comparison test-data/SequenceCoverageCalculator.idXML @ 9:5fd5f1d02251 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author galaxyp
date Wed, 15 May 2019 08:27:29 -0400
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8:3f5cc0e64458 9:5fd5f1d02251
1 <?xml version="1.0" encoding="UTF-8"?>
2 <?xml-stylesheet type="text/xsl" href="https://www.openms.de/xml-stylesheet/IdXML.xsl" ?>
3 <IdXML version="1.5" xsi:noNamespaceSchemaLocation="https://www.openms.de/xml-schema/IdXML_1_5.xsd" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance">
4 <SearchParameters id="SP_0" db="/home/eugen/Development/OpenMS/src/tests/topp/OpenPepXL_input.fasta" db_version="" taxonomy="" mass_type="monoisotopic" charges="3,4,5,6,7" enzyme="trypsin" missed_cleavages="2" precursor_peak_tolerance="10" precursor_peak_tolerance_ppm="true" peak_mass_tolerance="0.2" peak_mass_tolerance_ppm="false" >
5 <UserParam type="string" name="input_consensusXML" value="/home/eugen/Development/OpenMS/src/tests/topp/OpenPepXL_input.consensusXML"/>
6 <UserParam type="string" name="input_mzML" value="/home/eugen/Development/OpenMS/src/tests/topp/OpenPepXL_input.mzML"/>
7 <UserParam type="string" name="input_decoys" value=""/>
8 <UserParam type="int" name="decoy_prefix" value="0"/>
9 <UserParam type="string" name="decoy_string" value="decoy"/>
10 <UserParam type="string" name="out_xquest_specxml" value="OpenPepXL_output.spec.xml.tmp"/>
11 <UserParam type="int" name="precursor:min_charge" value="3"/>
12 <UserParam type="int" name="precursor:max_charge" value="7"/>
13 <UserParam type="float" name="fragment:mass_tolerance_xlinks" value="0.3"/>
14 <UserParam type="int" name="peptide:min_size" value="5"/>
15 <UserParam type="stringList" name="cross_link:residue1" value="[K]"/>
16 <UserParam type="stringList" name="cross_link:residue2" value="[K]"/>
17 <UserParam type="float" name="cross_link:mass" value="138.0680796"/>
18 <UserParam type="float" name="cross_link:mass_isoshift" value="12.075321"/>
19 <UserParam type="floatList" name="cross_link:mass_monolink" value="[156.07864431, 155.094628715]"/>
20 <UserParam type="string" name="cross_link:name" value="DSS"/>
21 <UserParam type="int" name="modifications:variable_max_per_peptide" value="2"/>
22 <UserParam type="int" name="MS:1001029" value="329"/>
23 </SearchParameters>
24 <IdentificationRun date="2018-03-06T13:21:04" search_engine="OpenXQuest" search_engine_version="2.3.0" search_parameters_ref="SP_0" >
25 <ProteinIdentification score_type="" higher_score_better="true" significance_threshold="0" >
26 <ProteinHit id="PH_0" accession="Protein3" score="0" sequence="" >
27 <UserParam type="string" name="target_decoy" value="target"/>
28 </ProteinHit>
29 <ProteinHit id="PH_1" accession="Protein2" score="0" sequence="" >
30 <UserParam type="string" name="target_decoy" value="target"/>
31 </ProteinHit>
32 <ProteinHit id="PH_2" accession="Protein1" score="0" sequence="" >
33 <UserParam type="string" name="target_decoy" value="target"/>
34 </ProteinHit>
35 <UserParam type="string" name="SpectrumIdentificationProtocol" value="MS:1002494"/>
36 </ProteinIdentification>
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69 <UserParam type="float" name="HyperBoth" value="2.58943363761124"/>
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77 </PeptideIdentification>
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82 <UserParam type="string" name="target_decoy" value="target"/>
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118 </PeptideIdentification>
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160 </IdentificationRun>
161 </IdXML>