Mercurial > repos > galaxyp > openms_mrmtransitiongrouppicker

comparison MRMTransitionGroupPicker.xml @ 7:d88d659e7d2c 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 08:26:02 -0400
parents 7dca11634139
children cf352aac62b4
comparison
equal deleted inserted replaced
6:526a2e0e49e6 7:d88d659e7d2c
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>MRMTransitionGroupPicker 13 <command detect_errors="aggressive"><![CDATA[MRMTransitionGroupPicker
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_tr: 18 #if $param_tr:
107 #end if 107 #end if
108 #if $adv_opts.param_algorithm_compute_peak_quality: 108 #if $adv_opts.param_algorithm_compute_peak_quality:
109 -algorithm:compute_peak_quality 109 -algorithm:compute_peak_quality
110 #end if 110 #end if
111 #end if 111 #end if
112 </command> 112 ]]></command>
113 <inputs> 113 <inputs>
114 <param name="param_in" type="data" format="mzml" optional="False" label="Input file" help="(-in) "/> 114 <param name="param_in" type="data" format="mzml" optional="False" label="Input file" help="(-in) "/>
115 <param name="param_tr" type="data" format="tabular,traml" optional="False" label="transition file ('TraML' or 'csv')" help="(-tr) "/> 115 <param name="param_tr" type="data" format="tabular,traml" optional="False" label="transition file ('TraML' or 'csv')" help="(-tr) "/>
116 <param name="param_algorithm_stop_after_feature" type="integer" value="-1" label="Stop finding after feature (ordered by intensity; -1 means do not stop)" help="(-stop_after_feature) "/> 116 <param name="param_algorithm_stop_after_feature" type="integer" value="-1" label="Stop finding after feature (ordered by intensity; -1 means do not stop)" help="(-stop_after_feature) "/>
117 <param name="param_algorithm_stop_after_intensity_ratio" type="float" value="0.0001" label="Stop after reaching intensity ratio" help="(-stop_after_intensity_ratio) "/> 117 <param name="param_algorithm_stop_after_intensity_ratio" type="float" value="0.0001" label="Stop after reaching intensity ratio" help="(-stop_after_intensity_ratio) "/>
156 <data name="param_out" format="featurexml"/> 156 <data name="param_out" format="featurexml"/>
157 </outputs> 157 </outputs>
158 <help>Picks peaks in SRM/MRM chromatograms. 158 <help>Picks peaks in SRM/MRM chromatograms.
159 159
160 160
161 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_MRMTransitionGroupPicker.html</help> 161 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_MRMTransitionGroupPicker.html</help>
162 </tool> 162 </tool>