.command.sh - Workdir - NFCORE_RNAFUSION:DEMUX_FROM_RUNDIR:DEMULTIPLEX:CAT_FASTQ (FFPE_HD789_01_RNA_13_A23T55JLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/75/2714d98325cf7fa2920336e6ef2ac5/.command.sh
Size: 1.2 KB
Task: NFCORE_RNAFUSION:DEMUX_FROM_RUNDIR:DEMULTIPLEX:CAT_FASTQ (FFPE_HD789_01_RNA_13_A23T55JLT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
cat FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L001_R1_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L002_R1_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L003_R1_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L004_R1_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L005_R1_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L006_R1_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L007_R1_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L008_R1_001.fastq.gz > FFPE_HD789_01_RNA_13_A23T55JLT4_1_R1.fastq.gz
cat FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L001_R2_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L002_R2_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L003_R2_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L004_R2_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L005_R2_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L006_R2_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L007_R2_001.fastq.gz FFPE_HD789_01_RNA_13_A23T55JLT4_1_S59_L008_R2_001.fastq.gz > FFPE_HD789_01_RNA_13_A23T55JLT4_1_R2.fastq.gz

cat <<-END_VERSIONS > versions.yml
"NFCORE_RNAFUSION:DEMUX_FROM_RUNDIR:DEMULTIPLEX:CAT_FASTQ":
    cat: $(cat --version | head -1 | awk '{print $NF}')
END_VERSIONS