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1 <tool id="distance" name="PathOGiST - Distance" version="1.0.0">
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2 <description>: Construct distance matrix from genotyping data</description>
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3 <requirements>
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6
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4 <requirement type="package" version="0.3">pathogist</requirement>
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1
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5 </requirements>
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6
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7 <command><![CDATA[
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8 PATHOGIST distance $genotyping $data_type matrix.tsv
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9 ]]></command>
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10
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11 <inputs>
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12 <param name="genotyping" type="data" format="tabular,txt" label="Calls"
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13 help="File containing paths to signal calls"/>
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14 <param name="data_type" type="select" label="Data Type">
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15 <option value="MLST" selected="True">MLST</option>
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16 <option value="SNP">SNP</option>
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17 <option value="CNV">CNV</option>
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18 </param>
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19 </inputs>
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20
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21 <outputs>
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22 <data name="matrix" label="Distance matrix of ${on_string}" format="tabular" from_work_dir="matrix.tsv"/>
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23 </outputs>
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24
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25 <help>
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26
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27 </help>
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28
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29 <citations>
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30
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31 </citations>
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32 </tool>
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