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1 <tool id="tab2csv_R" name="Tabular to CSV" version="0.1">
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2 <requirements>
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3 <requirement type="package" version="3.2.1">R</requirement>
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4 </requirements>
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5 <command detect_errors="exit_code"><![CDATA[
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6 Rscript '$__tool_directory__/tab2csv.R' '$input1' '$sep' '$header' '$output' ]]>
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7 </command>
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8 <inputs>
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9 <param format="tabular" name="input1" type="data" label="tabular file"/>
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10 <param name="sep" type="text" label="output csv Separator" value=",">
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11 <sanitizer sanitize="False"/>
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12 </param>
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13 <param name="header" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="true" label="Header in file"/>
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14
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15 </inputs>
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16
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17 <outputs>
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18 <data format="csv" name="output" from_work_dir="out.csv" />
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19 </outputs>
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20
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21 <tests>
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22 <test>
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23 <param name="input1" value="example_tab.tabular"/>
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24 <param name="sep" value=","/>
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25 <param name="header" value="FALSE"/>
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26 <output name="output" file="out.csv"/>
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27 </test>
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28 </tests>
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29
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30 <help>
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31 **What it does**
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32
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33 Convert a tabular file to a CSV.
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34
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35 Transform the tabs to the chosen separator. It is important to specify if the file has a header line.
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36
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37 ------
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38
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39 **Example**
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40
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41 Input tabular :
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42
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43 "John" "Smith" "2 mySteet, myCity"
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44
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45 "François" "LeFrançais" "1 rue du Général, Paris"
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46
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47 "Other" "Random" "Stuff, stuff, stuff"
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48
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49
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50 Output CSV :
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51
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52 "John","Smith","2 mySteet, myCity"
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53
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54 "François","LeFrançais","1 rue du Général, Paris"
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55
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56 "Other","Random","Stuff, stuff, stuff"
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57
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58
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59
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60
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61 ------
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62
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63 **Arguments**
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64
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65 Input : tabular file.
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66
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67 Separator : default is ",".
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68
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69 Header : True/False.
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70
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71
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72 </help>
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73 </tool>
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