comparison SemanticValidator.xml @ 0:3070d71e0e5c draft

Uploaded

0:3070d71e0e5c

<?xml version='1.0' encoding='UTF-8'?>
<tool id="SemanticValidator" name="SemanticValidator" version="2.0.0">
  <description>SemanticValidator for semantically validating certain XML files.</description>
  <macros>
    <token name="@EXECUTABLE@">SemanticValidator</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>SemanticValidator

#if $param_in:
  -in $param_in
#end if
#if $param_mapping_file:
  -mapping_file $param_mapping_file
#end if
-cv
  #for token in $param_cv:
    $token
  #end for
-threads \${GALAXY_SLOTS:-24} 
#if $adv_opts.adv_opts_selector=='advanced':
    #if $adv_opts.param_force:
  -force
#end if
#end if
&gt; $param_stdout
</command>
  <inputs>
    <param name="param_in" type="data" format="xml,traml,mzml" optional="False" label="Input file (any xml file)" help="(-in) "/>
    <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) "/>
    <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) ">
      <sanitizer>
        <valid initial="string.printable">
          <remove value="'"/>
          <remove value="&quot;"/>
        </valid>
      </sanitizer>
    </param>
    <expand macro="advanced_options">
      <param name="param_force" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
    </expand>
  </inputs>
  <outputs>
    <data name="param_stdout" format="text" label="Output from stdout"/>
  </outputs>
  <help>**What it does**

SemanticValidator for semantically validating certain XML files.


For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SemanticValidator.html</help>
  <expand macro="references"/>
</tool>