ProteoWizard
Functions
pwiz::identdata::IO Namespace Reference

Functions

PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const CV &cv)
 
PWIZ_API_DECL void read (std::istream &is, CV &cv)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const UserParam &userParam)
 
PWIZ_API_DECL void read (std::istream &is, UserParam &userParam)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const CVParam &cv)
 
PWIZ_API_DECL void read (std::istream &is, CVParam &cv)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Identifiable &it)
 
PWIZ_API_DECL void read (std::istream &is, Identifiable &it)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const IdentifiableParamContainer &it)
 
PWIZ_API_DECL void read (std::istream &is, IdentifiableParamContainer &it)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const ContactRole &contactRole)
 
PWIZ_API_DECL void read (std::istream &writer, ContactRole &contactRole)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Provider &provider)
 
PWIZ_API_DECL void read (std::istream &writer, Provider &provider)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SpectrumIdentification &si)
 
PWIZ_API_DECL void read (std::istream &writer, SpectrumIdentification &si)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const IonType &ionType)
 
PWIZ_API_DECL void read (std::istream &writer, IonType &ionType)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Measure &measure)
 
PWIZ_API_DECL void read (std::istream &writer, Measure &measure)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Sample &sample)
 
PWIZ_API_DECL void read (std::istream &writer, Sample &sample)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Person &cp)
 
PWIZ_API_DECL void read (std::istream &writer, Person &cp)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Organization &cp)
 
PWIZ_API_DECL void read (std::istream &writer, Organization &cp)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SearchModification &sm)
 
PWIZ_API_DECL void read (std::istream &is, SearchModification &sm)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Filter &filter)
 
PWIZ_API_DECL void read (std::istream &is, Filter &filter)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const TranslationTable &tt)
 
PWIZ_API_DECL void read (std::istream &is, TranslationTable &tt)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const DatabaseTranslation &dt)
 
PWIZ_API_DECL void read (std::istream &is, DatabaseTranslation &dt)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SpectrumIdentificationProtocol &sip)
 
PWIZ_API_DECL void read (std::istream &is, SpectrumIdentificationProtocol &sip)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const ProteinDetectionProtocol &pdp)
 
PWIZ_API_DECL void read (std::istream &is, ProteinDetectionProtocol &pdp)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const ProteinDetection &pd)
 
PWIZ_API_DECL void read (std::istream &is, ProteinDetection &pd)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const AnalysisCollection &ac)
 
PWIZ_API_DECL void read (std::istream &is, AnalysisCollection &ac)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Enzyme &ez)
 
PWIZ_API_DECL void read (std::istream &is, Enzyme &ez)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Enzymes &ez)
 
PWIZ_API_DECL void read (std::istream &is, Enzymes &ez)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Residue &r)
 
PWIZ_API_DECL void read (std::istream &is, Residue &r)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const AmbiguousResidue &ar)
 
PWIZ_API_DECL void read (std::istream &is, AmbiguousResidue &ar)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const MassTable &mt)
 
PWIZ_API_DECL void read (std::istream &is, MassTable &mt)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const AnalysisProtocolCollection &apc)
 
PWIZ_API_DECL void read (std::istream &is, AnalysisProtocolCollection &apc)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SpectraData &sd)
 
PWIZ_API_DECL void read (std::istream &is, SpectraData &sd)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SourceFile &sf)
 
PWIZ_API_DECL void read (std::istream &is, SourceFile &sf)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SearchDatabase &sd)
 
PWIZ_API_DECL void read (std::istream &is, SearchDatabase &sd)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Inputs &inputs)
 
PWIZ_API_DECL void read (std::istream &is, Inputs &inputs)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const FragmentArray &fa)
 
PWIZ_API_DECL void read (std::istream &is, FragmentArray &fa)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SpectrumIdentificationItem &sir)
 
PWIZ_API_DECL void read (std::istream &is, SpectrumIdentificationItem &sir)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const PeptideHypothesis &ph)
 
PWIZ_API_DECL void read (std::istream &is, PeptideHypothesis &ph)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const ProteinDetectionHypothesis &pdh)
 
PWIZ_API_DECL void read (std::istream &is, ProteinDetectionHypothesis &pdh)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const ProteinAmbiguityGroup &pag)
 
