.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDISTRIBUTION (659_bTo-T1-TRNA-1_B23MHV2LT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/c3525fa5af152fd9c3b752d1637766/.command.sh
Size: 473 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDISTRIBUTION (659_bTo-T1-TRNA-1_B23MHV2LT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
read_distribution.py \
    -i 659_bTo-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam 659_bTo-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    > 659_bTo-T1-TRNA-1_B23MHV2LT4_1.read_distribution.txt

cat <<-END_VERSIONS > versions.yml
"NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDISTRIBUTION":
    rseqc: $(read_distribution.py --version | sed -e "s/read_distribution.py //g")
END_VERSIONS