name: dshbio_exportsegments
description: Export assembly segment sequences in GFA 1.0 format to FASTA format
keywords:
  - gfa
  - assembly
  - segment
tools:
  - dshbio:
      description: |
        Reads, features, variants, assemblies, alignments, genomic range trees, pangenome
        graphs, and a bunch of random command line tools for bioinformatics. LGPL version 3
        or later.
      homepage: https://github.com/heuermh/dishevelled-bio
      documentation: https://github.com/heuermh/dishevelled-bio
      licence: ["LGPL-3.0-or-later"]
input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - gfa:
      type: file
      description: Assembly segments in uncompressed or compressed GFA 1.0 format
      pattern: "*.{gfa|gfa.bgz|gfa.gz|gfa.zst}"
output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - fasta:
      type: file
      description: Assembly segment sequences in gzipped FASTA format
      pattern: "*.{fa.gz}"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
authors:
  - "@heuermh"
