Mercurial > repos > galaxyp > openms_decoydatabase

comparison DecoyDatabase.xml @ 12:b9cd14affc81 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
author galaxyp
date Wed, 15 May 2019 05:45:08 -0400
parents 2ff597ce7194
children 8578f64391f1
comparison
equal deleted inserted replaced
11:4909eae1dd63 12:b9cd14affc81
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: [Utilities]--> 3 <!--Proposed Tool Section: [Utilities]-->
4 <tool id="DecoyDatabase" name="DecoyDatabase" version="2.2.0"> 4 <tool id="DecoyDatabase" name="DecoyDatabase" version="2.3.0">
5 <description>Create decoy protein DB from forward protein DB.</description> 5 <description>Create decoy protein DB from forward protein DB.</description>
6 <macros> 6 <macros>
7 <token name="@EXECUTABLE@">DecoyDatabase</token> 7 <token name="@EXECUTABLE@">DecoyDatabase</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>DecoyDatabase 13 <command detect_errors="aggressive"><![CDATA[DecoyDatabase
14 14
15 -in 15 -in
16 #for token in $param_in: 16 #for token in $param_in:
17 $token 17 $token
18 #end for 18 #end for
44 #if $adv_opts.adv_opts_selector=='advanced': 44 #if $adv_opts.adv_opts_selector=='advanced':
45 #if $adv_opts.param_force: 45 #if $adv_opts.param_force:
46 -force 46 -force
47 #end if 47 #end if
48 #end if 48 #end if
49 </command> 49 ]]></command>
50 <inputs> 50 <inputs>
51 <param name="param_in" type="data" format="fasta" multiple="true" optional="False" size="30" label="Input FASTA file(s), each containing a database" help="(-in) It is recommended to include a contaminant database as well"> 51 <param name="param_in" type="data" format="fasta" multiple="true" optional="False" size="30" label="Input FASTA file(s), each containing a database" help="(-in) It is recommended to include a contaminant database as well">
52 <sanitizer> 52 <sanitizer>
53 <valid initial="string.printable"> 53 <valid initial="string.printable">
54 <remove value="'"/> 54 <remove value="'"/>
80 <outputs> 80 <outputs>
81 <data name="param_out" format="fasta"/> 81 <data name="param_out" format="fasta"/>
82 </outputs> 82 </outputs>
83 <tests> 83 <tests>
84 <test> 84 <test>
85 <param name="param_in" value="DecoyDatabase_input.fasta"/> 85 <param name="param_in" value="DecoyDatabase_input.fasta"/>
86 <output name="param_out" file="DecoyDatabase_output.fasta"/> 86 <output name="param_out" file="DecoyDatabase_output.fasta"/>
87 </test> 87 </test>
88 </tests> 88 </tests>
89 <help>Create decoy protein DB from forward protein DB. 89 <help>Create decoy protein DB from forward protein DB.
90 90
91 91
92 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_DecoyDatabase.html</help> 92 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_DecoyDatabase.html</help>
93 </tool> 93 </tool>