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bacterial_prepare_unannotated.cwl
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bacterial_prepare_unannotated.cwl
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cwlVersion: v1.2
label: "Prepare Unannotated Sequences"
doc: "Prepare Unannotated Sequences"
class: CommandLineTool
baseCommand: bacterial_prepare_unannotated
arguments: [ -submission-mode-genbank, -nogenbank ]
inputs:
asn_cache:
type: Directory
inputBinding:
prefix: -asn-cache
gc_assembly:
type: File
inputBinding:
prefix: -gc-assembly
ids:
type: File
inputBinding:
prefix: -ids
submit_block:
type: File
inputBinding:
prefix: -submit-block
taxon_db:
type: File
inputBinding:
prefix: -taxon-db
no_internet:
type: boolean?
inputBinding:
prefix: -no-internet
master_desc_name:
type: string?
default: master-desc.asn
inputBinding:
prefix: -master-desc
sequences_name:
type: string?
default: sequences.asn
inputBinding:
prefix: -o
plasmids_name:
type: string?
default: plasmids.seqids
inputBinding:
prefix: -plasmids
outputs:
master_desc:
type: File
outputBinding:
glob: $(inputs.master_desc_name)
sequences:
type: File
outputBinding:
glob: $(inputs.sequences_name)
plasmids:
type: File
outputBinding:
glob: $(inputs.plasmids_name)