diff --git a/module2/exo1/toy_document_orgmode_R_en.org b/module2/exo1/toy_document_orgmode_R_en.org index 2b73d64e82dad485ab562f8bda6434ffa7b68d27..c568126cc734e6b34d867142e08f0b3450746edc 100644 --- a/module2/exo1/toy_document_orgmode_R_en.org +++ b/module2/exo1/toy_document_orgmode_R_en.org @@ -1,4 +1,4 @@ -#+TITLE: Your title +#+TITLE: On the computation of pi #+AUTHOR: Your name #+DATE: Today's date #+LANGUAGE: en @@ -18,21 +18,13 @@ Emacs, this document can easily be exported to HTML, PDF, and Office formats. For more information on org-mode, see https://orgmode.org/guide/. -When you type the shortcut =C-c C-e h o=, this document will be -exported as HTML. All the code in it will be re-executed, and the -results will be retrieved and included into the exported document. If -you do not want to re-execute all code each time, you can delete the # -and the space before ~#+PROPERTY:~ in the header of this document. - -Like we showed in the video, R code is included as follows (and is -exxecuted by typing ~C-c C-c~): #+begin_src R :results output :exports both -print("Hello world!") +pi #+end_src #+RESULTS: -: [1] "Hello world!" +: [1] 3.141593 And now the same but in an R session. This is the most frequent situation, because R is really an interactive language. With a @@ -41,41 +33,31 @@ persistent from one code block to the next. The code is still executed using ~C-c C-c~. #+begin_src R :results output :session *R* :exports both -summary(cars) +set.seed(42) +N = 100000 +x = runif(N) +theta = pi/2*runif(N) +2/(mean(x+sin(theta)>1)) #+end_src #+RESULTS: -: speed dist -: Min. : 4.0 Min. : 2.00 -: 1st Qu.:12.0 1st Qu.: 26.00 -: Median :15.0 Median : 36.00 -: Mean :15.4 Mean : 42.98 -: 3rd Qu.:19.0 3rd Qu.: 56.00 -: Max. :25.0 Max. :120.00 +: [1] 3.14327 -Finally, an example for graphical output: -#+begin_src R :results output graphics :file "./cars.png" :exports results :width 600 :height 400 :session *R* -plot(cars) -#+end_src -#+RESULTS: -[[file:./cars.png]] +#+begin_src R :results output graphics :file "./cars.png" :exports results :width 600 :height 400 :session *R* +set.seed(42) +N = 1000 +df = data.frame(X = runif(N), Y = runif(N)) +df$Accept = (df$X**2 + df$Y**2 <=1) +library(ggplot2) +ggplot(df, aes(x=X,y=Y,color=Accept)) + geom_point(alpha=.2) + coord_fixed() + theme_bw() -Note the parameter ~:exports results~, which indicates that the code -will not appear in the exported document. We recommend that in the -context of this MOOC, you always leave this parameter setting as -~:exports both~, because we want your analyses to be perfectly -transparent and reproducible. +#+end_src -Watch out: the figure generated by the code block is /not/ stored in -the org document. It's a plain file, here named ~cars.png~. You have -to commit it explicitly if you want your analysis to be legible and -understandable on GitLab. +#+begin_src R :results output :session *R* :exports both +4*mean(df$Accept) +#+end_src -Finally, don't forget that we provide in the resource section of this -MOOC a configuration with a few keyboard shortcuts that allow you to -quickly create code blocks in R by typing ~