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"