Mercurial > repos > mvdbeek > size_distribution

comparison alignment_size_distribution.xml @ 3:21b5a9170b90 draft

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planemo upload for repository https://github.com/bardin-lab/smallRNA_tools commit c8e0a703fcdff580ba0a0c5806a37c088c03ab7b
author mvdbeek
date Mon, 20 Aug 2018 14:27:49 -0400
parents c8c7b6113241
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2:c8c7b6113241 3:21b5a9170b90
8 python '$__tool_directory__/size_distributions.py' '$alignment_file' --minimum_size $minimum_size --maximum_size $maximum_size $wide --output '$distribution' 8 python '$__tool_directory__/size_distributions.py' '$alignment_file' --minimum_size $minimum_size --maximum_size $maximum_size $wide --output '$distribution'
9 ]]></command> 9 ]]></command>
10 <inputs> 10 <inputs>
11 <param name="alignment_file" type="data" format="bam,unsorted.bam"/> 11 <param name="alignment_file" type="data" format="bam,unsorted.bam"/>
12 <param argument="--minimum_size" type="integer" value="18" min="1" label="Minimum read length to consider"/> 12 <param argument="--minimum_size" type="integer" value="18" min="1" label="Minimum read length to consider"/>
13 <param argument="--maximum_size" type="integer" value="18" min="1" label="Maximum read length to consider"/> 13 <param argument="--maximum_size" type="integer" value="30" min="1" label="Maximum read length to consider"/>
14 <param argument="--wide" type="boolean" checked="false" truevalue="--wide" falsevalue="--long" label="Output wide instead of long tabular format"/> 14 <param argument="--wide" type="boolean" checked="false" truevalue="--wide" falsevalue="--long" label="Output wide instead of long tabular format"/>
15 </inputs> 15 </inputs>
16 <outputs> 16 <outputs>
17 <data name="distribution" format="tabular"/> 17 <data name="distribution" format="tabular"/>
18 </outputs> 18 </outputs>