Mercurial > repos > galaxyp > openms_precursormasscorrector

comparison PrecursorMassCorrector.xml @ 7:79760732d9e3 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5-dirty
author galaxyp
date Fri, 17 May 2019 10:25:32 -0400
parents 8a8511f63d74
children 315dca04e06f
comparison
equal deleted inserted replaced
6:8736a28dd1d3 7:79760732d9e3
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>PrecursorMassCorrector 13 <command detect_errors="aggressive"><![CDATA[PrecursorMassCorrector
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:
33 #end if 33 #end if
34 #if $adv_opts.param_force: 34 #if $adv_opts.param_force:
35 -force 35 -force
36 #end if 36 #end if
37 #end if 37 #end if
38 </command> 38 ]]></command>
39 <inputs> 39 <inputs>
40 <param name="param_in" type="data" format="mzml" optional="False" label="Input mzML file containing the spectra" help="(-in) "/> 40 <param name="param_in" type="data" format="mzml" optional="False" label="Input mzML file containing the spectra" help="(-in) "/>
41 <param name="param_feature_in" type="data" format="featurexml" optional="True" label="Input featureXML file, containing features; if set, the MS/MS spectra precursor entries &lt;br&gt;will be matched to the feature m/z values if possible" help="(-feature_in) "/> 41 <param name="param_feature_in" type="data" format="featurexml" optional="True" label="Input featureXML file, containing features; if set, the MS/MS spectra precursor entries &lt;br&gt;will be matched to the feature m/z values if possible" help="(-feature_in) "/>
42 <param name="param_precursor_mass_tolerance" type="float" min="0.0" optional="True" value="1.5" label="Maximal deviation in Th which is acceptable to be corrected; &lt;br&gt;this value should be set to the instruments selection window" help="(-precursor_mass_tolerance) "/> 42 <param name="param_precursor_mass_tolerance" type="float" min="0.0" optional="True" value="1.5" label="Maximal deviation in Th which is acceptable to be corrected; &lt;br&gt;this value should be set to the instruments selection window" help="(-precursor_mass_tolerance) "/>
43 <expand macro="advanced_options"> 43 <expand macro="advanced_options">
50 <data name="param_out" format="mzml"/> 50 <data name="param_out" format="mzml"/>
51 </outputs> 51 </outputs>
52 <help>Corrects the precursor entries of MS/MS spectra, by using MS1 information. 52 <help>Corrects the precursor entries of MS/MS spectra, by using MS1 information.
53 53
54 54
55 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_PrecursorMassCorrector.html</help> 55 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_PrecursorMassCorrector.html</help>
56 </tool> 56 </tool>