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1 <tool id="table-union" name="Merge tabular datasets" version="0.1.0">
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2 <description>by combining their rows and unionizing columns</description>
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3 <requirements>
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4 <!-- <requirement type="package" version="3.4">python</requirement> -->
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5 </requirements>
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6 <command detect_errors="exit_code"><![CDATA[
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7 #if $input_type.source_select == 'two'
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8 #set tables=($table_1, $table_2)
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9 #else
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10 #set tables=$input_type.tables
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11 #end if
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12 python $__tool_directory__/table-union.py "$union"
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13 #for $table in $tables
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14 $table
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15 #end for
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16 > $combined_table
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17 ]]></command>
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18 <inputs>
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19 <param name="union" type="boolean" label="Attempt to unionize on an autodetected key column" checked="false" falsevalue="" />
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20 <conditional name="input_type">
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21 <param name="source_select" type="select" label="Mode">
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22 <option value="two">Combine two tables</option>
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23 <option value="collection">Combine a collection of tables</option>
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24 </param>
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25 <when value="collection">
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26 <param name="tables" type="data_collection" format="tabular,tsv" collection_type="list" />
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27 </when>
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28 <when value="two">
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29 <param name="table_1" type="data" format="tabular,tsv" />
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30 <param name="table_2" type="data" format="tabular,tsv" />
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31 </when>
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32 </conditional>
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33 </inputs>
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34 <outputs>
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35 <data name="combined_table" format="tsv" label="Combined table" />
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36 </outputs>
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37
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38 <tests>
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39 <test>
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40 <param name="source_select" value="collection" />
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41 <param name="union" value="true" />
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42 <param name="tables">
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43 <collection type="list">
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44 <element name="1" value="dingbat.tsv" />
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45 <element name="2" value="loki.tsv" />
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46 </collection>
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47 </param>
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48 <output name="combined_table" value="combined.tsv" />
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49 </test>
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50 <test>
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51 <param name="source_select" value="two" />
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52 <param name="union" value="false" />
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53 <param name="table_1" value="dingbat.tsv" />
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54 <param name="table_2" value="loki.tsv" />
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55 <output name="combined_table" value="no_union.tsv" />
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56 </test>
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57 </tests>
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58 <help><![CDATA[
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59 Concatenate a collection of TSV files wile preserving and unionizing headers.
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60 ]]></help>
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61
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62 <citations>
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63 </citations>
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64 </tool> |
