Mercurial > repos > galaxyp > openms_proteinresolver

comparison ProteinResolver.xml @ 1:b09b5ecc297d draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 9a14ed1f2d3c9abdfb080251b3419dd9e0c52a14
author galaxyp
date Wed, 09 Aug 2017 09:26:43 -0400
parents 154998956e7a
children dc9abec0379f
comparison
equal deleted inserted replaced
0:154998956e7a 1:b09b5ecc297d
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 CTD2Galaxy.-->
3 <!--Proposed Tool Section: [Quantitation]--> 3 <!--Proposed Tool Section: [Quantitation]-->
4 <tool id="ProteinResolver" name="ProteinResolver" version="2.1.0"> 4 <tool id="ProteinResolver" name="ProteinResolver" version="2.2.0">
5 <description>protein inference</description> 5 <description>protein inference</description>
6 <macros> 6 <macros>
7 <token name="@EXECUTABLE@">ProteinResolver</token> 7 <token name="@EXECUTABLE@">ProteinResolver</token>
8 <import>macros.xml</import> 8 <import>macros.xml</import>
9 </macros> 9 </macros>
42 #end if 42 #end if
43 #if $param_resolver_min_length: 43 #if $param_resolver_min_length:
44 -resolver:min_length $param_resolver_min_length 44 -resolver:min_length $param_resolver_min_length
45 #end if 45 #end if
46 #if $param_resolver_enzyme: 46 #if $param_resolver_enzyme:
47 -resolver:enzyme $param_resolver_enzyme 47 -resolver:enzyme
48 #if " " in str($param_resolver_enzyme):
49 "$param_resolver_enzyme"
50 #else
51 $param_resolver_enzyme
52 #end if
48 #end if 53 #end if
49 #if $param_designer_experiment: 54 #if $param_designer_experiment:
50 -designer:experiment "$param_designer_experiment" 55 -designer:experiment "$param_designer_experiment"
51 #end if 56 #end if
52 #if $param_designer_file: 57 #if $param_designer_file:
53 -designer:file "$param_designer_file" 58 -designer:file "$param_designer_file"
54 #end if 59 #end if
55 #if $param_designer_separator: 60 #if $param_designer_separator:
56 -designer:separator $param_designer_separator 61 -designer:separator
62 #if " " in str($param_designer_separator):
63 "$param_designer_separator"
64 #else
65 $param_designer_separator
66 #end if
57 #end if 67 #end if
58 #if $adv_opts.adv_opts_selector=='advanced': 68 #if $adv_opts.adv_opts_selector=='advanced':
59 #if $adv_opts.param_force: 69 #if $adv_opts.param_force:
60 -force 70 -force
61 #end if 71 #end if
62 #end if 72 #end if
63 </command> 73 </command>
64 <inputs> 74 <inputs>
65 <param name="param_fasta" type="data" format="fasta" optional="False" label="Input database file" help="(-fasta) "/> 75 <param name="param_fasta" type="data" format="fasta" optional="False" label="Input database file" help="(-fasta) "/>
66 <param name="param_in" type="data" format="consensusxml,idxml" multiple="true" optional="True" size="30" label="Input file(s) holding experimental data" help="(-in) "> 76 <param name="param_in" type="data" format="idxml,consensusxml" multiple="true" optional="True" size="30" label="Input file(s) holding experimental data" help="(-in) ">
67 <sanitizer> 77 <sanitizer>
68 <valid initial="string.printable"> 78 <valid initial="string.printable">
69 <remove value="'"/> 79 <remove value="'"/>
70 <remove value="&quot;"/> 80 <remove value="&quot;"/>
71 </valid> 81 </valid>