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view test-data/MzMLSplitter_output_part2.mzML @ 8:3f5cc0e64458 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 14:54:06 -0400
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<?xml version="1.0" encoding="ISO-8859-1"?>
<indexedmzML xmlns="http://psi.hupo.org/ms/mzml" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://psi.hupo.org/ms/mzml http://psidev.info/files/ms/mzML/xsd/mzML1.1.0_idx.xsd">
<mzML xmlns="http://psi.hupo.org/ms/mzml" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://psi.hupo.org/ms/mzml http://psidev.info/files/ms/mzML/xsd/mzML1.1.0.xsd" accession="" version="1.1.0">
	<cvList count="5">
		<cv id="MS" fullName="Proteomics Standards Initiative Mass Spectrometry Ontology" URI="http://psidev.cvs.sourceforge.net/*checkout*/psidev/psi/psi-ms/mzML/controlledVocabulary/psi-ms.obo"/>
		<cv id="UO" fullName="Unit Ontology" URI="http://obo.cvs.sourceforge.net/obo/obo/ontology/phenotype/unit.obo"/>
		<cv id="BTO" fullName="BrendaTissue545" version="unknown" URI="http://www.brenda-enzymes.info/ontology/tissue/tree/update/update_files/BrendaTissueOBO"/>
		<cv id="GO" fullName="Gene Ontology - Slim Versions" version="unknown" URI="http://www.geneontology.org/GO_slims/goslim_goa.obo"/>
		<cv id="PATO" fullName="Quality ontology" version="unknown" URI="http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/phenotype/quality.obo"/>
	</cvList>
	<fileDescription>
		<fileContent>
			<cvParam cvRef="MS" accession="MS:1000294" name="mass spectrum" />
		</fileContent>
		<contact>
			<cvParam cvRef="MS" accession="MS:1000586" name="contact name" value=", " />
			<cvParam cvRef="MS" accession="MS:1000590" name="contact affiliation" value="" />
		</contact>
	</fileDescription>
	<sampleList count="1">
		<sample id="sa_0" name="">
			<cvParam cvRef="MS" accession="MS:1000004" name="sample mass" value="0" unitAccession="UO:0000021" unitName="gram" unitCvRef="UO" />
			<cvParam cvRef="MS" accession="MS:1000005" name="sample volume" value="0" unitAccession="UO:0000098" unitName="milliliter" unitCvRef="UO" />
			<cvParam cvRef="MS" accession="MS:1000006" name="sample concentration" value="0" unitAccession="UO:0000175" unitName="gram per liter" unitCvRef="UO" />
		</sample>
	</sampleList>
	<softwareList count="4">
		<software id="so_in_0" version="" >
			<cvParam cvRef="MS" accession="MS:1000799" name="custom unreleased software tool" value="" />
		</software>
		<software id="so_default" version="" >
			<cvParam cvRef="MS" accession="MS:1000799" name="custom unreleased software tool" value="" />
		</software>
		<software id="so_dp_sp_0_pm_0" version="" >
			<cvParam cvRef="MS" accession="MS:1000799" name="custom unreleased software tool" value="" />
		</software>
		<software id="so_dp_sp_0_pm_1" version="version_string" >
			<cvParam cvRef="MS" accession="MS:1000756" name="FileConverter" />
		</software>
	</softwareList>
	<instrumentConfigurationList count="1">
		<instrumentConfiguration id="ic_0">
			<cvParam cvRef="MS" accession="MS:1000031" name="instrument model" />
			<componentList count="3">
				<source order="0">
					<cvParam cvRef="MS" accession="MS:1000008" name="ionization type" />
				</source>
				<analyzer order="0">
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					<cvParam cvRef="MS" accession="MS:1000024" name="final MS exponent" value="0" />
					<cvParam cvRef="MS" accession="MS:1000025" name="magnetic field strength" value="0" unitAccession="UO:0000228" unitName="tesla" unitCvRef="UO" />
					<cvParam cvRef="MS" accession="MS:1000443" name="mass analyzer type" />
				</analyzer>
				<detector order="0">
					<cvParam cvRef="MS" accession="MS:1000028" name="detector resolution" value="0" />
					<cvParam cvRef="MS" accession="MS:1000029" name="sampling frequency" value="0" unitAccession="UO:0000106" unitName="hertz" unitCvRef="UO" />
					<cvParam cvRef="MS" accession="MS:1000026" name="detector type" />
				</detector>
			</componentList>
			<softwareRef ref="so_in_0" />
		</instrumentConfiguration>
	</instrumentConfigurationList>
	<dataProcessingList count="1">
		<dataProcessing id="dp_sp_0">
			<processingMethod order="0" softwareRef="so_dp_sp_0_pm_0">
				<cvParam cvRef="MS" accession="MS:1000543" name="data processing action" />
			</processingMethod>
			<processingMethod order="0" softwareRef="so_dp_sp_0_pm_1">
				<cvParam cvRef="MS" accession="MS:1000544" name="Conversion to mzML" />
				<cvParam cvRef="MS" accession="MS:1000747" name="completion time" value="1999-12-31+23:59" />
				<userParam name="parameter: mode" type="xsd:string" value="test_mode"/>
			</processingMethod>
		</dataProcessing>
	</dataProcessingList>
	<run id="ru_0" defaultInstrumentConfigurationRef="ic_0" sampleRef="sa_0">
		<spectrumList count="5" defaultDataProcessingRef="dp_sp_0">
			<spectrum id="spectrum=6" index="0" defaultArrayLength="885" dataProcessingRef="dp_sp_0">
				<cvParam cvRef="MS" accession="MS:1000525" name="spectrum representation" />
				<cvParam cvRef="MS" accession="MS:1000511" name="ms level" value="1" />
				<cvParam cvRef="MS" accession="MS:1000294" name="mass spectrum" />
				<cvParam cvRef="MS" accession="MS:1000130" name="positive scan" />
				<scanList count="1">
					<cvParam cvRef="MS" accession="MS:1000795" name="no combination" />
					<scan >
						<cvParam cvRef="MS" accession="MS:1000016" name="scan start time" value="31.2627" unitAccession="UO:0000010" unitName="second" unitCvRef="UO" />
					</scan>
				</scanList>
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