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Update PhyloIndex.xml
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tools/PhyloIndex/PhyloIndex.xml

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<inputs>
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<param name="phylogeny" type="data" format="newick" label="Phylogeny file (Newick format)" />
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<param name="occupancy" type="data" format="tabular" label="Occupancy data (Tabular format)" />
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<param name="random_seed" type="integer" label="Seed for the random PD compute"/>
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<param name="random_seed" type="integer" value="34" label="Seed for the random PD compute"/>
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<param name="model" type="select" label="Model for the PD compute">
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<option value="tipshuffle" selected="true">tipshuffle</option>
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<option value="rowwise">rowwise</option>

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