name: bbmap_index
description: Creates an index from a fasta file, ready to be used by bbmap.sh in mapping mode.
keywords:
  - map
  - index
  - fasta
tools:
  - bbmap:
      description: BBMap is a short read aligner, as well as various other bioinformatic tools.
      homepage: https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/
      documentation: https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/
      tool_dev_url: None
      doi: ""
      licence: ["UC-LBL license (see package)"]

input:
  - fasta:
      type: fasta
      description: fasta formatted file with nucleotide sequences
      pattern: "*.{fna,fa,fasta}"

output:
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
  - db:
      type: directory
      description: Directory with index files
      pattern: "ref"

authors:
  - "@daniellundin"