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1 <!-- <cut_fr.xml is script allwoing more convenient use of cut in galaxy environment>
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2 Copyright (C) <2015> <Lannes Romain>
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3
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4 This program is free software: you can redistribute it and/or modify
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5 it under the terms of the GNU General Public License as published by
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6 the Free Software Foundation, either version 3 of the License, or
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7 (at your option) any later version.
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8
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9 This program is distributed in the hope that it will be useful,
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10 but WITHOUT ANY WARRANTY; without even the implied warranty of
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11 MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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12 GNU General Public License for more details.
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13
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14 You should have received a copy of the GNU General Public License
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15 along with this program. If not, see <http://www.gnu.org/licenses/>.''' -->
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16 <tool id="cut_fr" name="cut_francais" version="1.0">
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17 <description> keep or remove selected column </description>
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18 <command interpreter="python3"> cut_fr.py
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19 --c $column
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20 --i $datasets
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21 --type_cut $choice
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22 --extend_print $extend_print
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23 --o $output
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24
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25 </command>
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26 <inputs>
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27 <param name = "column" type = "text" format = "txt" value = "c1" label = "column(s)" />
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28 <param name = "datasets" type = "data" format = "txt" value = "a tsv file" label = "dataset" />
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29 <param name = "choice" type = "select" display = "radio" label = "choose cut type :" >
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30 <option value = "exclude" > Exclude </option>
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31 <option value = "include" > Include </option>
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32 </param>
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33 <param name = "extend_print" type ="select" label = "extended print">
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34 <option value = "False" > False </option>
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35 <option value = "True" > True </option>
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36 </param>
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37 </inputs>
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38
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39 <outputs>
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40 <data name = "output" label="${tool.name} on ${datasets.name}" format = "tabular"/>
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41
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42 </outputs>
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43 <help>
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44 <![CDATA[
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45 return a datasets with only or less specified column
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46
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47 To select only selected column choose option Include.
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48
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49 To remove selected column choose option Exclude.
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50
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51 extended print add print in strdout like input paramter, command launch by the system.
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52
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53 ]]> </help>
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54
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55 </tool>
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