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comparison galaxy-conf/Divide.xml @ 15:3e477c7e0e73 draft

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Update normalization tools to allow normalizing by chromosome (Z-scorer, scale, etc.) Add new tool to convert any interval file to Bed format. Miscellaneous bug fixes.
author timpalpant
date Sat, 09 Jun 2012 16:03:59 -0400
parents 81d5b81fb3c2
children
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14:f58706d4d421 15:3e477c7e0e73
1 <tool id="Divide" name="Divide" version="1.0.0"> 1 <tool id="WigDivide" name="Divide" version="1.1.0">
2 <description>two (Big)Wig files</description> 2 <description>two (Big)Wig files</description>
3 <command interpreter="sh">galaxyToolRunner.sh wigmath.Divide -n $dividend -d $divisor -o $output</command> 3 <command interpreter="sh">galaxyToolRunner.sh wigmath.Divide -n $dividend -d $divisor -o $output</command>
4 <inputs> 4 <inputs>
5 <param format="bigwig,wig" name="dividend" type="data" label="File 1 (dividend)" /> 5 <param format="bigwig,wig" name="dividend" type="data" label="File 1 (dividend)" />
6 <param format="bigwig,wig" name="divisor" type="data" label="File 2 (divisor)" /> 6 <param format="bigwig,wig" name="divisor" type="data" label="File 2 (divisor)" />
7 </inputs> 7 </inputs>
8 <outputs> 8 <outputs>
9 <data format="wig" name="output" metadata_source="dividend" /> 9 <data format="wig" name="output" metadata_source="dividend" />
10 </outputs> 10 </outputs>
11 <tests> 11 <tests>
12 <!--<test> 12 <test>
13 <param name="dividend" value="wigmath.input1"/> 13 <param name="dividend" value="wigmath1.wig"/>
14 <param name="divisor" value="wigmath.input2"/> 14 <param name="divisor" value="wigmath2.wig"/>
15 <param name="dbkey" value="sacCer2"/> 15 <output name="output" file="divide1.wig"/>
16 <output name="output" file="divide.output"/>
17 </test> 16 </test>
18 <test> 17 <test>
19 <param name="dividend" value="wigmath.input1.bw"/> 18 <param name="dividend" value="wigmath1.wig"/>
20 <param name="divisor" value="wigmath.input2"/> 19 <param name="divisor" value="wigmath3.bw"/>
21 <param name="dbkey" value="sacCer2"/> 20 <output name="output" file="divide2.wig"/>
22 <output name="output" file="divide.output"/>
23 </test> 21 </test>
24 <test> 22 <test>
25 <param name="dividend" value="wigmath.input1"/> 23 <param name="dividend" value="wigmath3.bw"/>
26 <param name="divisor" value="wigmath.input2.bw"/> 24 <param name="divisor" value="wigmath2.bw"/>
27 <param name="dbkey" value="sacCer2"/> 25 <output name="output" file="divide3.wig"/>
28 <output name="output" file="divide.output"/>
29 </test> 26 </test>
30 <test>
31 <param name="dividend" value="wigmath.input1.bw"/>
32 <param name="divisor" value="wigmath.input2.bw"/>
33 <param name="dbkey" value="sacCer2"/>
34 <output name="output" file="divide.output"/>
35 </test>-->
36 </tests> 27 </tests>
37 28
38 <help> 29 <help>
39 30
40 .. class:: infomark 31 .. class:: infomark