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comparison MSMS_Extractor.xml @ 8:5a1ec6c352e3 draft

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planemo upload
author pravs
date Thu, 10 Aug 2017 12:54:55 -0400
parents 8741bc3644d4
children b0284072f3eb
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7:8741bc3644d4 8:5a1ec6c352e3
1 1
2 <tool id="MSMS_Extractor" name="MSMS_Extractor" version="1.1.2"> 2 <tool id="MSMS_Extractor" name="MSMS_Extractor" version="1.2.0">
3 <description>Extract scans based on PSM report from the mzML file(s).</description> 3 <description>Extract scans based on PSM report from the mzML file(s).</description>
4 <requirements> 4 <requirements>
5 <requirement type="package" version="3_0_9992">proteowizard</requirement> 5 <requirement type="package" version="3_0_9992">proteowizard</requirement>
6 <requirement type="package" version="3.4">pyteomics</requirement> 6 <requirement type="package" version="3.4">pyteomics</requirement>
7 </requirements> 7 </requirements>
13 <param name="psmreportfile" type="data" format="tabular"> 13 <param name="psmreportfile" type="data" format="tabular">
14 <label>Input PSM Report File</label> 14 <label>Input PSM Report File</label>
15 </param> 15 </param>
16 16
17 <conditional name="removeretain"> 17 <conditional name="removeretain">
18 <param name="doremoveretain" type="boolean" truevalue="retain" falsevalue="remove" label="Retain or Remove the given Scans" help="Retain=Yes; Remove=No (default)" /> 18 <param name="doremoveretain" type="select" display="radio" label="Retain or Remove the MS/MS scans that were identified in PSM report">
19 <option value="remove" selected="True">Remove the scans reported in the PSM Report File</option>
20 <option value="retain">Retain the scans reported in the PSM Report File </option>
21 </param>
22
19 <when value="remove"> 23 <when value="remove">
20 <param name="num_random_scans" type="hidden" value="0" /> 24 <param name="num_random_scans" type="hidden" value="0" />
21 </when> 25 </when>
22 <when value="retain"> 26 <when value="retain">
23 <param name="num_random_scans" type="integer" label="Add N random scans in addition to those in the list" value="0" optional="false" /> 27 <param name="num_random_scans" type="integer" label="Add N random scans in addition to those in the list" value="0" optional="false" />