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Code generated by DATATOOL from 'general.asn' (module 'NCBI-General')

Choice variants.

No variant selected.

for those unparsed dates

use this if you can

Definition at line 126 of file Date_.hpp.

Choice variants.

No variant selected.

plus or minus fixed amount

% plus or minus (x10) 0-1000

set of alternatives for the integer

Definition at line 224 of file Int_fuzz_.hpp.

Choice variants.

No variant selected.

Definition at line 88 of file Object_id_.hpp.

Choice variants.

No variant selected.

any defined database tag

structured name

MEDLINE name (semi-structured) eg. "Jones RM".

unstructured name

consortium name

Definition at line 93 of file Person_id_.hpp.

Choice variants.

No variant selected.

for using other definitions

Definition at line 111 of file User_field_.hpp.

Maximum+1 value of the choice variant enumerator.

== e_Std+1

Definition at line 132 of file Date_.hpp.

Maximum+1 value of the choice variant enumerator.

== e_Alt+1

Definition at line 233 of file Int_fuzz_.hpp.

Maximum+1 value of the choice variant enumerator.

== e_Str+1

Definition at line 94 of file Object_id_.hpp.

Maximum+1 value of the choice variant enumerator.

== e_Consortium+1

Definition at line 102 of file Person_id_.hpp.

Maximum+1 value of the choice variant enumerator.

== e_Objects+1

Definition at line 127 of file User_field_.hpp.

Definition at line 95 of file Date_std_.hpp.

Definition at line 96 of file Dbtag_.hpp.

Definition at line 110 of file Int_fuzz_.hpp.

Definition at line 95 of file Name_std_.hpp.

Definition at line 509 of file User_field_.hpp.

Definition at line 100 of file User_object_.hpp.

some limit value

unknown

greater than

less than

space to right of position

space to left of position

artificial break at origin of circle

something else

Definition at line 209 of file Int_fuzz_.hpp.

Check if it is safe to call GetData method.

Returns

• true, if the data member is getatable.
• false, otherwise.

Definition at line 1018 of file User_field_.hpp.

Referenced by CSnpBitfieldFactory::CreateBitfield(), CSnpBitfield2::CSnpBitfield2(), CFlatModelEvQVal::Format(), CWndLayoutReg::GetDefaultLayout(), CGenomeAnnotComment::GetGenomeBuildNumber(), CWndLayoutReg::GetLayout(), CCommentItem::GetStringForBankIt(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForTPA(), CGuiObjectInfoVariation::GetToolTip(), s_CountAccessions(), s_FindModelEvidanceUop(), CBedWriter::WriteAnnot(), CSNPSearchJob::x_DoSearch(), CGenomeProjectItem::x_GatherInfo(), and CAlignmentSmear::x_GetAnnotName().

Check if it is safe to call GetDb method.

Returns

• true, if the data member is getatable.
• false, otherwise.

Definition at line 214 of file Dbtag_.hpp.

References CDbtag_Base::IsSetDb().

Referenced by ExtractGnomonModelNum(), CDbtag_Base::GetDb(), CDbtag::GetDBFlags(), CVDBBlastUtil::GetOIDFromVDBSeqId(), CDbtag::GetType(), CDbtag::IsApproved(), CDbtag::IsApprovedNoCase(), IsStringId(), Normalize(), s_GetSRASeqMetadata(), SeqDB_SimplifySeqid(), CSeqDBImpl::SeqidToOids(), CCommentItem::x_GatherDescInfo(), and CReferenceItem::x_Init().

Check if it is safe to call GetMax method.

Returns

• true, if the data member is getatable.
• false, otherwise.

Definition at line 459 of file Int_fuzz_.hpp.

Check if it is safe to call GetMin method.

Returns

• true, if the data member is getatable.
• false, otherwise.

Definition at line 506 of file Int_fuzz_.hpp.

Check if it is safe to call GetType method.

Returns

• true, if the data member is getatable.
• false, otherwise.

Definition at line 299 of file User_object_.hpp.

Referenced by CCommentItem::GetStringForBankIt(), CCommentItem::GetStringForTPA(), CPhyTreeView::OnSomethingEdited(), CChangePhyloSelectionSetCmd::PerformEdit(), s_HasTpaUserObject(), s_IsModelEvidanceUop(), CValidError_desc::ValidateUser(), CPrimaryItem::x_GatherInfo(), CAlignmentSmear::x_GetAnnotName(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CCommonComponentScorer::x_GetUserCompList(), and CWiggleWriter::xWriteTrackLine().

Verify selection, throw exception if it differs from the expected.

Parameters

index Expected selection.

Definition at line 665 of file User_field_.hpp.

Definition at line 116 of file Int_fuzz_.cpp.

References CObject::AddReference(), CInt_fuzz_Base::e_Alt, CInt_fuzz_Base::e_Lim, CInt_fuzz_Base::e_P_m, CInt_fuzz_Base::e_Pct, CInt_fuzz_Base::e_Range, CInt_fuzz_Base::m_Alt, CInt_fuzz_Base::m_choice, CInt_fuzz_Base::m_Lim, CInt_fuzz_Base::m_object, CInt_fuzz_Base::m_P_m, and CInt_fuzz_Base::m_Pct.

Access to ELim's attributes (values, names) as defined in spec.

Get the variant data.

Returns

Copy of the variant data.

Definition at line 768 of file User_field_.hpp.

Referenced by CLBLASTObjectLoader::AddDataLoader(), CDockLayoutTree::CNode::FromUserObject(), CComplexRelation::FromUserObject(), CBLASTParams::FromUserObject(), CSettingsSet::GetBool(), CUser_field::GetBool(), CUserFeatHandler::GetLabel(), CLBLASTObjectLoader::GetLoaderName(), CUser_object::GetRefGeneTrackingGenerated(), CPhyloSelectionSet::InitFromUserObject(), CPhyTreeView::InitView(), CTableDelimiterRules::LoadAsn(), CTableImportColumn::LoadAsn(), CDemoSeqQaApp::Run(), s_IsMatchById(), s_ScanRecursive(), sWindowPosFromUserObject(), CClonePlacementGlyph::x_Draw(), CBLASTParams::x_FromUserObject(), CAlignmentSmear::x_GetAnnotName(), and CClonePlacementGlyph::x_GetCloneEnds().

Get the Class member data.

Returns

Reference to the member data.

Definition at line 258 of file User_object_.hpp.

References CUser_object_Base::CanGetClass(), CUser_object_Base::m_Class, and CSerialObject::ThrowUnassigned().

Referenced by CRemoveDuplicateStructuredComment::ApplyToUserObject(), CUser_object::GetCategory(), CValidErrorFormat::GetDescriptorContent(), CUserFeatHandler::GetLabel(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), CBankITCommentField::GetVals(), RestoreModelAttributes(), s_GetContentLabel(), and s_GetUserObjectTypeOrClass().

Get the variant data.

Returns

Reference to the data.

Definition at line 411 of file Person_id_.hpp.

References CPerson_id_Base::CheckSelected(), CPerson_id_Base::e_Consortium, and CPerson_id_Base::m_string.

Referenced by fix_pub::ExtractConsortiums(), CPubField::GetAuthorField(), GetAuthorString(), CPerson_id::GetLabel(), CAuthor::GetLabelV2(), CEditingActionDescAuthorConsortium::GetValue(), HasAuthor(), CValidError_imp::HasName(), CAuthorNamesPanel::IsAuthorEmpty(), SAuthorEmpty::operator()(), fix_pub::PrintPub(), CFindASN1Dlg::ReplaceInAuthor(), s_GetAuthorMatchString(), CPubField::SetAuthorField(), CReferenceItem::x_AddAuthors(), and CSrcWriter::xGather().

Get the Data member data.

Returns

Reference to the member data.

Definition at line 1024 of file User_field_.hpp.

References CUser_field_Base::m_Data, and CUser_field_Base::ResetData().

Referenced by CLBLASTObjectLoader::AddDataLoader(), CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), CChangeStructuredCommentKeyword::ApplyToCSeq_entry_user(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CGvfWriteRecord::AssignSource(), CGvfWriteRecord::AssignType(), BOOST_AUTO_TEST_CASE(), BOOST_AUTO_TEST_SUITE_END(), CComment_rule::CheckFieldValue(), CComment_rule::CheckGeneralField(), CLDBlockGlyph::CLDBlockGlyph(), ClearGoTermValue(), CollectUserField(), CSnpBitfieldFactory::CreateBitfield(), CTableAnnotDataSource::CreateFeature(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CSnpBitfield2::CSnpBitfield2(), CUser_field::DeleteField(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), CGBDocument::DetachDataLoader(), CTableAnnotDataSource::FindLocations(), CFlatModelEvQVal::Format(), CFlatGoQVal::Format(), CRegistryFile::FromConfigFile(), CDockContainerDescr::FromUserObject(), CDockLayoutTree::CNode::FromUserObject(), CComplexRelation::FromUserObject(), CBLASTParams::FromUserObject(), CNewCleanup_imp::GeneFeatBC(), CSeqUtils::GetAnnotShown(), CSettingsSet::GetBool(), CUser_field::GetBool(), CUser_object::GetCategory(), CConstSageData::GetCount(), GetDBLinkIDs(), CWndLayoutReg::GetDefaultLayout(), CUser_field::GetDouble(), CUser_object::GetExperimentType(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CUser_field::GetFieldRef(), CUser_field::GetFieldsMap(), GetFieldValueAsString(), CGenomeAnnotComment::GetGenomeBuildNumber(), GetHasFrameShift(), GetHasOrderAssignment(), GetIdField(), CSettingsSet::GetInt(), CUser_field::GetInt(), CUser_field::GetInt8(), CSettingsSet::GetIntVec(), CClonePlacementGlyph::GetLabel(), CUserFeatHandler::GetLabel(), CWndLayoutReg::GetLayout(), NSnp::GetLength(), CLBLASTObjectLoader::GetLoaderName(), CAnnotObject_Info::GetLocsTypes(), GetLowTrace(), CGC_Replicon::GetMoleculeLabel(), CGC_Replicon::GetMoleculeLocation(), CGC_Replicon::GetMoleculeType(), CSeq_annot_SplitInfo::GetName(), GetPrefixOrSuffixType(), CProductStringBuilder::GetProductString(), CFlatGoQVal::GetPubmedId(), CSettingsSet::GetReal(), CSettingsSet::GetRealVec(), CUser_object::GetRefGeneTrackingAssembly(), CUser_object::GetRefGeneTrackingGenerated(), CUser_object::GetRefGeneTrackingIdenticalTo(), CUser_object::GetRefGeneTrackingStatus(), CCommentItem::GetRefTrackStatus(), CBlastQuerySourceBioseqSet::GetSegmentInfo(), CSGSeqGraphJob::GetSeqtableAnnots(), CSettingsSet::GetString(), CUser_field::GetString(), CCommentItem::GetStringForBankIt(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForRefSeqGenome(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTPA(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CSettingsSet::GetStringVec(), CConstSageData::GetTag(), CFlatGoQVal::GetTextString(), CSequenceTrack::GetTooltip(), CGuiObjectInfoSeq_align::GetToolTip(), CGuiObjectInfoPrimer::GetToolTip(), CGuiObjectInfoVariant::GetToolTip(), CGuiObjectInfoVariation::GetToolTip(), CReadUtil::GetTrackValue(), CWriteUtil::GetUserObjectByType(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CEditingActionDescGenomeProjectId::GetValue(), CEditingActionDescStructCommDbName::GetValue(), CGBProjectHandle::GetViewSettings(), CTableImportDataSource::ImportTableParms(), CSeqTableReader::Init(), CPhyloSelectionSetMgr::InitFromUserObject(), CPhyloSelectionSet::InitFromUserObject(), CTreeLabel::InitializeFromUserObject(), CPhyTreeView::InitView(), CDiscrepancyContext::IsBGPipe(), CIntronGlyph::IsConsensus(), CLocalIDField::IsEmpty(), CVariationNormalization::isFullyShifted(), IsMatchingIdMissing(), CComment_rule::IsValid(), CTableDelimiterRules::LoadAsn(), CTableImportColumn::LoadAsn(), CTestApplication::LoadTable(), CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField(), MakeCompartments(), CEditingActionDescUserObject::Modify(), CEditingActionDescLocalId::Modify(), CEditingActionDescComment::Modify(), CPhyTreeView::OnBioTreeChanged(), CPhyTreeView::OnSomethingEdited(), SSNP_Info::ParseSeq_feat(), CTabularFormatter_AssemblyInfo::Print(), CDUpdater::reformatBioseq(), CRelation::RelationFromUserObject(), CRegistryReadView::ResolveField(), RestoreModelAttributes(), RestoreModelMethod(), CDemoSeqQaApp::Run(), s_AddNewDBlinkValue(), s_AddNewUserField(), CCleanup::s_AddNumToUserField(), s_CheckTraceMateAlign(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_CountAccessions(), s_ExtractKeys(), s_FastaGetOriginalID(), s_FieldHasNonBlankValue(), s_FindModelEvidanceUop(), s_GatherExistingValues(), s_GetAssemblyInfo(), s_GetBoxStyle(), s_GetDBTree(), s_GetEncodeValues(), s_GetGOText(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_GetSegmentFlags(), s_GetSpliceSite(), s_HasRefSeqPGAPStructuredComment(), s_IsGenomeAnnotationStart(), s_IsGnomonModel(), s_IsMatchById(), s_PassesFilter(), CMacroFunction_RemoveQual::s_RemoveFields(), s_Render_Feat_Evidence(), s_ScanRecursive(), s_SeqDescCompare(), s_SetDBLinkFieldVals(), s_UnpackUserField(), CTreeLabel::SaveToUserObject(), CUser_field::SetFieldRef(), CRegistryFile::SetFieldToValue(), CRegistryWriteView::SetFieldToValue(), SetGoTermValue(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CEditingActionDescUserObject::SetValue(), sGetMethodFromModelEvidence(), sWindowPosFromUserObject(), CMacroFunction_AddDBLink::TheFunction(), CMacroFunction_ParseToStructComm::TheFunction(), CRefGeneTrackLocListPanel::TransferDataFromWindow(), CValidError_desc::ValidateDblink(), CBedWriter::WriteAnnot(), CCSraAlignIterator::x_AddField(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddGoQuals(), CFeatureItem::x_AddQualsExt(), CGuiObjectInfoSeq_align::x_AddUserObject(), x_AlmostEquals(), CGvfWriteRecord::x_AssignAttributeID(), CGvfWriteRecord::x_AssignAttributeParent(), CGvfWriteRecord::x_AssignAttributeVarType(), CBioseqContext::x_CheckForShowComments(), CCleanup::x_CleanupUserField(), CSplitDblinkQuals::x_ConvertStrsToStrs(), CSNPSearchJob::x_DoSearch(), CClonePlacementGlyph::x_Draw(), CTracebackSearchTestFixture::x_FindUsedGis(), CBLASTParams::x_FromUserObject(), CGenomeProjectItem::x_GatherInfo(), CAlignmentSmear::x_GetAnnotName(), CBamUIDataSource::x_GetBamInputs(), CDensegGraphicDataSource::x_GetCigarStr(), CClonePlacementGlyph::x_GetCloneEnds(), CBamUIDataSource::x_GetCSraInputs(), CRegistryReadView::x_GetKeys(), CDensegGraphicDataSource::x_GetMismatchStr(), CUser_object::x_GetRefGeneTrackingField(), CModifySeqId::x_GetRemoveOriginalIdCommand(), CMacroFunction_ParsedText::x_GetSpecialField(), CBamUIDataSource::x_GetSraAccession(), CBamUIDataSource::x_GetSrzAccession(), x_GetTentativeName(), CCommonComponentScorer::x_GetUserCompList(), CFeatureItem::x_HasMethodtRNAscanSE(), CValidError_bioseq::x_HasPGAPStructuredComment(), x_HasTentativeName(), CBioseqIndex::x_InitDescs(), CMiscSeqTable::x_InterpretColumnProperties(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CLDBlockJob::x_LoadFtable(), CNetBLASTUIDataSource::x_LoadJobDescriptors(), CBamRefSeqInfo::x_LoadRangesCov(), CGraphTrack::x_LoadSettings(), CAutoDefOptions::x_MakeModifierList(), CSGAnnotJob::x_PercentileButNotMax(), CAlignFilter::x_Query_Op(), CBioseqContext::x_SetAuthorizedAccess(), CBioseqContext::x_SetDataFromUserObjects(), CBioseqContext::x_SetFiletrackURL(), CDeflineGenerator::x_SetFlags(), CAutoDefOptions::x_SetModifierList(), CAutoDefOptions::x_SetSuppressedFeatures(), CSeq_annot_Info::x_UpdateName(), CValidError_desc::x_ValidateStructuredCommentSuffix(), CVcfWriter::x_WriteFeatureFilter(), CVcfWriter::x_WriteFeatureGenotypeData(), CVcfWriter::x_WriteFeatureInfo(), CVcfWriter::x_WriteFeatureQual(), CVcfWriter::x_WriteInit(), CVcfWriter::x_WriteMeta(), CGff2Writer::xAssignFeatureAttributesGoMarkup(), CGtfWriter::xAssignFeatureMethod(), CSrcWriter::xGetOriginalId(), and CWiggleWriter::xWriteTrackLine().

Get the Data member data.

Returns

Reference to the member data.

Definition at line 335 of file User_object_.hpp.

References CUser_object_Base::m_Data.

