view test-data/bsa.mzML @ 2:5d2228f63b53

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author iracooke
date Mon, 04 Mar 2013 01:51:22 -0500
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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/mzML1.1.1_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" id="bsa" version="1.1.0">
    <cvList count="2">
      <cv id="MS" fullName="Proteomics Standards Initiative Mass Spectrometry Ontology" version="3.30.0" URI="http://psidev.cvs.sourceforge.net/*checkout*/psidev/psi/psi-ms/mzML/controlledVocabulary/psi-ms.obo"/>
      <cv id="UO" fullName="Unit Ontology" version="12:10:2011" URI="http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/phenotype/unit.obo"/>
    </cvList>
    <fileDescription>
      <fileContent>
        <cvParam cvRef="MS" accession="MS:1000580" name="MSn spectrum" value=""/>
        <cvParam cvRef="MS" accession="MS:1000127" name="centroid spectrum" value=""/>
      </fileContent>
      <sourceFileList count="1">
        <sourceFile id="bsa.mgf" name="bsa.mgf" location="file:///">
          <cvParam cvRef="MS" accession="MS:1000774" name="multiple peak list nativeID format" value=""/>
          <cvParam cvRef="MS" accession="MS:1001062" name="Mascot MGF file" value=""/>
          <cvParam cvRef="MS" accession="MS:1000569" name="SHA-1" value="92c6fa5d4ff59e2124950546a651bb9a85bbfd92"/>
        </sourceFile>
      </sourceFileList>
    </fileDescription>
    <softwareList count="1">
      <software id="pwiz_3.0.4140" version="3.0.4140">
        <cvParam cvRef="MS" accession="MS:1000615" name="ProteoWizard" value=""/>
      </software>
    </softwareList>
    <instrumentConfigurationList count="1">
      <instrumentConfiguration id="IC">
        <cvParam cvRef="MS" accession="MS:1000031" name="instrument model" value=""/>
      </instrumentConfiguration>
    </instrumentConfigurationList>
    <dataProcessingList count="1">
      <dataProcessing id="pwiz_Reader_conversion">
        <processingMethod order="0" softwareRef="pwiz_3.0.4140">
          <cvParam cvRef="MS" accession="MS:1000544" name="Conversion to mzML" value=""/>
        </processingMethod>
        <processingMethod order="1" softwareRef="pwiz_3.0.4140">
          <userParam name="most intense count (excluding ties at the threshold)" value="100"/>
        </processingMethod>
      </dataProcessing>
    </dataProcessingList>
    <run id="bsa" defaultInstrumentConfigurationRef="IC">
      <spectrumList count="1" defaultDataProcessingRef="pwiz_Reader_conversion">
        <spectrum index="0" id="index=0" defaultArrayLength="97" dataProcessingRef="pwiz_Reader_conversion">
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          <cvParam cvRef="MS" accession="MS:1000511" name="ms level" value="2"/>
          <cvParam cvRef="MS" accession="MS:1000127" name="centroid spectrum" value=""/>
          <cvParam cvRef="MS" accession="MS:1000796" name="spectrum title" value="Cmpd 1, +MSn(722.3522), 33.5 min"/>
          <cvParam cvRef="MS" accession="MS:1000130" name="positive scan" value=""/>
          <cvParam cvRef="MS" accession="MS:1000528" name="lowest observed m/z" value="198.13402"/>
          <cvParam cvRef="MS" accession="MS:1000527" name="highest observed m/z" value="1280.62643"/>
          <cvParam cvRef="MS" accession="MS:1000285" name="total ion current" value="21166.0"/>
          <cvParam cvRef="MS" accession="MS:1000504" name="base peak m/z" value="249.17284"/>
          <cvParam cvRef="MS" accession="MS:1000505" name="base peak intensity" value="2164.0"/>
          <scanList count="1">
            <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value=""/>
            <scan>
            </scan>
          </scanList>
          <precursorList count="1">
            <precursor>
              <selectedIonList count="1">
                <selectedIon>
                  <cvParam cvRef="MS" accession="MS:1000744" name="selected ion m/z" value="722.35225	26693" unitCvRef="MS" unitAccession="MS:1000040" unitName="m/z"/>
                  <cvParam cvRef="MS" accession="MS:1000041" name="charge state" value="2"/>
                </selectedIon>
              </selectedIonList>
              <activation>
              </activation>
            </precursor>
          </precursorList>
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          </binaryDataArrayList>
        </spectrum>
      </spectrumList>
    </run>
  </mzML>
  <indexList count="2">
    <index name="spectrum">
      <offset idRef="index=0">2685</offset>
    </index>
  </indexList>
  <indexListOffset>7058</indexListOffset>
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</indexedmzML>