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1 <tool id="barchart_gnuplot" name="Bar chart">
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2 <description>for multiple columns</description>
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3 <command interpreter="python">
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4 #if $xtic.userSpecified == "Yes" #bar_chart.py $input $xtic.xticColumn $colList "$title" "$ylabel" $ymin $ymax $out_file1 "$pdf_size"
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5 #else #bar_chart.py $input 0 $colList "$title" "$ylabel" $ymin $ymax $out_file1 "$pdf_size"
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6 #end if
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7 </command>
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8 <inputs>
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9 <param name="input" type="data" format="tabular" label="Dataset" help="Dataset missing? See TIP below"/>
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10 <conditional name="xtic">
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11 <param name="userSpecified" type="select" label="Use X Tick labels?" help="see example below">
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12 <option value="Yes">Yes</option>
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13 <option value="No">No</option>
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14 </param>
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15 <when value="Yes">
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16 <param name="xticColumn" type="data_column" data_ref="input" numerical="False" label="Use this column for X Tick labels" />
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17 </when>
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18 <when value="No">
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19 </when>
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20 </conditional>
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21 <param name="colList" label="Numerical columns" type="data_column" numerical="True" multiple="True" data_ref="input" help="Multi-select list - hold the appropriate key while clicking to select multiple columns" />
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22 <param name="title" type="text" size="30" value="Bar Chart" label="Plot title"/>
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23 <param name="ylabel" type="text" size="30" value="V1" label="Label for Y axis"/>
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24 <param name="ymin" type="integer" size="4" value="0" label="Minimal value on Y axis" help="set to 0 for autoscaling"/>
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25 <param name="ymax" type="integer" size="4" value="0" label="Maximal value on Y axis" help="set to 0 for autoscaling"/>
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26 <param name="pdf_size" type="select" label="Choose chart size (pixels)">
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27 <option value="800,600">Normal: 800 by 600</option>
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28 <option value="640,480">Small: 640 by 480</option>
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29 <option value="1480,800">Large: 1480 by 800</option>
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30 <option value="600,800">Normal Flipped: 600 by 800</option>
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31 <option value="480,640">Small Flipped: 480 by 640</option>
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32 <option value="800,1480">Large Flipped: 800 by 1480</option>
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33 </param>
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34 </inputs>
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35 <outputs>
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36 <data format="png" name="out_file1" />
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37 </outputs>
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38 <requirements>
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39 <requirement type="python-module">Gnuplot</requirement>
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40 <requirement type="python-module">Numeric</requirement>
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41 </requirements>
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42 <help>
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43
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44 **What it does**
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45
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46 This tool builds a bar chart on one or more columns. Suppose you have dataset like this one::
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47
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48 Gene1 10 15
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49 Gene2 20 14
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50 Gene3 67 45
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51 Gene4 55 12
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52
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53 Graphing columns 2 and 3 while using column 1 for X Tick Labels will produce the following plot:
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54
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55 .. image:: ./static/images/bar_chart.png
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56 :height: 324
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57 :width: 540
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58
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59 </help>
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60 </tool>
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