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annotate SemanticValidator.xml @ 4:6ead64a594bd draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
author bgruening
date Wed, 27 Jan 2016 10:06:49 -0500
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6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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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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4 <tool id="SemanticValidator" name="SemanticValidator" version="2.0.0">
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5 <description>SemanticValidator for semantically validating certain XML files.</description>
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6 <macros>
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7 <token name="@EXECUTABLE@">SemanticValidator</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>SemanticValidator
0
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14
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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_mapping_file:
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19 -mapping_file $param_mapping_file
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20 #end if
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21 -cv
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22 #for token in $param_cv:
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23 $token
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24 #end for
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25 -threads \${GALAXY_SLOTS:-24}
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26 #if $adv_opts.adv_opts_selector=='advanced':
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27 #if $adv_opts.param_force:
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28 -force
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29 #end if
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30 #end if
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31 &gt; $param_stdout
0
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32 </command>
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33 <inputs>
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34 <param format="xml,txt,traml,mzml" help="(-in) " label="Input file (any xml file)" name="param_in" optional="False" type="data"/>
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35 <param format="" help="(-mapping_file) " label="Mapping file which is used to semantically validate the given XML file against this mapping file (see 'share/OpenMS/MAPPING' for templates)" name="param_mapping_file" optional="False" type="data"/>
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36 <param format="" help="(-cv) " label="Controlled Vocabulary files containg the CV terms (if left empty, a set of default files are used)" multiple="true" name="param_cv" optional="True" size="30" type="data">
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37 <sanitizer>
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38 <valid initial="string.printable">
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39 <remove value="'"/>
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40 <remove value="&quot;"/>
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41 </valid>
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42 </sanitizer>
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43 </param>
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44 <expand macro="advanced_options">
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45 <param checked="false" falsevalue="" help="(-force) " label="Overwrite tool specific checks" name="param_force" optional="True" truevalue="-force" type="boolean"/>
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46 </expand>
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47 </inputs>
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48 <outputs>
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49 <data format="text" label="Output from stdout" name="param_stdout"/>
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50 </outputs>
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51 <help>SemanticValidator for semantically validating certain XML files.
0
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52
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53
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54 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SemanticValidator.html</help>
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55 </tool>