PWIZ_API_DECL void read (std::istream &is, ProteinAmbiguityGroup &pag)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SpectrumIdentificationList &sil, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void read (std::istream &is, SpectrumIdentificationList &sil, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SpectrumIdentificationResult &sir)
 
PWIZ_API_DECL void read (std::istream &is, SpectrumIdentificationResult &sir)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const ProteinDetectionList &pdl)
 
PWIZ_API_DECL void read (std::istream &is, ProteinDetectionList &pdl)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const AnalysisData &pdl, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void read (std::istream &is, AnalysisData &pdl, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const BibliographicReference &bibliographicReference)
 
PWIZ_API_DECL void read (std::istream &is, BibliographicReference &bibliographicReference)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const DataCollection &dataCollection, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void read (std::istream &is, DataCollection &dataCollection, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0, AnalysisDataFlag analysisDataFlag=ReadAnalysisData)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const AnalysisSoftware &analysisSoftware)
 
PWIZ_API_DECL void read (std::istream &is, AnalysisSoftware &analysisSoftware)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const DBSequence &dbSequence)
 
PWIZ_API_DECL void read (std::istream &is, DBSequence &dbSequence)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Peptide &peptide)
 
PWIZ_API_DECL void read (std::istream &is, Peptide &peptide)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const PeptideEvidence &pe)
 
PWIZ_API_DECL void read (std::istream &is, PeptideEvidence &pe)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const Modification &mod)
 
PWIZ_API_DECL void read (std::istream &is, Modification &mod)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SubstitutionModification &sm)
 
PWIZ_API_DECL void read (std::istream &is, SubstitutionModification &sm)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const SequenceCollection &sc, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void read (std::istream &is, SequenceCollection &sc, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const AnalysisSampleCollection &asc)
 
PWIZ_API_DECL void read (std::istream &is, AnalysisSampleCollection &asc)
 
PWIZ_API_DECL void write (minimxml::XMLWriter &writer, const IdentData &identdata, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0)
 
PWIZ_API_DECL void read (std::istream &is, IdentData &identdata, const pwiz::util::IterationListenerRegistry *iterationListenerRegistry=0, SequenceCollectionFlag sequenceCollectionFlag=ReadSequenceCollection, AnalysisDataFlag analysisDataFlag=ReadAnalysisData)
 

Function Documentation

◆ write() [1/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const CV &  cv 
)

Referenced by pwiz::proteome::Serializer_FASTA::Config::Config(), pwiz::msdata::Serializer_mzML::Config::Config(), pwiz::msdata::Serializer_mzXML::Config::Config(), demo(), pwiz::data::diff_string(), pwiz::identdata::DelimWriter::operator()(), pwiz::data::operator<<(), pwiz::data::peakdata::Software::Parameter::Parameter(), pwiz::data::peakdata::Scan::Scan(), pwiz::data::pepxml::SearchScore::SearchScore(), pwiz::identdata::Serializer_mzIdentML::Serializer_mzIdentML(), pwiz::identdata::Serializer_pepXML::Serializer_pepXML(), pwiz::identdata::Serializer_protXML::Serializer_protXML(), pwiz::tradata::Serializer_traML::Serializer_traML(), pwiz::data::peakdata::Software::Software(), pwiz::data::peakdata::PeakFamily::sumArea(), test(), test_v3(), testBinaryDataArray(), testChromatogram(), testChromatogramListWithPositions(), testIdentData(), testIdentifyFileFormat(), testMSData(), testObject(), testObject_ChromatogramList(), testObject_SpectrumList(), testObjectWithMSData(), testRun(), testSHA1(), testSpectrum(), testSpectrumListWithPositions(), testSpectrumListWriteProgress(), testTraData(), testWriteRead(), validateMmgfMzxmlRoundTrip(), validateReadIndexed(), validateWriteRead(), pwiz::identdata::DelimWriter::write(), pwiz::minimxml::basic_charcounter< Ch >::write(), pwiz::tradata::TraDataFile::WriteConfig::WriteConfig(), pwiz::identdata::IdentDataFile::WriteConfig::WriteConfig(), pwiz::proteome::ProteomeDataFile::WriteConfig::WriteConfig(), and pwiz::msdata::MSDataFile::WriteConfig::WriteConfig().

