.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a6/c7b68403924fe7d1929c6897e4188e/.command.sh
Size: 484 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
junction_saturation.py \
    -i BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    -o BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1 \


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