Added formatR, Added linux libs for tidyverse

.github/workflows/main.yml

@@ -26,7 +26,7 @@ jobs:
       - name: Install linux dependencies
         run: |
           sudo apt-get update
-          sudo apt-get install libxml2-dev libssl-dev libcurl4-openssl-dev libudunits2-dev libopenblas-base libgdal-dev
+          sudo apt-get install libxml2-dev libssl-dev libcurl4-openssl-dev libudunits2-dev libopenblas-base libgdal-dev libfreetype6-dev libpng-dev libtiff5-dev libjpeg-dev
           wget https://dl.google.com/linux/direct/google-chrome-stable_current_amd64.deb
           sudo apt install ./google-chrome-stable_current_amd64.deb
           rm -rf google-chrome-stable_current_amd64.deb
@@ -53,7 +53,7 @@ jobs:
           sed --version
       - name: Print R packages
         run: |
-          # parse r packages from Rmd amd md files
+          # parse r packages from Rmd and md files
           # grep -Eroh "(^library\([A-Za-z0-9]+\))|(^require\([A-Za-z0-9]+\))" *md | sed 's/library\|(\|)//g' | sort | uniq > r-packages.txt
           # parse r packages from _site.yml
           awk '/^[^ ]/{ f=/^packages:/; next } f{ if (sub(/:$/,"")) pkg=$2; else print pkg, $2 }' _site.yml | uniq | sort > r-packages.txt
@@ -76,7 +76,7 @@ jobs:
           Rscript -e 'if(!is.null(yaml::read_yaml("_site.yml")$packages$packages_bioc_student)) BiocManager::install(as.character(yaml::read_yaml("_site.yml")$packages$packages_bioc_student))'
           Rscript -e 'if(!is.null(yaml::read_yaml("_site.yml")$packages$packages_github_repo)) remotes::install_github(yaml::read_yaml("_site.yml")$packages$packages_github_repo)'
           Rscript -e 'if(!is.null(yaml::read_yaml("_site.yml")$packages$packages_github_student)) remotes::install_github(yaml::read_yaml("_site.yml")$packages$packages_github_student)'
-          Rscript -e 'installed.packages()'
+          Rscript -e 'rownames(installed.packages())'
           echo "R directory size:"
           du -sh ${{ env.R_LIBS_USER }}
       - name: Render site, pull repo, copy folder, create index, push repo

_site.yml

@@ -53,6 +53,7 @@ packages:
    - bookdown
    - captioner
    - formattable
+   - formatR
    - kableExtra
    - knitr
    - leaflet