name: falco
description: Run falco on sequenced reads
keywords:
  - quality control
  - qc
  - adapters
  - fastq
tools:
  - fastqc:
      description: "falco is a drop-in C++ implementation of FastQC to assess the quality of sequence reads."

      homepage: "https://falco.readthedocs.io/"
      documentation: "https://falco.readthedocs.io/"
      tool_dev_url: "None"
      doi: ""
      licence: "['GPL v3']"

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.
output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - html:
      type: file
      description: FastQC like report
      pattern: "*_{fastqc_report.html}"
  - txt:
      type: file
      description: falco report data
      pattern: "*_{data.txt}"
  - txt:
      type: file
      description: falco summary file
      pattern: "*_{summary.txt}"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
authors:
  - "@lucacozzuto"