name: "emboss_seqret"
description: Reads in one or more sequences and writes them out again
keywords:
  - emboss
  - gff
  - embl
  - genbank
  - fasta
  - convert
  - swissprot
tools:
  - "emboss":
      description: "The European Molecular Biology Open Software Suite"
      homepage: "https://www.ebi.ac.uk/Tools/sfc/emboss_seqret/"
      documentation: "https://emboss.bioinformatics.nl/cgi-bin/emboss/help/seqret"
      tool_dev_url: "http://emboss.open-bio.org/"
      doi: "10.1016/s0168-9525(00)02024-2 "
      licence: ["GPL"]

input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - sequence:
      type: file
      description: Input sequence query
      pattern: "*.{gff,em,gb,refseq,pir,swiss,sw,txt}"
  - out_ext:
    type: string
    description: File extension of the output file. Unless otherwise set by a flag in `ext.args`, the extension dictates the output file format.

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - outseq:
      type: file
      description: Converted sequence file
      pattern: "*"

authors:
  - "@MillironX"