[babwel] Simplify graph generation and copying?

[babwel] Simplify graph generation and copying?

[Rainer M Krug]

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Hi

I do the following to create a graph in R and then convert / copy / do other stuff with it in the
bash shell:

#+header: :results graphics
#+header: :file Test.pdf
#+header: :width 4
#+header: :height 8
#+header: :pointsize 8
#+begin_src R
  plot(runif(100))
#+end_src

#+BEGIN_SRC sh :session shell
  cp Test.pdf Test2.pdf
#+END_SRC


Is there a way of automatically giving the ffile name from the :file parameter tio the second code
block, so that I just have to change the :file argument when I want a different name for the graph?

Thanks,

Rainer

- -- 
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys.
(Germany)

Centre of Excellence for Invasion Biology
Stellenbosch University
South Africa

Tel :       +33 - (0)9 53 10 27 44
Cell:       +33 - (0)6 85 62 59 98
Fax :       +33 - (0)9 58 10 27 44

Fax (D):    +49 - (0)3 21 21 25 22 44

email:      Rainer@krugs.de

Skype:      RMkrug
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Re: [babwel] Simplify graph generation and copying?

[Andreas Leha]

Rainer M Krug <r.m.krug@gmail.com> writes:

> Hi
>
> I do the following to create a graph in R and then convert / copy / do other stuff with it in the
> bash shell:
>
> #+header: :results graphics
> #+header: :file Test.pdf
> #+header: :width 4
> #+header: :height 8
> #+header: :pointsize 8
> #+begin_src R
>   plot(runif(100))
> #+end_src
>
> #+BEGIN_SRC sh :session shell
>   cp Test.pdf Test2.pdf
> #+END_SRC
>
>
> Is there a way of automatically giving the ffile name from the :file parameter tio the second code
> block, so that I just have to change the :file argument when I want a different name for the graph?
>
> Thanks,
>
> Rainer


Hi Rainer,

I am not aware of any possibility to pass the :file parameter from one
code block to another.  But for your use case, the file name is also
the return value of the R code block.  So, you can do:

#+name: mypdfplot
#+header: :results graphics
#+header: :file Test.pdf
#+header: :width 4
#+header: :height 8
#+header: :pointsize 8
#+begin_src R
  plot(runif(100))
#+end_src


#+BEGIN_SRC sh :session shell :var mypdf=mypdfplot()
  cp "$mypdf" Test2.pdf
#+END_SRC

Best,
Andreas

Re: [babwel] Simplify graph generation and copying?

[Rainer M Krug]

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On 30/03/12 21:04, Andreas Leha wrote:
> Rainer M Krug <r.m.krug@gmail.com> writes:
> 
>> Hi
>> 
>> I do the following to create a graph in R and then convert / copy / do other stuff with it in
>> the bash shell:
>> 
>> #+header: :results graphics #+header: :file Test.pdf #+header: :width 4 #+header: :height 8 
>> #+header: :pointsize 8 #+begin_src R plot(runif(100)) #+end_src
>> 
>> #+BEGIN_SRC sh :session shell cp Test.pdf Test2.pdf #+END_SRC
>> 
>> 
>> Is there a way of automatically giving the ffile name from the :file parameter tio the second
>> code block, so that I just have to change the :file argument when I want a different name for
>> the graph?
>> 
>> Thanks,
>> 
>> Rainer
> 
> 
> Hi Rainer,
> 
> I am not aware of any possibility to pass the :file parameter from one code block to another.
> But for your use case, the file name is also the return value of the R code block.  So, you can
> do:

Looks absolutely perfect. Thanks a lot,

Rainer

> 
> #+name: mypdfplot #+header: :results graphics #+header: :file Test.pdf #+header: :width 4 
> #+header: :height 8 #+header: :pointsize 8 #+begin_src R plot(runif(100)) #+end_src
> 
> 
> #+BEGIN_SRC sh :session shell :var mypdf=mypdfplot() cp "$mypdf" Test2.pdf #+END_SRC
> 
> Best, Andreas
> 
> 


- -- 
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys.
(Germany)

Centre of Excellence for Invasion Biology
Stellenbosch University
South Africa

Tel :       +33 - (0)9 53 10 27 44
Cell:       +33 - (0)6 85 62 59 98
Fax :       +33 - (0)9 58 10 27 44

Fax (D):    +49 - (0)3 21 21 25 22 44

email:      Rainer@krugs.de

Skype:      RMkrug
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