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1 <tool id="tp_split_on_column" name="Split file" force_history_refresh="True" version="0.1.1">
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2 <description>according to the values of a column</description>
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3 <requirements>
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4 <requirement type="package" version="4.1.0">gnu_awk</requirement>
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5 </requirements>
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6 <command>
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7 awk -F'\t' '{print > "primary_${outfile.id}_" \$$column "_visible_${infile.ext}" }' $infile;
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8 echo 'Created' `ls -l | wc -l` 'files:' > $outfile;
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9 ls -1 --hide="*_stdout" --hide="*_stderr" >> $outfile;
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10 </command>
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11
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12 <inputs>
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13 <param format="txt" name="infile" type="data" label="File to select" />
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14 <param name="column" label="on column" type="data_column" data_ref="infile" accept_default="true" />
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15 </inputs>
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16
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17 <outputs>
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18 <data format="input" name="outfile" metadata_source="infile" label="${tool.name} on ${on_string}"/>
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19 </outputs>
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20 <tests>
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21 <test>
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22 </test>
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23 </tests>
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24 <help>
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25
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26 **What it does**
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27
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28 This tool splits a file into different smaller files using a specific column.
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29 It will work like the group tool, but every group is saved to its own file.
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30
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31 -----
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32
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33 **Example**
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34
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35 Splitting on column 4 from this::
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36
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37 chr7 56632 56652 cluster 1
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38 chr7 56736 56756 cluster 1
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39 chr7 56761 56781 cluster 2
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40 chr7 56772 56792 cluster 2
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41 chr7 56775 56795 cluster 2
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42
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43 will produce 2 files with different clusters::
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44
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45 chr7 56632 56652 cluster 1
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46 chr7 56736 56756 cluster 1
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47
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48
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49 chr7 56761 56781 cluster 2
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50 chr7 56772 56792 cluster 2
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51 chr7 56775 56795 cluster 2
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52
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53
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54 </help>
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55 </tool>
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