Referenced by CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), AddUserObjectFieldItems(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CRemoveEmptyStructuredComment::ApplyToUserObject(), CModifyStructuredComment::ApplyToUserObject(), CBedFeatureRecord::AssignDisplayData(), BOOST_AUTO_TEST_CASE(), CheckAutoDefOptions(), CComment_rule::CheckGeneralStructuredComment(), CheckLocalId(), CDBLinkField::ClearVal(), CGenomeProjectField::ClearVal(), CStructCommFieldValuePair::ClearVal(), CStructCommDBName::ClearVal(), CStructCommFieldName::ClearVal(), CStructuredCommentField::ClearVal(), CountGoTerms(), CTableAnnotDataSource::CreateFeature(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CSubmissionWizard::ExportTemplate(), CTableAnnotDataSource::FindLocations(), CFlatModelEvQVal::Format(), fta_build_structured_comment(), fta_dblink_has_sra(), fta_tsa_tls_comment_dblink_check(), CDUpdater::GetBlastDefline(), CUser_object::GetCategory(), CField_type::GetDBLinkFieldFromUserObject(), CEditObjectSeq_desc::GetDescriptorType(), CUser_object::GetExperiment(), CUser_object::GetExperimentType(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CUser_object::GetFieldRef(), CGenericStructuredCommentColumn::GetFromComment(), GetGoTermErrors(), CStructCommentSubpanel::GetLabelsFromSeq(), CAnnotObject_Info::GetLocsTypes(), CTableDataValidateParams::GetNamedBoolField(), CStructuredCommentsReader::CStructComment::GetPrefix(), CProductStringBuilder::GetProductString(), GetProjectID(), CProjectItemExtra::GetStr(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForTPA(), CStructCommentFieldPanel::GetStructCommentFields(), GetStructuredCommentFields(), CComment_rule::GetStructuredCommentPrefix(), CGuiObjectInfoSeq_align::GetToolTip(), CReadUtil::GetTrackValue(), CWriteUtil::GetUserObjectByType(), CGenomeProjectField::GetVal(), CDBLinkField::GetVals(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CStructCommFieldValuePair::GetVals(), CStructCommFieldName::GetVals(), CStructuredCommentField::GetVals(), HasBadGenomeAssemblyName(), HasBadGenomeAssemblyPartial(), HasBoolField(), HasIntField(), HasRepairedIDs(), HasStringField(), CAutoDefOptions::InitFromUserObject(), CTextView::InitView(), IsAppropriateRule(), CDBLinkField::IsEmpty(), CGenomeProjectField::IsEmpty(), CLocalIDField::IsEmpty(), CStructCommFieldValuePair::IsEmpty(), CStructuredCommentField::IsEmpty(), CComment_rule::IsValid(), CTestApplication::LoadTable(), CDBLink::MergeDBLink(), CEditingActionDescUserObject::Modify(), CEditingActionDescStructCommFieldName::Modify(), CStructuredCommentPanel::OnExport(), SSNP_Info::ParseSeq_feat(), PrintSAM(), PrintTabular(), CEditingActionDescGenomeProjectId::ResetValue(), CEditingActionDescStructCommDbName::ResetValue(), RestoreModelAttributes(), s_ExtractBlastDefline(), s_FindModelEvidanceUop(), s_GetFieldAt(), s_GetMrnaProteinLink(), s_GetOriginalId(), s_GetUserObjectContent(), s_GetUserObjectType(), s_IdXrefsNotReciprocal(), s_IsGnomonModel(), s_IsGoodDescr(), CMacroFunction_RemoveQual::s_RemoveFields(), s_Render_Feat_Evidence(), s_ScanRecursive(), SeqTableFromAssemblyFields(), CProjectItemExtra::SetStr(), CValidErrorSuppress::SetSuppressedCodes(), CValidError_imp::Setup(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CMacroFunction_AddDBLink::TheFunction(), UnpackUserObject(), CValidError_desc::ValidateDblink(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_desc::ValidateUser(), CValidError_bioseq::ValidateWGSMaster(), CGvfWriter::WriteHeader(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddGoQuals(), CFeatureItem::x_AddQualsExt(), x_AlmostEquals(), CGvfWriteRecord::x_AssignAttributesCustom(), CBioseqContext::x_CheckForShowComments(), CTracebackSearchTestFixture::x_FindUsedGis(), CCommentItem::x_GatherDescInfo(), CGenomeProjectItem::x_GatherInfo(), CGenbankGatherer::x_GatherTLS(), CGenbankGatherer::x_GatherTSA(), CCommentItem::x_GatherUserObjInfo(), CGenbankGatherer::x_GatherWGS(), CAlignmentSmear::x_GetAnnotName(), CWriteDB_Impl::x_GetBioseqBinaryHeader(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CAutoDef::x_GetHumanSTRFeatureClauses(), CAutoDef::x_GetHumanSTRv2FeatureClauses(), CMacroFunction_ParsedText::x_GetSpecialField(), CFeatureItem::x_HasMethodtRNAscanSE(), CAutoDef::x_IsHumanSTR(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CSubmissionWizard::x_MergeDBLink(), CUser_object::x_RemoveUnreviewedType(), CUser_object::x_RemoveUnverifiedType(), CFeatureGenerator::SImplementation::x_SetComment(), CBioseqContext::x_SetDataFromUserObjects(), CSplitDblinkQuals::x_SplitQuals(), CValidError_desc::x_ValidateStructuredComment(), CGff2Writer::xAssignFeatureAttributesGoMarkup(), CBedTrackRecord::xImportKeyValuePairs(), CVcfReader::xProcessDataLine(), and CWiggleWriter::xWriteTrackLine().

Get the Day member data.

Returns

Copy of the member data.

Definition at line 520 of file Date_std_.hpp.

References CDate_std_Base::CanGetDay(), CDate_std_Base::m_Day, and CSerialObject::ThrowUnassigned().

Referenced by AddDay(), AddMonth(), AddYear(), CDate_std::AsCTime(), BOOST_AUTO_TEST_CASE(), CheckCollectionDate(), CDate_std::Compare(), CDate_std::GetDate(), GetEmblDate(), s_CompareDates(), CAddSecondary::TransferDataToWindow(), CId1FetchApp::WriteHistoryTable(), CSeq_id_PDB_Info::x_NormalizeDate(), and XDateCheck().

Get the Db member data.

Returns

Reference to the member data.

Definition at line 220 of file Dbtag_.hpp.

References CDbtag_Base::CanGetDb(), CDbtag_Base::m_Db, and CSerialObject::ThrowUnassigned().

Referenced by CFeatGapInfo::AdjustProteinSeq(), CSeq_id::AdjustScore(), CSeq_id::BaseBlastScore(), CSeq_id::BaseFastaAAScore(), CSeq_id::BaseFastaNAScore(), BOOST_AUTO_TEST_CASE(), CReadDispatcher::CannotProcess(), CannotProcess(), CGeneralToLocalId::CGeneralToLocalId(), CDbtag::Compare(), CSeq_id::Compare(), CSeq_id::ComposeOSLT(), CSeqIdGuesser::CSeqIdGuesser(), CSortableSeq_id::CSortableSeq_id(), CNewCleanup_imp::DbtagBC(), CSeqFormatter::DumpAll(), CBlastDBExtractor::ExtractAccession(), ExtractGnomonModelNum(), CBlastDBExtractor::ExtractSeqId(), CSeq_id_General_Tree::FindInfo(), CSeq_id_General_Tree::FindMatch(), CSeq_id_General_Tree::FindOrCreate(), CFlatSubmitterSeqidQVal::Format(), CFlatXrefQVal::Format(), GetAccessionAndDatabaseSource(), CWholeFileAnnotation::GetAndUseAnnot(), GetCDDPssmIdFromSeqId(), CDbtag::GetDBFlags(), CWriteUtil::GetDbTag(), CAlignFormatUtil::GetDbType(), GetDirectLabel(), CValidErrorFormat::GetFeatureIdLabel(), CWGSDataLoader_Impl::GetFileInfoByGeneral(), variation::GetFocusLocusIDs(), CCSRABlobId::GetGeneralIdType(), GetGeneralOrLocal(), CSeqIdGuesser::GetIdStrings(), CWriteUtil::GetIdType(), CSeq_featHandler::GetLabel(), GetLabel(), CDbtag::GetLabel(), CCommentItem::GetStringForTPA(), CScope_Impl::GetTaxId(), CScope_Impl::GetTaxIds(), CGuiObjectInfoVariant::GetToolTip(), CDbtag::GetType(), CGeneralIDField::GetVal(), CEditingActionBiosourceDbxref::GetValue(), CEditingActionFeatDbxref::GetValue(), CEditingActionGeneralIdDb::GetValue(), CTraceDataProxy::HasData(), CSGTraceGraphDS::HasData(), CSeq_id::IdentifyAccession(), CDbtag::IsApproved(), CDbtag::IsApprovedNoCase(), CFeatGlyph::IsDbVar(), CEditingActionFileId::IsSetValue(), CEditingActionGeneralIdTag::IsSetValue(), CDbtag::IsSkippable(), IsStringId(), CSGSequenceDS::IsTraceAssembly(), CValidator::IsValidDbxref(), IsWGSGeneral(), CTraceDataProxy::LoadData(), CSGTraceGraphDS::LoadData(), CId1Reader::LoadSeq_idBlob_ids(), CId1Reader::LoadSeq_idSeq_ids(), CDbtag::Match(), Normalize(), CProcessor::OffsetId(), CSeq_id_General_Str_Info::Parse(), CSeq_id_General_Str_Info::TKey::ParseCaseVariant(), CSeq_id_General_PlainInfo::ParseCaseVariant(), SSNP_Info::ParseSeq_feat(), CWGSResolver_Ids::ParseWGSPrefix(), CFindASN1Dlg::ReplaceInDbxref(), Residue::Residue(), CWGSClient::ResolveGeneral(), s_AssignDbtag(), variation::CVariationUtil::s_AttachGeneIDdbxref(), s_FindSmartSeqId(), s_Fingerprint_Dbtag(), s_GetAlignmentTooltip(), CMacroFunction_MakeBoldXrefs::s_GetBarcodeId(), NSearchFeatPanel::s_GetFeatureLabel(), variation::CVariationUtil::CVariantPropertiesIndex::s_GetGeneID(), s_GetVariationDbtagLabel(), s_IsSkippableDbtag(), s_ShouldUseOriginalID(), s_SkipFeature(), SeqDB_SimplifySeqid(), CSeqDBImpl::SeqidToOids(), CSeq_id::Set(), CDbtag::SetAsMatchingTo(), sx_GetReadId(), TestCollidingAccessionFixes(), CSingleFeatValidator::Validate(), CValidError_imp::ValidateDbxref(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_bioseq::ValidateSeqId(), CVDBBlastUtil::VDBIdType(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFeatureItem::x_AddFTableDbxref(), CFeatureItem::x_AddQualsVariation(), CWriteDB_IsamIndex::x_AddTraceIds(), x_Assign(), CEditSeqId::x_CollectChangedIds(), CRemoveGeneralId::x_CollectChangedIds(), CSeq_id_Resolver__LRG::x_Create(), CSeq_id_General_Tree::x_FindInfo(), CCommentItem::x_GatherDescInfo(), CDBSourceItem::x_GatherInfo(), CFeatGlyph::x_GetFeatureId(), CSeqDBVol::x_GetHdrAsn1(), x_GetLabel_Content(), CPrimaryItem::x_GetStrForPrimary(), CReferenceItem::x_Init(), CFileIDField::x_IsNCBIFILEId(), CId2ReaderBase::x_ProcessGetSeqIdSeqId(), CCdregionValidator::x_ReportTranslationProblems(), CNewCleanup_imp::x_SplitDbtag(), CSeq_id_General_Tree::x_Unindex(), CSeq_id::x_WriteContentAsFasta(), CVcfWriter::x_WriteFeatureInfo(), and XISAGappedSeqLoc().

Get the variant data.

Returns

Reference to the data.

Definition at line 901 of file User_field_.hpp.

Referenced by CFlatModelEvQVal::Format(), GetIdField(), CUser_object::GetRefGeneTrackingAssembly(), CUser_object::GetRefGeneTrackingIdenticalTo(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTPA(), CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField(), s_CountAccessions(), s_ExtractKeys(), s_GetAssemblyInfo(), s_GetDBTree(), s_GetGOText(), s_GetModelEvidance(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddGoQuals(), CFeatureItem::x_AddQualsExt(), CGuiObjectInfoSeq_align::x_AddUserObject(), CRegistryReadView::x_GetKeys(), CCommonComponentScorer::x_GetUserCompList(), CAutoDefOptions::x_MakeModifierList(), CAutoDefOptions::x_SetModifierList(), CVcfWriter::x_WriteFeatureGenotypeData(), and CGff2Writer::xAssignFeatureAttributesGoMarkup().

Get the First member data.

Returns

Reference to the member data.

Definition at line 469 of file Name_std_.hpp.

References CName_std_Base::CanGetFirst(), CName_std_Base::m_First, and CSerialObject::ThrowUnassigned().

Referenced by AddContact(), NMacroUtil::ApplyAuthorNames(), NMacroUtil::ApplyFirstName(), NMacroUtil::ApplyMiddleInitial(), CValidator::BadCharsInAuthor(), BOOST_AUTO_TEST_CASE(), FixCapitalization(), FixInitials(), GenerateInitials(), CPubField::GetAuthorField(), CEditingActionDescAuthorFirstName::GetValue(), CEditingActionDescAuthorInitials::GetValue(), MoveMiddleToFirst(), NMacroUtil::RemoveFirstName(), NMacroUtil::RemoveMiddleInitial(), CFindASN1Dlg::ReplaceInAuthor(), CSubmitterNamePanel::ReportMissingFields(), CMacroFunction_AuthorFix::s_BuildName(), CCleanup::s_CleanupNameStdBC(), CCleanup::s_FixEtAl(), CMacroFunction_AuthorFix::s_FixInitials(), IAuthorEditor::s_FixInitials(), s_GetAuthorNames(), CMacroFunction_AuthorFix::s_MoveMiddleToFirst(), CSingleAuthorPanel::s_ParseInitialsFromName(), CMacroFunction_AuthorFix::s_ReverseAuthorNames(), CMacroFunction_AuthorFix::s_TruncateMiddleInitials(), CPubField::SetAuthorField(), CApplyAuthorsTreeItemData::SetData(), CEditingActionDescAuthorFirstName::SetValue(), CContactPanel::TransferDataToWindow(), CSubmitterPanel_Depr::TransferDataToWindow(), CValidError_imp::ValidateAuthorList(), CValidError_imp::ValidateAuthorsInPubequiv(), CValidError_imp::ValidateBadNameStd(), CValidError_imp::ValidateSubmitBlock(), CMacroFunction_AddPubAuthor::x_AddAuthor(), and CFixAuthorCap::x_ApplyToCAuth().

Get the variant data.

Returns

Copy of the variant data.

Definition at line 270 of file Object_id_.hpp.

References CObject_id_Base::CheckSelected(), CObject_id_Base::e_Id, and CObject_id_Base::m_Id.

Referenced by CThreeFeatRecord::AddFeature(), CFeatureGenePanel::AddReciprocicalXref(), AddToFeatureIdColumn(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustSingleFeature(), CApplyFBOL::apply(), CBarcodeTool::ApplyDbxrefs(), CGffRecord::AssignSeqId(), CObject_id::AsString(), BOOST_AUTO_TEST_CASE(), CBioseqIndex::CBioseqIndex(), CGeneralToLocalId::CGeneralToLocalId(), CComment_rule::CheckGeneralField(), CLocalToGeneralId::CLocalToGeneralId(), CSeq_id::ComposeOSLT(), CBlobSplitterImpl::CopySkeleton(), CRemoveSeqId::CRemoveSeqId(), CSeq_id_Local_Info::CSeq_id_Local_Info(), CSeqIdGuesser::CSeqIdGuesser(), CSortableSeq_id::CSortableSeq_id(), CNewCleanup_imp::DbtagBC(), CCleanup::ExpandGeneToIncludeChildren(), FindHighestFeatureId(), CSeqDBGiList::FindId(), CSeqDBNegativeList::FindId(), CSeq_id_General_Tree::FindMatch(), CSeq_id_Local_Tree::FindOrCreate(), CSeq_id_General_Tree::FindOrCreate(), fta_sort_biosource(), GetAccessionAndDatabaseSource(), CWriteUtil::GetDbTag(), CUser_field::GetFieldRef(), CWGSDataLoader_Impl::GetFileInfoByGeneral(), variation::GetFocusLocusIDs(), GetGeneForFeature(), CScoreLookup::GetGeneId(), GetGeneralOrLocal(), CObject_id::GetGi(), CAlignFormatUtil::GetGnlID(), GetIdField(), CSeqIdGuesser::GetIdStrings(), CObject_id::GetIdType(), CSeq_featHandler::GetLabel(), CGuiObjectInfoVariant::GetLinks(), CAnnotObject_Info::GetLocsTypes(), CSeq_id_Local_Info::GetPackedSeqId(), CReadSharedObjectIdHookBase::GetSharedObject_id(), CScope_Impl::GetTaxId(), CScope_Impl::GetTaxIds(), CGuiObjectInfoVariant::GetToolTip(), CEditingActionBiosourceDbxref::GetValue(), CEditingActionFeatDbxref::GetValue(), IsLocalID(), CValidator::IsValidDbxref(), CFeatComparatorByLabel::Less(), CTraceDataProxy::LoadData(), CSGTraceGraphDS::LoadData(), Make_SeqID_String(), OjectIdsAreEqual(), SChildLess::operator()(), CSeq_id_General_Id_Info::Pack(), CFeaturePropagator::Propagate(), CFeaturePropagator::PropagateFeatureList(), CDUpdater::reformatBioseq(), RemapOtherProtFeats(), CCleanup::RepairXrefs(), Residue::Residue(), CWGSClient::ResolveGeneral(), s_AreLinkedToDifferentFeats(), s_AssignObject_id(), variation::CVariationUtil::s_AttachGeneIDdbxref(), s_FindHighestFeatId(), CCreateGeneModelTask::s_FindHighestFeatId(), CFixFeatureId::s_FindHighestFeatureId(), s_Fingerprint_Object_id(), s_GeneralTagsMatch(), s_GetAlignmentTooltip(), s_GetBareId(), s_GetBlastScore(), s_GetFeatureIdLabel(), NSearchFeatPanel::s_GetFeatureLabel(), variation::CVariationUtil::CVariantPropertiesIndex::s_GetGeneID(), s_GetUserObjectTypeOrClass(), s_IsRelated(), CFixFeatureId::s_ReassignFeatureIds(), s_ReplaceLocalId(), s_UnpackUserField(), s_UpdateFeatureId(), CFixFeatureId::s_UpdateFeatureIds(), SeqDB_SimplifySeqid(), CSeq_id::Set(), CObject_id::SetAsMatchingTo(), sFeatureHasXref(), sGetFeatMapKey(), sx_MakeUniqueId(), CValidError_imp::Validate(), CValidError_imp::ValidateDbxref(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFeatureItem::x_AddFTableDbxref(), CWriteDB_IsamIndex::x_AddTraceIds(), CAlnTableDS::x_AdjustColumns(), x_Assign(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CEditSeqId::x_CollectChangedIds(), CDeltaBlastTestFixture::x_CountNumberUniqueIds(), CBioseqEditor::x_DeleteObject(), CSeq_id_General_Tree::x_FindInfo(), CSeq_id_Local_Tree::x_FindInfo(), CVectorScreen::x_FindLocalId(), CDBSourceItem::x_FormatDBSourceID(), CCommentItem::x_GatherDescInfo(), CGsdbComment::x_GatherInfo(), CLocalIdComment::x_GatherInfo(), CFileIdComment::x_GatherInfo(), CBioseq_set_Info::x_GetBioseq_set_Id(), CBioseqEditor::x_GetDeleteCommand(), CFeatGlyph::x_GetFeatureId(), CSeqDBVol::x_GetHdrAsn1(), x_GetLabel_Content(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CValidError_feat::x_HasNonReciprocalXref(), CXcompareAnnotsApplication::x_ProcessComparison(), CId2ReaderBase::x_ProcessGetSeqIdSeqId(), CGeneModelFeatJob::x_ProcessLandMarkFeatures(), CCleanupHugeAsnReader::x_RecordFeatureId(), CDeflineGenerator::x_SetFlags(), COligoSpecificityTemplate::x_SortHit(), CSplitDataLoader::x_SplitSet(), CSeq_id_Local_Tree::x_Unindex(), CSeq_id_General_Tree::x_Unindex(), CVcfWriter::x_WriteFeatureId(), CVcfWriter::x_WriteFeatureInfo(), CThreeFeatManager::xFindExistingRecord(), CSrcWriter::xGatherDb(), CSrcWriter::xGatherTaxonId(), XISAGappedSeqLoc(), and CFeatTableEdit::xRenameFeatureId().

