name: sentieon_bwaindex
description: Create BWA index for reference genome
keywords:
  - index
  - fasta
  - genome
  - reference
  - sentieon
tools:
  - sentieon:
      description: |
        Sentieon® provides complete solutions for secondary DNA/RNA analysis for a variety of sequencing platforms, including short and long reads.
        Our software improves upon BWA, STAR, Minimap2, GATK, HaplotypeCaller, Mutect, and Mutect2 based pipelines and is deployable on any generic-CPU-based computing system.
      homepage: https://www.sentieon.com/
      documentation: https://www.sentieon.com/
input:
  - meta:
      type: map
      description: |
        Groovy Map containing reference information.
        e.g. [ id:'test', single_end:false ]
  - fasta:
      type: file
      description: Input genome fasta file
output:
  - meta:
      type: map
      description: |
        Groovy Map containing reference information.
        e.g. [ id:'test', single_end:false ]
  - index:
      type: file
      description: BWA genome index files
      pattern: "*.{amb,ann,bwt,pac,sa}"
  - versions:
      type: file
      description: File containing software versions
      pattern: "versions.yml"
authors:
  - "@drpatelh"
  - "@maxulysse"
maintainers:
  - "@drpatelh"
  - "@maxulysse"
