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1 <tool id="grapetreetool" name="grapetree" version="1.0">
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2 <description>visualization of core genomic relationships among 100,000 bacterial pathogens.</description>
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3 <requirements>
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4 <requirement type="package" version="2.1">grapetree</requirement>
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5 </requirements>
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6
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7 <command>grapetree '-p' $input '-m' $option-m</command>
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8
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9 <inputs>
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10 <param format="tabular" name="input" type="data" label="Newick file : " multiple="false" display="checkboxes"/>
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11
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12 <param name="option-m" type="select" label="Genetic code table (Default = 1-Standard Code):">
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13 <option value="NJ">Standard Code</option>
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14 <option value="MSTreeV2">MSTreeV2</option>
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15 </param>
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16
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17 </inputs>
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18
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19 <outputs>
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20 <data format="newick" name="output1" label="labelled newick tree" />
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21 </outputs>
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22
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23 <tests>
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24 <test>
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25 <param name="input" value="simuled-data.profile" />
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26 <output name="output" file="output1.nwk" />
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27 </test>
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28 </tests>
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29
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30 <help>
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31 For full documentation, please go to the GrapeTree wiki (https://github.com/achtman-lab/GrapeTree)
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32 </help>
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33 <citations>
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34 <citation type="doi">10.1101/gr.232397.117</citation>
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35 </citations>
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36 </tool>
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