◆ read() [1/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
CV &  cv 
)

Referenced by pwiz::proteome::Reader::accept(), pwiz::tradata::Reader::accept(), pwiz::identdata::Reader::accept(), pwiz::msdata::Reader::accept(), pwiz::proteome::Serializer_FASTA::Config::Config(), pwiz::msdata::Serializer_mzML::Config::Config(), pwiz::msdata::Serializer_mzXML::Config::Config(), pwiz::proteome::Reader_FASTA::getType(), pwiz::data::peakdata::Software::Parameter::Parameter(), pwiz::msdata::Reader_Agilent::read(), pwiz::msdata::Reader_Bruker::read(), pwiz::msdata::Reader_Shimadzu::read(), pwiz::msdata::Reader_Thermo::read(), pwiz::msdata::Reader_UIMF::read(), pwiz::msdata::Reader_Waters::read(), pwiz::msdata::Reader_ABI_T2D::read(), Reader1::read(), Reader2::read(), pwiz::minimxml::basic_charcounter< Ch >::read(), TestReader::read(), pwiz::data::peakdata::Scan::Scan(), pwiz::data::pepxml::SearchScore::SearchScore(), pwiz::identdata::Serializer_mzIdentML::Serializer_mzIdentML(), pwiz::identdata::Serializer_pepXML::Serializer_pepXML(), pwiz::identdata::Serializer_protXML::Serializer_protXML(), pwiz::tradata::Serializer_traML::Serializer_traML(), pwiz::data::peakdata::Software::Software(), pwiz::data::peakdata::PeakFamily::sumArea(), testBinaryDataArray(), testBinaryDataArrayExternalMetadata(), testChromatogram(), testIdentData(), testMSData(), testObject(), testObject_ChromatogramList(), testObject_SpectrumList(), testObjectWithMSData(), testRun(), testSpectrum(), testTraData(), and pwiz::identdata::MascotReader::~MascotReader().

◆ write() [2/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const UserParam &  userParam 
)

◆ read() [2/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
UserParam &  userParam 
)

◆ write() [3/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const CVParam &  cv 
)

◆ read() [3/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
CVParam &  cv 
)

◆ write() [4/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Identifiable &  it 
)

◆ read() [4/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Identifiable &  it 
)

◆ write() [5/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const IdentifiableParamContainer &  it 
)

◆ read() [5/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
IdentifiableParamContainer &  it 
)

◆ write() [6/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const ContactRole &  contactRole 
)

◆ read() [6/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
ContactRole &  contactRole 
)

◆ write() [7/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Provider &  provider 
)

◆ read() [7/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
Provider &  provider 
)

◆ write() [8/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SpectrumIdentification &  si 
)

◆ read() [8/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
SpectrumIdentification &  si 
)

◆ write() [9/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const IonType &  ionType 
)

◆ read() [9/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
IonType &  ionType 
)

◆ write() [10/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Measure &  measure 
)

◆ read() [10/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
Measure &  measure 
)

◆ write() [11/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Sample &  sample 
)

◆ read() [11/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
Sample &  sample 
)

◆ write() [12/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Person &  cp 
)

◆ read() [12/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
Person &  cp 
)

◆ write() [13/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Organization &  cp 
)

◆ read() [13/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  writer,
Organization &  cp 
)

◆ write() [14/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SearchModification &  sm 
)

◆ read() [14/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SearchModification &  sm 
)

◆ write() [15/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Filter &  filter 
)

◆ read() [15/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Filter &  filter 
)

◆ write() [16/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const TranslationTable &  tt 
)

◆ read() [16/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
TranslationTable &  tt 
)

◆ write() [17/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const DatabaseTranslation &  dt 
)

◆ read() [17/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
DatabaseTranslation &  dt 
)

◆ write() [18/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SpectrumIdentificationProtocol &  sip 
)

◆ read() [18/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SpectrumIdentificationProtocol &  sip 
)

◆ write() [19/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const ProteinDetectionProtocol &  pdp 
)

◆ read() [19/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
ProteinDetectionProtocol &  pdp 
)

◆ write() [20/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const ProteinDetection &  pd 
)

◆ read() [20/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
ProteinDetection &  pd 
)

◆ write() [21/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const AnalysisCollection &  ac 
)

◆ read() [21/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
AnalysisCollection &  ac 
)

◆ write() [22/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Enzyme &  ez 
)

