WIP: add skeleton notes to workflow

.github/workflows/bookdown.yaml

@@ -44,6 +44,11 @@ jobs:
             git push https://${{github.actor}}:${{secrets.GITHUB_TOKEN}}@github.com/${{github.repository}}.git HEAD:${{ github.ref }}
           fi
 
+      - name: Update notes
+        if: github.ref == 'refs/heads/master' && github.event_name == 'push'
+        run: bash bin/skeleton.sh
+        shell: bash
+
       - name: Make course zip
         if: github.ref == 'refs/heads/master' && github.event_name == 'push'
         run: Rscript make_course_zip.R

.github/workflows/skeleton-notes.yaml

@@ -0,0 +1,36 @@
+on: [push]
+# this file requires the following work:
+# move "Make course zip" into a shell script so to avoid
+# installing R and packages onto runner.
+
+name: skeleton-notes
+
+jobs:
+  make-skeleton-notes:
+    runs-on: macOS-latest
+    steps:
+      - name: Checkout repo
+        uses: actions/checkout@v3
+
+#      - name: Update notes
+#        run: bash bin/skeleton.sh
+#        shell: bash
+
+#      - name: Commit updated notes
+#        run: |
+#          if [[ -n "$(git status --porcelain)" ]]; then
+#            git add .
+#            git commit -m 'update skeleton notes'
+#            git push https://${{github.actor}}:${{secrets.GITHUB_TOKEN}}@github.com/${{github.repository}}.git HEAD:${{ github.ref }}
+#          fi
+
+#      - name: Make course zip
+#        run: Rscript make_course_zip.R
+
+#      - name: Commit course zip
+#        run: |
+#          if [[ -n "$(git status --porcelain)" ]]; then
+#            git add intro-to-r-course-notes/. intro-to-r-course-notes.zip
+#            git commit -m 'make course zipfile'
+#            git push https://${{github.actor}}:${{secrets.GITHUB_TOKEN}}@github.com/${{github.repository}}.git HEAD:${{ github.ref }}
+#          fi

bin/skeleton.sh

@@ -3,29 +3,30 @@
 reg="[0-9]{2}"
 rpl="---------------------------------------------------------------------"
 
-for x in ds-intro-to-r-2-day/*.Rmd
+for x in *.Rmd
 do
   if ! [[ $x =~ $reg ]]
   then
     continue
   fi
-
-  x_out=${x/ds-intro-to-r-2-day\//}
-  x_out=${x_out/.Rmd/.R}
-  echo "creating ${x_out} from ${x}"
 
-# delete lines which do not start with hash or caret 
+  x_out=${x/.Rmd/.R}
+  x_out=intro-to-r-course-notes/"$x_out"
+  echo "removing old ${x_out} from course notes folder"
+  rm $x_out
+
+# delete lines which do not start with hash or caret
 # delete lines in the challenges between details tags
 # add line of dashes below section header lines
-# remove trailing dashes under challenge header lines 
+# remove trailing dashes under challenge header lines
 
 # surround script title with mulitple hashes`
 # lines in challenges still start with right angle bracket.  replace with hash
 # remove trailing information on challenge times
 # remove start and end chunk lines
 # remove blank lines starting with a hash
 
-
+  echo "creating new ${x_out} in course notes folder"
   sed -E \
     -e '/^(>|#)/ !d' \
     -e '/<details>/,/<\/details>/d' \
@@ -42,8 +43,6 @@ do
     -e 's/(#### Challenge [0-9]\n)//' \
     tmpfile.txt > $x_out
 
-done
-
-#rm tmpfile.txt
-
+rm tmpfile.txt
 
+done

intro-to-r-course-notes/01-rstudio-intro.R

@@ -1,63 +1,73 @@
-##########  Introduction to R and RStudio  #########
+#########  (PART) Fundamentals {-}  #########
+# Introduction to R and RStudio
+## Motivation
+## --------------------------------------------------------------------- 
 
-## Motivation 
-## ------------------------------------------------------------------------
 
-
-
 
-## Before Starting The Workshop 
-## ------------------------------------------------------------------------
 
-
-
+## Before Starting The Workshop
+## --------------------------------------------------------------------- 
+
+
+
+
+## Introduction to RStudio
+## --------------------------------------------------------------------- 
+
 
-## Introduction to RStudio 
-## ------------------------------------------------------------------------
 
-
-
 
 ## Work flow within RStudio
-## ------------------------------------------------------------------------
+## --------------------------------------------------------------------- 
+
+
 
 
-
-
 ## Introduction to R
-## ------------------------------------------------------------------------
+## --------------------------------------------------------------------- 
+
+
+
+
+### Before we dive in...
+## --------------------------------------------------------------------- 
+
+
 
