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1 <?xml version="1.0" ?>
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2 <tool id="qiime_feature-table_merge-taxa" name="qiime feature-table merge-taxa" version="2018.4">
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3 <description> - Combine collections of feature taxonomies</description>
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4 <requirements>
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5 <requirement type="package" version="2018.4">qiime2</requirement>
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6 </requirements>
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7 <command>
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8 <![CDATA[
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9 qiime feature-table merge-taxa
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10
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11 #def list_dict_to_string(list_dict):
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12 #set $file_list = list_dict[0]['additional_input'].__getattr__('file_name')
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13 #for d in list_dict[1:]:
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14 #set $file_list = $file_list + ' --i-data=' + d['additional_input'].__getattr__('file_name')
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15 #end for
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16 #return $file_list
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17 #end def
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18
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19
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20 --i-data=$list_dict_to_string($input_files_idata)
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21 #if str($cmdconfig) != 'None':
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22 --cmd-config=$cmdconfig
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23 #end if
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24 --o-merged-data=omergeddata;
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25
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26 cp omergeddata.qza $omergeddata;
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27 ]]>
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28 </command>
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29 <inputs>
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30 <repeat name="input_files_idata" optional="False" title="--i-data">
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31 <param format="qza,no_unzip.zip" label="--i-data: PATH List[FeatureData[Taxonomy]] The collection of feature taxonomies to be merged. [required]" name="additional_input" type="data"/>
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32 </repeat>
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33 <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
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34 </inputs>
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35 <outputs>
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36 <data format="qza" label="${tool.name} on ${on_string}: merged-data.qza" name="omergeddata"/>
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37 </outputs>
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38 <help>
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39 <![CDATA[
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40 Combine collections of feature taxonomies
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41 ------------------------------------------
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42
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43 Combines a pair of feature data objects which may or may not contain data
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44 for the same features. If different feature data is present for the same
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45 feature id in the inputs, the data from the first will be propagated to the
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46 result.
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47
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48 Parameters
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49 ----------
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50 data : List[FeatureData[Taxonomy]]
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51 The collection of feature taxonomies to be merged.
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52
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53 Returns
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54 -------
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55 merged_data : FeatureData[Taxonomy]
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56 The resulting collection of feature taxonomies containing all feature
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57 taxonomies provided.
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58 ]]>
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59 </help>
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60 <macros>
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61 <import>qiime_citation.xml</import>
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62 </macros>
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63 <expand macro="qiime_citation" />
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64 </tool>
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