Thank you Mollie and all,
So it looks like there's no way to properly use chunks within the Mac R
GUI.
I will have to decide whether I completely switch to RStudio, or develop
in the R GUI and then run in RStudio.
Still, until now I was a great fan of the R GUI on Mac so I'm a bit
frustrated. It would be great if this feature were integrated to the R
GUI some day! Alternatively, a better GUI for RStudio allowing for
multiple screens would be fine too (but that's for another list!).
Bests,
Ivan
--
Ivan Calandra, PhD
University of Reims Champagne-Ardenne
GEGENAA - EA 3795
CREA - 2 esplanade Roland Garros
51100 Reims, France
+33(0)3 26 77 36 89
ivan.calan...@univ-reims.fr
--
https://www.researchgate.net/profile/Ivan_Calandra
https://publons.com/author/705639/
Le 12/04/2016 15:05, Mollie Brooks a écrit :
Hi Ivan,
Using the R GUI and the built-in editor, you should be able to format
your document in the standard Rmarkdown or knitr way and save it with
the appropriate extension (Rmd or Rnw), but only run lines within
chunks in the console (using command + enter in the normal way). You
can make sure all the chunks are working in that way. Then to format
the whole document you can use a command in the Terminal as described
in the links Tom sent or reopen the document in Rstudio.
Somehow my R GUI can’t find the right pieces to make the pdf, so I
have to use the Terminal. render("EstObsErr.Rmd") produces the error
/usr/local/bin/pandoc EstObsErr.utf8.md --to latex --from
markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash-implicit_figures
--output EstObsErr.pdf --template
/Library/Frameworks/R.framework/Versions/3.2/Resources/library/rmarkdown/rmd/latex/default-1.14.tex
--highlight-style tango --latex-engine pdflatex --variable
'geometry:margin=1in'
pandoc: pdflatex not found. pdflatex is needed for pdf output.
Error: pandoc document conversion failed with error 41
cheers,
Mollie
------------------------
Mollie Brooks, PhD
Postdoctoral Researcher, Population Ecology Research Group
Department of Evolutionary Biology & Environmental Studies, University
of Zürich
http://www.popecol.org/team/mollie-brooks/
On 12Apr 2016, at 12:57, Ivan Calandra <ivan.calan...@univ-reims.fr
<mailto:ivan.calan...@univ-reims.fr>> wrote:
Thank you for your answer.
I don't usually use the Terminal, so I'm not sure how to do it.
But do you mean to start it from the Terminal and then use the R GUI
or do everything in the Terminal? In the latter case, I would prefer
using RStudio... My question was about using the R GUI Editor rather
than RStudio.
Ivan
--
Ivan Calandra, PhD
University of Reims Champagne-Ardenne
GEGENAA - EA 3795
CREA - 2 esplanade Roland Garros
51100 Reims, France
+33(0)3 26 77 36 89
ivan.calan...@univ-reims.fr <mailto:ivan.calan...@univ-reims.fr>
--
https://www.researchgate.net/profile/Ivan_Calandra
https://publons.com/author/705639/
Le 12/04/2016 11:41, Tom Hopper a écrit :
Ivan,
You need to run knitr manually from the terminal (RStudio automates
this with the “knit” button). See
http://joshldavis.com/2014/04/12/beginners-tutorial-for-knitr/
http://kbroman.org/knitr_knutshell/pages/Rmarkdown.html
for short tutorials on using knitr from the terminal.
Regards,
Tom
On 201604 12, at 05:15, Ivan Calandra <ivan.calan...@univ-reims.fr
<mailto:ivan.calan...@univ-reims.fr>> wrote:
Dear Mac useRs,
A colleague of mine have introduced me to rmarkdown and knitr to
produce nice reports. The other interesting thing here is to have
so-called chunks of code, which I find very practical to organize
scripts.
I have found that it works well within RStudio. But is there a way
to enable chunks within the R GUI (and its great editor)?
What I don't like with RStudio (except that I need to install still
another software, and place is limited on the 256GB SSD of my
MacBook Air) is that it is not able to work on multiple screens.
Thank you in advance for your help.
Ivan
--
Ivan Calandra, PhD
University of Reims Champagne-Ardenne
GEGENAA - EA 3795
CREA - 2 esplanade Roland Garros
51100 Reims, France
+33(0)3 26 77 36 89
ivan.calan...@univ-reims.fr <mailto:ivan.calan...@univ-reims.fr>
--
https://www.researchgate.net/profile/Ivan_Calandra
https://publons.com/author/705639/
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