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1 <tool id="pepxml_to_table_1" name="PepXML to Table" version="1.0.0">
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2 <requirements><requirement type="package">protkgem</requirement></requirements>
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3 <description>Converts a pepXML file to a tab delimited text file</description>
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4
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5
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6 <!-- Note .. the input file is assumed to be the first argument -->
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7 <command>rvm 1.9.3@protk-1.1.9 do pepxml_to_table.rb $input_file -o $output</command>
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8
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9
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10 <inputs>
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11
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12 <param name="input_file" type="data" format="pepxml,peptideprophet_pepxml,interprophet_pepxml" multiple="false" label="Input File" help="A pepXML file"/>
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13
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14 </inputs>
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15 <outputs>
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16 <data format="csv" name="output" metadata_source="input_file" label="${input_file.display_name}.csv" />
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17 </outputs>
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18
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19 <help>
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20 Convert a pepXML file to Tab delimited text
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21 </help>
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22
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23 </tool>
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