MSGFPlusAdapter_1_out.idXML

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<?xml-stylesheet type="text/xsl" href="https://www.openms.de/xml-stylesheet/IdXML.xsl" ?>
<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">
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		<VariableModification name="Oxidation (M)" />
				<UserParam type="string" name="MS:1001211" value=""/>
				<UserParam type="string" name="MS:1001256" value=""/>
				<UserParam type="string" name="ChargeCarrierMass" value="1.00727649"/>
				<UserParam type="string" name="FragmentMethod" value="As written in the spectrum or CID if no info"/>
				<UserParam type="string" name="Instrument" value="HighRes"/>
				<UserParam type="string" name="MaxIsotopeError" value="1"/>
				<UserParam type="string" name="MaxNumModifications" value="2"/>
				<UserParam type="string" name="MaxPepLength" value="40"/>
				<UserParam type="string" name="MinIsotopeError" value="0"/>
				<UserParam type="string" name="MinPepLength" value="6"/>
				<UserParam type="string" name="NumMatchesPerSpec" value="1"/>
				<UserParam type="string" name="Protocol" value="Standard"/>
				<UserParam type="string" name="TargetDecoyApproach" value="false"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:in" value="C:/Development/OpenMS/src/tests/topp/THIRDPARTY/spectra.mzML"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:out" value="MSGFPlusAdapter_1_out1.tmp"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:mzid_out" value="MSGFPlusAdapter_1_out2.tmp.mzid"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:executable" value="C:/Development/analysis_executables/msgf+/MSGFPlus.jar"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:database" value="C:/Development/OpenMS/src/tests/topp/THIRDPARTY/proteins.fasta"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:add_decoys" value="false"/>
				<UserParam type="float" name="MSGFPlusAdapter:1:precursor_mass_tolerance" value="10.0"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:precursor_error_units" value="ppm"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:isotope_error_range" value="0,1"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:fragment_method" value="from_spectrum"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:instrument" value="high_res"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:enzyme" value="Trypsin/P"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:protocol" value="none"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:tryptic" value="fully"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:min_precursor_charge" value="1"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:max_precursor_charge" value="3"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:min_peptide_length" value="6"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:max_peptide_length" value="40"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:matches_per_spec" value="1"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:add_features" value="false"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:max_mods" value="2"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:max_missed_cleavages" value="-1"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:tasks" value="0"/>
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				<UserParam type="stringList" name="MSGFPlusAdapter:1:variable_modifications" value="[Oxidation (M)]"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:legacy_conversion" value="false"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:conf" value=""/>
				<UserParam type="string" name="MSGFPlusAdapter:1:java_executable" value="java"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:java_memory" value="512"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:java_permgen" value="0"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:log" value=""/>
				<UserParam type="int" name="MSGFPlusAdapter:1:debug" value="0"/>
				<UserParam type="int" name="MSGFPlusAdapter:1:threads" value="1"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:no_progress" value="false"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:force" value="false"/>
				<UserParam type="string" name="MSGFPlusAdapter:1:test" value="true"/>
				<UserParam name="EnzymeTermSpecificity" type="string" value="full" />
	</SearchParameters>
	<IdentificationRun date="2020-05-20T23:45:50" search_engine="MS-GF+" search_engine_version="Release (v2020.03.14)" search_parameters_ref="SP_0" >
		<ProteinIdentification score_type="" higher_score_better="true" significance_threshold="0" >
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				<UserParam type="string" name="isDecoy" value="false"/>
			</ProteinHit>
			<ProteinHit id="PH_1" accession="BSA2" score="0.0" sequence="" >
				<UserParam type="string" name="isDecoy" value="false"/>
			</ProteinHit>
			<ProteinHit id="PH_2" accession="" score="0.0" sequence="" >
				<UserParam type="string" name="isDecoy" value="false"/>
			</ProteinHit>
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		</ProteinIdentification>
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				<UserParam type="float" name="MS:1002050" value="199.0"/>
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				<UserParam type="float" name="MS:1002053" value="9.678856999999999e-24"/>
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				<UserParam type="float" name="calcMZ" value="1063.2093505859375"/>
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				<UserParam type="int" name="start" value="1"/>
				<UserParam type="int" name="end" value="28"/>
				<UserParam type="string" name="target_decoy" value="target"/>
				<UserParam type="string" name="isotope_error" value="0"/>
			</PeptideHit>
		</PeptideIdentification>
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				<UserParam type="float" name="MS:1002050" value="188.0"/>
				<UserParam type="float" name="MS:1002052" value="1.6242718e-19"/>
				<UserParam type="float" name="MS:1002053" value="6.513329300000001e-17"/>
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				<UserParam type="float" name="calcMZ" value="775.38543701171875"/>
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				<UserParam type="string" name="target_decoy" value="target"/>
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				<UserParam type="float" name="MS:1002050" value="125.0"/>
				<UserParam type="float" name="MS:1002052" value="4.652130499999999e-19"/>
				<UserParam type="float" name="MS:1002053" value="1.63755e-16"/>
				<UserParam type="string" name="AssumedDissociationMethod" value="HCD"/>
				<UserParam type="float" name="calcMZ" value="520.2635498046875"/>
				<UserParam type="int" name="pass_threshold" value="1"/>
				<UserParam type="int" name="start" value="1"/>
				<UserParam type="int" name="end" value="14"/>
				<UserParam type="string" name="target_decoy" value="target"/>
				<UserParam type="string" name="isotope_error" value="0"/>
			</PeptideHit>
		</PeptideIdentification>
	</IdentificationRun>
</IdXML>