Get the Initials member data.

Returns

Reference to the member data.

Definition at line 610 of file Name_std_.hpp.

References CName_std_Base::CanGetInitials(), CName_std_Base::m_Initials, and CSerialObject::ThrowUnassigned().

Referenced by NMacroUtil::ApplyFirstName(), NMacroUtil::ApplyMiddleInitial(), CValidator::BadCharsInAuthor(), BOOST_AUTO_TEST_CASE(), FixCapitalization(), FixInitials(), GenerateInitials(), CPubField::GetAuthorField(), pub_report::GetAuthorsFromList(), GetFirstAuthor(), CPerson_id::GetLabel(), CAuthor::GetLabelV2(), pub_report::GetNameFromStdName(), CEditingActionDescAuthorInitials::GetValue(), MoveMiddleToFirst(), fix_pub::PrintPub(), NMacroUtil::RemoveFirstName(), NMacroUtil::RemoveMiddleInitial(), CFindASN1Dlg::ReplaceInAuthor(), CCleanup::s_CleanupNameStdBC(), CMacroFunction_FixPubCaps::s_FixCapitalizationInAuthor(), CCleanup::s_FixEtAl(), CMacroFunction_AuthorFix::s_FixInitials(), IAuthorEditor::s_FixInitials(), CMacroFunction_AuthorFix::s_MoveMiddleToFirst(), CSingleAuthorPanel::s_ParseInitialsFromName(), CMacroFunction_AuthorFix::s_ReverseAuthorNames(), CMacroFunction_AuthorFix::s_TruncateMiddleInitials(), CPubField::SetAuthorField(), CEditingActionDescAuthorFirstName::SetValue(), fix_pub::TenAuthorsProcess(), CValidError_imp::ValidateAuthorList(), and CSrcWriter::xGather().

Get the variant data.

Returns

Copy of the variant data.

Definition at line 714 of file User_field_.hpp.

Referenced by CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), BOOST_AUTO_TEST_CASE(), BOOST_AUTO_TEST_SUITE_END(), CComment_rule::CheckFieldValue(), CComment_rule::CheckGeneralField(), CLDBlockGlyph::CLDBlockGlyph(), CFlatModelEvQVal::Format(), CRegistryFile::FromConfigFile(), CDockLayoutTree::CNode::FromUserObject(), CBLASTParams::FromUserObject(), CConstSageData::GetCount(), CSGUtils::GetFeatFetchDepth(), CSettingsSet::GetInt(), CUser_field::GetInt(), CAnnotObject_Info::GetLocsTypes(), CSeq_annot_SplitInfo::GetName(), CFlatGoQVal::GetPubmedId(), CBlastQuerySourceBioseqSet::GetSegmentInfo(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForRefTrack(), CGuiObjectInfoSeq_align::GetToolTip(), CEditingActionDescGenomeProjectId::GetValue(), CPhyloSelectionSet::InitFromUserObject(), CPhyTreeView::InitView(), CComment_rule::IsValid(), CTableDelimiterRules::LoadAsn(), CTableImportColumn::LoadAsn(), MakeCompartments(), SSNP_Info::ParseSeq_feat(), CTabularFormatter_AssemblyInfo::Print(), CDemoSeqQaApp::Run(), s_CheckTraceMateAlign(), s_GetAssemblyInfo(), s_GetModelEvidance(), s_GetSegmentFlags(), s_ScanRecursive(), sWindowPosFromUserObject(), CBedWriter::WriteAnnot(), CGuiObjectInfoSeq_align::x_AddUserObject(), CBLASTParams::x_FromUserObject(), CGenomeProjectItem::x_GatherInfo(), CCommonComponentScorer::x_GetUserCompList(), CBamRefSeqInfo::x_LoadRangesCov(), and CSeq_annot_Info::x_UpdateName().

Get the Label member data.

Returns

Reference to the member data.

Definition at line 947 of file User_field_.hpp.

References CUser_field_Base::m_Label, and CUser_field_Base::ResetLabel().

Referenced by CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CModifyStructuredComment::ApplyToUserObject(), CComment_rule::CheckGeneralField(), CUser_field::DeleteField(), CFlatModelEvQVal::Format(), CNewCleanup_imp::GeneFeatBC(), CUser_object::GetCategory(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CUser_field::GetFieldRef(), CUser_object::GetFieldRef(), CUser_field::GetFieldsMap(), GetIdField(), CStructCommentSubpanel::GetLabelsFromSeq(), CAnnotObject_Info::GetLocsTypes(), GetPrefixOrSuffixType(), CProductStringBuilder::GetProductString(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForRefTrack(), CReadUtil::GetTrackValue(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CLocalIDField::IsEmpty(), CGenomeProjectField::IsGenomeProjectID(), IsMatchingIdMissing(), CEditingActionDescUserObject::Modify(), CEditingActionDescStructCommFieldName::Modify(), CEditingActionDescLocalId::Modify(), CEditingActionDescComment::Modify(), SSNP_Info::ParseSeq_feat(), CDUpdater::reformatBioseq(), CEditingActionDescGenomeProjectId::ResetValue(), CEditingActionDescStructCommDbName::ResetValue(), RestoreModelAttributes(), CDemoSeqQaApp::Run(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_CountAccessions(), s_ExtractKeys(), s_FastaGetOriginalID(), s_FieldHasLabel(), s_GetAssemblyInfo(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_GetUserObjectContent(), s_IsGnomonModel(), s_IsSuppressField(), CMacroFunction_SetStructCommDb::s_MoveSuffixToTheEnd(), s_Render_Feat_Evidence(), s_ScanRecursive(), s_UnpackUserField(), s_UserFieldCompare(), CUser_object::SetFieldRef(), CUser_field::SetFieldRef(), CMacroFunction_AddDBLink::TheFunction(), CMacroFunction_ParseToStructComm::TheFunction(), CValidError_desc::ValidateDblink(), CValidError_bioseq::ValidateSeqDescContext(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddGoQuals(), CFeatureItem::x_AddQualsExt(), CGuiObjectInfoSeq_align::x_AddUserObject(), x_AlmostEquals(), CBioseqContext::x_CheckForShowComments(), CFeatureGenerator::SImplementation::x_CheckMatch(), CCleanup::x_CleanupUserField(), CTracebackSearchTestFixture::x_FindUsedGis(), CGenomeProjectItem::x_GatherInfo(), CAlignmentSmear::x_GetAnnotName(), CModifySeqId::x_GetRemoveOriginalIdCommand(), CMacroFunction_ParsedText::x_GetSpecialField(), x_GetTentativeName(), CFeatureItem::x_HasMethodtRNAscanSE(), x_HasTentativeName(), CBioseqIndex::x_InitDescs(), CStructuredCommentField::x_InsertFieldAtCorrectPosition(), CStructCommFieldValuePair::x_InsertFieldAtCorrectPosition(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CBioseqContext::x_SetDataFromUserObjects(), CDeflineGenerator::x_SetFlags(), CNullProcess::x_UserFieldCompare(), CGff2Writer::xAssignFeatureAttributesGoMarkup(), CSrcWriter::xGetOriginalId(), and CWiggleWriter::xWriteTrackLine().

Get the Last member data.

Returns

Reference to the member data.

Definition at line 422 of file Name_std_.hpp.

References CName_std_Base::CanGetLast(), CName_std_Base::m_Last, and CSerialObject::ThrowUnassigned().

Referenced by AddContact(), CValidator::BadCharsInAuthor(), FixCapitalization(), fta_check_long_last_name(), CPubField::GetAuthorField(), pub_report::GetAuthorsFromList(), GetFirstAuthor(), CPerson_id::GetLabel(), CAuthor::GetLabelV2(), pub_report::GetNameFromStdName(), CEditingActionDescAuthorLastName::GetValue(), CValidError_imp::HasName(), SAuthorEmpty::operator()(), fix_pub::PrintPub(), CFindASN1Dlg::ReplaceInAuthor(), CSubmitterNamePanel::ReportMissingFields(), CCleanup::s_CleanupNameStdBC(), CCleanup::s_FixEtAl(), s_GetAuthorMatchString(), s_GetStringFromAuthor(), CMacroFunction_AuthorFix::s_ReverseAuthorNames(), CPubField::SetAuthorField(), fix_pub::TenAuthorsProcess(), CContactPanel::TransferDataToWindow(), CSubmitterPanel_Depr::TransferDataToWindow(), CValidError_imp::ValidateAuthorList(), CValidError_imp::ValidateAuthorsInPubequiv(), CValidError_imp::ValidateBadNameStd(), CValidError_imp::ValidateSubmitBlock(), CFixAuthorCap::x_ApplyToCAuth(), CConvertAllAuthorToConsortium::x_ApplyToCAuth(), CConvertAuthorToConsortiumWhereConstraint::x_ApplyToCAuth(), and CSrcWriter::xGather().

Get the variant data.

Returns

Copy of the variant data.

Definition at line 642 of file Int_fuzz_.hpp.

References CInt_fuzz_Base::CheckSelected(), CInt_fuzz_Base::e_Lim, and CInt_fuzz_Base::m_Lim.

Referenced by CConvertGapsBySize::apply(), CCombineAdjacentGaps::apply_impl(), BOOST_AUTO_TEST_CASE(), CSeq_loc::ChangeToPackedInt(), CSeq_loc_Conversion::ConvertInterval(), CSeq_loc_Conversion::ConvertPoint(), FixMixLoc(), GetDeltaSeqSummary(), variation::GetFuzzSign(), CInt_fuzz::GetLabel(), GetLowHighFromSeqLoc(), CSeq_point::IsLeftOf(), CPacked_seqpnt::IsPartialStart(), CSeq_interval::IsPartialStart(), CSeq_point::IsPartialStart(), CPacked_seqpnt::IsPartialStop(), CSeq_interval::IsPartialStop(), CSeq_point::IsPartialStop(), variation::IsPureFuzzPoint(), CSeq_point::IsRightOf(), CPacked_seqpnt::IsTruncatedStart(), CSeq_interval::IsTruncatedStart(), CSeq_point::IsTruncatedStart(), CPacked_seqpnt::IsTruncatedStop(), CSeq_interval::IsTruncatedStop(), CSeq_point::IsTruncatedStop(), CInt_fuzz::Negate(), SSNP_Info::ParseSeq_feat(), CSeq_loc_Conversion::ReverseFuzz(), s_CheckFuzz(), variation::CHgvsParser::s_IntWithFuzzToStr(), s_IsBetween(), s_PrintLocAsJavascriptArray(), s_RemoveBogusFuzzFromIntervals_Helper(), variation::CHgvsParser::s_SetStartOffset(), variation::CHgvsParser::s_SetStopOffset(), SeqIntPartialCheck(), SeqLocPartialCheck(), variation::SwapLtGtFuzz(), CValidError_bioseq::ValidateDelta(), CSeqMap::x_Add(), CFlatSeqLoc::x_Add(), CRangeWithFuzz::x_AddFuzz(), x_Assign(), CGvfWriteRecord::x_AssignAttributeEndRange(), CGvfWriteRecord::x_AssignAttributeStartRange(), CSGFeatureJob::x_CalcIntervals(), CFeatGlyph::x_DrawFeatureBar(), CFeatGlyph::x_DrawRSites(), CSeq_loc_Mapper_Base::x_FixNonsenseFuzz(), CFlatSeqLoc::x_FuzzToDisplayed(), variation_ref::CHgvsParser::x_general_pos(), CFeatGlyph::x_GetUndefinedBp_from(), CFeatGlyph::x_GetUndefinedBp_to(), variation_ref::CHgvsParser::x_IntWithFuzzToStr(), CMappingRange::x_Map_Fuzz(), CSeq_loc_Mapper_Base::x_NextMappingRange(), CValidError_imp::x_ReportInvalidFuzz(), variation_ref::CHgvsParser::x_seq_ref(), and CNewCleanup_imp::x_SeqPointBC().

Get the Max member data.

Returns

Copy of the member data.

Definition at line 472 of file Int_fuzz_.hpp.

References CSerialObject::ThrowUnassigned().

Referenced by CInt_fuzz::AssignTranslated(), CFeatGlyph::GetRange(), variation::CHgvsParser::s_IntWithFuzzToStr(), CFlatSeqLoc::x_Add(), CRangeWithFuzz::x_AddFuzz(), x_Assign(), CGvfWriteRecord::x_AssignAttributeEndRange(), CGvfWriteRecord::x_AssignAttributeStartRange(), CFeatGlyph::x_DrawFeatureBar_sv(), variation_ref::CHgvsParser::x_IntWithFuzzToStr(), and xgbload_number().

Get the Min member data.

Returns

Copy of the member data.

Definition at line 519 of file Int_fuzz_.hpp.

References CSerialObject::ThrowUnassigned().

Referenced by CInt_fuzz::AssignTranslated(), CFeatGlyph::GetRange(), variation::CHgvsParser::s_IntWithFuzzToStr(), CFlatSeqLoc::x_Add(), CRangeWithFuzz::x_AddFuzz(), x_Assign(), CGvfWriteRecord::x_AssignAttributeEndRange(), CGvfWriteRecord::x_AssignAttributeStartRange(), CFeatGlyph::x_DrawFeatureBar_sv(), variation_ref::CHgvsParser::x_IntWithFuzzToStr(), and xgbload_number().

Get the variant data.

Returns

Reference to the data.

Definition at line 371 of file Person_id_.hpp.

References CPerson_id_Base::CheckSelected(), CPerson_id_Base::e_Ml, and CPerson_id_Base::m_string.

Referenced by CAuthor::ConvertMlToStandard(), pub_report::GetAuthorsFromList(), GetAuthorString(), CPerson_id::GetLabel(), CAuthor::GetLabelV2(), pub_report::GetNameFromStdName(), CValidError_imp::HasName(), SAuthorEmpty::operator()(), and CFindASN1Dlg::ReplaceInAuthor().

Get the Month member data.

Returns

Copy of the member data.

Definition at line 473 of file Date_std_.hpp.

References CDate_std_Base::CanGetMonth(), CDate_std_Base::m_Month, and CSerialObject::ThrowUnassigned().

Referenced by AddDay(), AddMonth(), AddYear(), CDate_std::AsCTime(), BOOST_AUTO_TEST_CASE(), CheckCollectionDate(), CDate_std::Compare(), CDate_std::GetDate(), GetEmblDate(), s_CompareDates(), CAddSecondary::TransferDataToWindow(), CId1FetchApp::WriteHistoryTable(), CSeq_id_PDB_Info::x_NormalizeDate(), and XDateCheck().

Get the variant data.

Returns

Reference to the data.

Definition at line 137 of file Person_id_.cpp.

References CPerson_id_Base::CheckSelected(), CPerson_id_Base::e_Name, and CPerson_id_Base::m_object.

Referenced by CValidator::BadCharsInAuthor(), get_auth_from_toks(), CReferenceItem::GetAuthNames(), CPubField::GetAuthorField(), pub_report::GetAuthorsFromList(), GetAuthorString(), GetFirstAuthor(), CPerson_id::GetLabel(), CAuthor::GetLabelV2(), pub_report::GetNameFromStdName(), CEditingActionDescAuthorFirstName::GetValue(), CEditingActionDescAuthorLastName::GetValue(), CEditingActionDescAuthorSuffix::GetValue(), CEditingActionDescAuthorInitials::GetValue(), HasAuthor(), CValidError_imp::HasName(), CAuthorNamesPanel::IsAuthorEmpty(), CSingleAuthorPanel::IsPlaceholder(), CEditingActionDescAuthorFirstName::IsSetValue(), CEditingActionDescAuthorLastName::IsSetValue(), CEditingActionDescAuthorSuffix::IsSetValue(), CEditingActionDescAuthorInitials::IsSetValue(), SAuthorEmpty::operator()(), fix_pub::PrintPub(), CFindASN1Dlg::ReplaceInAuthor(), CSubmitterNamePanel::ReportMissingFields(), IAuthorEditor::s_FixInitials(), s_GetAuthorMatchString(), s_GetStringFromAuthor(), CPubField::SetAuthorField(), CApplyAuthorsTreeItemData::SetData(), CEditingActionDescAuthorFirstName::SetValue(), fix_pub::TenAuthorsProcess(), CSubmitterNamePanel::TransferDataFromWindow(), CValidError_imp::ValidateCitSub(), CValidError_imp::ValidateSubmitBlock(), CFixAuthorCap::x_ApplyToCAuth(), CStripAuthorSuffix::x_ApplyToCAuth(), CConvertAllAuthorToConsortium::x_ApplyToCAuth(), CConvertAuthorToConsortiumWhereConstraint::x_ApplyToCAuth(), and CSrcWriter::xGather().

Get the variant data.

Returns

Reference to the data.

Definition at line 176 of file User_field_.cpp.

Referenced by BOOST_AUTO_TEST_CASE(), CDockContainerDescr::FromUserObject(), CBLASTParams::FromUserObject(), CWndLayoutReg::GetDefaultLayout(), CUser_object::GetExperimentType(), CWndLayoutReg::GetLayout(), CTreeLabel::InitializeFromUserObject(), s_IsGnomonModel(), s_Render_Feat_Evidence(), s_ScanRecursive(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddQualsExt(), and CFeatureItem::x_HasMethodtRNAscanSE().

Get the variant data.

