comparison SMART/galaxy/plotRepartition.xml @ 6:769e306b7933

Change the repository level.
author yufei-luo
date Fri, 18 Jan 2013 04:54:14 -0500
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5:ea3082881bf8 6:769e306b7933
1 <tool id="plotRepartition" name="plot repartition">
2 <description>Plot the repartition of different data on a whole genome. (This tool uses only 1 input file, the different values are stored in the tags. )</description>
3 <command interpreter="python">
4 ../Java/Python/WrappPlotRepartition.py -i $inputFileName
5 -n $names
6 $normalize
7 #if $optionColor.Color == 'Yes':
8 -c $optionColor.colValue
9 #end if
10 -f $format
11
12 #if $optionLog.log == 'Yes':
13 -l $optionLog.logVal
14 #end if
15
16 -o $outputFilePNG
17 </command>
18
19 <inputs>
20 <param name="inputFileName" type="data" label="Input Gff3 File" format="gff3"/>
21 <param name="names" type="text" value="None" label="name for the tags (separated by commas and no space) [compulsory option]"/>
22 <param name="normalize" type="boolean" truevalue="-r" falsevalue="" checked="false" label="normalize data (when panels are different)"/>
23 <param name="format" type="text" value="png" label="format of the output file[default: png]"/>
24
25 <conditional name="optionColor">
26 <param name="Color" type="select" label="scolor of the lines (separated by commas and no space) ">
27 <option value="Yes">Yes</option>
28 <option value="No" selected="true">No</option>
29 </param>
30 <when value="Yes">
31 <param name="colValue" type="text" value="None"/>
32 </when>
33 <when value="No">
34 </when>
35 </conditional>
36
37 <conditional name="optionLog">
38 <param name="log" type="select" label="use log on x- or y-axis (write 'x', 'y' or 'xy')">
39 <option value="Yes">Yes</option>
40 <option value="No" selected="true">No</option>
41 </param>
42 <when value="Yes">
43 <param name="logVal" type="text" value=" "/>
44 </when>
45 <when value="No">
46 </when>
47 </conditional>
48
49 </inputs>
50
51 <outputs>
52 <data name="outputFilePNG" format="tar" label="[plotRepartition]out file"/>
53 </outputs>
54
55 <help>
56 This script gives a .tar out file, if you want to take look at the results, you have to download it.
57 </help>
58
59 </tool>