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annotate QCImporter.xml @ 1:1cdf3bd28060 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 9a14ed1f2d3c9abdfb080251b3419dd9e0c52a14
author galaxyp
date Wed, 09 Aug 2017 17:47:19 -0400
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children 800e653be528
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2edc51d55cea planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit fb85d488133bb2b5f483b52b2db0ac66038fafb8
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1 <?xml version='1.0' encoding='UTF-8'?>
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2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
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3 <!--Proposed Tool Section: [Utilities]-->
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1cdf3bd28060 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 9a14ed1f2d3c9abdfb080251b3419dd9e0c52a14
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4 <tool id="QCImporter" name="QCImporter" version="2.2.0">
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5 <description>Imports tables with quality control parameters into qcml files.</description>
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6 <macros>
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7 <token name="@EXECUTABLE@">QCImporter</token>
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8 <import>macros.xml</import>
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9 </macros>
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10 <expand macro="references"/>
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11 <expand macro="stdio"/>
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12 <expand macro="requirements"/>
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13 <command>QCImporter
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14
2edc51d55cea planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit fb85d488133bb2b5f483b52b2db0ac66038fafb8
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15 #if $param_in:
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16 -in $param_in
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17 #end if
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18 #if $param_table:
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19 -table $param_table
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20 #end if
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21 #if $param_mapping:
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22 -mapping $param_mapping
2edc51d55cea planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit fb85d488133bb2b5f483b52b2db0ac66038fafb8
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23 #end if
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24 #if $param_out:
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25 -out $param_out
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26 #end if
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27 #if $adv_opts.adv_opts_selector=='advanced':
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28 #if $adv_opts.param_force:
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29 -force
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30 #end if
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31 #end if
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32 </command>
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33 <inputs>
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34 <param name="param_in" type="data" format="qcml" optional="True" label="Input qcml file" help="(-in) "/>
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35 <param name="param_table" type="data" format="tabular" optional="False" label="The table containing the additional qp values in the columns" help="(-table) First row is considered containing the header. The target run or set names/ids are indicated by column &quot;raw data file&quot;, so each row after the header will contain the values of qps for that run. (csv without &quot;!)"/>
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36 <param name="param_mapping" type="data" format="tabular" optional="False" label="The mapping of the table header to the according qp cvs, also in csv format" help="(-mapping) The first row is considered containing the headers as in the table. The second row is considered the according qp cv accessions. (csv without &quot;!)"/>
2edc51d55cea planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit fb85d488133bb2b5f483b52b2db0ac66038fafb8
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37 <expand macro="advanced_options">
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38 <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
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39 </expand>
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40 </inputs>
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41 <outputs>
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42 <data name="param_out" format="qcml"/>
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43 </outputs>
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44 <help>Imports tables with quality control parameters into qcml files.
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45
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46
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47 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_QCImporter.html</help>
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48 </tool>