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comparison proteinpilot_tabular.xml @ 7:ffbfff887a03

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Change params named "type" to something that won't confuse galaxy.
author Jim Johnson <jj@umn.edu>
date Mon, 20 Oct 2014 15:54:33 -0500
parents 4c820e82d22c
children 0aa9d080713e
comparison
equal deleted inserted replaced
6:b3cf7d7dadc1 7:ffbfff887a03
1 <tool id="proteinpilot_tabular" version="0.1" name="ProteinPilot - Convert Group to Tabular"> 1 <tool id="proteinpilot_tabular" version="0.1" name="ProteinPilot - Convert Group to Tabular">
2 <description></description> 2 <description></description>
3 <!-- TOOD: Implement wrapper allowing Windows newlines to be replaced. --> 3 <!-- TOOD: Implement wrapper allowing Windows newlines to be replaced. -->
4 <command> 4 <command>
5 #if $quant.use 5 #if $quant.use
6 #set $denom = $quant.type 6 #set $denom = $quant.dtype
7 #else 7 #else
8 #set $denom = "" 8 #set $denom = ""
9 #end if 9 #end if
10 group2xml.exe ${type} $input $output $denom 10 group2xml.exe ${ptype} $input $output $denom
11 </command> 11 </command>
12 <inputs> 12 <inputs>
13 <param format="group" name="input" type="data" label="ProteinPilot Group Data" help=""/> 13 <param format="group" name="input" type="data" label="ProteinPilot Group Data" help=""/>
14 <param name="type" type="select" label="Summary Type"> 14 <param name="ptype" type="select" label="Summary Type">
15 <option value="PROTEIN">Protein</option> 15 <option value="PROTEIN">Protein</option>
16 <option value="PEPTIDE">Peptide</option> 16 <option value="PEPTIDE">Peptide</option>
17 </param> 17 </param>
18 <conditional name="quant"> 18 <conditional name="quant">
19 <param name="use" type="boolean" label="Include quantation results" truevalue="true" falsevalue="false" /> 19 <param name="use" type="boolean" label="Include quantation results" truevalue="true" falsevalue="false" />
20 <when value="true"> 20 <when value="true">
21 <param name="type" type="select" label="Denominator"> 21 <param name="dtype" type="select" label="Denominator">
22 <option value="IT113">113</option> 22 <option value="IT113">113</option>
23 <option value="IT114" selected="true">114</option> 23 <option value="IT114" selected="true">114</option>
24 <option value="IT115">115</option> 24 <option value="IT115">115</option>
25 <option value="IT116">116</option> 25 <option value="IT116">116</option>
26 <option value="IT117">117</option> 26 <option value="IT117">117</option>
30 <option value="Light">Light</option> 30 <option value="Light">Light</option>
31 <option value="Heavy">Heavy</option> 31 <option value="Heavy">Heavy</option>
32 <option value="Medium">Medium</option> 32 <option value="Medium">Medium</option>
33 </param> 33 </param>
34 </when> 34 </when>
35 <when value="false"/>
35 </conditional> 36 </conditional>
36 </inputs> 37 </inputs>
37 <outputs> 38 <outputs>
38 <data format="tabular" name="output" label="${type} report for ${on_string}"/> 39 <data format="tabular" name="output" label="${ptype} report for ${on_string}"/>
39 </outputs> 40 </outputs>
40 <help> 41 <help>
41 </help> 42 </help>
42 </tool> 43 </tool>