IO.hpp File Reference

#include "pwiz/utility/misc/Export.hpp"
#include "IdentData.hpp"
#include "pwiz/utility/minimxml/XMLWriter.hpp"
#include "pwiz/utility/misc/IterationListener.hpp"

Go to the source code of this file.

Namespaces
namespace	pwiz
	AMTContainer.hpp.
namespace	pwiz::identdata
namespace	pwiz::identdata::IO

Enumerations
enum	pwiz::identdata::SchemaVersion { pwiz::identdata::SchemaVersion_1_1 = 0, pwiz::identdata::SchemaVersion_1_0 }

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

Variables
	IgnoreAnalysisData
	IgnoreSequenceCollection

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Variable Documentation

IgnoreAnalysisData

Definition at line 211 of file IO.hpp.

Referenced by testIdentData().

IgnoreSequenceCollection

Definition at line 255 of file IO.hpp.

Referenced by testIdentData().