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comparison idxml_to_tabular.xml @ 4:1183846e70a1 draft

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author galaxyp
date Wed, 19 Jun 2013 13:15:44 -0400
parents cf0d72c7b482
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3:8fa16707e162 4:1183846e70a1
12 </command> 12 </command>
13 <configfiles> 13 <configfiles>
14 <configfile name="config">[simple_options] 14 <configfile name="config">[simple_options]
15 in=${in} 15 in=${in}
16 out=${out} 16 out=${out}
17 #if $dump_type == "protein" 17 $dump_type
18 proteins_only=true 18 id!first_dim_rt=$extra_rt
19 #end if
20 #if $dump_type == "pepetide"
21 peptides_only=true
22 #end if
23 $extra_rt
24 </configfile> 19 </configfile>
25 </configfiles> 20 </configfiles>
26 <inputs> 21 <inputs>
27 <param format="idxml" name="in" type="data" label="Input Identification File"/> 22 <param format="idxml" name="in" type="data" label="Input Identification File"/>
28 <param name="dump_type" type="select" label="Export type"> 23 <param name="dump_type" type="select" label="Export type">
29 <option value="all">Run, peptide, and protein information</option> 24 <option value="">Run, peptide, and protein information</option>
30 <option value="protein">Run and protein information only</option> 25 <option value="id!proteins_only=true">Run and protein information only</option>
31 <option value="peptide">Peptide information only</option> 26 <option value="id!peptides_only=true">Peptide information only</option>
32 </param> 27 </param>
33 <param name="extra_rt" type="boolean" truevalue="first_dim_rt=true" falsevalue="" label="Include RT information (if present)" /> 28 <param name="extra_rt" type="boolean" label="Include RT information (if present)" />
34 </inputs> 29 </inputs>
35 <outputs> 30 <outputs>
36 <data format="tabular" name="out"> 31 <data format="tabular" name="out">
37 </data> 32 </data>
38 </outputs> 33 </outputs>