Mercurial > repos > galaxyp > openms_rtpredict

comparison RTPredict.xml @ 11:72a2443b70ef draft default tip

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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 06:51:33 -0400
parents 1a08ce339679
children
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10:822663477f78 11:72a2443b70ef
1 <?xml version='1.0' encoding='UTF-8'?> 1 <?xml version='1.0' encoding='UTF-8'?>
2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.--> 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
3 <!--Proposed Tool Section: [Peptide property prediction]--> 3 <!--Proposed Tool Section: [Peptide property prediction]-->
4 <tool id="RTPredict" name="RTPredict" version="2.2.0"> 4 <tool id="RTPredict" name="RTPredict" version="2.3.0">
5 <description>Predicts retention times for peptides using a model trained by RTModel.</description> 5 <description>Predicts retention times for peptides using a model trained by RTModel.</description>
6 <macros> 6 <macros>
7 <token name="@EXECUTABLE@">RTPredict</token> 7 <token name="@EXECUTABLE@">RTPredict</token>
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>RTPredict 13 <command detect_errors="aggressive"><![CDATA[RTPredict
14 14
15 #if $param_in_id: 15 #if $param_in_id:
16 -in_id $param_in_id 16 -in_id $param_in_id
17 #end if 17 #end if
18 #if $param_in_text: 18 #if $param_in_text:
51 #end if 51 #end if
52 #if $adv_opts.param_out_id_rewrite_peptideidentification_rtmz: 52 #if $adv_opts.param_out_id_rewrite_peptideidentification_rtmz:
53 -out_id:rewrite_peptideidentification_rtmz 53 -out_id:rewrite_peptideidentification_rtmz
54 #end if 54 #end if
55 #end if 55 #end if
56 </command> 56 ]]></command>
57 <inputs> 57 <inputs>
58 <param name="param_in_id" type="data" format="idxml" optional="True" label="Peptides with precursor information" help="(-in_id) "/> 58 <param name="param_in_id" type="data" format="idxml" optional="True" label="Peptides with precursor information" help="(-in_id) "/>
59 <param name="param_in_text" type="data" format="txt" optional="True" label="Peptides as text-based file" help="(-in_text) "/> 59 <param name="param_in_text" type="data" format="txt" optional="True" label="Peptides as text-based file" help="(-in_text) "/>
60 <param name="param_in_oligo_params" type="data" format="paramXML" optional="True" label="input file with additional model parameters when using the OLIGO kernel" help="(-in_oligo_params) "/> 60 <param name="param_in_oligo_params" type="data" format="paramXML" optional="True" label="input file with additional model parameters when using the OLIGO kernel" help="(-in_oligo_params) "/>
61 <param name="param_in_oligo_trainset" type="data" format="txt" optional="True" label="input file with the used training dataset when using the OLIGO kernel" help="(-in_oligo_trainset) "/> 61 <param name="param_in_oligo_trainset" type="data" format="txt" optional="True" label="input file with the used training dataset when using the OLIGO kernel" help="(-in_oligo_trainset) "/>
74 <data name="param_out_text_file" format="tabular"/> 74 <data name="param_out_text_file" format="tabular"/>
75 </outputs> 75 </outputs>
76 <help>Predicts retention times for peptides using a model trained by RTModel. 76 <help>Predicts retention times for peptides using a model trained by RTModel.
77 77
78 78
79 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_RTPredict.html</help> 79 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_RTPredict.html</help>
80 </tool> 80 </tool>