◆ read() [22/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Enzyme &  ez 
)

◆ write() [23/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Enzymes &  ez 
)

◆ read() [23/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Enzymes &  ez 
)

◆ write() [24/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Residue &  r 
)

◆ read() [24/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Residue &  r 
)

◆ write() [25/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const AmbiguousResidue &  ar 
)

◆ read() [25/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
AmbiguousResidue &  ar 
)

◆ write() [26/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const MassTable &  mt 
)

◆ read() [26/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
MassTable &  mt 
)

◆ write() [27/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const AnalysisProtocolCollection &  apc 
)

◆ read() [27/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
AnalysisProtocolCollection &  apc 
)

◆ write() [28/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SpectraData &  sd 
)

◆ read() [28/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SpectraData &  sd 
)

◆ write() [29/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SourceFile &  sf 
)

◆ read() [29/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SourceFile &  sf 
)

◆ write() [30/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SearchDatabase &  sd 
)

◆ read() [30/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SearchDatabase &  sd 
)

◆ write() [31/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Inputs &  inputs 
)

◆ read() [31/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Inputs &  inputs 
)

◆ write() [32/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const FragmentArray &  fa 
)

◆ read() [32/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
FragmentArray &  fa 
)

◆ write() [33/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SpectrumIdentificationItem &  sir 
)

◆ read() [33/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SpectrumIdentificationItem &  sir 
)

◆ write() [34/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const PeptideHypothesis &  ph 
)

◆ read() [34/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
PeptideHypothesis &  ph 
)

◆ write() [35/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const ProteinDetectionHypothesis &  pdh 
)

◆ read() [35/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
ProteinDetectionHypothesis &  pdh 
)

◆ write() [36/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const ProteinAmbiguityGroup &  pag 
)

◆ read() [36/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
ProteinAmbiguityGroup &  pag 
)

◆ write() [37/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SpectrumIdentificationList &  sil,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ read() [37/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SpectrumIdentificationList &  sil,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ write() [38/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SpectrumIdentificationResult &  sir 
)

◆ read() [38/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SpectrumIdentificationResult &  sir 
)

◆ write() [39/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const ProteinDetectionList &  pdl 
)

◆ read() [39/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
ProteinDetectionList &  pdl 
)

◆ write() [40/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const AnalysisData &  pdl,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ read() [40/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
AnalysisData &  pdl,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ write() [41/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const BibliographicReference &  bibliographicReference 
)

◆ read() [41/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
BibliographicReference &  bibliographicReference 
)

◆ write() [42/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const DataCollection &  dataCollection,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ read() [42/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
DataCollection &  dataCollection,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0,
AnalysisDataFlag  analysisDataFlag = ReadAnalysisData 
)

◆ write() [43/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const AnalysisSoftware &  analysisSoftware 
)

◆ read() [43/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
AnalysisSoftware &  analysisSoftware 
)

◆ write() [44/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const DBSequence &  dbSequence 
)

◆ read() [44/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
DBSequence &  dbSequence 
)

◆ write() [45/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Peptide &  peptide 
)

◆ read() [45/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Peptide &  peptide 
)

◆ write() [46/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const PeptideEvidence &  pe 
)

◆ read() [46/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
PeptideEvidence &  pe 
)

◆ write() [47/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const Modification &  mod 
)

◆ read() [47/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
Modification &  mod 
)

◆ write() [48/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SubstitutionModification &  sm 
)

◆ read() [48/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SubstitutionModification &  sm 
)

◆ write() [49/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const SequenceCollection &  sc,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ read() [49/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
SequenceCollection &  sc,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ write() [50/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const AnalysisSampleCollection &  asc 
)

◆ read() [50/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
AnalysisSampleCollection &  asc 
)

◆ write() [51/51]

PWIZ_API_DECL void pwiz::identdata::IO::write ( minimxml::XMLWriter &  writer,
const IdentData &  identdata,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0 
)

◆ read() [51/51]

PWIZ_API_DECL void pwiz::identdata::IO::read ( std::istream &  is,
IdentData &  identdata,
const pwiz::util::IterationListenerRegistry *  iterationListenerRegistry = 0,
SequenceCollectionFlag  sequenceCollectionFlag = ReadSequenceCollection,
AnalysisDataFlag  analysisDataFlag = ReadAnalysisData 
)
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