.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (OvarianND_FFPE_L01_RNA_01_B23LG7FLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/de/8841ce3855356dc8eb055aca2ac79b/.command.sh
Size: 379 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV (OvarianND_FFPE_L01_RNA_01_B23LG7FLT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
agat_convert_sp_gff2tsv.pl \
    --gff OvarianND_FFPE_L01_RNA_01_B23LG7FLT4_1.gtf \
    --output OvarianND_FFPE_L01_RNA_01_B23LG7FLT4_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