name: cat_fastq
description: Concatenates fastq files
keywords:
  - cat
  - fastq
  - concatenate
tools:
  - cat:
      description: |
        The cat utility reads files sequentially, writing them to the standard output.
      documentation: https://www.gnu.org/software/coreutils/manual/html_node/cat-invocation.html
      licence: ["GPL-3.0-or-later"]
      identifier: ""
input:
  - - meta:
        type: map
        description: |
          Groovy Map containing sample information
          e.g. [ id:'test', single_end:false ]
    - reads:
        type: file
        description: |
          List of input FastQ files to be concatenated.
        ontologies: []
output:
  reads:
    - - meta:
          type: map
          description: |
            Groovy Map containing sample information
            e.g. [ id:'test', single_end:false ]
      - "*.merged.fastq.gz":
          type: file
          description: Merged fastq file
          pattern: "*.{merged.fastq.gz}"
          ontologies: []
  versions:
    - versions.yml:
        type: file
        description: File containing software versions
        pattern: "versions.yml"
        ontologies:
          - edam: http://edamontology.org/format_3750 # YAML
authors:
  - "@joseespinosa"
  - "@drpatelh"
maintainers:
  - "@joseespinosa"
  - "@drpatelh"
