Commits

Davide Cittaro committed f9fac45

bwa_submit mods

  • Participants
  • Parent commits c654a78

Comments (0)

Files changed (1)

File bwa_submit.sh

 reference=`tail -1 SampleSheet.csv | cut -d',' -f4`
 name=`tail -1 SampleSheet.csv | cut -d',' -f3`
 rindex=`tail -1 SampleSheet.csv | cut -d',' -f5`
+[[ "$rindex" == "" ]] && rindex=NoIndex
 ref_genome=/lustre1/genomes/$reference/bwa/$reference
 
 echo "$fcid"