Mercurial > repos > iuc > mlst
view mlst_list.xml @ 2:253b7a1cf87e draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mlst commit 305238bd9771875830e8f4e961d16f0d7253e724
author | iuc |
---|---|
date | Mon, 12 Feb 2018 05:18:20 -0500 |
parents | 8e8dc9a1e3e5 |
children | 68cdb40ff91c |
line wrap: on
line source
<tool id="mlst_list" name="MLST List" version="2.10"> <requirements> <requirement type="package" version="2.10">mlst</requirement> </requirements> <version_command>mlst --version</version_command> <command detect_errors="exit_code"><![CDATA[ mlst $list_type > "$report" ]]></command> <inputs> <param name="list_type" type="boolean" label="Output allele information" truevalue="--longlist" falsevalue="--list" help="Selecting 'Yes' will provide the alleles for all MLST schemes" optional="false" /> </inputs> <outputs> <data format="txt" name="report" label="${tool.name} - list of schemes"/> </outputs> <tests> <!-- Test the longlist option --> <test> <param name="list_type" value="true" /> <output name="report" ftype="txt" > <assert_contents> <has_text text="saureus" /> </assert_contents> </output> </test> <!-- Test the list option --> <test> <param name="list_type" value="false" /> <output name="report" ftype="txt" > <assert_contents> <has_text text="saureus" /> </assert_contents> </output> </test> </tests> <help><![CDATA[ **What it does** MLST List will list all the scheme names used by MLST. Selecting the long list option will also provide the alleles for all MLST schemes. ]]></help> <citations> <citation type="bibtex"> @UNPUBLISHED{Seemann2016, author = "Seemann T", title = "ABRicate: mass screening of contigs for antiobiotic resistance genes", year = "2016", note = "https://github.com/tseemann/abricate"} </citation> </citations> </tool>