task mergeNum { Array[File] vcfnumber String docker String cluster_config String disk_size command <<< set -o pipefail set -e for i in ${sep=" " vcfnumber} do cat $i | cut -d':' -f2 | tr '\n' '\t' | sed s'/\t$/\n/g' >> vcfstats done sed '1i\File\tFailed Filters\tPassed Filters\tSNPs\tMNPs\tInsertions\tDeletions\tIndels\tSame as reference\tSNP Transitions/Transversions\tTotal Het/Hom ratio\tSNP Het/Hom ratio\tMNP Het/Hom ratio\tInsertion Het/Hom ratio\tDeletion Het/Hom ratio\tIndel Het/Hom ratio\tInsertion/Deletion ratio\tIndel/SNP+MNP ratio' vcfstats > vcfstats.txt >>> runtime { docker:docker cluster:cluster_config systemDisk:"cloud_ssd 40" dataDisk:"cloud_ssd " + disk_size + " /cromwell_root/" } output { File vcfstat="vcfstats.txt" } }