Mercurial > repos > galaxyp > msconvert

comparison test-data/BrukerBafTest.mzML @ 15:6153e8ada1ee draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/msconvert commit 7aa618964e95528ed59eea299701e65ccacae877"
author galaxyp
date Mon, 30 Nov 2020 16:01:10 +0000
parents 9d5de24e6ef7
children
comparison
equal deleted inserted replaced
14:3cf310697624 15:6153e8ada1ee
1 <?xml version="1.0" encoding="utf-8"?> 1 <?xml version="1.0" encoding="utf-8"?>
2 <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/mzML1.1.2_idx.xsd"> 2 <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/mzML1.1.2_idx.xsd">
3 <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" id="BrukerBafTest" version="1.1.0"> 3 <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" id="BrukerBafTest" version="1.1.0">
4 <cvList count="2"> 4 <cvList count="2">
5 <cv id="MS" fullName="Proteomics Standards Initiative Mass Spectrometry Ontology" version="4.1.12" URI="https://raw.githubusercontent.com/HUPO-PSI/psi-ms-CV/master/psi-ms.obo"/> 5 <cv id="MS" fullName="Proteomics Standards Initiative Mass Spectrometry Ontology" version="4.1.41" URI="https://raw.githubusercontent.com/HUPO-PSI/psi-ms-CV/master/psi-ms.obo"/>
6 <cv id="UO" fullName="Unit Ontology" version="09:04:2014" URI="https://raw.githubusercontent.com/bio-ontology-research-group/unit-ontology/master/unit.obo"/> 6 <cv id="UO" fullName="Unit Ontology" version="09:04:2014" URI="https://raw.githubusercontent.com/bio-ontology-research-group/unit-ontology/master/unit.obo"/>
7 </cvList> 7 </cvList>
8 <fileDescription> 8 <fileDescription>
9 <fileContent> 9 <fileContent>
10 <cvParam cvRef="MS" accession="MS:1000579" name="MS1 spectrum" value=""/> 10 <cvParam cvRef="MS" accession="MS:1000579" name="MS1 spectrum" value=""/>
28 <userParam name="software name" value="BAF2SQL"/> 28 <userParam name="software name" value="BAF2SQL"/>
29 </software> 29 </software>
30 <software id="apexControl" version="ApexControl 3.0.0.alpha.35 (development version, April 18, 2008)"> 30 <software id="apexControl" version="ApexControl 3.0.0.alpha.35 (development version, April 18, 2008)">
31 <cvParam cvRef="MS" accession="MS:1000706" name="apexControl" value=""/> 31 <cvParam cvRef="MS" accession="MS:1000706" name="apexControl" value=""/>
32 </software> 32 </software>
33 <software id="pwiz_Reader_Bruker" version="3.0.19044"> 33 <software id="pwiz_Reader_Bruker" version="3.0.20287">
34 <cvParam cvRef="MS" accession="MS:1000615" name="ProteoWizard software" value=""/> 34 <cvParam cvRef="MS" accession="MS:1000615" name="ProteoWizard software" value=""/>
35 </software> 35 </software>
36 </softwareList> 36 </softwareList>
37 <instrumentConfigurationList count="1"> 37 <instrumentConfigurationList count="1">
38 <instrumentConfiguration id="IC1"> 38 <instrumentConfiguration id="IC1">
39 <referenceableParamGroupRef ref="CommonInstrumentParams"/> 39 <referenceableParamGroupRef ref="CommonInstrumentParams"/>
40 <cvParam cvRef="MS" accession="MS:1000529" name="instrument serial number" value="-1.3"/>
40 <componentList count="3"> 41 <componentList count="3">
41 <source order="1"> 42 <source order="1">
42 <cvParam cvRef="MS" accession="MS:1000073" name="electrospray ionization" value=""/> 43 <cvParam cvRef="MS" accession="MS:1000073" name="electrospray ionization" value=""/>
43 <cvParam cvRef="MS" accession="MS:1000057" name="electrospray inlet" value=""/> 44 <cvParam cvRef="MS" accession="MS:1000057" name="electrospray inlet" value=""/>
44 </source> 45 </source>
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98 </binaryDataArray> 99 </binaryDataArray>
99 </binaryDataArrayList> 100 </binaryDataArrayList>
100 </spectrum> 101 </spectrum>
101 </spectrumList> 102 </spectrumList>
103 <chromatogramList count="2" defaultDataProcessingRef="pwiz_Reader_Bruker_conversion">
104 <chromatogram index="0" id="TIC" defaultArrayLength="1">
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106 <binaryDataArrayList count="3">
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118 </binaryDataArray>
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121 <cvParam cvRef="MS" accession="MS:1000574" name="zlib compression" value=""/>
122 <cvParam cvRef="MS" accession="MS:1000786" name="non-standard data array" value="ms level" unitCvRef="UO" unitAccession="UO:0000186" unitName="dimensionless unit"/>
123 <binary>eJxjZIAAAAAQAAI=</binary>
124 </binaryDataArray>
125 </binaryDataArrayList>
126 </chromatogram>
127 <chromatogram index="1" id="BPC" defaultArrayLength="1">
128 <cvParam cvRef="MS" accession="MS:1000628" name="basepeak chromatogram" value=""/>
129 <binaryDataArrayList count="3">
130 <binaryDataArray encodedLength="16">
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133 <cvParam cvRef="MS" accession="MS:1000595" name="time array" value="" unitCvRef="UO" unitAccession="UO:0000010" unitName="second"/>
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135 </binaryDataArray>
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140 <binary>eJwTCLLyAwAB/ADr</binary>
141 </binaryDataArray>
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144 <cvParam cvRef="MS" accession="MS:1000574" name="zlib compression" value=""/>
145 <cvParam cvRef="MS" accession="MS:1000786" name="non-standard data array" value="ms level" unitCvRef="UO" unitAccession="UO:0000186" unitName="dimensionless unit"/>
146 <binary>eJxjZIAAAAAQAAI=</binary>
147 </binaryDataArray>
148 </binaryDataArrayList>
149 </chromatogram>
150 </chromatogramList>
102 </run> 151 </run>
103 </mzML> 152 </mzML>
104 <indexList count="2"> 153 <indexList count="2">
105 <index name="spectrum"> 154 <index name="spectrum">
106 <offset idRef="scan=1">4166</offset> 155 <offset idRef="scan=1">4264</offset>
107 </index> 156 </index>
108 <index name="chromatogram"> 157 <index name="chromatogram">
158 <offset idRef="TIC">7765</offset>
159 <offset idRef="BPC">9468</offset>
109 </index> 160 </index>
110 </indexList> 161 </indexList>
111 <indexListOffset>7590</indexListOffset> 162 <indexListOffset>11203</indexListOffset>
112 <fileChecksum>e6b4d51fdbe306f0823fe1cb583e7ec52629303f</fileChecksum> 163 <fileChecksum>913c285a998996d2707f6f242bf7a0c00bd6468b</fileChecksum>
113 </indexedmzML> 164 </indexedmzML>