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planemo upload for repository https://github.com/quadram-institute-bioscience/galaxy-tools/tree/master/tools/ariba commit 067b5a6a02d5f04c2155b45eed5df257a1360645-dirty
author thanhlv
date Mon, 18 Feb 2019 11:48:39 -0500
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usage: ariba <command> <options>

ARIBA: Antibiotic Resistance Identification By Assembly

optional arguments:
  -h, --help      show this help message and exit

Available commands:
  
    aln2meta      Converts multi-aln fasta and SNPs to metadata
    expandflag    Expands flag column of report file
    flag          Translate the meaning of a flag
    getref        Download reference data
    micplot       Make violin/dot plots using MIC data
    prepareref    Prepare reference data for input to "run"
    pubmlstget    Download species from PubMLST and make db
    pubmlstspecies
                  Get list of available species from PubMLST
    refquery      Get cluster or sequence info from prepareref output
    run           Run the local assembly pipeline
    summary       Summarise multiple reports made by "run"
    test          Run small built-in test dataset
    version       Get versions and exit