.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (1173_FM_T1_RNA_SLD_01_A23T55JLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/53/604aa2a80db9d583163e2e76be033e/.command.sh
Size: 475 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (1173_FM_T1_RNA_SLD_01_A23T55JLT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
junction_saturation.py \
    -i 1173_FM_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam 1173_FM_T1_RNA_SLD_01_A23T55JLT4_1.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    -o 1173_FM_T1_RNA_SLD_01_A23T55JLT4_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