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1 <?xml version='1.0' encoding='UTF-8'?>
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2 <tool id="SemanticValidator" name="SemanticValidator" version="2.0.0">
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3 <description>SemanticValidator for semantically validating certain XML files.</description>
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4 <macros>
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5 <token name="@EXECUTABLE@">SemanticValidator</token>
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6 <import>macros.xml</import>
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7 </macros>
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8 <expand macro="stdio"/>
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9 <expand macro="requirements"/>
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10 <command>SemanticValidator
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11
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12 #if $param_in:
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13 -in $param_in
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14 #end if
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15 #if $param_mapping_file:
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16 -mapping_file $param_mapping_file
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17 #end if
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18 -cv
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19 #for token in $param_cv:
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20 $token
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21 #end for
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22 -threads \${GALAXY_SLOTS:-24}
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23 #if $adv_opts.adv_opts_selector=='advanced':
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24 #if $adv_opts.param_force:
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25 -force
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26 #end if
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27 #end if
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28 > $param_stdout
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29 </command>
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30 <inputs>
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31 <param name="param_in" type="data" format="xml,traml,mzml" optional="False" label="Input file (any xml file)" help="(-in) "/>
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32 <param name="param_mapping_file" type="data" format="xml" optional="False" label="Mapping file which is used to semantically validate the given XML file against this mapping file (see 'share/OpenMS/MAPPING' for templates)" help="(-mapping_file) "/>
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33 <param name="param_cv" type="data" format="obo" multiple="true" optional="True" size="30" label="Controlled Vocabulary files containg the CV terms (if left empty, a set of default files are used)" help="(-cv) ">
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34 <sanitizer>
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35 <valid initial="string.printable">
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36 <remove value="'"/>
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37 <remove value="""/>
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38 </valid>
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39 </sanitizer>
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40 </param>
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41 <expand macro="advanced_options">
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42 <param name="param_force" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
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43 </expand>
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44 </inputs>
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45 <outputs>
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46 <data name="param_stdout" format="text" label="Output from stdout"/>
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47 </outputs>
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48 <help>**What it does**
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49
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50 SemanticValidator for semantically validating certain XML files.
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51
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52
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53 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SemanticValidator.html</help>
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54 <expand macro="references"/>
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55 </tool>
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