Mercurial > repos > galaxyp > openms
comparison id_merger.xml @ 2:cf0d72c7b482 draft
Update.
author | galaxyp |
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date | Fri, 10 May 2013 17:31:05 -0400 |
parents | ba86fd127f5a |
children |
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1:5c65f8116244 | 2:cf0d72c7b482 |
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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> |