.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_BAMSTAT (BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/81/b31fde397371cdbf66ccf84078abc3/.command.sh
Size: 433 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_BAMSTAT (BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
bam_stat.py \
    -i BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai \
     \
    > BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_1.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