Bash script to install all R packages required by an R program

installAllRPackages.bash

#!/bin/bash
#Install any packages required by an R file that aren't already installed

if [ $# -ne 1 ]; then
    echo $0: usage: installAllRPackages.bash file
    exit 1
fi

file=$1

tempfile() {
    tempprefix=$(basename "$0")
    mktemp ~/tmp/${tempprefix}.XXXXXX
}

TMP1=$(tempfile)
TMP2=$(tempfile)
TMP3=$(tempfile)

trap 'rm -f $TMP1 $TMP2 $TMP3' EXIT

grep library $file >> $TMP1
grep require $file >> $TMP1
awk -F "[()]" '{ for (i=2; i<NF; i+=2) print $i }' $TMP1 >> $TMP2

while read p; do
  truncate -s 0 $TMP3
  sudo su - -c "R -q -e \"is.element('$p', installed.packages()[,1])\"" >> $TMP3 
  if grep -Fxq "[1] TRUE" $TMP3
  then
    echo "$p package already installed"
  else
    echo "installing $p package"
    sudo su - -c "R -q -e \"install.packages('$p', repos='http://cran.rstudio.com/')\""
  fi
done <$TMP2

Hi Paul:

Do you mind if I include your bash script in an open source plugin to use R through web interfaces created with Tiki?
Re:

• https://doc.tiki.org/PluginR
• https://r.tiki.org

I couldn't see any explicit copyright notice, so that's why I'm asking (I would dual license with GPL and LGPL crediting you as the author, of course)

Thanks!

Feel free! You might also check out the comment on the related blog post.

Maybe you should consider adding the link to this gist inside the script itself - so one can find the source if needed.