# HG changeset patch # User davidvanzessen # Date 1395745692 14400 # Node ID 1d0ed31089c6efcb6b843d44434a550a86aaa8c1 # Parent 18ac92a69ef1f84d9dd20c8c3d4d30d8f4f67f0f Uploaded diff -r 18ac92a69ef1 -r 1d0ed31089c6 r_wrapper.sh --- a/r_wrapper.sh Tue Mar 18 09:03:54 2014 -0400 +++ b/r_wrapper.sh Tue Mar 25 07:08:12 2014 -0400 @@ -79,7 +79,9 @@ echo "" >> $outputFile fi -if [[ "$hasReplicateColumn" == "Yes" ]] ; then +hasJunctionData="$(if head -n 1 $inputFile | grep -q '3V-REGION trimmed-nt nb'; then echo 'Yes'; else echo 'No'; fi)" + +if [[ "$hasJunctionData" == "Yes" ]] ; then echo "
" >> $outputFile while IFS=, read Sample unique VHDEL P1 N1 P2 DELDH DHDEL P3 N2 P4 DELJH TotalDel TotalN TotalP do
SampleuniqueVH.DELP1N1P2DEL.DHDH.DELP3N2P4DEL.JHTotal.DelTotal.NTotal.P