-
-
 
-### Before we dive in... 
 ## Using R as a calculator
-## ------------------------------------------------------------------------
+## --------------------------------------------------------------------- 
 
 
 
-
+
+# 1 +
 ## Mathematical functions
-## ------------------------------------------------------------------------
+## --------------------------------------------------------------------- 
+
+
 
-
-
 
 ## Comparing things
-## ------------------------------------------------------------------------
+## --------------------------------------------------------------------- 
+
+
 
-
-
 
 ## Variables and assignment
-## ------------------------------------------------------------------------
+## --------------------------------------------------------------------- 
+
+
 
-
-
 
 #### Challenge 1
-# Which of the following are valid R variable names?
+## --------------------------------------------------------------------- 
+
+
 
+
+# Which of the following are valid R variable names?
 # min_height
 # max.height
 # _age
@@ -66,55 +76,56 @@
 # min-length
 # 2widths
 # celsius2kelvin
+#### Challenge 2
+## --------------------------------------------------------------------- 
+
+
 
-
 
-#### Challenge 2
 # What will be the value of each  variable  after each
 # statement in the following program?
-
 # mass <- 47.5
 # age <- 122
 # mass <- mass * 2.3
 # age <- age - 20
+#### Challenge 3
+## --------------------------------------------------------------------- 
+
 
 
 
-#### Challenge 3
 # Run the code from the previous challenge, and write a command to
 # compare mass to age. Is mass larger than age?
+## Vectorization
+## --------------------------------------------------------------------- 
 
 
 
-## Vectorization 
-## ------------------------------------------------------------------------
 
-
-
+## Managing your environment
+## --------------------------------------------------------------------- 
+
 
-## Managing your environment 
-## ------------------------------------------------------------------------
 
-
-
 
 #### Challenge 4
+## --------------------------------------------------------------------- 
+
+
+
+
 # Clean up your working environment by deleting the mass and age
 # variables.
+## R Packages
+## --------------------------------------------------------------------- 
 
 
 
-## R Packages 
-## ------------------------------------------------------------------------
 
-
-
-
 #### Challenge 5
-# Install the following packages: `ggplot2`, `dplyr`
-
+## --------------------------------------------------------------------- 
 
-
 
 
 
+# Install the following packages: `ggplot2`, `dplyr`.

intro-to-r-course-notes/02-seeking-help.R

@@ -1,56 +1,79 @@
 #########  Seeking Help in R #########
-
 ## Reading Help files
-## ------------------------------------------------------------------------
+## --------------------------------------------------------------------- 
+
+
+
+
+## Special Operators
+## --------------------------------------------------------------------- 
+
+
+
 
+## Getting help on packages
+## --------------------------------------------------------------------- 
 
-## Special Operators 
-## ------------------------------------------------------------------------
 
 
-## Getting help on packages 
-## ------------------------------------------------------------------------
 
+## Finding help for functions in packages
+## --------------------------------------------------------------------- 
 
-## Finding help for functions in packages 
-## ------------------------------------------------------------------------
 
 
-## When you kind of remember the function 
-## ------------------------------------------------------------------------
+
+## When you kind of remember the function
+## --------------------------------------------------------------------- 
+
+
+
+
+## When you have no idea where to begin
+## --------------------------------------------------------------------- 
 
 
-## When you have no idea where to begin 
-## ------------------------------------------------------------------------
 
 
 #### Challenge 1
+## --------------------------------------------------------------------- 
+
+
+
+
 # Look at the help for the `sum()` function. What are two ways you can pass numbers 
 # into the function so the are added together?
+## Challenges (10 minutes)
+## --------------------------------------------------------------------- 
+
 
 
 
 #### Challenge 2
+## --------------------------------------------------------------------- 
+
+
+
+
 # Look at the help for the `paste()` function. You'll need to use this later.
 # What is the difference between the `sep` and `collapse` arguments?
+#### Challenge 3
+## --------------------------------------------------------------------- 
+
 
 
 
-#### Challenge 3
 # Use help to find a function (and its associated parameters) that you could
 # use to load data from a csv file in which columns are delimited with "\t"
 # (tab) and the decimal point is a "." (period). This check for decimal
 # separator is important, especially if you are working with international
 # colleagues, because different countries have different conventions for the
 # decimal point (i.e. comma vs period).
 # hint: use `??csv` to lookup csv related functions.
-
-
-
-
 #### Challenge 4
-# Find the help for the `mutate` function in the `dplyr` package. 
-# What is its purpose? What do you notice different about this help page?
+## --------------------------------------------------------------------- 
+
 
 
 
+# Find the help for the `mutate` function in the `dplyr` package. What is its purpose? What do you notice different about this help page?