annotate OpenSwathFileSplitter.xml @ 7:508e1f473cfe draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5

<?xml version='1.0' encoding='UTF-8'?>
<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
<!--Proposed Tool Section: [Targeted Experiments]-->
<tool id="OpenSwathFileSplitter" name="OpenSwathFileSplitter" version="2.3.0">
  <description>Splits SWATH files into n files, each containing one window.</description>
  <macros>
    <token name="@EXECUTABLE@">OpenSwathFileSplitter</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="references"/>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command detect_errors="aggressive"><![CDATA[OpenSwathFileSplitter

-in
  #for token in $param_in:
    $token
  #end for
#if $adv_opts.adv_opts_selector=='advanced':
    #if $adv_opts.param_outputDirectory:
  -outputDirectory     "$adv_opts.param_outputDirectory"
#end if
    #if $adv_opts.param_force:
  -force
#end if
#end if
&gt; $param_stdout
]]></command>
  <inputs>
    <param name="param_in" type="data" format="mzml,mzxml" multiple="true" optional="False" size="30" label="Input file (SWATH/DIA file)" help="(-in) ">
      <sanitizer>
        <valid initial="string.printable">
          <remove value="'"/>
          <remove value="&quot;"/>
        </valid>
      </sanitizer>
    </param>
    <expand macro="advanced_options">
      <param name="param_outputDirectory" type="text" size="30" value="./" label="Output path to store the split files" help="(-outputDirectory) ">
        <sanitizer>
          <valid initial="string.printable">
            <remove value="'"/>
            <remove value="&quot;"/>
          </valid>
        </sanitizer>
      </param>
      <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
    </expand>
  </inputs>
  <outputs>
    <data name="param_stdout" format="txt" label="Output from stdout"/>
  </outputs>
  <help>Splits SWATH files into n files, each containing one window.


For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_OpenSwathFileSplitter.html</help>
</tool>