Returns

Reference to the data.

Definition at line 159 of file Int_fuzz_.cpp.

References CInt_fuzz_Base::CheckSelected(), CInt_fuzz_Base::e_Range, and CInt_fuzz_Base::m_object.

Referenced by CInt_fuzz::AssignTranslated(), CInt_fuzz::GetLabel(), variation::CHgvsParser::s_IntWithFuzzToStr(), CFlatSeqLoc::x_Add(), CRangeWithFuzz::x_AddFuzz(), x_Assign(), CGvfWriteRecord::x_AssignAttributeEndRange(), CGvfWriteRecord::x_AssignAttributeStartRange(), CFeatGlyph::x_DrawFeatureBar_sv(), variation_ref::CHgvsParser::x_IntWithFuzzToStr(), CMappingRange::x_Map_Fuzz(), and xgbload_number().

Get the variant data.

Returns

Copy of the variant data.

Definition at line 741 of file User_field_.hpp.

Referenced by CLDBlockGlyph::CLDBlockGlyph(), CRegistryFile::FromConfigFile(), CUser_field::GetDouble(), CSettingsSet::GetReal(), CPhyloSelectionSet::InitFromUserObject(), MakeCompartments(), RestoreModelAttributes(), CDemoSeqQaApp::Run(), s_PassesFilter(), s_ScanRecursive(), CBLASTParams::x_FromUserObject(), CBamRefSeqInfo::x_LoadRangesCov(), CGraphTrack::x_LoadSettings(), and CVcfWriter::x_WriteFeatureQual().

Get the variant data.

Returns

Reference to the data.

Definition at line 109 of file Date_.cpp.

References CDate_Base::CheckSelected(), CDate_Base::e_Std, and CDate_Base::m_object.

Referenced by AddDay(), AddMonth(), AddYear(), CDate::AsCTime(), BOOST_AUTO_TEST_CASE(), CheckDate(), pub_report::CheckDate(), pub_report::CollectDataArt(), pub_report::CollectDataGen(), CDate::Compare(), CProceedingsPanel::CreateControls(), CProceedingsChapterPanel::CreateControls(), CPublisherPanel::CreateControls(), get_lanl_date(), CDate::GetDate(), GetDateString(), GetDocSumLabel(), CApplyPubQualTreeItemData::GetVariables(), IsDateInPast(), CSeq_id_PDB_Info::Normalize(), fix_pub::PrintPub(), CCleanup::s_CleanupGenomeAssembly(), s_CompareDates(), s_FormatCitGen(), s_FormatYear(), s_IsDateEmpty(), CRelaxedLookupDlg::SetPubdesc(), pub_report::CSkipPubUnpublishedHook::SkipObject(), CAddSecondary::TransferDataToWindow(), CProceedingsPanel::TransferDataToWindow(), CProceedingsChapterPanel::TransferDataToWindow(), CPublisherPanel::TransferDataToWindow(), CAuthListValidator::validate(), CValidError_imp::ValidatePubArticleNoPMID(), CValidError_imp::x_DowngradeForMissingAffil(), and CMacroFunction_SetPubStatus::x_SetStatus().

Get the variant data.

Returns

Reference to the data.

Definition at line 306 of file Date_.hpp.

References CDate_Base::CheckSelected(), CDate_Base::e_Str, and CDate_Base::m_string.

Referenced by CDate::AsCTime(), CheckDate(), CDate::Compare(), CDate::GetDate(), GetDateString(), ICitationBase::GetParenthesizedYear(), s_CompareDates(), s_FormatYear(), and CValidError_imp::ValidatePubArticleNoPMID().

Get the variant data.

Returns

Reference to the data.

Definition at line 297 of file Object_id_.hpp.

References CObject_id_Base::CheckSelected(), CObject_id_Base::e_Str, and CObject_id_Base::m_string.

Referenced by CSeq_feat::AddExt(), CApplyFBOL::apply(), CRmvCddFeatDbxref::apply_to(), CBarcodeTool::ApplyDbxrefs(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveGenomeProjectsDB::ApplyToUserObject(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveBankitComment::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CRemoveAllStructuredComment::ApplyToUserObject(), CRemoveEmptyStructuredComment::ApplyToUserObject(), CModifyStructuredComment::ApplyToUserObject(), CBedFeatureRecord::AssignDisplayData(), CGffRecord::AssignSeqId(), CGvfWriteRecord::AssignSource(), CGvfWriteRecord::AssignType(), CObject_id::AsString(), BOOST_AUTO_TEST_CASE(), CBioseqIndex::CBioseqIndex(), CFlatFileTextItem::CFlatFileTextItem(), CComment_rule::CheckGeneralField(), CLocalToGeneralId::CLocalToGeneralId(), CObject_id::Compare(), CSeq_id::ComposeOSLT(), CPrimaryEdit::CPrimaryEdit(), CRemoveSeqId::CRemoveSeqId(), CSeq_id_Local_Info::CSeq_id_Local_Info(), CSeqIdGuesser::CSeqIdGuesser(), CSortableSeq_id::CSortableSeq_id(), CNewCleanup_imp::DbtagBC(), CUser_field::DeleteField(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), descr_cmp(), ExtractGnomonModelNum(), CSeq_align::FindExt(), CSeq_feat::FindExt(), CSeqDBGiList::FindId(), CSeqDBNegativeList::FindId(), CSeq_id_General_Tree::FindMatch(), NMacroUtil::FindNcbiAutofixUserObject(), CSeq_id_Local_Tree::FindOrCreate(), CSeq_id_General_Tree::FindOrCreate(), CFlatSubmitterSeqidQVal::Format(), CFlatModelEvQVal::Format(), fta_build_ena_user_object(), fta_dblink_has_sra(), fta_get_project_user_object(), fta_remove_cleanup_user_object(), fta_sort_biosource(), fta_tsa_tls_comment_dblink_check(), GetAccessionAndDatabaseSource(), CWholeFileAnnotation::GetAndUseAnnot(), CDUpdater::GetBlastDefline(), CUser_object::GetCategory(), CCreateSeqHistForTpa::GetCreateSeqHistFromTpaCommand(), CField_type::GetDBLinkFieldFromUserObject(), GetDBLinkIDs(), CWriteUtil::GetDbTag(), CWriteUtil::GetDescriptor(), CValidErrorFormat::GetDescriptorContent(), CEditObjectSeq_desc::GetDescriptorType(), GetDirectLabel(), CFlatFileViewContext::GetEditObject(), CUser_object::GetExperimentType(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CUser_field::GetFieldRef(), CUser_object::GetFieldRef(), CUser_field::GetFieldsMap(), CWGSDataLoader_Impl::GetFileInfoByGeneral(), CCSRABlobId::GetGeneralIdType(), GetGeneralOrLocal(), CGenomeAnnotComment::GetGenomeBuildNumber(), CAlignFormatUtil::GetGnlID(), CSeqIdGuesser::GetIdStrings(), CObject_id::GetIdType(), CSeq_featHandler::GetLabel(), GetLabel(), CStructCommentSubpanel::GetLabelsFromSeq(), CGuiObjectInfoVariant::GetLinks(), CAnnotObject_Info::GetLocsTypes(), CWGSDb::GetMasterDescrType(), GetNewGeneralProtId(), GetNewLocalProtId(), CUser_object::GetObjectType(), CVDBBlastUtil::GetOIDFromVDBSeqId(), CSeq_id_Local_Info::GetPackedSeqId(), GetPrefixOrSuffixType(), CProductStringBuilder::GetProductString(), CReadSharedObjectIdHookBase::GetSharedObject_id(), CCommentItem::GetStringForBankIt(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForRefSeqGenome(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTPA(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), GetTitle(), CSequenceTrack::GetTooltip(), CGuiObjectInfoVariant::GetToolTip(), CGuiObjectInfoVariation::GetToolTip(), CReadUtil::GetTrackValue(), CWriteUtil::GetUserObjectByType(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CEditingActionBiosourceDbxref::GetValue(), CEditingActionFeatDbxref::GetValue(), CTextView::InitView(), CDiscrepancyContext::IsBGPipe(), IsConsensus(), CDBLinkField::IsDBLink(), CTable2AsnContext::IsDBLink(), CLocalIDField::IsEmpty(), CVariationNormalization::isFullyShifted(), IsGeneOntology(), CGenomeProjectField::IsGenomeProject(), CGenomeProjectField::IsGenomeProjectID(), IsLocalID(), IsMatchingIdMissing(), CEditingActionDescGenomeProjectId::IsSetValue(), CEditingActionDescStructCommDbName::IsSetValue(), CComment_rule::IsStructuredComment(), CValidError_align::IsTpaAlignment(), CSeqEntrySource::IsUnverified(), CValidator::IsValidDbxref(), isVarNormType(), isVersionsObject(), CFeatComparatorByLabel::Less(), CLoadStructComments::LoadWithAccessions(), Make_SeqID_String(), MakeCompartments(), CEditingActionDescUserObject::Modify(), CEditingActionDescStructCommFieldName::Modify(), CEditingActionDescLocalId::Modify(), CEditingActionDescComment::Modify(), OjectIdsAreEqual(), CSeqIdValidate::operator()(), SChildLess::operator()(), CSeq_id_General_Str_Info::Pack(), CSeq_id_General_Str_Info::Parse(), CSeq_id_General_Str_Info::TKey::ParseCaseVariant(), CSeq_id_General_PlainInfo::ParseCaseVariant(), CSeq_id_Local_Info::ParseCaseVariant(), SSNP_Info::ParseSeq_feat(), CTabularFormatter_BestPlacementGroup::Print(), CTabularFormatter_AssemblyInfo::Print(), CRelation::RelationFromUserObject(), CDUpdater::RemoveBlastDefline(), CSeq_feat::RemoveExt(), CFindASN1Dlg::ReplaceInDbxref(), CFindASN1Dlg::ReplaceInSubmit(), CEditingActionDescGenomeProjectId::ResetValue(), CEditingActionDescStructCommDbName::ResetValue(), CWGSClient::ResolveGeneral(), RestoreModelAttributes(), RestoreModelMethod(), CDemoSeqQaApp::Run(), CDemoApp::Run(), s_AddCDS(), s_AddTopLevelGenomicLinks(), s_AssignObject_id(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_CountAccessions(), s_ExtractBlastDefline(), s_ExtractKeys(), s_FastaGetOriginalID(), s_FieldHasLabel(), s_FindLocalId(), s_FindUserObjectTypeRecursive(), s_Fingerprint_Object_id(), s_GeneralTagsMatch(), s_GetAlignmentTooltip(), s_GetAssemblyInfo(), s_GetBareId(), s_GetBitScore(), s_GetContentLabel(), s_GetEvalue(), s_GetFeatureIdLabel(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_GetSRASeqMetadata(), s_GetUserObjectContent(), s_GetUserObjectType(), s_GetUserObjectTypeOrClass(), s_HasTpaUserObject(), s_IdXrefsNotReciprocal(), s_IsGnomonModel(), s_IsModelEvidanceUop(), s_IsReportableStructuredComment(), s_IsSuppressField(), s_IsTpa(), s_IsUserType(), CMacroFunction_SetStructCommDb::s_MoveSuffixToTheEnd(), s_PopulateUserObject(), CMacroFunction_RemoveQual::s_RemoveFields(), s_Render_Feat_Evidence(), s_ReplaceLocalId(), s_ScanRecursive(), s_UnpackUserField(), SeqDB_SimplifySeqid(), CStructuredCommentsReader::SeqIdMatchesCommentId(), SeqIdMatchesMaster(), CSeq_id::Set(), CObject_id::SetAsMatchingTo(), CUser_object::SetFieldRef(), CUser_field::SetFieldRef(), CGffAlignmentRecord::SetScore(), CGffBaseRecord::SetScore(), CValidError_imp::Setup(), CEditingActionDescStructCommDbName::SetValue(), sFeatureHasXref(), sGetFeatMapKey(), CPropagateDescriptors::ShouldStayInPlace(), sInheritScores(), sPrepareSeqAlign(), sx_GetReadId(), sx_MakeUniqueId(), TestCollidingAccessionFixes(), testNuclHitList(), CMacroFunction_AddDBLink::TheFunction(), CMacroFunction_ParseToStructComm::TheFunction(), CSequencingTechnologyPanel::TransferDataToWindow(), CStructuredCommentPanel::TransferDataToWindow(), CValidError_desc::ValidateDblink(), CValidError_imp::ValidateDbxref(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_annot::ValidateSeqAnnot(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_bioseq::ValidateSeqId(), CValidError_desc::ValidateUser(), CValidError_bioseq::ValidateWGSMaster(), CVDBBlastUtil::VDBIdType(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFeatureItem::x_AddFTableDbxref(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddGoQuals(), CWriteDB_IsamIndex::x_AddLocal(), CFeatureTableReader_Imp::x_AddQualifierToImp(), CFeatureItem::x_AddQualsExt(), CFeatureItem::x_AddQualsRegion(), CFeatureItem::x_AddQualsVariation(), CWriteDB_IsamIndex::x_AddStringIds(), CWriteDB_IsamIndex::x_AddTraceIds(), CGuiObjectInfoSeq_align::x_AddUserObject(), CAlnTableDS::x_AdjustColumns(), CMultiAligner::x_AlignClusterQueries(), CMultiAligner::x_AlignFillerBlocks(), x_AlmostEquals(), CRemoveUnreviewed::x_ApplyToUserObject(), x_Assign(), CGvfWriteRecord::x_AssignAttributeID(), CGvfWriteRecord::x_AssignAttributeParent(), CGvfWriteRecord::x_AssignAttributesCustom(), CGvfWriteRecord::x_AssignAttributeVarType(), CBioseqContext::x_CheckForShowComments(), CFeatureGenerator::SImplementation::x_CheckMatch(), CEditSeqId::x_CollectChangedIds(), CSeq_id_Resolver__LRG::x_Create(), CInversionMergeAligner::x_CreateDiscAlignment(), CSNPSearchJob::x_DoSearch(), CSeq_id_General_Tree::x_FindInfo(), CSeq_id_Local_Tree::x_FindInfo(), CVectorScreen::x_FindLocalId(), CMultiAligner::x_FindRPSHits(), CTracebackSearchTestFixture::x_FindUsedGis(), CGencollIdMapper::x_FixImperfectId(), CDBSourceItem::x_FormatDBSourceID(), CCommentItem::x_GatherDescInfo(), CGenomeAnnotComment::x_GatherInfo(), CLocalIdComment::x_GatherInfo(), CFileIdComment::x_GatherInfo(), CGenomeProjectItem::x_GatherInfo(), CPrimaryItem::x_GatherInfo(), CGenbankGatherer::x_GatherTLS(), CGenbankGatherer::x_GatherTSA(), CGenbankGatherer::x_GatherWGS(), CAlignmentSmear::x_GetAnnotName(), CWriteDB_Impl::x_GetBioseqBinaryHeader(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CFeatGlyph::x_GetFeatureId(), x_GetLabel_Content(), x_GetMolLocTypeUserObj(), CModifySeqId::x_GetRemoveOriginalIdCommand(), CMacroFunction_ParsedText::x_GetSpecialField(), x_GetTentativeName(), CCommonComponentScorer::x_GetUserCompList(), CViewGraphic::x_GetViewSettingsFromParams(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CFeatureItem::x_HasMethodtRNAscanSE(), x_HasTentativeName(), CReferenceItem::x_Init(), CBioseqIndex::x_InitDescs(), CStructuredCommentField::x_InsertFieldAtCorrectPosition(), CStructCommFieldValuePair::x_InsertFieldAtCorrectPosition(), CSplitDblinkQuals::x_IsDblinkObj(), CSeq_loc_Mapper::x_IsUCSCRandomChr(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CGenbankFormatter::x_LocusHtmlPrefix(), CId2ReaderBase::x_ProcessGetSeqIdSeqId(), CAlignFilter::x_Query_Op(), CSequenceUpdater::x_RemoveDescriptorsFromImportedProducts(), CNewCleanup_imp::x_RemoveEmptyUserObject(), CBioseqContext::x_SetAuthorizedAccess(), CBioseqContext::x_SetDataFromUserObjects(), CMultiAligner::x_SetDomainHits(), CBioseqContext::x_SetEncode(), CBioseqContext::x_SetFiletrackURL(), CDeflineGenerator::x_SetFlags(), CBioseqContext::x_SetId(), CSeq_id_Local_Tree::x_Unindex(), CSeq_id_General_Tree::x_Unindex(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CValidError_desc::x_ValidateStructuredComment(), CVcfWriter::x_WriteFeatureFilter(), CVcfWriter::x_WriteFeatureId(), CVcfWriter::x_WriteFeatureInfo(), CVcfWriter::x_WriteFeatureQual(), CGff3FlybaseWriter::xAssignAlignmentDensegScores(), CGff3FlybaseWriter::xAssignAlignmentSplicedScores(), CGff2Writer::xAssignFeatureAttributesGoMarkup(), CSrcWriter::xGatherDb(), CSrcWriter::xGatherTaxonId(), CFeatTableEdit::xGenerateTranscriptOrProteinId(), CSrcWriter::xGetOriginalId(), CFeatTableEdit::xRenameFeatureId(), CWiggleWriter::xWriteSingleGraphFixedStep(), and CWiggleWriter::xWriteTrackLine().

Get the variant data.

Returns

Reference to the data.

Definition at line 391 of file Person_id_.hpp.

References CPerson_id_Base::CheckSelected(), CPerson_id_Base::e_Str, and CPerson_id_Base::m_string.

Referenced by pub_report::GetAuthorsFromList(), GetAuthorString(), CPerson_id::GetLabel(), CAuthor::GetLabelV2(), pub_report::GetNameFromStdName(), HasAuthor(), CValidError_imp::HasName(), SAuthorEmpty::operator()(), CFindASN1Dlg::ReplaceInAuthor(), and s_GetAuthorMatchString().

Get the variant data.

Returns

Reference to the data.

Definition at line 694 of file User_field_.hpp.

