diff --git a/make_compute5_bedfiles_calculon.sh b/make_compute5_bedfiles_calculon.sh index 3cbabab..741f4b7 100755 --- a/make_compute5_bedfiles_calculon.sh +++ b/make_compute5_bedfiles_calculon.sh @@ -163,8 +163,8 @@ cp /apps/data/1000G/phase1/Mills_and_1000G_gold_standard/1000G_phase1.indels_Mil baits=${MAP}/${NAME} -#sort -V ${baits}.bed > ${baits}.bed.sorted -#mv ${baits}.bed.sorted ${baits}.bed +sort -V ${baits}.bed > ${baits}.bed.sorted +mv ${baits}.bed.sorted ${baits}.bed ## If there are 4 columns, it adds an extra column (this is necessary for the GATK batch tool colcount=`awk '{print NF}' ${baits}.bed | sort | tail -n 1`