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comparison galaxy-conf/IntervalStats.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
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21:51b28ce6ef7e 22:727fbba02ef7
1 <tool id="IntervalStats" name="Compute mean/min/max of intervals" version="1.0.0"> 1 <tool id="IntervalStats" name="Compute mean/min/max of intervals" version="1.0.0">
2 <description>of data in a Wiggle file</description> 2 <description>of data in a (Big)Wig file</description>
3 <command interpreter="sh"> 3 <command interpreter="sh">
4 galaxyToolRunner.sh ngs.IntervalStats -l $windows -s $stat -o $output 4 galaxyToolRunner.sh ngs.IntervalStats -l $windows -s $stat -o $output
5 #for $input in $inputs 5 #for $input in $inputs
6 ${input.file} 6 ${input.file}
7 #end for 7 #end for
8 </command> 8 </command>
9 <inputs> 9 <inputs>
10 <repeat name="inputs" title="BigWig file"> 10 <repeat name="inputs" title="(Big)Wig file">
11 <param name="file" type="data" format="bigwig,wig" /> 11 <param name="file" type="data" format="bigwig,wig" />
12 </repeat> 12 </repeat>
13 <param format="bed,bedgraph,gff" name="windows" type="data" label="List of intervals" /> 13 <param format="bed,bedgraph,gff" name="windows" type="data" label="List of intervals" />
14 <param name="stat" type="select" optional="true" label="For each interval, compute the"> 14 <param name="stat" type="select" optional="true" label="For each interval, compute the">
15 <option value="mean">Mean</option> 15 <option value="mean">Mean</option>