Referenced by CLBLASTObjectLoader::AddDataLoader(), CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), CChangeStructuredCommentKeyword::ApplyToCSeq_entry_user(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CGvfWriteRecord::AssignSource(), CGvfWriteRecord::AssignType(), BOOST_AUTO_TEST_CASE(), CComment_rule::CheckFieldValue(), CComment_rule::CheckGeneralField(), CTableAnnotDataSource::CreateFeature(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), CGBDocument::DetachDataLoader(), CTableAnnotDataSource::FindLocations(), CFlatModelEvQVal::Format(), CRegistryFile::FromConfigFile(), CDockLayoutTree::CNode::FromUserObject(), CBLASTParams::FromUserObject(), CBioseq_Info::GetFeatureFetchPolicy(), GetFieldValueAsString(), CGenomeAnnotComment::GetGenomeBuildNumber(), GetHasFrameShift(), GetHasOrderAssignment(), CClonePlacementGlyph::GetLabel(), CUserFeatHandler::GetLabel(), NSnp::GetLength(), CLBLASTObjectLoader::GetLoaderName(), GetLowTrace(), CGC_Replicon::GetMoleculeLabel(), CGC_Replicon::GetMoleculeLocation(), CGC_Replicon::GetMoleculeType(), CProductStringBuilder::GetProductString(), CUser_object::GetRefGeneTrackingStatus(), CCommentItem::GetRefTrackStatus(), CSGSeqGraphJob::GetSeqtableAnnots(), CSettingsSet::GetString(), CUser_field::GetString(), CCommentItem::GetStringForBankIt(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForRefSeqGenome(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CConstSageData::GetTag(), CFlatGoQVal::GetTextString(), CSequenceTrack::GetTooltip(), CGuiObjectInfoSeq_align::GetToolTip(), CGuiObjectInfoPrimer::GetToolTip(), CGuiObjectInfoVariant::GetToolTip(), CGuiObjectInfoVariation::GetToolTip(), CReadUtil::GetTrackValue(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CEditingActionDescGenomeProjectId::GetValue(), CEditingActionDescStructCommDbName::GetValue(), CSeqTableReader::Init(), CPhyloSelectionSet::InitFromUserObject(), CDiscrepancyContext::IsBGPipe(), CIntronGlyph::IsConsensus(), CLocalIDField::IsEmpty(), IsMatchingIdMissing(), CComment_rule::IsValid(), CTableImportColumn::LoadAsn(), CPhyTreeView::OnBioTreeChanged(), SSNP_Info::ParseSeq_feat(), CTabularFormatter_AssemblyInfo::Print(), CRelation::RelationFromUserObject(), CRegistryReadView::ResolveField(), RestoreModelAttributes(), RestoreModelMethod(), s_CheckTraceMateAlign(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_FastaGetOriginalID(), s_FieldHasNonBlankValue(), s_GetAssemblyInfo(), s_GetBoxStyle(), s_GetEncodeValues(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_GetSpliceSite(), s_HasRefSeqPGAPStructuredComment(), s_IsGenomeAnnotationStart(), s_IsGnomonModel(), CMacroFunction_RemoveQual::s_RemoveFields(), s_Render_Feat_Evidence(), s_ScanRecursive(), s_SeqDescCompare(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), sGetMethodFromModelEvidence(), CMacroFunction_ParseToStructComm::TheFunction(), CCSraAlignIterator::x_AddField(), CGuiObjectInfoSeq_align::x_AddUserObject(), x_AlmostEquals(), CGvfWriteRecord::x_AssignAttributeID(), CGvfWriteRecord::x_AssignAttributeParent(), CGvfWriteRecord::x_AssignAttributeVarType(), CBioseqContext::x_CheckForShowComments(), CSNPSearchJob::x_DoSearch(), CBamUIDataSource::x_GetBamInputs(), CDensegGraphicDataSource::x_GetCigarStr(), CBamUIDataSource::x_GetCSraInputs(), CDensegGraphicDataSource::x_GetMismatchStr(), CUser_object::x_GetRefGeneTrackingField(), CModifySeqId::x_GetRemoveOriginalIdCommand(), CBamUIDataSource::x_GetSraAccession(), CBamUIDataSource::x_GetSrzAccession(), CCommonComponentScorer::x_GetUserCompList(), CFeatureItem::x_HasMethodtRNAscanSE(), CValidError_bioseq::x_HasPGAPStructuredComment(), CBioseqIndex::x_InitDescs(), CMiscSeqTable::x_InterpretColumnProperties(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CLDBlockJob::x_LoadFtable(), CSGAnnotJob::x_PercentileButNotMax(), CAlignFilter::x_Query_Op(), CBioseqContext::x_SetAuthorizedAccess(), CBioseqContext::x_SetDataFromUserObjects(), CBioseqContext::x_SetFiletrackURL(), CDeflineGenerator::x_SetFlags(), CAutoDefOptions::x_SetSuppressedFeatures(), CValidError_desc::x_ValidateStructuredCommentSuffix(), CVcfWriter::x_WriteFeatureFilter(), CVcfWriter::x_WriteFeatureInfo(), CGtfWriter::xAssignFeatureMethod(), CSrcWriter::xGetOriginalId(), and CWiggleWriter::xWriteTrackLine().

Get the variant data.

Returns

Reference to the data.

Definition at line 821 of file User_field_.hpp.

Referenced by CollectUserField(), GetDBLinkIDs(), GetFieldValueAsString(), CSettingsSet::GetStringVec(), CDUpdater::reformatBioseq(), s_AddNewDBlinkValue(), s_AddNewUserField(), CCleanup::s_AddNumToUserField(), s_FieldHasNonBlankValue(), s_GatherExistingValues(), CMacroFunction_RemoveQual::s_RemoveFields(), s_ScanRecursive(), s_SetDBLinkFieldVals(), CDBLinkField::SetVal(), CEditingActionDescUserObject::SetValue(), CValidError_desc::ValidateDblink(), CSplitDblinkQuals::x_ConvertStrsToStrs(), CTracebackSearchTestFixture::x_FindUsedGis(), CGenomeProjectItem::x_GatherInfo(), CBioseqContext::x_SetFiletrackURL(), CAutoDefOptions::x_SetSuppressedFeatures(), CVcfWriter::x_WriteFeatureGenotypeData(), CVcfWriter::x_WriteInit(), and CVcfWriter::x_WriteMeta().

Get the Suffix member data.

Returns

Reference to the member data.

Definition at line 657 of file Name_std_.hpp.

References CName_std_Base::CanGetSuffix(), CName_std_Base::m_Suffix, and CSerialObject::ThrowUnassigned().

Referenced by CValidator::BadCharsInAuthor(), CName_std::ExtractSuffixFromLastName(), CPubField::GetAuthorField(), CPerson_id::GetLabel(), CAuthor::GetLabelV2(), CEditingActionDescAuthorSuffix::GetValue(), CFindASN1Dlg::ReplaceInAuthor(), CCleanup::s_CleanupNameStdBC(), CPubField::SetAuthorField(), CContactPanel::TransferDataToWindow(), CSubmitterPanel_Depr::TransferDataToWindow(), CValidError_imp::ValidateAuthorList(), and CStripAuthorSuffix::x_ApplyToCAuth().

Get the Tag member data.

Returns

Reference to the member data.

Definition at line 267 of file Dbtag_.hpp.

References CDbtag_Base::m_Tag, and CDbtag_Base::ResetTag().

Referenced by BOOST_AUTO_TEST_CASE(), CBioseqIndex::CBioseqIndex(), CGeneralToLocalId::CGeneralToLocalId(), CDbtag::Compare(), CSeq_id::ComposeOSLT(), CSeqIdGuesser::CSeqIdGuesser(), CSortableSeq_id::CSortableSeq_id(), CNewCleanup_imp::DbtagBC(), ExtractGnomonModelNum(), CSeq_id_General_Tree::FindInfo(), CSeq_id_General_Tree::FindMatch(), CSeq_id_General_Tree::FindOrCreate(), CFlatSubmitterSeqidQVal::Format(), GetAccessionAndDatabaseSource(), CWholeFileAnnotation::GetAndUseAnnot(), GetCDDPssmIdFromSeqId(), CWriteUtil::GetDbTag(), GetDirectLabel(), CValidErrorFormat::GetFeatureIdLabel(), CWGSDataLoader_Impl::GetFileInfoByGeneral(), variation::GetFocusLocusIDs(), CScoreLookup::GetGeneId(), CCSRABlobId::GetGeneralIdType(), GetGeneralOrLocal(), CAlignFormatUtil::GetGnlID(), CSeqIdGuesser::GetIdStrings(), CSeq_featHandler::GetLabel(), GetLabel(), CDbtag::GetLabel(), CGuiObjectInfoVariant::GetLinks(), GetNewGeneralProtId(), CVDBBlastUtil::GetOIDFromVDBSeqId(), CSeq_id_General_PlainInfo::GetPackedSeqId(), CScope_Impl::GetTaxId(), CScope_Impl::GetTaxIds(), GetTitle(), CGuiObjectInfoVariant::GetToolTip(), CGuiObjectInfoVariation::GetToolTip(), CGeneralIDField::GetVal(), CEditingActionBiosourceDbxref::GetValue(), CEditingActionFeatDbxref::GetValue(), CEditingActionGeneralIdTag::GetValue(), CTraceDataProxy::HasData(), CSGTraceGraphDS::HasData(), CValidator::IsValidDbxref(), CTraceDataProxy::LoadData(), CSGTraceGraphDS::LoadData(), CId1Reader::LoadSeq_idSeq_ids(), CDbtag::Match(), CSeq_id_General_Id_Info::Pack(), CSeq_id_General_Str_Info::Pack(), CSeq_id_General_Str_Info::Parse(), CSeq_id_General_Str_Info::TKey::ParseCaseVariant(), CSeq_id_General_PlainInfo::ParseCaseVariant(), SSNP_Info::ParseSeq_feat(), CTabularFormatter_SeqId::Print(), CFindASN1Dlg::ReplaceInDbxref(), Residue::Residue(), CWGSClient::ResolveGeneral(), s_AddTopLevelGenomicLinks(), s_AssignDbtag(), variation::CVariationUtil::s_AttachGeneIDdbxref(), s_CheckTraceMateAlign(), s_Fingerprint_Dbtag(), s_GeneralTagsMatch(), CMacroFunction_MakeBoldXrefs::s_GetBarcodeId(), s_GetBareId(), s_GetContentLabel(), NSearchFeatPanel::s_GetFeatureLabel(), variation::CVariationUtil::CVariantPropertiesIndex::s_GetGeneID(), s_GetSRASeqMetadata(), s_GetVariationDbtagLabel(), SeqDB_SimplifySeqid(), CStructuredCommentsReader::SeqIdMatchesCommentId(), CSeq_id::Set(), CDbtag::SetAsMatchingTo(), sx_GetReadId(), TestCollidingAccessionFixes(), CValidError_imp::ValidateDbxref(), CValidError_bioseq::ValidateSeqId(), CVDBBlastUtil::VDBIdType(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFeatureItem::x_AddFTableDbxref(), CFeatureItem::x_AddQualProteinId(), CFeatureItem::x_AddQualsVariation(), CWriteDB_IsamIndex::x_AddStringIds(), CWriteDB_IsamIndex::x_AddTraceIds(), x_Assign(), CEditSeqId::x_CollectChangedIds(), CDeltaBlastTestFixture::x_CountNumberUniqueIds(), CSeq_id_Resolver__LRG::x_Create(), CSNPSearchJob::x_DoSearch(), CSeq_id_General_Tree::x_FindInfo(), CCommentItem::x_GatherDescInfo(), CGsdbComment::x_GatherInfo(), CFeatGlyph::x_GetFeatureId(), CSeqDBVol::x_GetHdrAsn1(), x_GetLabel_Content(), CReferenceItem::x_Init(), CGeneModelTrack::x_NeedHighlight(), CId2ReaderBase::x_ProcessGetBlobId(), CId2ReaderBase::x_ProcessGetSeqIdSeqId(), CGeneModelFeatJob::x_ProcessLandMarkFeatures(), CDeflineGenerator::x_SetFlags(), CSeq_id_General_Tree::x_Unindex(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CSeq_id::x_WriteContentAsFasta(), CVcfWriter::x_WriteFeatureId(), CVcfWriter::x_WriteFeatureInfo(), and XISAGappedSeqLoc().

Get the Type member data.

Returns

Reference to the member data.

Definition at line 305 of file User_object_.hpp.

References CUser_object_Base::m_Type, and CUser_object_Base::ResetType().

Referenced by CSeq_feat::AddExt(), CRmvCddFeatDbxref::apply_to(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveGenomeProjectsDB::ApplyToUserObject(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveBankitComment::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CRemoveAllStructuredComment::ApplyToUserObject(), CRemoveEmptyStructuredComment::ApplyToUserObject(), CModifyStructuredComment::ApplyToUserObject(), CBedFeatureRecord::AssignDisplayData(), CGvfWriteRecord::AssignSource(), CGvfWriteRecord::AssignType(), BOOST_AUTO_TEST_CASE(), CFlatFileTextItem::CFlatFileTextItem(), CPrimaryEdit::CPrimaryEdit(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), descr_cmp(), CSubmissionWizard::ExtractDescriptor(), NMacroUtil::FindNcbiAutofixUserObject(), fta_dblink_has_sra(), fta_remove_cleanup_user_object(), fta_tsa_tls_comment_dblink_check(), CDUpdater::GetBlastDefline(), CUser_object::GetCategory(), CCreateSeqHistForTpa::GetCreateSeqHistFromTpaCommand(), CField_type::GetDBLinkFieldFromUserObject(), GetDBLinkIDs(), CWriteUtil::GetDescriptor(), CValidErrorFormat::GetDescriptorContent(), CEditObjectSeq_desc::GetDescriptorType(), CFlatFileViewContext::GetEditObject(), CUser_object::GetExperimentType(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CGenomeAnnotComment::GetGenomeBuildNumber(), CUserFeatHandler::GetLabel(), CStructCommentSubpanel::GetLabelsFromSeq(), CAnnotObject_Info::GetLocsTypes(), CWGSDb::GetMasterDescrType(), CSeq_annot_SplitInfo::GetName(), CUser_object::GetObjectType(), CProductStringBuilder::GetProductString(), CProjectItemExtra::GetStr(), CCommentItem::GetStringForBankIt(), CCommentItem::GetStringForRefSeqGenome(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTPA(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), CSequenceTrack::GetTooltip(), CReadUtil::GetTrackValue(), CWriteUtil::GetUserObjectByType(), CBankITCommentField::GetVals(), CTextView::InitView(), CDiscrepancyContext::IsBGPipe(), CDBLinkField::IsDBLink(), CTable2AsnContext::IsDBLink(), CVariationNormalization::isFullyShifted(), IsGeneOntology(), CGenomeProjectField::IsGenomeProject(), CEditingActionDescGenomeProjectId::IsSetValue(), CEditingActionDescStructCommDbName::IsSetValue(), CComment_rule::IsStructuredComment(), CValidError_align::IsTpaAlignment(), CSeqEntrySource::IsUnverified(), isVarNormType(), isVersionsObject(), MakeCompartments(), CEditingActionDescStructCommFieldName::Modify(), CPhyTreeView::OnSomethingEdited(), SSNP_Info::ParseSeq_feat(), CChangePhyloSelectionSetCmd::PerformEdit(), CTabularFormatter_BestPlacementGroup::Print(), CTabularFormatter_AssemblyInfo::Print(), CRelation::RelationFromUserObject(), CDUpdater::RemoveBlastDefline(), CEditingActionDescGenomeProjectId::ResetValue(), CEditingActionDescStructCommDbName::ResetValue(), RestoreModelAttributes(), RestoreModelMethod(), CDemoApp::Run(), CCleanup::s_CleanupGeneOntology(), s_ExtractBlastDefline(), s_FastaGetOriginalID(), s_FindUserObjectTypeRecursive(), s_GetContentLabel(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_GetUserObjectType(), s_GetUserObjectTypeOrClass(), s_HasTpaUserObject(), s_IdXrefsNotReciprocal(), s_IsGnomonModel(), s_IsGoodDescr(), s_IsModelEvidanceUop(), s_IsReportableStructuredComment(), s_IsTpa(), s_IsUserType(), s_PopulateUserObject(), CMacroFunction_RemoveQual::s_RemoveFields(), s_Render_Feat_Evidence(), CProjectItemExtra::SetStr(), CValidError_imp::Setup(), CEditingActionDescStructCommDbName::SetValue(), CPropagateDescriptors::ShouldStayInPlace(), CValidError_desc::ValidateDblink(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_desc::ValidateUser(), CValidError_bioseq::ValidateWGSMaster(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddQualsExt(), CFeatureItem::x_AddQualsRegion(), CRemoveUnreviewed::x_ApplyToUserObject(), CSubmissionWizard::x_ApplyUserDescriptorToRecord(), CGvfWriteRecord::x_AssignAttributeID(), CGvfWriteRecord::x_AssignAttributeParent(), CGvfWriteRecord::x_AssignAttributesCustom(), CGvfWriteRecord::x_AssignAttributeVarType(), CBioseqContext::x_CheckForShowComments(), CTracebackSearchTestFixture::x_FindUsedGis(), CCommentItem::x_GatherDescInfo(), CGenomeAnnotComment::x_GatherInfo(), CGenomeProjectItem::x_GatherInfo(), CPrimaryItem::x_GatherInfo(), CGenbankGatherer::x_GatherTLS(), CGenbankGatherer::x_GatherTSA(), CCommentItem::x_GatherUserObjInfo(), CGenbankGatherer::x_GatherWGS(), CAlignmentSmear::x_GetAnnotName(), CWriteDB_Impl::x_GetBioseqBinaryHeader(), CWriteDB_Impl::x_GetFastaReaderDeflines(), x_GetMolLocTypeUserObj(), x_GetTentativeName(), CCommonComponentScorer::x_GetUserCompList(), CFeatureItem::x_HasMethodtRNAscanSE(), x_HasTentativeName(), CBioseqIndex::x_InitDescs(), CSplitDblinkQuals::x_IsDblinkObj(), CGenbankFormatter::x_LocusHtmlPrefix(), CAlignFilter::x_Query_Op(), CSequenceUpdater::x_RemoveDescriptorsFromImportedProducts(), CNewCleanup_imp::x_RemoveEmptyUserObject(), CBioseqContext::x_SetAuthorizedAccess(), CBioseqContext::x_SetDataFromUserObjects(), CBioseqContext::x_SetEncode(), CBioseqContext::x_SetFiletrackURL(), CDeflineGenerator::x_SetFlags(), CBioseqContext::x_SetId(), CSeq_annot_Info::x_UpdateName(), CValidError_desc::x_ValidateStructuredComment(), CVcfWriter::x_WriteFeatureFilter(), CVcfWriter::x_WriteFeatureInfo(), CVcfWriter::x_WriteFeatureQual(), CSrcWriter::xGetOriginalId(), and CWiggleWriter::xWriteTrackLine().

Get the Year member data.

Returns

Copy of the member data.

Definition at line 426 of file Date_std_.hpp.

