble exporting figures from an R-org-babel session.
 
  The code I use to generate the figure is:
 
  #+name: my figure
  #+headers: :results graphics :file /Users/riccardoromoli/Documents/
  Dropbox/PhD/myFigure.pdf
  #+begin_src R :session *R* :exports results
  ...
  #+end_src
 
  So, if I use : file /User/riccardoromoli/Documents/, all works
  right, but, if I use ~/Documents/. the R console says:
   Error in pdf(file = ~/Dropbox/PhD/myFigure.pdf) : cannot open file
  ~/Dropbox/PhD/myFigure.pdf'
 
  I usually work in the DropBox folder because at work I have a linux
  machine instead at my home I have an OsX machine, so if I could use
  ~, I should not change the code every time I switch between the two
  different computer.
 
  Best
  Riccardo
 
 Aloha Riccardo,

 If you work in your Dropbox/PhD folder (your .org files are there), then
 you should be able to do :file myFigure.pdf on both systems.

 hth,
 Tom
 --
 Thomas S. Dye
 http://www.tsdye.com

[O] R export graphics

[Riccardo Romoli]

Hi, I have some trouble exporting figures from an R-org-babel session.

The code I use to generate the figure is:

#+name: my figure
#+headers: :results graphics :file /Users/riccardoromoli/Documents/ 
Dropbox/PhD/myFigure.pdf

#+begin_src R :session *R* :exports results
...
#+end_src

So, if I use : file /User/riccardoromoli/Documents/, all works  
right, but, if I use ~/Documents/. the R console says:
 Error in pdf(file = ~/Dropbox/PhD/myFigure.pdf) : cannot open file  
'~/Dropbox/PhD/myFigure.pdf'


I usually work in the DropBox folder because at work I have a linux  
machine instead at my home I have an OsX machine, so if I could use  
~, I should not change the code every time I switch between the two  
different computer.


Best
Riccardo

Re: [O] AUCTex within org-babel

[Riccardo Romoli]

Hi, Jonas
if you enter in the AUCTeX buffer (C-c') and than you use the AUCTeX C-c
C-e, you can choose the environment you need in the emacs minibuffer such
as in LaTeX.

Best
Riccardo

2012/2/8 Jonas Hörsch co...@online.de

 Hi list,

 On Wed, Feb 08 2012, Riccardo Romoli wrote:

  thanks a lot for your answer!! I completely ignore that C-c' lunch the
  small buffer for all the code within the src blocks. I belive it was used
  only for ESS

 the only remaining problem is that the AUCTeX mode tries to be smart
 about what environments it allows to insert. f.ex. inserting

 #+begin_src latex

 #+end_src

 then C-', brings one to a source buffer with AUCTeX-mode enabled.

 But a C-c C-e to insert an environment doesn't want to complete on
 itemize or figure, but instead only allows to choose document (Which
 would be perfectly sane under the assumption that the buffer contains
 the whole tex-document).

 Does anybody know how to deactivate this feature of AUCTeX? Perhaps
 setting TeX-master-file to something special?

 Thanks,
 Jonas

Re: [O] AUCTex within org-babel

[Riccardo Romoli]

I have a further question: how can I export a code like this:

#+begin_src latex
  \begin{figure}
\centering
\includegraphics[width=1\textwidth]{foo.jpg}
\caption{Figure example}
\label{fig:foo}
  \end{figure}
#+end_src

to LaTeX to obtain a working figure code??

Best
Riccardo

2012/2/9 Jonas Hörsch co...@online.de

 hi riccardo,

 On Thu, Feb 09 2012, Riccardo Romoli wrote:

  if you enter in the AUCTeX buffer (C-c') and than you use the AUCTeX C-c
  C-e, you can choose the environment you need in the emacs minibuffer such
  as in LaTeX.

 yes, indeed. and my claim was, that the completion facility of AUCTeX
 then only shows the environment
 \begin{document}..\end{document} and not f.ex. figure.

 but when i tried to verify that claim right now, it curiously seems not
 to be true any longer.

 so sorry for the noise, my problem (if it ever was one) is solved.

 cheers,
 jonas

Re: [O] AUCTex within org-babel

[Riccardo Romoli]

Thanks Jonas!!
I do not understand why the code works only if I use:

#+begin_latex

#+end-latex

instead of :

#+begin_src latex :exports results :results latex

#+end_src


mind that you could also use org constructs, for instance

 #+CAPTION: Figure example
 #+LABEL: fig:foo
 [[foo.jpg]]


I prefer to use the original LaTeX code!!

Best
Riccardo


2012/2/9 Jonas Hörsch co...@online.de

 On Thu, Feb 09 2012, Riccardo Romoli wrote:

  I have a further question: how can I export a code like this:
 
  #+begin_src latex
\begin{figure}
  \centering
  \includegraphics[width=1\textwidth]{foo.jpg}
  \caption{Figure example}
  \label{fig:foo}
\end{figure}
  #+end_src
 
  to LaTeX to obtain a working figure code??
 

 it seems to do what you want, when you instead use

 #+begin_latex
 ...
 #+end_latex

 C-' also still does the same. only the native fontification in the org
 buffer doesn't work irrespective of the org-src-fontify-natively
 setting. perhaps there is another variable for that.

 mind that you could also use org constructs, for instance

 #+CAPTION: Figure example
 #+LABEL: fig:foo
 [[foo.jpg]]

 exports to something rather similar.

 cheers,
 jonas

[O] AUCTex within org-babel

[Riccardo Romoli]

Hi, is there a way to include the AUCTeX function (i.e. to create a figure
or a table or insert a font...) and markup color,  within an org-babel
document?

