Mercurial > repos > galaxyp > openms_qcexporter

annotate QCExporter.xml @ 6:a56aaea020b6 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 981be1bde91d6d565693cd691553f77465e653bb
author galaxyp
date Tue, 20 Mar 2018 15:12:32 -0400
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1 <?xml version='1.0' encoding='UTF-8'?>
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2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
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3 <!--Proposed Tool Section: [Utilities]-->
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4 <tool id="QCExporter" name="QCExporter" version="2.3.0">
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5 <description>Will extract several qp from several run/sets in a tabular format.</description>
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6 <macros>
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7 <token name="@EXECUTABLE@">QCExporter</token>
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8 <import>macros.xml</import>
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9 </macros>
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10 <expand macro="references"/>
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11 <expand macro="stdio"/>
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12 <expand macro="requirements"/>
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13 <command>QCExporter
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15 #if $param_in:
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16 -in $param_in
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17 #end if
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19 #if $rep_param_names:
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20 -names
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21 #for token in $rep_param_names:
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22 #if " " in str(token):
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23 "$token.param_names"
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24 #else
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25 $token.param_names
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26 #end if
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27 #end for
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28 #end if
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29 #if $param_mapping:
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30 -mapping $param_mapping
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31 #end if
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32 #if $param_out_csv:
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33 -out_csv $param_out_csv
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34 #end if
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35 #if $adv_opts.adv_opts_selector=='advanced':
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36 #if $adv_opts.param_force:
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37 -force
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38 #end if
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39 #end if
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40 </command>
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41 <inputs>
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42 <param name="param_in" type="data" format="qcml" optional="False" label="Input qcml file" help="(-in) "/>
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43 <repeat name="rep_param_names" min="0" title="param_names">
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44 <param name="param_names" type="text" size="30" label="The name of the target runs or sets to be exported from" help="(-names) If empty, from all will be exported">
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45 <sanitizer>
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46 <valid initial="string.printable">
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47 <remove value="'"/>
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48 <remove value="&quot;"/>
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49 </valid>
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50 </sanitizer>
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51 </param>
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52 </repeat>
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53 <param name="param_mapping" type="data" format="tabular" optional="False" label="The mapping of the exported table's headers to the according qp cvs" help="(-mapping) The first row is considered containing the headers as for the exported the table. The second row is considered the according qp cv accessions of the qp to be exported"/>
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54 <expand macro="advanced_options">
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55 <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
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56 </expand>
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57 </inputs>
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58 <outputs>
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59 <data name="param_out_csv" format="tabular"/>
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60 </outputs>
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61 <help>Will extract several qp from several run/sets in a tabular format.
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62
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63
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64 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_QCExporter.html</help>
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65 </tool>