name: seqtk_sample
description: Subsample reads from FASTQ files
keywords:
  - sample
tools:
  - seqtk:
      description: Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format. Seqtk sample command subsamples sequences.
      homepage: https://github.com/lh3/seqtk
      documentation: https://docs.csc.fi/apps/seqtk/
      tool_dev_url: https://github.com/lh3/seqtk
      licence: ['MIT']

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 of size 1 and 2 for single-end and paired-end data,respectively.
      pattern: "*.{fastq.gz}"
  - sample_size:
      type: value
      description: Number of reads to sample.

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - version:
      type: file
      description: File containing software version
      pattern: "versions.yml"
  - reads:
      type: file
      description: Subsampled FastQ files, 1 for single-end data or 2 for paired-end data.
      pattern: "*.{fastq.gz}"

authors:
  - "@kaurravneet4123"
  - "@sidorov-si"