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annotate MetaRNAseq.xml @ 14:e5a94bc69bd6 draft

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planemo upload for repository https://github.com/sblanck/smagexp/tree/master/smagexp_tools commit da1436252b5db4e90c39c95140558f0f93544160
author sblanck
date Tue, 16 May 2017 01:53:32 -0400
parents 328f4031e5d3
children c05f899d5dcd
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1 <tool id="metarnaseq" name="RNA-seq data meta-analysis">
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3 <description>perform meta-analysis thanks to metaRNAseq</description>
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5 <requirements>
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6 <requirement type="package" version="0.1.0">r-smagexp</requirement>
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7 </requirements>
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9 <stdio>
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10 <exit_code range="1:" />
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11 <regex match="Warning" source="both" level="warning"/>
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12 </stdio>
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14 <command>
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16 <![CDATA[
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17 Rscript
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18 ${__tool_directory__}/MetaRNASeq.R
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19 --input "#for $input in $inputs# $input;$input.name, #end for#"
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20 --result $top_table
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21 --htmloutput $result_html
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22 --htmloutputpath $result_html.extra_files_path
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23 --htmltemplate ${__tool_directory__}/MetaRNASeq_tpl.html
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24 ]]>
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25 </command>
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27 <inputs>
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28 <param format="tabular" name="inputList" multiple="true" type="data" optional="false" label="Counts file" help="Must have the same number of row in each study. The experimental conditions must be specified in the header of each file"/>
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29 </inputs>
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31 <outputs>
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32 <data format="tabular" name="top_table" label="Summary of meta-analysis and single studie analysis from ${tool.name} on ${on_string}"/>
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33 <data format="html" name="diagnostic_html" label="Charts for ${tool.name} on ${on_string}"/>
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34 </outputs>
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36 <tests>
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38 </tests>
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40 <help>
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42 </help>
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44 </tool>