Mercurial > repos > galaxyp > openms_masstraceextractor

comparison MassTraceExtractor.xml @ 12:5d5640637fc5 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 06:43:27 -0400
parents 06f0d0ccd884
children e4121d908118
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equal deleted inserted replaced
11:f6575cd0e736 12:5d5640637fc5
1 <?xml version='1.0' encoding='UTF-8'?> 1 <?xml version='1.0' encoding='UTF-8'?>
2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.--> 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
3 <!--Proposed Tool Section: [Signal processing and preprocessing]--> 3 <!--Proposed Tool Section: [Signal processing and preprocessing]-->
4 <tool id="MassTraceExtractor" name="MassTraceExtractor" version="2.2.0"> 4 <tool id="MassTraceExtractor" name="MassTraceExtractor" version="2.3.0">
5 <description>Detects mass traces in centroided LC-MS data.</description> 5 <description>Detects mass traces in centroided LC-MS data.</description>
6 <macros> 6 <macros>
7 <token name="@EXECUTABLE@">MassTraceExtractor</token> 7 <token name="@EXECUTABLE@">MassTraceExtractor</token>
8 <import>macros.xml</import> 8 <import>macros.xml</import>
9 </macros> 9 </macros>
10 <expand macro="references"/> 10 <expand macro="references"/>
11 <expand macro="stdio"/> 11 <expand macro="stdio"/>
12 <expand macro="requirements"/> 12 <expand macro="requirements"/>
13 <command>MassTraceExtractor 13 <command detect_errors="aggressive"><![CDATA[MassTraceExtractor
14 14
15 #if $param_in: 15 #if $param_in:
16 -in $param_in 16 -in $param_in
17 #end if 17 #end if
18 #if $param_out: 18 #if $param_out:
102 #end if 102 #end if
103 #if $adv_opts.param_algorithm_epd_masstrace_snr_filtering: 103 #if $adv_opts.param_algorithm_epd_masstrace_snr_filtering:
104 -algorithm:epd:masstrace_snr_filtering 104 -algorithm:epd:masstrace_snr_filtering
105 #end if 105 #end if
106 #end if 106 #end if
107 </command> 107 ]]></command>
108 <inputs> 108 <inputs>
109 <param name="param_in" type="data" format="mzml" optional="False" label="input centroided mzML file" help="(-in) "/> 109 <param name="param_in" type="data" format="mzml" optional="False" label="input centroided mzML file" help="(-in) "/>
110 <param name="param_out_type" display="radio" type="select" optional="True" label="output file type -- default: determined from file extension or content" help="(-out_type) "> 110 <param name="param_out_type" display="radio" type="select" optional="True" label="output file type -- default: determined from file extension or content" help="(-out_type) ">
111 <option value="featureXML">featureXML</option> 111 <option value="featureXML">featureXML</option>
112 <option value="consensusXML">consensusXML</option> 112 <option value="consensusXML">consensusXML</option>
151 <data name="param_out" format="featurexml"/> 151 <data name="param_out" format="featurexml"/>
152 </outputs> 152 </outputs>
153 <help>Detects mass traces in centroided LC-MS data. 153 <help>Detects mass traces in centroided LC-MS data.
154 154
155 155
156 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_MassTraceExtractor.html</help> 156 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_MassTraceExtractor.html</help>
157 </tool> 157 </tool>