Mercurial > repos > galaxyp > openms_mrmpairfinder

comparison MRMPairFinder.xml @ 10:482de0c17531 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 55a2aeba8bfd8a6910630721de9857dcdfe05d3c"
author galaxyp
date Tue, 13 Oct 2020 20:23:34 +0000
parents a040e1ed8736
children bd57c94d50fb
comparison
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9:f8ed4723376c 10:482de0c17531
62 <param name="pair_in" argument="-pair_in" type="data" format="csv" optional="false" label="Pair-file in the format: prec-m/z-light prec-m/z-heavy frag-m/z-light frag-m/z-heavy rt" help=" select csv data sets(s)"/> 62 <param name="pair_in" argument="-pair_in" type="data" format="csv" optional="false" label="Pair-file in the format: prec-m/z-light prec-m/z-heavy frag-m/z-light frag-m/z-heavy rt" help=" select csv data sets(s)"/>
63 <expand macro="adv_opts_macro"> 63 <expand macro="adv_opts_macro">
64 <param name="mass_tolerance" argument="-mass_tolerance" type="float" optional="true" min="0.0" value="0.01" label="Precursor mass tolerance which is used for the pair finding and the matching of the given pair m/z values to the features" help=""/> 64 <param name="mass_tolerance" argument="-mass_tolerance" type="float" optional="true" min="0.0" value="0.01" label="Precursor mass tolerance which is used for the pair finding and the matching of the given pair m/z values to the features" help=""/>
65 <param name="RT_tolerance" argument="-RT_tolerance" type="float" optional="true" min="0.0" value="200.0" label="Maximal deviation in RT dimension in seconds a feature can have when comparing to the RT values given in the pair file" help=""/> 65 <param name="RT_tolerance" argument="-RT_tolerance" type="float" optional="true" min="0.0" value="200.0" label="Maximal deviation in RT dimension in seconds a feature can have when comparing to the RT values given in the pair file" help=""/>
66 <param name="RT_pair_tolerance" argument="-RT_pair_tolerance" type="float" optional="true" min="0.0" value="5.0" label="Maximal deviation in RT dimension in seconds the two partners of a pair is allowed to have" help=""/> 66 <param name="RT_pair_tolerance" argument="-RT_pair_tolerance" type="float" optional="true" min="0.0" value="5.0" label="Maximal deviation in RT dimension in seconds the two partners of a pair is allowed to have" help=""/>
67 <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overwrite tool specific checks" help=""/> 67 <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/>
68 <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help=""> 68 <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help="">
69 <expand macro="list_string_san"/> 69 <expand macro="list_string_san"/>
70 </param> 70 </param>
71 </expand> 71 </expand>
72 <param name="OPTIONAL_OUTPUTS" type="select" multiple="true" label="Optional outputs" optional="true"> 72 <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs">
73 <option value="feature_out_FLAG">feature_out (Enables the test mode (needed for internal use only))</option> 73 <option value="feature_out_FLAG">feature_out (Output featureXML file, only written if given, skipped otherwise)</option>
74 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option> 74 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
75 </param> 75 </param>
76 </inputs> 76 </inputs>
77 <outputs> 77 <outputs>
78 <data name="out" label="${tool.name} on ${on_string}: out" format="consensusxml"/> 78 <data name="out" label="${tool.name} on ${on_string}: out" format="consensusxml"/>
88 <expand macro="manutest_MRMPairFinder"/> 88 <expand macro="manutest_MRMPairFinder"/>
89 </tests> 89 </tests>
90 <help><![CDATA[Util which can be used to evaluate labeled pair ratios on MRM features. 90 <help><![CDATA[Util which can be used to evaluate labeled pair ratios on MRM features.
91 91
92 92
93 For more information, visit http://www.openms.de/documentation/UTILS_MRMPairFinder.html]]></help> 93 For more information, visit http://www.openms.de/doxygen/release/2.6.0/html/UTILS_MRMPairFinder.html]]></help>
94 <expand macro="references"/> 94 <expand macro="references"/>
95 </tool> 95 </tool>