name: last_lastdb
description: Prepare sequences for subsequent alignment with lastal.
keywords:
  - LAST
  - index
  - fasta
  - fastq
tools:
  - last:
      description: LAST finds & aligns related regions of sequences.
      homepage: https://gitlab.com/mcfrith/last
      documentation: https://gitlab.com/mcfrith/last/-/blob/main/doc/lastdb.rst
      tool_dev_url: https://gitlab.com/mcfrith/last
      doi: ""
      licence: ['GPL-3.0-or-later']

input:
  - meta:
      type: map
      description: |
          Groovy Map containing sample information
          e.g. [ id:'test', single_end:false ]
  - fastx:
      type: file
      description: >
          Sequence file in FASTA or FASTQ format.
          May be compressed with gzip.
      pattern: "*.{fasta,fasta.gz,fastq,fastq.gz}"

output:
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - index:
      type: directory
      description: directory containing the files of the LAST index
      pattern: "lastdb/"

authors:
  - "@charles-plessy"