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comparison id_merger.xml @ 2:cf0d72c7b482 draft

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Update.
author galaxyp
date Fri, 10 May 2013 17:31:05 -0400
parents ba86fd127f5a
children
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1:5c65f8116244 2:cf0d72c7b482
1 <tool id="openms_id_merger" version="0.1.0" name="ID Merger"> 1 <tool id="openms_id_merger" version="0.1.0" name="ID Merger">
2 <description> 2 <description>
3 Merges several idXML files into one idXML file. 3 Merges several idXML files into one idXML file.
4 </description> 4 </description>
5 <requirements> 5 <macros>
6 <requirement type="package">openms</requirement> 6 <import>macros.xml</import>
7 </requirements> 7 </macros>
8 <expand macro="stdio" />
9 <expand macro="requires" />
8 <command interpreter="python"> 10 <command interpreter="python">
9 openms_wrapper.py --executable 'IDMerger' --config $config 11 openms_wrapper.py --executable 'IDMerger' --config $config
10 </command> 12 </command>
11 <configfiles> 13 <configfiles>
12 <configfile name="config">[simple_options] 14 <configfile name="config">[simple_options]
13 #set $in_str = "" 15 in=${",".join(map(str, $inputs))}
14 #for $input in $inputs
15 #set $in_str = $input.input + " " $in_str
16 #end for
17 in="${in_str}"
18 out=${out} 16 out=${out}
19 annotate_file_origin=${annotate_file_origin} 17 annotate_file_origin=${annotate_file_origin}
20 </configfile> 18 </configfile>
21 </configfiles> 19 </configfiles>
22 <inputs> 20 <inputs>
23 <repeat name="inputs"> 21 <param format="idxml" name="inputs" type="data" label="idXML Inputs" multiple="true" />
24 <param format="idxml" name="input" type="data" label="idXML Input"/>
25 </repeat>
26 <param type="boolean" name="annotate_file_origin" label="Annotate file origin" help="Store the original filename in each protein/peptide identification (MetaValue: file_origin)." /> 22 <param type="boolean" name="annotate_file_origin" label="Annotate file origin" help="Store the original filename in each protein/peptide identification (MetaValue: file_origin)." />
27 </inputs> 23 </inputs>
28 <outputs> 24 <outputs>
29 <data format="idxml" name="out" /> 25 <data format="idxml" name="out" />
30 </outputs> 26 </outputs>