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1 <tool id="principal_coordinates" name="principal_coordinates" version="1.2.0">
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2 <description>Principal Coordinates Analysis (PCoA)</description>
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3 <requirements>
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4 <requirement type="binary">principal_coordinates.py</requirement>
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5 </requirements>
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6 <command interpreter="python">
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7 qiime_wrapper.py
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8 principal_coordinates.py
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9 --input_path=$input_path
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10 --output_path=$output_path
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11 </command>
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12 <inputs>
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13 <conditional name="run_type">
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14 <param name="input_type" type="select" label="Input Type" help="Select the type/number of input file(s). If you want to process multiple diversity metrics, select 'multiple files.'">
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15 <option value="single">Single File</option>
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16 <option value="multi">Multiple Files</option>
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17 </param>
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18 <when value="single">
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19 <param name="input_path" type="data" format="qiimedistmat" label="input_path"
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20 help="path to the input distance matrix file (i.e., the output from beta_diversity.py). [REQUIRED]"/>
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21 </when>
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22 <when value="multi">
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23 <param name="input_path" type="data" format="qiimedistmat" label="input_path"
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24 help="Path to the first distance matrix file of the metrics run. Example: if you ran beta diversity for both 1: unweighted and 2: weighted unifrac, choose the unweighted file. [REQUIRED]"/>
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25 </when>
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26 </conditional>
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27 </inputs>
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28 <outputs>
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29 <data format="qiimepca" name="output_path" label="${tool.name} on ${on_string}: coordinates"/>
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30 </outputs>
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31 <tests>
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32 </tests>
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33 <help>For more information, see principle_coordinates_ in the Qiime documentation.
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34
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35 Updated and validated 01/18/12 by Amanda Zuzolo, Microbiome Analysis Center, George Mason University, Fairfax, VA
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36 Qiime integration courtesy Jim Johnson, Minnesota Supercomputing Institute, University of Minnesota, Minneapolis, MN
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37
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38 .. _principle_coordinates: http://qiime.org/scripts/principal_coordinates.html</help>
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39 </tool>
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40
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