Best
Riccardo

Re: [O] AUCTex within org-babel

[Riccardo Romoli]

Hi Eric,
thanks a lot for your answer!! I completely ignore that C-c' lunch the
small buffer for all the code within the src blocks. I belive it was used
only for ESS

Best
Riccardo

2012/2/8 Eric Schulte eric.schu...@gmx.com

 Riccardo Romoli ric.rom...@gmail.com writes:

  Hi, is there a way to include the AUCTeX function (i.e. to create a
 figure
  or a table or insert a font...) and markup color,  within an org-babel
  document?
 

 If I understand your question correctly you want AUCTeX mode to be
 active in an Org-mode document.  Generally this is not possible as
 Org-mode is the active mode and AUCTeX and Org would conflict in many
 ways.

 If you want syntax highlighting for a particular chunk of latex code,
 you can may it in a src block

 #+begin_src latex
  your latex here...
 #+end_src

 and then customize the `org-src-fontify-natively' variable.  Pressing
 C-c ' from withing the code block will then launch a small buffer in
 AUCTeX mode.

 Best,

 
  Best
  Riccardo

 --
 Eric Schulte
 http://cs.unm.edu/~eschulte/

Re: [O] Generating plot with org-babel-R

[Riccardo Romoli]

Hi Thomas,
thanks a lot for your help!! Using the JSS and the org manual I solved all
my problem (at least for now!! :))

Best
Riccardo

2012/2/5 Thomas S. Dye t...@tsdye.com

 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.rom...@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 t...@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.rom...@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-em...@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-em...@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=ltrmailto:t...@tsdye.com/spanHi
 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.rom...@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-em...@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-em...@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

Re: [O] Generating plot with org-babel-R

[Riccardo Romoli]

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 t...@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.rom...@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-em...@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-em...@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

Re: [O] org-babel export latex problem

[Riccardo Romoli]

Thanks for the suggestion, the update fix the problem.
Best
Riccardo

2012/2/3 Thomas S. Dye t...@tsdye.com

 The current version is 7.8. Could you update and see if the problem
 persists?

 Tom

 Sent from my iPhone

 On Feb 3, 2012, at 1:43 AM, Riccardo Romoli ric.rom...@gmail.com wrote:

 The version is 6.33x

 Best

 2012/2/3 Thomas S. Dye t...@tsdye.com

 Riccardo Romoli ric.rom...@gmail.com writes:

  Hi, I'm new of these list and of the org-babel world.
  I need to use both LaTeX and R, so I write the R code within an src
  block:
 
  #+begin_src R :results output silent :exports none
  library(chemometrics)
  library(MASS)
  library(lattice)
  #+end_src
 
  When I export to LaTex (C-c C-e l) the R code I wrote, this is the
  result:
 
  \begin{verbatim}
  library(chemometrics)
  library(MASS)
  library(lattice)
  \end{verbatim}
 
  How could I  not display the result of the R computation? In the org-
  manual (chapter 14 ) I read that what I need should be done using:
 
  :results output silent :exports none
 
  but despite I use this option nothing change.
 
  Do you have any suggestion??
 
  Best
  Riccardo
 
 
 Aloha Riccardo,

 What version of Org mode are you using?

 All the best,
 Tom
 --
 Thomas S. Dye
 http://www.tsdye.com

[O] Generating plot with org-babel-R

[Riccardo Romoli]

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-em...@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

Re: [O] org-babel export latex problem

[Riccardo Romoli]

The version is 6.33x

Best

2012/2/3 Thomas S. Dye t...@tsdye.com

 Riccardo Romoli ric.rom...@gmail.com writes:

  Hi, I'm new of these list and of the org-babel world.
  I need to use both LaTeX and R, so I write the R code within an src
  block:
 
  #+begin_src R :results output silent :exports none
  library(chemometrics)
  library(MASS)
  library(lattice)
  #+end_src
 
  When I export to LaTex (C-c C-e l) the R code I wrote, this is the
  result:
 
  \begin{verbatim}
  library(chemometrics)
  library(MASS)
  library(lattice)
  \end{verbatim}
 
  How could I  not display the result of the R computation? In the org-
  manual (chapter 14 ) I read that what I need should be done using:
 
  :results output silent :exports none
 
  but despite I use this option nothing change.
 
  Do you have any suggestion??
 
  Best
  Riccardo
 
 
 Aloha Riccardo,

 What version of Org mode are you using?

 All the best,
 Tom
 --
 Thomas S. Dye
 http://www.tsdye.com

[O] org-babel export latex problem

[Riccardo Romoli]

Hi, I'm new of these list and of the org-babel world.
I need to use both LaTeX and R, so I write the R code within an src   
block:


#+begin_src R :results output silent :exports none
library(chemometrics)
library(MASS)
library(lattice)
#+end_src

When I export to LaTex (C-c C-e l) the R code I wrote, this is the  
result:


\begin{verbatim}
library(chemometrics)
library(MASS)
library(lattice)
\end{verbatim}

How could I  not display the result of the R computation? In the org- 
manual (chapter 14 ) I read that what I need should be done using:


:results output silent :exports none

but despite I use this option nothing change.

Do you have any suggestion??

Best
Riccardo