.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_BAMSTAT (tih_rna_sample_00116_23H5VFLT4_s36)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/58ad26386a68ea13ae9ea1e4a2f6f8/.command.sh
Size: 424 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_BAMSTAT (tih_rna_sample_00116_23H5VFLT4_s36)
Attempt

Content

#!/bin/bash -euo pipefail
bam_stat.py \
    -i tih_rna_sample_00116_23H5VFLT4_s36.Aligned.sortedByCoord.out.bam tih_rna_sample_00116_23H5VFLT4_s36.Aligned.sortedByCoord.out.bam.bai \
     \
    > tih_rna_sample_00116_23H5VFLT4_s36.bam_stat.txt

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