name: tabix_bgziptabix
description: bgzip a sorted tab-delimited genome file and then create tabix index
keywords:
    - bgzip
    - compress
    - index
    - tabix
    - vcf
tools:
    - tabix:
        description: Generic indexer for TAB-delimited genome position files.
        homepage: https://www.htslib.org/doc/tabix.html
        documentation: https://www.htslib.org/doc/tabix.1.html
        doi: 10.1093/bioinformatics/btq671
        licence: ['MIT']
input:
    - meta:
        type: map
        description: |
          Groovy Map containing sample information
          e.g. [ id:'test', single_end:false ]
    - tab:
        type: file
        description: TAB-delimited genome position file
        pattern: "*.{bed,gff,sam,vcf}"
output:
    - meta:
        type: map
        description: |
          Groovy Map containing sample information
          e.g. [ id:'test', single_end:false ]
    - gz:
        type: file
        description: Output compressed file
        pattern: "*.{gz}"
    - tbi:
        type: file
        description: tabix index file
        pattern: "*.{gz.tbi}"
    - versions:
        type: file
        description: File containing software versions
        pattern: "versions.yml"
authors:
    - "@maxulysse"