Mercurial > repos > galaxyp > openms_mrmpairfinder

comparison MRMPairFinder.xml @ 7:0369ed5ff70e draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5-dirty
author galaxyp
date Fri, 17 May 2019 10:26:24 -0400
parents c68fedb71ea1
children a040e1ed8736
comparison
equal deleted inserted replaced
6:1cce7a3b5d6d 7:0369ed5ff70e
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>MRMPairFinder 13 <command detect_errors="aggressive"><![CDATA[MRMPairFinder
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_pair_in: 18 #if $param_pair_in:
36 #end if 36 #end if
37 #if $adv_opts.param_force: 37 #if $adv_opts.param_force:
38 -force 38 -force
39 #end if 39 #end if
40 #end if 40 #end if
41 </command> 41 ]]></command>
42 <inputs> 42 <inputs>
43 <param name="param_in" type="data" format="featurexml" optional="False" label="Input featureXML file containing the features of the MRM experiment spectra" help="(-in) "/> 43 <param name="param_in" type="data" format="featurexml" optional="False" label="Input featureXML file containing the features of the MRM experiment spectra" help="(-in) "/>
44 <param name="param_pair_in" type="data" format="tabular" 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="(-pair_in) "/> 44 <param name="param_pair_in" type="data" format="tabular" 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="(-pair_in) "/>
45 <expand macro="advanced_options"> 45 <expand macro="advanced_options">
46 <param name="param_mass_tolerance" type="float" min="0.0" optional="True" 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="(-mass_tolerance) "/> 46 <param name="param_mass_tolerance" type="float" min="0.0" optional="True" 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="(-mass_tolerance) "/>
54 <data name="param_feature_out" format="featurexml"/> 54 <data name="param_feature_out" format="featurexml"/>
55 </outputs> 55 </outputs>
56 <help>Util which can be used to evaluate labeled pair ratios on MRM features. 56 <help>Util which can be used to evaluate labeled pair ratios on MRM features.
57 57
58 58
59 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_MRMPairFinder.html</help> 59 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_MRMPairFinder.html</help>
60 </tool> 60 </tool>