References CDate_std_Base::CanGetYear(), CDate_std_Base::m_Year, and CSerialObject::ThrowUnassigned().

Referenced by AddDay(), AddMonth(), AddYear(), CDate_std::AsCTime(), BOOST_AUTO_TEST_CASE(), CheckCollectionDate(), CDate_std::Compare(), CProceedingsPanel::CreateControls(), CProceedingsChapterPanel::CreateControls(), CPublisherPanel::CreateControls(), get_s_date(), CDate_std::GetDate(), GetDocSumLabel(), GetEmblDate(), fix_pub::PrintPub(), s_CompareDates(), s_FormatCitGen(), s_FormatYear(), CRelaxedLookupDlg::SetPubdesc(), CAddSecondary::TransferDataToWindow(), CProceedingsPanel::TransferDataToWindow(), CProceedingsChapterPanel::TransferDataToWindow(), CPublisherPanel::TransferDataToWindow(), CAuthListValidator::validate(), CValidError_imp::ValidatePubArticleNoPMID(), CId1FetchApp::WriteHistoryTable(), CValidError_imp::x_DowngradeForMissingAffil(), CSeq_id_PDB_Info::x_NormalizeDate(), CMacroFunction_SetPubStatus::x_SetStatus(), and XDateCheck().

Check if variant Bool is selected.

Bool type is defined as 'typedef bool TBool'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 762 of file User_field_.hpp.

Referenced by CSeqUtils::GetAnnotShown(), CUser_object::GetRefGeneTrackingGenerated(), CTableImportDataSource::ImportTableParms(), CPhyloSelectionSet::InitFromUserObject(), CPhyTreeView::InitView(), CVariationNormalization::isFullyShifted(), CTableDelimiterRules::LoadAsn(), CTableImportColumn::LoadAsn(), CPhyTreeView::OnSomethingEdited(), CDemoSeqQaApp::Run(), and s_IsMatchById().

Check if variant Consortium is selected.

Consortium type is defined as 'typedef string TConsortium'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 405 of file Person_id_.hpp.

References CPerson_id_Base::e_Consortium, and CPerson_id_Base::m_choice.

Referenced by fix_pub::ExtractConsortiums(), CPubField::GetAuthorField(), HasAuthor(), CValidError_imp::HasName(), CAuthorNamesPanel::IsAuthorEmpty(), CEditingActionDescAuthorConsortium::IsSetValue(), fix_pub::PrintPub(), CFindASN1Dlg::ReplaceInAuthor(), s_GetAuthorMatchString(), CPubField::SetAuthorField(), CReferenceItem::x_AddAuthors(), CRemoveAuthorConsortium::x_ApplyToCAuth(), and CSrcWriter::xGather().

Check if variant Fields is selected.

Fields type is defined as 'typedef vector< CRef< CUser_field > > TFields'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 895 of file User_field_.hpp.

Referenced by ClearGoTermValue(), CUser_field::DeleteField(), CFlatGoQVal::Format(), CUser_field::GetFieldRef(), CUser_object::GetRefGeneTrackingAssembly(), CUser_object::GetRefGeneTrackingIdenticalTo(), CCommentItem::GetStringForTPA(), CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField(), CCleanup::s_CleanupGeneOntology(), s_CountAccessions(), s_GetAssemblyInfo(), s_GetModelEvidance(), CUser_field::SetFieldRef(), CRegistryFile::SetFieldToValue(), CRegistryWriteView::SetFieldToValue(), SetGoTermValue(), CRefGeneTrackLocListPanel::TransferDataFromWindow(), CFeatureItem::x_AddQualsExt(), CGuiObjectInfoSeq_align::x_AddUserObject(), CRegistryReadView::x_GetKeys(), CAutoDefOptions::x_MakeModifierList(), CSeqTableSetExt::x_SetField(), CAutoDefOptions::x_SetModifierList(), and CGff2Writer::xAssignFeatureAttributesGoMarkup().

Check if variant Id is selected.

Id type is defined as 'typedef int TId'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 264 of file Object_id_.hpp.

References CObject_id_Base::e_Id, and CObject_id_Base::m_choice.

Referenced by CThreeFeatRecord::AddFeature(), AddToFeatureIdColumn(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustSingleFeature(), CApplyFBOL::apply(), CBarcodeTool::ApplyDbxrefs(), CGffRecord::AssignSeqId(), BOOST_AUTO_TEST_CASE(), CBioseqIndex::CBioseqIndex(), CGeneralToLocalId::CGeneralToLocalId(), CLocalToGeneralId::CLocalToGeneralId(), CSeq_id::ComposeOSLT(), CBlobSplitterImpl::CopySkeleton(), CRemoveSeqId::CRemoveSeqId(), CSeqIdGuesser::CSeqIdGuesser(), CSortableSeq_id::CSortableSeq_id(), CSeqDBGiList::FindId(), CSeqDBNegativeList::FindId(), CSeq_id_General_Tree::FindMatch(), CSeq_id_General_Tree::FindOrCreate(), FixFeatureIdsForUpdates(), GetAccessionAndDatabaseSource(), GetCDDPssmIdFromSeqId(), CWriteUtil::GetDbTag(), CUser_field::GetFieldRef(), GetGeneralOrLocal(), CObject_id::GetGi(), CAlignFormatUtil::GetGnlID(), GetIdField(), CSeqIdGuesser::GetIdStrings(), CSeq_featHandler::GetLabel(), CGuiObjectInfoVariant::GetLinks(), CAnnotObject_Info::GetLocsTypes(), CSeq_id_General_PlainInfo::GetPackedSeqId(), CScope_Impl::GetTaxId(), CScope_Impl::GetTaxIds(), CGuiObjectInfoVariant::GetToolTip(), CEditingActionBiosourceDbxref::GetValue(), CEditingActionFeatDbxref::GetValue(), CTraceDataProxy::HasData(), CSGTraceGraphDS::HasData(), CObject_id::IsGi(), IsLocalID(), CValidator::IsValidDbxref(), CFeatComparatorByLabel::Less(), CTraceDataProxy::LoadData(), CSGTraceGraphDS::LoadData(), Make_SeqID_String(), SChildLess::operator()(), CSeq_id_General_PlainInfo::ParseCaseVariant(), CFeaturePropagator::PropagateFeatureList(), RemapOtherProtFeats(), Residue::Residue(), variation::CVariationUtil::s_AttachGeneIDdbxref(), s_FindHighestFeatId(), CCreateGeneModelTask::s_FindHighestFeatId(), s_GeneralTagsMatch(), s_GetAlignmentTooltip(), s_GetBareId(), s_GetFeatureIdLabel(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetUserObjectTypeOrClass(), s_IsRelated(), CFixFeatureId::s_ReassignFeatureIds(), s_UpdateFeatureId(), CIdentifiersPanel::SetIdXrefs(), sFeatureHasXref(), sInheritScores(), CValidError_imp::Validate(), CValidError_imp::ValidateDbxref(), CValidError_desc::ValidateUser(), CFastaOstreamEx::x_AddDbxrefAttribute(), CWriteDB_IsamIndex::x_AddTraceIds(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CEditSeqId::x_CollectChangedIds(), CSeq_id_General_Tree::x_FindInfo(), CVectorScreen::x_FindLocalId(), CCommentItem::x_GatherDescInfo(), CGsdbComment::x_GatherInfo(), CFeatGlyph::x_GetFeatureId(), x_GetLabel_Content(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CMultiAlnPrinter::x_PrintFastaPlusGaps(), CId2ReaderBase::x_ProcessGetBlobId(), CId2ReaderBase::x_ProcessGetSeqIdSeqId(), CGeneModelFeatJob::x_ProcessLandMarkFeatures(), CCleanupHugeAsnReader::x_RecordFeatureId(), CDeflineGenerator::x_SetFlags(), CSeq_id_Local_Tree::x_Unindex(), CSeq_id_General_Tree::x_Unindex(), CVcfWriter::x_WriteFeatureInfo(), and CThreeFeatManager::xFindExistingRecord().

Check if variant Int is selected.

Int type is defined as 'typedef int TInt'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 708 of file User_field_.hpp.

Referenced by CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), BOOST_AUTO_TEST_SUITE_END(), CComment_rule::CheckFieldValue(), CComment_rule::CheckGeneralField(), CFlatModelEvQVal::Format(), CSGUtils::GetFeatFetchDepth(), CSeq_annot_SplitInfo::GetName(), CFlatGoQVal::GetPubmedId(), CBlastQuerySourceBioseqSet::GetSegmentInfo(), CWriteUtil::GetStringForModelEvidence(), CGuiObjectInfoSeq_align::GetToolTip(), CEditingActionDescGenomeProjectId::GetValue(), CTableImportDataSource::ImportTableParms(), CPhyloSelectionSet::InitFromUserObject(), CPhyTreeView::InitView(), CComment_rule::IsValid(), CTableDelimiterRules::LoadAsn(), CTableImportColumn::LoadAsn(), CPhyTreeView::OnSomethingEdited(), CDemoSeqQaApp::Run(), s_CheckTraceMateAlign(), s_GetAssemblyInfo(), s_GetModelEvidance(), s_GetSegmentFlags(), CBedWriter::WriteAnnot(), CGuiObjectInfoSeq_align::x_AddUserObject(), CCommonComponentScorer::x_GetUserCompList(), and CSeq_annot_Info::x_UpdateName().

Check if variant Lim is selected.

Lim type is defined as 'typedef ELim TLim'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 636 of file Int_fuzz_.hpp.

References CInt_fuzz_Base::e_Lim, and CInt_fuzz_Base::m_choice.

Referenced by CConvertGapsBySize::apply(), CCombineAdjacentGaps::apply_impl(), CSeq_loc::ChangeToPackedInt(), CSeq_loc_Conversion::ConvertInterval(), CSeq_loc_Conversion::ConvertPoint(), FixMixLoc(), GetDeltaSeqSummary(), variation::GetFuzzSign(), GetLowHighFromSeqLoc(), CPacked_seqpnt::IsPartialStart(), CSeq_interval::IsPartialStart(), CSeq_point::IsPartialStart(), CPacked_seqpnt::IsPartialStop(), CSeq_interval::IsPartialStop(), CSeq_point::IsPartialStop(), variation::IsPureFuzzPoint(), CPacked_seqpnt::IsTruncatedStart(), CSeq_interval::IsTruncatedStart(), CSeq_point::IsTruncatedStart(), CPacked_seqpnt::IsTruncatedStop(), CSeq_interval::IsTruncatedStop(), CSeq_point::IsTruncatedStop(), SSNP_Info::ParseSeq_feat(), CSeq_loc_Conversion::ReverseFuzz(), s_CheckFuzz(), variation::CHgvsParser::s_IntWithFuzzToStr(), s_IsBetween(), s_PrintLocAsJavascriptArray(), s_RemoveBogusFuzzFromIntervals_Helper(), variation::CHgvsParser::s_SetStartOffset(), variation::CHgvsParser::s_SetStopOffset(), SeqIntPartialCheck(), variation::SwapLtGtFuzz(), CValidError_bioseq::ValidateDelta(), CSeqMap::x_Add(), CFlatSeqLoc::x_Add(), CSGFeatureJob::x_CalcIntervals(), CFeatGlyph::x_DrawFeatureBar(), CFeatGlyph::x_DrawRSites(), CSeq_loc_Mapper_Base::x_FixNonsenseFuzz(), CFlatSeqLoc::x_FuzzToDisplayed(), variation_ref::CHgvsParser::x_general_pos(), CFeatGlyph::x_GetUndefinedBp_from(), CFeatGlyph::x_GetUndefinedBp_to(), variation_ref::CHgvsParser::x_IntWithFuzzToStr(), CSeq_loc_Mapper_Base::x_NextMappingRange(), CValidError_imp::x_ReportInvalidFuzz(), variation_ref::CHgvsParser::x_seq_ref(), and CNewCleanup_imp::x_SeqPointBC().

Check if variant Name is selected.

Name type is defined as 'typedef CName_std TName'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 359 of file Person_id_.hpp.

References CPerson_id_Base::e_Name, and CPerson_id_Base::m_choice.

Referenced by CValidator::BadCharsInAuthor(), fix_pub::ExtractConsortiums(), CReferenceItem::GetAuthNames(), CPubField::GetAuthorField(), pub_report::GetAuthorsFromList(), GetFirstAuthor(), pub_report::GetNameFromStdName(), HasAuthor(), CValidError_imp::HasName(), CAuthorNamesPanel::IsAuthorEmpty(), CEditingActionDescAuthorFirstName::IsSetValue(), CEditingActionDescAuthorLastName::IsSetValue(), CEditingActionDescAuthorSuffix::IsSetValue(), CEditingActionDescAuthorInitials::IsSetValue(), fix_pub::PrintPub(), CFindASN1Dlg::ReplaceInAuthor(), CSubmitterNamePanel::ReportMissingFields(), IAuthorEditor::s_FixInitialsNew(), s_GetAuthorMatchString(), s_GetStringFromAuthor(), CPubField::SetAuthorField(), CEditingActionDescAuthorFirstName::SetValue(), fix_pub::TenAuthorsProcess(), CSubmitterNamePanel::TransferDataFromWindow(), CValidError_imp::ValidateCitSub(), CValidError_imp::ValidateSubmitBlock(), CFixAuthorInitials::x_ApplyToCAuth(), CFixAuthorCap::x_ApplyToCAuth(), CStripAuthorSuffix::x_ApplyToCAuth(), CConvertAllAuthorToConsortium::x_ApplyToCAuth(), CConvertAuthorToConsortiumWhereConstraint::x_ApplyToCAuth(), CMacroFunction_AuthorFix::x_MakeAuthorChanges(), and CSrcWriter::xGather().

Check if variant Oss is selected.

Oss type is defined as 'typedef vector< vector< char >* > TOss'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 875 of file User_field_.hpp.

Check if variant Range is selected.

Range type is defined as 'typedef C_Range TRange'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 603 of file Int_fuzz_.hpp.

References CInt_fuzz_Base::e_Range, and CInt_fuzz_Base::m_choice.

Referenced by variation::ApplyOffsetFuzz(), variation::CHgvsParser::s_IntWithFuzzToStr(), variation_ref::CHgvsParser::x_abs_pos(), variation::CHgvsParser::x_abs_pos(), CFeatGlyph::x_DrawFeatureBar_sv(), CSeq_loc_Mapper_Base::x_FixNonsenseFuzz(), variation::CHgvsParser::x_general_pos(), and variation_ref::CHgvsParser::x_IntWithFuzzToStr().

Check if variant Reals is selected.

Reals type is defined as 'typedef vector< double > TReals'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 855 of file User_field_.hpp.

endeavor which designed this object Check if a value has been assigned to Class data member.

Data member Class is optional; its type is defined as 'typedef string TClass'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 246 of file User_object_.hpp.

References CUser_object_Base::m_set_State.

Referenced by CRemoveDuplicateStructuredComment::ApplyToUserObject(), CUser_object_Base::CanGetClass(), CUser_object::GetCategory(), CValidErrorFormat::GetDescriptorContent(), CUserFeatHandler::GetLabel(), CBankITCommentField::GetVals(), s_GetContentLabel(), s_GetUserObjectTypeOrClass(), CUser_object_Base::SetClass(), and CSequenceUpdater::x_RemoveDescriptorsFromImportedProducts().

Check if a value has been assigned to Data data member.

Data member Data is mandatory; its type is defined as 'typedef C_Data TData'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 1012 of file User_field_.hpp.

References CUser_field_Base::m_Data, and CRef< C, Locker >::NotEmpty().

Referenced by CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), CChangeStructuredCommentKeyword::ApplyToCSeq_entry_user(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CRemoveEmptyStructuredComment::ApplyToUserObject(), ClearGoTermValue(), CTableAnnotDataSource::CreateFeature(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), CTableAnnotDataSource::FindLocations(), fta_get_user_field(), GetDBLinkIDs(), GetHasFrameShift(), GetHasOrderAssignment(), GetLowTrace(), GetPrefixOrSuffixType(), CUser_object::GetRefGeneTrackingAssembly(), CUser_object::GetRefGeneTrackingGenerated(), CUser_object::GetRefGeneTrackingIdenticalTo(), CUser_object::GetRefGeneTrackingStatus(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CReadUtil::GetTrackValue(), CWriteUtil::GetUserObjectByType(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CEditingActionDescGenomeProjectId::GetValue(), CEditingActionDescStructCommDbName::GetValue(), CLocalIDField::IsEmpty(), IsMatchingIdMissing(), CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), CUser_object::CRefGeneTrackingAccession::MakeAccessionFromUserField(), CEditingActionDescUserObject::Modify(), CEditingActionDescLocalId::Modify(), CEditingActionDescComment::Modify(), CReorderStructuredComment::reorder_comment_by_rule(), s_AddNewDBlinkValue(), s_AddNewUserField(), CCleanup::s_AddNumToUserField(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_CountAccessions(), s_FastaGetOriginalID(), s_FieldHasNonBlankValue(), s_GatherExistingValues(), s_GetAssemblyInfo(), s_GetEncodeValues(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_HasRefSeqPGAPStructuredComment(), s_IsGenomeAnnotationStart(), s_IsGnomonModel(), CMacroFunction_RemoveQual::s_RemoveFields(), s_SeqDescCompare(), SetGoTermValue(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CEditingActionDescUserObject::SetValue(), sGetMethodFromModelEvidence(), CMacroFunction_AddDBLink::TheFunction(), CMacroFunction_ParseToStructComm::TheFunction(), CRefGeneTrackLocListPanel::TransferDataFromWindow(), CValidError_desc::ValidateDblink(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddQualsExt(), CGuiObjectInfoSeq_align::x_AddUserObject(), x_AlmostEquals(), CBioseqContext::x_CheckForShowComments(), CCleanup::x_CleanupUserField(), CUser_object::x_GetRefGeneTrackingField(), CModifySeqId::x_GetRemoveOriginalIdCommand(), CMacroFunction_ParsedText::x_GetSpecialField(), CFeatureItem::x_HasMethodtRNAscanSE(), CValidError_bioseq::x_HasPGAPStructuredComment(), CBioseqIndex::x_InitDescs(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CAutoDefOptions::x_MakeModifierList(), CBioseqContext::x_SetDataFromUserObjects(), CDeflineGenerator::x_SetFlags(), CAutoDefOptions::x_SetModifierList(), CAutoDefOptions::x_SetSuppressedFeatures(), CValidError_desc::x_ValidateStructuredCommentSuffix(), CGff2Writer::xAssignFeatureAttributesGoMarkup(), and CSrcWriter::xGetOriginalId().

the object itself Check if a value has been assigned to Data data member.

