Mercurial > repos > timpalpant > java_genomics_toolkit

annotate galaxy-conf/Subtract.xml @ 22:727fbba02ef7 draft

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Fix a bug in GeneTrackToWig where +/- strands were not merged correctly. Add option to vary the chunk size of tools that process chromosomes in chunks.
author timpalpant
date Tue, 19 Jun 2012 22:09:23 -0400
parents 9d56b5b85740
children b43c420a6135
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20
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1 <tool id="WigSubtract" name="Subtract" version="1.1.0">
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2 <description>two (Big)Wig files</description>
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3 <command interpreter="sh">galaxyToolRunner.sh wigmath.Subtract -m $minuend -s $subtrahend -o $output</command>
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4 <inputs>
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5 <param format="bigwig,wig" name="minuend" type="data" label="File 1 (minuend / top)" />
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6 <param format="bigwig,wig" name="subtrahend" type="data" label="File 2 (subtrahend / bottom)" />
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7 </inputs>
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8 <outputs>
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9 <data format="wig" name="output" metadata_source="minuend" />
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10 </outputs>
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11 <tests>
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12 <!--<test>
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13 <param name="minuend" value="wigmath.input1"/>
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14 <param name="subtrahend" value="wigmath.input2"/>
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15 <param name="dbkey" value="sacCer2"/>
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16 <output name="output" file="difference.output"/>
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17 </test>
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18 <test>
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19 <param name="minuend" value="wigmath.input1.bw"/>
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20 <param name="subtrahend" value="wigmath.input2"/>
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21 <param name="dbkey" value="sacCer2"/>
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22 <output name="output" file="difference.output"/>
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23 </test>
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24 <test>
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25 <param name="minuend" value="wigmath.input1"/>
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26 <param name="subtrahend" value="wigmath.input2.bw"/>
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27 <param name="dbkey" value="sacCer2"/>
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28 <output name="output" file="difference.output"/>
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29 </test>
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30 <test>
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31 <param name="minuend" value="wigmath.input1.bw"/>
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32 <param name="subtrahend" value="wigmath.input2.bw"/>
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33 <param name="dbkey" value="sacCer2"/>
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34 <output name="output" file="difference.output"/>
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35 </test>-->
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36 </tests>
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37
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38 <help>
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39
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40 This tool will subtract the values in one Wig file from another, base pair by base pair.
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41
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42 .. class:: infomark
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43
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44 **TIP:** If your dataset does not appear in the pulldown menu, it means that it is not in Wig or BigWig format. Use "edit attributes" to set the correct format if it was not detected correctly.
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45
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46 </help>
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47 </tool>