.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (FFPE_HD789_01_RNA_13_B23MVV7LT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/098a38e4080ddec66a55ebda25b912/.command.sh
Size: 472 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (FFPE_HD789_01_RNA_13_B23MVV7LT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
junction_saturation.py \
    -i FFPE_HD789_01_RNA_13_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam FFPE_HD789_01_RNA_13_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    -o FFPE_HD789_01_RNA_13_B23MVV7LT4_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