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#!/usr/bin/env cwl-runner
class: CommandLineTool
cwlVersion: v1.1
hints:
DockerRequirement:
dockerPull: "quay.io/biocontainers/bcftools:1.10.2--hd2cd319_0"
baseCommand: bcftools
arguments:
- norm
- -Ob
- -f
- $(inputs.ref_fasta)
- -o
- $(inputs.output_name)
- --threads
- $(inputs.threads)
- $(inputs.bcf)
inputs:
- id: ref_fasta
type: File
- id: output_name
type: string
default: "normalized.bcf"
- id: threads
type: int
- id: bcf
type: File
outputs:
- id: normalized_bcf
type: File
outputBinding:
glob: "$(inputs.output_name)"
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