.command.sh - Workdir - NFCORE_SAREK:SAREK:CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT (aih-tih-sc-37bc93-N1_B23T7FYLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/eb/72e683df3150a7dc73f9589ffccb63/.command.sh
Size: 353 bytes
Task: NFCORE_SAREK:SAREK:CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT (aih-tih-sc-37bc93-N1_B23T7FYLT4_1)
Attempt

Content

#!/bin/bash -Ceuo pipefail
bai_mapped_count.py aih-tih-sc-37bc93-N1_B23T7FYLT4_1.recalibrated.bam.bai > aih-tih-sc-37bc93-N1_B23T7FYLT4_1.mapped_count.txt

cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT":
    python: $(python3 --version | sed 's/Python //')
    bai_mapped_count: 1.0.0
END_VERSIONS