.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (FFPE_V4_0002_RNA_0001_B23MVV7LT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/a60be0a0910fb3f3313c8e7853aff7/.command.sh
Size: 371 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (FFPE_V4_0002_RNA_0001_B23MVV7LT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
agat_convert_sp_gff2tsv.pl \
    --gff FFPE_V4_0002_RNA_0001_B23MVV7LT4_1.gtf \
    --output FFPE_V4_0002_RNA_0001_B23MVV7LT4_1.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