.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDUPLICATION (BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fc/2f6e4b7bc7616d91546e26c12b1a0b/.command.sh
Size: 446 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDUPLICATION (BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
read_duplication.py \
    -i BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_1.Aligned.sortedByCoord.out.bam.bai \
    -o BVT_FFPE_TRNA_bst_01_03_A23WKFTLT4_1 \


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