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comparison peptide_prophet.xml @ 17:868e75fc0f70 draft default tip

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Export XML_ONLY variable
author iracooke
date Mon, 26 Oct 2015 22:04:43 -0400
parents 1b86e378de37
children
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16:1b86e378de37 17:868e75fc0f70
4 <container type="docker">iracooke/protk-1.4.3</container> 4 <container type="docker">iracooke/protk-1.4.3</container>
5 <requirement type="package" version="1.4.3">protk</requirement> 5 <requirement type="package" version="1.4.3">protk</requirement>
6 <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement> 6 <requirement type="package" version="4.8.0">trans_proteomic_pipeline</requirement>
7 </requirements> 7 </requirements>
8 <command> 8 <command>
9 # This should be in the tpp_package. 9 export XML_ONLY="true";
10 # A hack for now
11 export XML_ONLY="true";
12
13 peptide_prophet.rb 10 peptide_prophet.rb
14 --galaxy $input_file 11 --galaxy $input_file
15 -o peptide_prophet_output.pep.xml 12 -o peptide_prophet_output.pep.xml
16 -r 13 -r
17 $glyco 14 $glyco