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#!/usr/bin/env cwl-runner
cwlVersion: v1.1
class: Workflow
doc: "Workflow to go from YAML (metadata) + FASTA (sequence) to TTL (metadata)"
inputs:
path-fasta:
type: string
doc: input FASTA to validate
format_to_check:
type: string
default: text/fasta
path-yaml:
type: string
doc: input YAML to validate and convert in TTL
steps:
check_format:
in:
path_fasta: path-fasta
format_to_check: format_to_check
doc: the input has to be a valid FASTA format file
out: []
run: check_format.cwl
check_sequence:
in:
path_fasta: path-fasta
doc: the input sequence has to be enough similar to the reference
out: []
run: check_sequence.cwl
check_metadata:
in:
path_yaml: path-yaml
path_fasta: path-fasta
doc: check the input metadata information to put in the knowledge graph
out: []
run: check_metadata.cwl
outputs: []
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