Data member Data is mandatory; its type is defined as 'typedef vector< CRef< CUser_field > > TData'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 323 of file User_object_.hpp.

References CUser_object_Base::m_set_State.

Referenced by AddGoTermToList(), AddLocalIdUserObjects(), CValidErrorSuppress::AddSuppression(), CChangeStructuredCommentKeyword::ApplyToCSeq_entry_user(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CRemoveEmptyStructuredComment::ApplyToUserObject(), CModifyStructuredComment::ApplyToUserObject(), CComment_rule::CheckGeneralStructuredComment(), CGenericStructuredCommentColumn::ClearInComment(), CDBLinkField::ClearVal(), CGenomeProjectField::ClearVal(), CStructCommFieldValuePair::ClearVal(), CStructCommDBName::ClearVal(), CStructCommFieldName::ClearVal(), CStructuredCommentField::ClearVal(), CountGoTerms(), CSubmissionWizard::ExportTemplate(), fta_dblink_has_sra(), fta_get_dblink_user_object(), fta_get_user_object(), CEditObjectSeq_desc::GetEditCommand(), GetGoTermErrors(), CStructCommentSubpanel::GetLabelsFromSeq(), CBamAlignIterator::GetMatchAlign(), CTableDataValidateParams::GetNamedBoolField(), GetProjectID(), CStructCommentFieldPanel::GetStructCommentFields(), CComment_rule::GetStructuredCommentPrefix(), CGuiObjectInfoSeq_align::GetToolTip(), CReadUtil::GetTrackValue(), CAuthorizedAccessPanel::GetUser_object(), CRefGeneTrackingPanel::GetUser_object(), CGenomeProjectField::GetVal(), CDBLinkField::GetVals(), CStructCommFieldValuePair::GetVals(), CStructCommFieldName::GetVals(), CStructuredCommentField::GetVals(), HasBadGenomeAssemblyName(), HasBadGenomeAssemblyPartial(), HasRepairedIDs(), IsAppropriateRule(), CDBLinkField::IsEmpty(), CGenomeProjectField::IsEmpty(), CStructCommFieldValuePair::IsEmpty(), CStructuredCommentField::IsEmpty(), CEditingActionDescUserObject::Modify(), CEditingActionDescStructCommFieldName::Modify(), CStructuredCommentPanel::OnExport(), CRepeatToFeat::operator()(), RemoveDuplicateGoTerms(), CUser_object::RemoveNamedField(), CComment_rule::ReorderFields(), CCleanup::s_CleanupDBLink(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupStructuredComment(), s_GetMrnaProteinLink(), s_IdXrefsNotReciprocal(), s_IsGenomeAnnotationStart(), s_IsGnomonModel(), CMacroFunction_SetStructCommDb::s_MoveSuffixToTheEnd(), CCleanup::s_RemoveEmptyFields(), CMacroFunction_RemoveQual::s_RemoveFields(), SeqTableFromAssemblyFields(), CTableDataValidateParams::SetNamedBoolField(), CValidErrorSuppress::SetSuppressedCodes(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CGenomeProjectField::SetVal(), CValidError_desc::ValidateDblink(), CValidError_desc::ValidateUser(), CValidError_bioseq::ValidateWGSMaster(), x_AlmostEquals(), CBioseqContext::x_CheckForShowComments(), CTracebackSearchTestFixture::x_FindUsedGis(), CAutoDef::x_GetHumanSTRFeatureClauses(), CAutoDef::x_GetHumanSTRv2FeatureClauses(), CFeatureItem::x_HasMethodtRNAscanSE(), CStructuredCommentField::x_InsertFieldAtCorrectPosition(), CStructCommFieldValuePair::x_InsertFieldAtCorrectPosition(), CAutoDef::x_IsHumanSTR(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CSubmissionWizard::x_MergeDBLink(), CUser_object::x_RemoveUnreviewedType(), CUser_object::x_RemoveUnverifiedType(), CBioseqContext::x_SetDataFromUserObjects(), CDescrModApply::x_SetDBLinkFieldVals(), CValidError_desc::x_ValidateStructuredComment(), and CVcfReader::xAssignVcfMeta().

name of database or system Check if a value has been assigned to Db data member.

Data member Db is mandatory; its type is defined as 'typedef string TDb'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 208 of file Dbtag_.hpp.

References CDbtag_Base::m_set_State.

Referenced by CFeatGapInfo::AdjustProteinSeq(), CDbtag_Base::CanGetDb(), CGeneralToLocalId::CGeneralToLocalId(), CSeqIdGuesser::CSeqIdGuesser(), CFlatSubmitterSeqidQVal::Format(), GetAccessionAndDatabaseSource(), CWholeFileAnnotation::GetAndUseAnnot(), CWriteUtil::GetDbTag(), CValidErrorFormat::GetFeatureIdLabel(), GetGeneralOrLocal(), CSeqIdGuesser::GetIdStrings(), CCommentItem::GetStringForTPA(), CGeneralIDField::GetVal(), CEditingActionBiosourceDbxref::IsSetValue(), CEditingActionFeatDbxref::IsSetValue(), CEditingActionFileId::IsSetValue(), CEditingActionGeneralIdDb::IsSetValue(), CEditingActionGeneralIdTag::IsSetValue(), CValidator::IsValidDbxref(), fix_pub::MergeNonPubmedPubIds(), CFindASN1Dlg::ReplaceInDbxref(), CSeq_id_General_Id_Info::Restore(), CSeq_id_General_Str_Info::Restore(), s_FindSmartSeqId(), CMacroFunction_MakeBoldXrefs::s_GetBarcodeId(), s_IsSkippableDbtag(), s_ShouldUseOriginalID(), s_SkipFeature(), CDbtag_Base::SetDb(), CValidError_imp::ValidateDbxref(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_bioseq::ValidateSeqId(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFeatureItem::x_AddFTableDbxref(), CFeatureItem::x_AddQualsVariation(), CEditSeqId::x_CollectChangedIds(), CRemoveGeneralId::x_CollectChangedIds(), CPrimaryItem::x_GetStrForPrimary(), CFileIDField::x_IsNCBIFILEId(), CCdregionValidator::x_ReportTranslationProblems(), CNewCleanup_imp::x_SplitDbtag(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CVcfWriter::x_WriteFeatureInfo(), and XISAGappedSeqLoc().

Check if a value has been assigned to First data member.

Data member First is optional; its type is defined as 'typedef string TFirst'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 457 of file Name_std_.hpp.

References CName_std_Base::m_set_State.

Referenced by AddContact(), NMacroUtil::ApplyAuthorNames(), NMacroUtil::ApplyFirstName(), NMacroUtil::ApplyMiddleInitial(), CValidator::BadCharsInAuthor(), BOOST_AUTO_TEST_CASE(), CName_std_Base::CanGetFirst(), FixCapitalization(), FixInitials(), GenerateInitials(), get_auth_from_toks(), CPubField::GetAuthorField(), CEditingActionDescAuthorInitials::GetValue(), CAuthorNamesPanel::IsAuthorEmpty(), CEditingActionDescAuthorFirstName::IsSetValue(), MoveMiddleToFirst(), NMacroUtil::RemoveFirstName(), NMacroUtil::RemoveMiddleInitial(), CFindASN1Dlg::ReplaceInAuthor(), CSubmitterNamePanel::ReportMissingFields(), CCleanup::s_CleanupNameStdBC(), CMacroFunction_FixPubCaps::s_FixCapitalizationInAuthor(), CCleanup::s_FixEtAl(), CMacroFunction_AuthorFix::s_FixInitials(), IAuthorEditor::s_FixInitials(), CMacroFunction_AuthorFix::s_MoveMiddleToFirst(), CSingleAuthorPanel::s_ParseInitialsFromName(), CMacroFunction_AuthorFix::s_ReverseAuthorNames(), CMacroFunction_AuthorFix::s_TruncateMiddleInitials(), CPubField::SetAuthorField(), CName_std_Base::SetFirst(), CEditingActionDescAuthorFirstName::SetValue(), CContactPanel::TransferDataToWindow(), CSubmitterPanel_Depr::TransferDataToWindow(), CValidError_imp::ValidateAuthorList(), CValidError_imp::ValidateAuthorsInPubequiv(), CValidError_imp::ValidateBadNameStd(), CValidError_imp::ValidateSubmitBlock(), CMacroFunction_AddPubAuthor::x_AddAuthor(), and CFixAuthorCap::x_ApplyToCAuth().

first + middle initials Check if a value has been assigned to Initials data member.

Data member Initials is optional; its type is defined as 'typedef string TInitials'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 598 of file Name_std_.hpp.

References CName_std_Base::m_set_State.

Referenced by NMacroUtil::ApplyFirstName(), NMacroUtil::ApplyMiddleInitial(), CValidator::BadCharsInAuthor(), BOOST_AUTO_TEST_CASE(), CName_std_Base::CanGetInitials(), FixCapitalization(), FixInitials(), fta_fix_last_initials(), GenerateInitials(), get_auth_from_toks(), CPubField::GetAuthorField(), pub_report::GetAuthorsFromList(), GetFirstAuthor(), pub_report::GetNameFromStdName(), CAuthorNamesPanel::IsAuthorEmpty(), CEditingActionDescAuthorInitials::IsSetValue(), MoveMiddleToFirst(), fix_pub::PrintPub(), NMacroUtil::RemoveFirstName(), NMacroUtil::RemoveMiddleInitial(), CFindASN1Dlg::ReplaceInAuthor(), CCleanup::s_CleanupNameStdBC(), CCleanup::s_ExtractSuffixFromInitials(), CMacroFunction_FixPubCaps::s_FixCapitalizationInAuthor(), CCleanup::s_FixEtAl(), CMacroFunction_AuthorFix::s_FixInitials(), IAuthorEditor::s_FixInitials(), CMacroFunction_AuthorFix::s_MoveMiddleToFirst(), CSingleAuthorPanel::s_ParseInitialsFromName(), CMacroFunction_AuthorFix::s_ReverseAuthorNames(), CMacroFunction_AuthorFix::s_TruncateMiddleInitials(), CPubField::SetAuthorField(), CName_std_Base::SetInitials(), CEditingActionDescAuthorFirstName::SetValue(), fix_pub::TenAuthorsProcess(), CContactPanel::TransferDataToWindow(), CSubmitterPanel_Depr::TransferDataToWindow(), CValidError_imp::ValidateAuthorList(), and CSrcWriter::xGather().

field label Check if a value has been assigned to Label data member.

Data member Label is mandatory; its type is defined as 'typedef CObject_id TLabel'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 935 of file User_field_.hpp.

References CUser_field_Base::m_Label.

Referenced by CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CComment_rule::CheckGeneralField(), CFlatModelEvQVal::Format(), CUser_object::GetCategory(), CUser_object::GetFieldRef(), GetIdField(), GetPrefixOrSuffixType(), CWriteUtil::GetStringForModelEvidence(), CReadUtil::GetTrackValue(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CLocalIDField::IsEmpty(), CGenomeProjectField::IsGenomeProjectID(), IsMatchingIdMissing(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_CountAccessions(), s_FieldHasLabel(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_IsGnomonModel(), s_IsSuppressField(), CMacroFunction_SetStructCommDb::s_MoveSuffixToTheEnd(), s_UserFieldCompare(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddGoQuals(), CFeatureItem::x_AddQualsExt(), CGuiObjectInfoSeq_align::x_AddUserObject(), x_AlmostEquals(), CBioseqContext::x_CheckForShowComments(), CCleanup::x_CleanupUserField(), CTracebackSearchTestFixture::x_FindUsedGis(), CGenomeProjectItem::x_GatherInfo(), CMacroFunction_ParsedText::x_GetSpecialField(), CFeatureItem::x_HasMethodtRNAscanSE(), CBioseqIndex::x_InitDescs(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CBioseqContext::x_SetDataFromUserObjects(), CNullProcess::x_UserFieldCompare(), and CGff2Writer::xAssignFeatureAttributesGoMarkup().

Check if a value has been assigned to Last data member.

Data member Last is mandatory; its type is defined as 'typedef string TLast'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 410 of file Name_std_.hpp.

References CName_std_Base::m_set_State.

Referenced by AddContact(), CValidator::BadCharsInAuthor(), CName_std_Base::CanGetLast(), CName_std::ExtractSuffixFromLastName(), FixCapitalization(), fta_check_long_last_name(), fta_fix_last_initials(), get_auth_from_toks(), get_std_auth(), CPubField::GetAuthorField(), pub_report::GetAuthorsFromList(), GetFirstAuthor(), pub_report::GetNameFromStdName(), CAuthorNamesPanel::IsAuthorEmpty(), CEditingActionDescAuthorLastName::IsSetValue(), SAuthorEmpty::operator()(), fix_pub::PrintPub(), CFindASN1Dlg::ReplaceInAuthor(), CSubmitterNamePanel::ReportMissingFields(), CCleanup::s_CleanupNameStdBC(), CMacroFunction_FixPubCaps::s_FixCapitalizationInAuthor(), CCleanup::s_FixEtAl(), s_GetAuthorMatchString(), s_GetStringFromAuthor(), CMacroFunction_AuthorFix::s_ReverseAuthorNames(), CPubField::SetAuthorField(), CName_std_Base::SetLast(), fix_pub::TenAuthorsProcess(), CSubmitterNamePanel::TransferDataFromWindow(), CContactPanel::TransferDataToWindow(), CSubmitterPanel_Depr::TransferDataToWindow(), CValidError_imp::ValidateAuthorList(), CValidError_imp::ValidateAuthorsInPubequiv(), CValidError_imp::ValidateBadNameStd(), CValidError_imp::ValidateSubmitBlock(), CFixAuthorCap::x_ApplyToCAuth(), CConvertAllAuthorToConsortium::x_ApplyToCAuth(), CConvertAuthorToConsortiumWhereConstraint::x_ApplyToCAuth(), and CSrcWriter::xGather().

Check if a value has been assigned to Max data member.

Data member Max is mandatory; its type is defined as 'typedef TSeqPos TMax'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 453 of file Int_fuzz_.hpp.

References CInt_fuzz_Base::C_Range::m_set_State.

Check if a value has been assigned to Min data member.

Data member Min is mandatory; its type is defined as 'typedef TSeqPos TMin'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 500 of file Int_fuzz_.hpp.

month (1-12) Check if a value has been assigned to Month data member.

Data member Month is optional; its type is defined as 'typedef int TMonth'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 454 of file Date_std_.hpp.

References CDate_std_Base::m_set_State.

Referenced by CDate_std_Base::CanGetMonth(), CCleanup::s_CleanupGenomeAssembly(), s_CompareDates(), s_IsDateEmpty(), pub_report::CPubData::SetDate(), pub_report::CUnpublishedReport::SetDate(), CDate_std_Base::SetMonth(), CAddSecondary::TransferDataToWindow(), CSeq_id_PDB_Info::x_NormalizeDate(), and XDateCheck().

required for strs, ints, reals, oss Check if a value has been assigned to Num data member.

Data member Num is optional; its type is defined as 'typedef int TNum'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 965 of file User_field_.hpp.

References CUser_field_Base::m_set_State.

Referenced by CUser_field_Base::CanGetNum(), CEditingActionDescUserObject::Modify(), SSNP_Info::ParseSeq_feat(), CCleanup::s_AddNumToUserField(), s_GetModelEvidance(), and CUser_field_Base::SetNum().

Jr, Sr, III Check if a value has been assigned to Suffix data member.

Data member Suffix is optional; its type is defined as 'typedef string TSuffix'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 645 of file Name_std_.hpp.

References CName_std_Base::m_set_State.

Referenced by CValidator::BadCharsInAuthor(), CName_std_Base::CanGetSuffix(), CName_std::ExtractSuffixFromLastName(), fta_fix_affil(), get_auth_from_toks(), CPubField::GetAuthorField(), CEditingActionDescAuthorSuffix::IsSetValue(), CFindASN1Dlg::ReplaceInAuthor(), CCleanup::s_CleanupNameStdBC(), CCleanup::s_ExtractSuffixFromInitials(), CPubField::SetAuthorField(), CName_std_Base::SetSuffix(), CContactPanel::TransferDataToWindow(), CSubmitterPanel_Depr::TransferDataToWindow(), CValidError_imp::ValidateAuthorList(), CStripAuthorSuffix::x_ApplyToCAuth(), and CMacroFunction_AuthorFix::x_MakeAuthorChanges().

appropriate tag Check if a value has been assigned to Tag data member.

Data member Tag is mandatory; its type is defined as 'typedef CObject_id TTag'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 255 of file Dbtag_.hpp.

References CDbtag_Base::m_Tag.

Referenced by CBioseqIndex::CBioseqIndex(), CGeneralToLocalId::CGeneralToLocalId(), CLocalToGeneralId::CLocalToGeneralId(), CSeqIdGuesser::CSeqIdGuesser(), CFlatSubmitterSeqidQVal::Format(), GetAccessionAndDatabaseSource(), CWholeFileAnnotation::GetAndUseAnnot(), CWriteUtil::GetDbTag(), CValidErrorFormat::GetFeatureIdLabel(), GetGeneralOrLocal(), CSeqIdGuesser::GetIdStrings(), CGeneralIDField::GetVal(), CEditingActionBiosourceDbxref::IsSetValue(), CEditingActionFeatDbxref::IsSetValue(), CEditingActionGeneralIdTag::IsSetValue(), CValidator::IsValidDbxref(), CFindASN1Dlg::ReplaceInDbxref(), s_GeneralTagsMatch(), CMacroFunction_MakeBoldXrefs::s_GetBarcodeId(), CValidError_imp::ValidateDbxref(), CValidError_bioseq::ValidateSeqId(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFeatureItem::x_AddFTableDbxref(), CFeatureItem::x_AddQualsVariation(), CEditSeqId::x_CollectChangedIds(), CDeltaBlastTestFixture::x_CountNumberUniqueIds(), CGsdbComment::x_GatherInfo(), CReferenceItem::x_Init(), CGeneModelTrack::x_NeedHighlight(), CDeflineGenerator::x_SetFlags(), CNewCleanup_imp::x_SplitDbtag(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CVcfWriter::x_WriteFeatureInfo(), and XISAGappedSeqLoc().

type of object within class Check if a value has been assigned to Type data member.

Data member Type is mandatory; its type is defined as 'typedef CObject_id TType'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 293 of file User_object_.hpp.

References CUser_object_Base::m_Type.

