Mercurial > repos > galaxyp > openms_openswathmzmlfilecacher

annotate OpenSwathMzMLFileCacher.xml @ 7:b5121b003599 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author galaxyp
date Wed, 15 May 2019 08:09:48 -0400
parents e1c2ee148254
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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 CTDConverter.-->
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3 <!--Proposed Tool Section: [Targeted Experiments]-->
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4 <tool id="OpenSwathMzMLFileCacher" name="OpenSwathMzMLFileCacher" version="2.3.0">
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5 <description>This tool caches the spectra and chromatogram data of an mzML to disk.</description>
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6 <macros>
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7 <token name="@EXECUTABLE@">OpenSwathMzMLFileCacher</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 detect_errors="aggressive"><![CDATA[OpenSwathMzMLFileCacher
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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_out:
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19 -out $param_out
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20 #end if
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21 #if $param_out_type:
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22 -out_type
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23 #if " " in str($param_out_type):
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24 "$param_out_type"
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25 #else
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26 $param_out_type
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27 #end if
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28 #end if
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29 #if $param_convert_back:
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30 -convert_back
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31 #end if
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32 #if $adv_opts.adv_opts_selector=='advanced':
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33 #if $adv_opts.param_force:
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34 -force
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35 #end if
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36 #end if
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37 ]]></command>
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38 <inputs>
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39 <param name="param_in" type="data" format="mzml,sqMass" optional="False" label="Input mzML file" help="(-in) "/>
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40 <param name="param_out_type" display="radio" type="select" optional="True" label="Output file type -- default: determined from file extension or content &lt;br&gt;Note: that not all conversion paths work or make sense" help="(-out_type) ">
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41 <option value="mzML">mzML</option>
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42 <option value="sqMass">sqMass</option>
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43 </param>
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44 <param name="param_convert_back" display="radio" type="boolean" truevalue="-convert_back" falsevalue="" checked="false" optional="True" label="Convert back to mzML" help="(-convert_back) "/>
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45 <expand macro="advanced_options">
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46 <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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47 </expand>
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48 </inputs>
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49 <outputs>
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50 <data name="param_out" format="mzml"/>
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51 </outputs>
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52 <help>This tool caches the spectra and chromatogram data of an mzML to disk.
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53
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54
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55 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_OpenSwathMzMLFileCacher.html</help>
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56 </tool>