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#!/usr/bin/env cwl-runner
cwlVersion: v1.0
class: Workflow
inputs:
table_hits:
type: File
label: output of infernal's cmsearch
outputs:
5S_coordinates:
type: File
outputSource: extract_5S_coords/matched_seqs_with_coords
steps:
grep:
run: pull-5Ss.cwl
in: { hits: table_hits }
out: [ 5Ss ]
extract_5S_coords:
run: extract-coords-from-cmsearch.cwl
in: { infernal_matches: grep/5Ss }
out: [ matched_seqs_with_coords ]
$namespaces:
s: http://schema.org/
$schemas:
- https://schema.org/docs/schema_org_rdfa.html
s:license: "https://www.apache.org/licenses/LICENSE-2.0"
s:copyrightHolder: "EMBL - European Bioinformatics Institute"
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