annotate phyloseq_plot_richness.xml @ 0:92b82deaaed1 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
author iuc
date Thu, 03 Mar 2022 13:28:55 +0000
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children 1ff178d1757e
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92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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1 <tool id="phyloseq_plot_richness" name="Phyloseq: plot alpha diverstiy measure" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
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2 <description></description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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6 <expand macro="requirements"/>
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7 <command detect_errors="exit_code"><![CDATA[
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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8 Rscript '${__tool_directory__}/phyloseq_plot_richness.R'
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9 --input '$input'
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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10 --output '$output'
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11 ]]></command>
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12 <inputs>
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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13 <expand macro="phyloseq_input"/>
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14 </inputs>
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15 <outputs>
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16 <data name="output" format="pdf"/>
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17 </outputs>
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18 <tests>
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19 <test>
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20 <param name="input" value="output.phyloseq" ftype="phyloseq"/>
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21 <output name="output" ftype="pdf">
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22 <assert_contents>
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23 <has_text text="%PDF"/>
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24 <has_text text="%%EOF"/>
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25 </assert_contents>
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26 </output>
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27 </test>
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28 </tests>
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29 <help>
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30 **What it does**
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31
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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32 Accepts a dataset containing a phyloseq object created from a dada2 taxonomy table and a dada2 sequence table,
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33 estimates a number of alpha-diversity metrics, and generates a colored plot that includes the alpha diverstiy measure
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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34 of each sample.
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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35 </help>
92b82deaaed1 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit d1004c06207be773c278e12745aada276b63172e"
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36 <expand macro="citations"/>
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37 </tool>
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38