installing r and adding mma (#6)

Need to install R (and some packages) to get the MMA module working

Author: iramler

.github/workflows/publish.yml

@@ -1,22 +1,56 @@
 on:
   workflow_dispatch:
   push:
-    branches: main
+    branches:
+      - main          # run on every push to main
 
 name: Quarto Publish
 
 jobs:
   build-deploy:
     runs-on: ubuntu-latest
+
     permissions:
-     contents: write
+      contents: write          # allow the workflow to push to gh-pages
+
     steps:
+      # 1 ▸ Check out your repository
       - name: Check out repository
         uses: actions/checkout@v3
-      
+
+      # 2 ▸ Install R 4.4.x
+      - name: Set up R
+        uses: r-lib/actions/setup-r@v2
+        with:
+          r-version: '4.4'      # GitHub will pick the latest patch (currently 4.4.2)
+
+      # 3 ▸ Install required R packages (CRAN)
+      - name: Install R package dependencies
+        uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          needs: |
+            tidyverse
+            lubridate
+            SimplyAgree
+            DescTools
+            fmsb
+            scales
+            janitor
+            psych
+            here
+            irr
+            magrittr
+            flextable
+            webexercises
+            cache: true         # uncomment to enable dependency caching
+
+      # 4 ▸ Install Quarto
       - name: Set up Quarto
         uses: quarto-dev/quarto-actions/setup@v2
+        # with:
+        #   version: '1.5.48'   # pin a specific Quarto version if desired
 
+      # 5 ▸ Render the site and publish to gh-pages
       - name: Render and Publish
         uses: quarto-dev/quarto-actions/publish@v2
         with:

baseball/mlb_injuries/index.qmd

@@ -42,12 +42,15 @@ callout-icon: false
 -   The data for the `tj_surgeries_mlb_milb.csv` file was derived from data accumulated by [@MLBPlayerAnalys](https://docs.google.com/spreadsheets/d/1gQujXQQGOVNaiuwSN680Hq-FDVsCwvN-3AazykOBON0/edit?gid=0#gid=0) over many years. The original data lists any reported Tommy John surgery for a player now playing in the MLB or MiLB. This data was aggregated by year to produce the data used in this module.
 :::
 
+<!--
 # Welcome video
 
 <iframe width="560" height="315" src title="placeholder">
 
 </iframe>
 
+-->
+
 # Introduction
 
 In this module, you will explore Major League Baseball (MLB) injury data through time series analysis and forecasting. The dataset contains monthly injury counts from 2001 to 2023. You will learn how to create time series plots, decompose time series data, and forecast future injury counts.