.command.sh - Workdir - DAQ:CONTROL_METRICS:POSITIVE_SOMATIC_METRICS:MSI (positive_somatic_control_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/611d0698bfd8b521568ec537cf6366/.command.sh
Size: 417 bytes
Task: DAQ:CONTROL_METRICS:POSITIVE_SOMATIC_METRICS:MSI (positive_somatic_control_1)
Attempt

Content

#!/bin/bash -Ceuo pipefail
awk '
    NR == 2 {
        printf "total_sites\t%s\n",     $1
        printf "unstable_sites\t%s\n",  $2
        printf "unstable_pct\t%s\n",    $3
    }
' positive_somatic_control_1_xgen > positive_somatic_control_1.msi.tsv

cat <<-END_VERSIONS > versions.yml
"DAQ:CONTROL_METRICS:POSITIVE_SOMATIC_METRICS:MSI":
    gawk: $(awk -W version 2>&1 | head -n1 | awk '{print $3}')
END_VERSIONS