Mercurial > repos > galaxyp > openms_spectrafilterbernnorm

annotate SpectraFilterBernNorm.xml @ 10:89abcc2a319f 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 05:27:40 -0400
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children ce3aef631395
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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: [Identification]-->
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4 <tool id="SpectraFilterBernNorm" name="SpectraFilterBernNorm" version="2.3.0">
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5 <description>Applies thresholdfilter to peak spectra.</description>
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6 <macros>
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7 <token name="@EXECUTABLE@">SpectraFilterBernNorm</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[SpectraFilterBernNorm
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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_algorithm_threshold:
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22 -algorithm:threshold $param_algorithm_threshold
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23 #end if
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24 #if $adv_opts.adv_opts_selector=='advanced':
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25 #if $adv_opts.param_force:
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26 -force
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27 #end if
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28 #if $adv_opts.param_algorithm_C1:
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29 -algorithm:C1 $adv_opts.param_algorithm_C1
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30 #end if
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31 #if $adv_opts.param_algorithm_C2:
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32 -algorithm:C2 $adv_opts.param_algorithm_C2
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33 #end if
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34 #end if
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35 ]]></command>
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36 <inputs>
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37 <param name="param_in" type="data" format="mzml" optional="False" label="input file" help="(-in) "/>
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38 <param name="param_algorithm_threshold" type="float" value="0.1" label="Threshold of the Bern et al. normalization" help="(-threshold) "/>
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39 <expand macro="advanced_options">
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40 <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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41 <param name="param_algorithm_C1" type="float" value="28.0" label="C1 value of the normalization" help="(-C1) "/>
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42 <param name="param_algorithm_C2" type="float" value="400.0" label="C2 value of the normalization" help="(-C2) "/>
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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_out" format="mzml"/>
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47 </outputs>
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48 <help>Applies thresholdfilter to peak spectra.
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49
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50
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51 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_SpectraFilterBernNorm.html</help>
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52 </tool>