Mercurial > repos > chrisd > rarefaction_analyzer

annotate rarefaction_analyzer.xml @ 0:a746ded53514 draft default tip

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planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
author chrisd
date Sun, 09 Oct 2016 06:40:49 -0400
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a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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1 <tool id="rarefaction_analyzer" name="ResistomeAnalyzer" version="0.1.0">
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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2 <description>A simple tool for creating rarefaction curves for metagenomic sequence data</description>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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3 <requirements>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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4 <requirement type="package" version="0.1">rarefactionanalyzer</requirement>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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5 </requirements>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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6 <stdio>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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7 <exit_code range="1:" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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8 </stdio>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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9 <command><![CDATA[
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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10 rarefaction
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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11 -ref_fp $reference
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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12 -annot_fp $annotation
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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13 -sam_fp $sam
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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14 -min $min
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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15 -max $max
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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16 -t $threshold
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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17 -samples $samples
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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18 -skip $skip
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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19 -gene_fp $gene
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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20 -mech_fp $mech
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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21 -class_fp $class
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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22 -group_fp $group
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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23 ]]></command>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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24 <inputs>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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25 <param type="data" name="reference" format="fasta" label="Reference sequence" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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26 <param type="data" name="sam" format="sam" label="SAM file" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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27 <param type="data" name="annotation" format="csv" label="Annotation file" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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28 <param name="min" type="integer" label="Starting sample level"
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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29 value="1" min="1" max="100" help="(-min)" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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30 <param name="max" type="integer" label="Ending sample level"
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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31 value="1" min="1" max="100" help="(-max)" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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32 <param name="threshold" type="integer" label="Gene fraction threshold"
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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33 value="0" min="0" max="100" help="(-t)" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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34 <param name="skip" type="integer" label="Amount of sample levels to skip"
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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35 value="1" min="1" max="100" help="(-skip)" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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36 <param name="samples" type="integer" label="Iterations per sample level"
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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37 value="1" min="1" max="100" help="(-samples)" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
chrisd
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38 </inputs>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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39 <outputs>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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40 <data name="gene" format="tabular" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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41 <data name="mech" format="tabular" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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42 <data name="class" format="tabular" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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43 <data name="group" format="tabular" />
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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44 </outputs>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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45 <citations>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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46 </citations>
a746ded53514 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/tools/rarefactionanalyzer commit e5dfdf9aa83af409ee99a0259ceb23b305b8f949
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47 </tool>