.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDISTRIBUTION (1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/112846e8fcccc1f7fe94f8cc9d111f/.command.sh
Size: 488 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDISTRIBUTION (1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2)
Attempt

Content

#!/bin/bash -euo pipefail
read_distribution.py \
    -i 1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam 1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    > 1173_RDM_T1_RNA_SLD_01_A23T55JLT4_2.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