Mercurial > repos > galaxyp > openms_rtmodel

comparison RTModel.xml @ 7:6d4530bc334c 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 10:25:59 -0400
parents c3da4387e137
children a9ece00a3e54
comparison
equal deleted inserted replaced
6:3f48011c2dab 7:6d4530bc334c
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>RTModel 13 <command detect_errors="aggressive"><![CDATA[RTModel
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_in_positive: 18 #if $param_in_positive:
136 #if $adv_opts.adv_opts_selector=='advanced': 136 #if $adv_opts.adv_opts_selector=='advanced':
137 #if $adv_opts.param_force: 137 #if $adv_opts.param_force:
138 -force 138 -force
139 #end if 139 #end if
140 #end if 140 #end if
141 </command> 141 ]]></command>
142 <inputs> 142 <inputs>
143 <param name="param_in" type="data" format="idxml,txt" optional="True" label="This is the name of the input file (RT prediction)" help="(-in) It is assumed that the file type is idXML. Alternatively you can provide a .txt file having a sequence and the corresponding rt per line. &lt;br&gt;"/> 143 <param name="param_in" type="data" format="idxml,txt" optional="True" label="This is the name of the input file (RT prediction)" help="(-in) It is assumed that the file type is idXML. Alternatively you can provide a .txt file having a sequence and the corresponding rt per line. &lt;br&gt;"/>
144 <param name="param_in_positive" type="data" format="idxml" optional="True" label="input file with positive examples (peptide separation prediction)" help="(-in_positive) "/> 144 <param name="param_in_positive" type="data" format="idxml" optional="True" label="input file with positive examples (peptide separation prediction)" help="(-in_positive) "/>
145 <param name="param_in_negative" type="data" format="idxml" optional="True" label="input file with negative examples (peptide separation prediction)" help="(-in_negative) "/> 145 <param name="param_in_negative" type="data" format="idxml" optional="True" label="input file with negative examples (peptide separation prediction)" help="(-in_negative) "/>
146 <param name="param_svm_type" display="radio" type="select" optional="False" value="NU_SVR" label="the type of the svm (NU_SVR or EPSILON_SVR for RT prediction, automatically set &lt;br&gt;to C_SVC for separation prediction)" help="(-svm_type) "> 146 <param name="param_svm_type" display="radio" type="select" optional="False" value="NU_SVR" label="the type of the svm (NU_SVR or EPSILON_SVR for RT prediction, automatically set &lt;br&gt;to C_SVC for separation prediction)" help="(-svm_type) ">
194 <data name="param_out_oligo_trainset" format="txt"/> 194 <data name="param_out_oligo_trainset" format="txt"/>
195 </outputs> 195 </outputs>
196 <help>Trains a model for the retention time prediction of peptides from a training set. 196 <help>Trains a model for the retention time prediction of peptides from a training set.
197 197
198 198
199 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_RTModel.html</help> 199 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_RTModel.html</help>
200 </tool> 200 </tool>