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1 <?xml version="1.0" ?>
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2 <tool id="qiime_metadata_tabulate" name="qiime metadata tabulate" version="2018.4">
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3 <description> - Interactively explore Metadata in an HTML table</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 metadata tabulate
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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 + ' --m-input-file=' + d['additional_input'].__getattr__('file_name')
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15 #end for
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16 #return $file_list
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17 #end def
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18
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19 --m-input-file=$list_dict_to_string($input_files_minputfile)
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20 #if str($cmdconfig) != 'None':
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21 --cmd-config=$cmdconfig
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22 #end if
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23
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24 #if $ppagesize:
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25 --p-page-size=$ppagesize
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26 #end if
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27 --o-visualization=ovisualization;
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28 qiime tools export ovisualization.qzv --output-dir out && mkdir -p '$ovisualization.files_path'
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29 && cp -r out/* '$ovisualization.files_path'
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30 && mv '$ovisualization.files_path/index.html' '$ovisualization'
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31 ]]>
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32 </command>
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33 <inputs>
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34 <repeat name="input_files_minputfile" optional="False" title="--m-input-file">
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35 <param label="--m-input-file: Metadata file or artifact viewable as metadata. This option may be supplied multiple times to merge metadata. The metadata to tabulate. [required]" name="additional_input" type="data" format="tabular,qza,no_unzip.zip" />
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36 </repeat>
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37
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38 <param label="--p-page-size: The maximum number of Metadata records to display per page [default: 100]" name="ppagesize" optional="True" type="integer" value="100"/>
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39
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40 <param label="--cmd-config: Use config file for command options" name="cmdconfig" optional="True" type="data"/>
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41 </inputs>
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42 <outputs>
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43 <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/>
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44 </outputs>
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45 <help>
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46 <![CDATA[
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47 Interactively explore Metadata in an HTML table
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48 ------------------------------------------------
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49
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50 Generate a tabular view of Metadata. The output visualization supports
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51 interactive filtering, sorting, and exporting to common file formats.
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52
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53 Parameters
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54 ----------
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55 input : Metadata
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56 The metadata to tabulate.
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57 page_size : Int, optional
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58 The maximum number of Metadata records to display per page
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59
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60 Returns
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61 -------
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62 visualization : Visualization
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63 \
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64 ]]>
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65 </help>
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66 <macros>
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67 <import>qiime_citation.xml</import>
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68 </macros>
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69 <expand macro="qiime_citation" />
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70 </tool>
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