plot_gemini.sh

#!/bin/bash

if type -P gemini > /dev/null

   then
      for SEVERITY in HIGH MED LOW; do
         gemini query -q "select impact_so, count(impact_so) from variants where impact_severity == \"$SEVERITY\" group by impact_so order by count(impact_so)" --header *.db > $SEVERITY.tsv
         plot_gemini.R $SEVERITY.tsv
         rm -f $SEVERITY.tsv
      done

      gemini query -q "select impact_so, count(impact_so) from variants group by impact_so order by count(impact_so)" --header *.db > ALL.tsv
      plot_gemini.R ALL.tsv
      rm -f ALL.tsv

      gemini query -q 'select sub_type, count(sub_type) from variants group by sub_type order by count(sub_type)' --header *.db > TYPE.tsv
      plot_gemini.R TYPE.tsv
      rm -f TYPE.tsv

   else
      echo Could not find gemini

fi