.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/025d403ac09677e7cf2519164b45ca/.command.sh
Size: 373 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2)
Attempt

Content

#!/bin/bash -euo pipefail
agat_convert_sp_gff2tsv.pl \
    --gff 1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2.gtf \
    --output 1173_CH0_T1_RNA_SLD_01_A23T55JLT4_2.tsv \


cat <<-END_VERSIONS > versions.yml
"NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV":
    agat: $(agat_convert_sp_gff2tsv.pl --help | sed '3!d; s/.*v//' | sed 's/ .*//')
END_VERSIONS