ProteoWizard
Namespaces | Enumerations | Functions | Variables
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

 pwiz
 
 pwiz::identdata
 
 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
 
 ReadAnalysisData
 
 IgnoreSequenceCollection
 

Variable Documentation

IgnoreAnalysisData

Definition at line 211 of file IO.hpp.

Referenced by testIdentData().

ReadAnalysisData

Definition at line 211 of file IO.hpp.

IgnoreSequenceCollection

Definition at line 255 of file IO.hpp.

Referenced by testIdentData().