Referenced by CSeq_feat::AddExt(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveGenomeProjectsDB::ApplyToUserObject(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveBankitComment::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CRemoveAllStructuredComment::ApplyToUserObject(), CRemoveEmptyStructuredComment::ApplyToUserObject(), CModifyStructuredComment::ApplyToUserObject(), CBedFeatureRecord::AssignDisplayData(), CGvfWriteRecord::AssignSource(), CGvfWriteRecord::AssignType(), CPrimaryEdit::CPrimaryEdit(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), descr_cmp(), CSubmissionWizard::ExtractDescriptor(), NMacroUtil::FindNcbiAutofixUserObject(), fta_dblink_has_sra(), fta_get_project_user_object(), fta_remove_cleanup_user_object(), fta_tsa_tls_comment_dblink_check(), CCreateSeqHistForTpa::GetCreateSeqHistFromTpaCommand(), GetDBLinkIDs(), CValidErrorFormat::GetDescriptorContent(), CEditObjectSeq_desc::GetDescriptorType(), CGenomeAnnotComment::GetGenomeBuildNumber(), CStructCommentSubpanel::GetLabelsFromSeq(), CUser_object::GetObjectType(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CReadUtil::GetTrackValue(), CWriteUtil::GetUserObjectByType(), CDBLinkField::IsDBLink(), CTable2AsnContext::IsDBLink(), IsGeneOntology(), CGenomeProjectField::IsGenomeProject(), CEditingActionDescGenomeProjectId::IsSetValue(), CEditingActionDescStructCommDbName::IsSetValue(), CComment_rule::IsStructuredComment(), CValidError_align::IsTpaAlignment(), CSeqEntrySource::IsUnverified(), isVersionsObject(), CEditingActionDescStructCommFieldName::Modify(), CPhyTreeView::OnSomethingEdited(), CChangePhyloSelectionSetCmd::PerformEdit(), CEditingActionDescGenomeProjectId::ResetValue(), CEditingActionDescStructCommDbName::ResetValue(), CCleanup::s_CleanupGeneOntology(), s_FastaGetOriginalID(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_IdXrefsNotReciprocal(), s_IsGnomonModel(), s_IsReportableStructuredComment(), s_IsTpa(), s_IsUserType(), s_Render_Feat_Evidence(), CEditingActionDescStructCommDbName::SetValue(), CPropagateDescriptors::ShouldStayInPlace(), CValidError_desc::ValidateDblink(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_bioseq::ValidateSeqDescContext(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddQualsExt(), CFeatureItem::x_AddQualsRegion(), CRemoveUnreviewed::x_ApplyToUserObject(), CSubmissionWizard::x_ApplyUserDescriptorToRecord(), CGvfWriteRecord::x_AssignAttributeID(), CGvfWriteRecord::x_AssignAttributeParent(), CGvfWriteRecord::x_AssignAttributesCustom(), CGvfWriteRecord::x_AssignAttributeVarType(), CBioseqContext::x_CheckForShowComments(), CTracebackSearchTestFixture::x_FindUsedGis(), CGenomeAnnotComment::x_GatherInfo(), CFeatureItem::x_HasMethodtRNAscanSE(), CBioseqIndex::x_InitDescs(), CGenbankFormatter::x_LocusHtmlPrefix(), CSequenceUpdater::x_RemoveDescriptorsFromImportedProducts(), CBioseqContext::x_SetDataFromUserObjects(), CBioseqContext::x_SetEncode(), CValidError_desc::x_ValidateStructuredComment(), CVcfWriter::x_WriteFeatureFilter(), CVcfWriter::x_WriteFeatureInfo(), CVcfWriter::x_WriteFeatureQual(), and CSrcWriter::xGetOriginalId().

full year (including 1900) Check if a value has been assigned to Year data member.

Data member Year is mandatory; its type is defined as 'typedef int TYear'

Returns

• true, if a value has been assigned.
• false, otherwise.

Definition at line 407 of file Date_std_.hpp.

References CDate_std_Base::m_set_State.

Referenced by CDate_std_Base::CanGetYear(), pub_report::CheckDate(), CProceedingsPanel::CreateControls(), CProceedingsChapterPanel::CreateControls(), CPublisherPanel::CreateControls(), GetDateString(), GetDocSumLabel(), fix_pub::PrintPub(), CCleanup::s_CleanupGenomeAssembly(), s_CompareDates(), s_FormatCitGen(), s_FormatYear(), s_IsDateEmpty(), pub_report::CPubData::SetDate(), pub_report::CUnpublishedReport::SetDate(), CRelaxedLookupDlg::SetPubdesc(), CDate_std_Base::SetYear(), CAddSecondary::TransferDataToWindow(), CProceedingsPanel::TransferDataToWindow(), CProceedingsChapterPanel::TransferDataToWindow(), CPublisherPanel::TransferDataToWindow(), CValidError_imp::ValidatePubArticleNoPMID(), CValidError_imp::x_DowngradeForMissingAffil(), and XDateCheck().

Check if variant Std is selected.

Std type is defined as 'typedef CDate_std TStd'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 320 of file Date_.hpp.

References CDate_Base::e_Std, and CDate_Base::m_choice.

Referenced by CheckDate(), pub_report::CheckDate(), pub_report::CollectDataArt(), pub_report::CollectDataGen(), CDate::Compare(), CProceedingsPanel::CreateControls(), CProceedingsChapterPanel::CreateControls(), CPublisherPanel::CreateControls(), GetDateString(), GetDocSumLabel(), ICitationBase::GetParenthesizedYear(), CApplyPubQualTreeItemData::GetVariables(), IsDateInPast(), CSeq_id_PDB_Info::Normalize(), fix_pub::PrintPub(), CCleanup::s_CleanupGenomeAssembly(), s_CompareDates(), s_FormatCitGen(), s_FormatYear(), s_IsDateEmpty(), CRelaxedLookupDlg::SetPubdesc(), pub_report::CSkipPubUnpublishedHook::SkipObject(), CAddSecondary::TransferDataToWindow(), CProceedingsPanel::TransferDataToWindow(), CProceedingsChapterPanel::TransferDataToWindow(), CPublisherPanel::TransferDataToWindow(), CValidError_imp::ValidatePubArticleNoPMID(), CValidError_imp::x_DowngradeForMissingAffil(), CLocusItem::x_GetDateForBioseq(), and CVcfWriter::x_WriteMetaCreateNew().

Check if variant Str is selected.

Str type is defined as 'typedef string TStr'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 300 of file Date_.hpp.

References CDate_Base::e_Str, and CDate_Base::m_choice.

Referenced by CheckDate(), CDate::Compare(), GetDateString(), ICitationBase::GetParenthesizedYear(), s_CompareDates(), s_FormatCitGen(), s_FormatYear(), and CValidError_imp::ValidatePubArticleNoPMID().

Check if variant Str is selected.

Str type is defined as 'typedef string TStr'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 291 of file Object_id_.hpp.

References CObject_id_Base::e_Str, and CObject_id_Base::m_choice.

Referenced by CSeq_feat::AddExt(), CApplyFBOL::apply(), CRmvCddFeatDbxref::apply_to(), CBarcodeTool::ApplyDbxrefs(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveGenomeProjectsDB::ApplyToUserObject(), CRemoveEmptyGenomeProjectsDB::ApplyToUserObject(), CRemoveBankitComment::ApplyToUserObject(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CRemoveAllStructuredComment::ApplyToUserObject(), CRemoveEmptyStructuredComment::ApplyToUserObject(), CModifyStructuredComment::ApplyToUserObject(), CBedFeatureRecord::AssignDisplayData(), CGvfWriteRecord::AssignSource(), CGvfWriteRecord::AssignType(), BOOST_AUTO_TEST_CASE(), CBioseqIndex::CBioseqIndex(), CFlatFileTextItem::CFlatFileTextItem(), CGeneralToLocalId::CGeneralToLocalId(), CComment_rule::CheckGeneralField(), CLocalToGeneralId::CLocalToGeneralId(), CSeq_id::ComposeOSLT(), CPrimaryEdit::CPrimaryEdit(), CRemoveSeqId::CRemoveSeqId(), CNewCleanup_imp::DbtagBC(), CUser_field::DeleteField(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), descr_cmp(), CSeq_align::FindExt(), CSeq_feat::FindExt(), NMacroUtil::FindNcbiAutofixUserObject(), CSeq_id_Local_Tree::FindOrCreate(), CSeq_id_General_Tree::FindOrCreate(), CFlatSubmitterSeqidQVal::Format(), CFlatModelEvQVal::Format(), fta_build_ena_user_object(), fta_dblink_has_sra(), fta_get_project_user_object(), fta_remove_cleanup_user_object(), fta_sort_biosource(), fta_tsa_tls_comment_dblink_check(), GetAccessionAndDatabaseSource(), CWholeFileAnnotation::GetAndUseAnnot(), CDUpdater::GetBlastDefline(), CUser_object::GetCategory(), CCreateSeqHistForTpa::GetCreateSeqHistFromTpaCommand(), CField_type::GetDBLinkFieldFromUserObject(), GetDBLinkIDs(), CWriteUtil::GetDbTag(), CValidErrorFormat::GetDescriptorContent(), CEditObjectSeq_desc::GetDescriptorType(), GetDirectLabel(), CFlatFileViewContext::GetEditObject(), CUser_object::GetExperimentType(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CUser_field::GetFieldRef(), CUser_object::GetFieldRef(), CWGSDataLoader_Impl::GetFileInfoByGeneral(), CCSRABlobId::GetGeneralIdType(), CGenomeAnnotComment::GetGenomeBuildNumber(), CSeq_featHandler::GetLabel(), GetLabel(), CStructCommentSubpanel::GetLabelsFromSeq(), CGuiObjectInfoVariant::GetLinks(), CAnnotObject_Info::GetLocsTypes(), CWGSDb::GetMasterDescrType(), CVDBBlastUtil::GetOIDFromVDBSeqId(), GetPrefixOrSuffixType(), CProductStringBuilder::GetProductString(), CReadSharedObjectIdHookBase::GetSharedObject_id(), CCommentItem::GetStringForBankIt(), CWriteUtil::GetStringForModelEvidence(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTPA(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), GetTitle(), CSequenceTrack::GetTooltip(), CGuiObjectInfoVariant::GetToolTip(), CReadUtil::GetTrackValue(), CWriteUtil::GetUserObjectByType(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CEditingActionBiosourceDbxref::GetValue(), CEditingActionFeatDbxref::GetValue(), CTextView::InitView(), IsConsensus(), CDBLinkField::IsDBLink(), CTable2AsnContext::IsDBLink(), CLocalIDField::IsEmpty(), CVariationNormalization::isFullyShifted(), IsGeneOntology(), CGenomeProjectField::IsGenomeProject(), CGenomeProjectField::IsGenomeProjectID(), IsLocalID(), IsMatchingIdMissing(), CEditingActionDescGenomeProjectId::IsSetValue(), CEditingActionDescStructCommDbName::IsSetValue(), CComment_rule::IsStructuredComment(), CValidError_align::IsTpaAlignment(), CSeqEntrySource::IsUnverified(), CValidator::IsValidDbxref(), isVarNormType(), isVersionsObject(), CFeatComparatorByLabel::Less(), CLoadStructComments::LoadWithAccessions(), Make_SeqID_String(), MakeCompartments(), CEditingActionDescUserObject::Modify(), CEditingActionDescStructCommFieldName::Modify(), CEditingActionDescLocalId::Modify(), CEditingActionDescComment::Modify(), OjectIdsAreEqual(), CSeqIdValidate::operator()(), SChildLess::operator()(), CSeq_id_Local_Info::ParseCaseVariant(), CTabularFormatter_BestPlacementGroup::Print(), CTabularFormatter_AssemblyInfo::Print(), CDUpdater::RemoveBlastDefline(), CSeq_feat::RemoveExt(), CFindASN1Dlg::ReplaceInDbxref(), CFindASN1Dlg::ReplaceInSubmit(), CEditingActionDescGenomeProjectId::ResetValue(), CEditingActionDescStructCommDbName::ResetValue(), CWGSClient::ResolveGeneral(), CSeq_id_General_Str_Info::Restore(), CDemoApp::Run(), s_AssignObject_id(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_CountAccessions(), s_ExtractBlastDefline(), s_FastaGetOriginalID(), s_FieldHasLabel(), s_FindLocalId(), s_GeneralTagsMatch(), s_GetAssemblyInfo(), s_GetBareId(), s_GetContentLabel(), s_GetFeatureIdLabel(), s_GetIdLabel(), s_GetLabel(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_GetSRASeqMetadata(), s_GetUserObjectContent(), s_GetUserObjectType(), s_GetUserObjectTypeOrClass(), s_HasTpaUserObject(), s_IdXrefsNotReciprocal(), s_IsGnomonModel(), s_IsModelEvidanceUop(), s_IsReportableStructuredComment(), s_IsSuppressField(), s_IsTpa(), s_IsUserType(), CMacroFunction_SetStructCommDb::s_MoveSuffixToTheEnd(), s_PopulateUserObject(), CMacroFunction_RemoveQual::s_RemoveFields(), s_Render_Feat_Evidence(), s_ReplaceLocalId(), SeqDB_SimplifySeqid(), CNewCleanup_imp::SeqIdBC(), SeqIdMatchesMaster(), CSeq_id::Set(), CUser_object::SetFieldRef(), CIdentifiersPanel::SetIdXrefs(), CGffAlignmentRecord::SetScore(), CGffBaseRecord::SetScore(), CValidError_imp::Setup(), CEditingActionDescStructCommDbName::SetValue(), sFeatureHasXref(), sGetFeatMapKey(), CPropagateDescriptors::ShouldStayInPlace(), sInheritScores(), sPrepareSeqAlign(), sx_MakeUniqueId(), CMacroFunction_AddDBLink::TheFunction(), CMacroFunction_ParseToStructComm::TheFunction(), CSequencingTechnologyPanel::TransferDataToWindow(), CStructuredCommentPanel::TransferDataToWindow(), CValidError_desc::ValidateDblink(), CValidError_imp::ValidateDbxref(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_annot::ValidateSeqAnnot(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_bioseq::ValidateSeqId(), CValidError_desc::ValidateUser(), CValidError_bioseq::ValidateWGSMaster(), CVDBBlastUtil::VDBIdType(), CFeatureItem::x_AddFTableExtQuals(), CFeatureItem::x_AddGoQuals(), CWriteDB_IsamIndex::x_AddLocal(), CFeatureTableReader_Imp::x_AddQualifierToImp(), CFeatureItem::x_AddQualsExt(), CFeatureItem::x_AddQualsRegion(), CFeatureItem::x_AddQualsVariation(), CWriteDB_IsamIndex::x_AddStringIds(), CGuiObjectInfoSeq_align::x_AddUserObject(), CAlnTableDS::x_AdjustColumns(), x_AlmostEquals(), CRemoveUnreviewed::x_ApplyToUserObject(), CGvfWriteRecord::x_AssignAttributeID(), CGvfWriteRecord::x_AssignAttributeParent(), CGvfWriteRecord::x_AssignAttributesCustom(), CGvfWriteRecord::x_AssignAttributeVarType(), CBioseqContext::x_CheckForShowComments(), CCleanup::x_CleanupUserField(), CEditSeqId::x_CollectChangedIds(), CSeq_id_Resolver__LRG::x_Create(), CSeq_id_General_Tree::x_FindInfo(), CSeq_id_Local_Tree::x_FindInfo(), CVectorScreen::x_FindLocalId(), CTracebackSearchTestFixture::x_FindUsedGis(), CGencollIdMapper::x_FixImperfectId(), CDBSourceItem::x_FormatDBSourceID(), CCommentItem::x_GatherDescInfo(), CGenomeAnnotComment::x_GatherInfo(), CGenomeProjectItem::x_GatherInfo(), CPrimaryItem::x_GatherInfo(), CGenbankGatherer::x_GatherTLS(), CGenbankGatherer::x_GatherTSA(), CGenbankGatherer::x_GatherWGS(), CWriteDB_Impl::x_GetBioseqBinaryHeader(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CFeatGlyph::x_GetFeatureId(), x_GetLabel_Content(), x_GetMolLocTypeUserObj(), CModifySeqId::x_GetRemoveOriginalIdCommand(), CMacroFunction_ParsedText::x_GetSpecialField(), CCommonComponentScorer::x_GetUserCompList(), CViewGraphic::x_GetViewSettingsFromParams(), CFeatureItem::x_HasMethodtRNAscanSE(), CReferenceItem::x_Init(), CBioseqIndex::x_InitDescs(), CSplitDblinkQuals::x_IsDblinkObj(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CGenbankFormatter::x_LocusHtmlPrefix(), CId2ReaderBase::x_ProcessGetSeqIdSeqId(), CAlignFilter::x_Query_Op(), CSequenceUpdater::x_RemoveDescriptorsFromImportedProducts(), CBioseqContext::x_SetDataFromUserObjects(), CBioseqContext::x_SetEncode(), CDeflineGenerator::x_SetFlags(), CBioseqContext::x_SetId(), CSeq_id_Local_Tree::x_Unindex(), CSeq_id_General_Tree::x_Unindex(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CValidError_desc::x_ValidateStructuredComment(), CVcfWriter::x_WriteFeatureFilter(), CVcfWriter::x_WriteFeatureId(), CVcfWriter::x_WriteFeatureInfo(), CVcfWriter::x_WriteFeatureQual(), CGff3FlybaseWriter::xAssignAlignmentDensegScores(), CGff3FlybaseWriter::xAssignAlignmentSplicedScores(), CGff2Writer::xAssignFeatureAttributesGoMarkup(), CSrcWriter::xGetOriginalId(), CFeatTableEdit::xRenameFeatureId(), CWiggleWriter::xWriteSingleGraphFixedStep(), and CWiggleWriter::xWriteTrackLine().

Check if variant Str is selected.

Str type is defined as 'typedef CStringUTF8 TStr'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 688 of file User_field_.hpp.

Referenced by CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), CChangeStructuredCommentKeyword::ApplyToCSeq_entry_user(), CReorderStructuredComment::ApplyToCSeq_entry_user(), CRemoveDuplicateStructuredComment::ApplyToUserObject(), CComment_rule::CheckFieldValue(), CComment_rule::CheckGeneralField(), CTableAnnotDataSource::CreateFeature(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CSequenceEditingEventHandler::DeleteSpecificStructuredComment(), CTableAnnotDataSource::FindLocations(), CFlatModelEvQVal::Format(), CRegistryFile::FromConfigFile(), CBioseq_Info::GetFeatureFetchPolicy(), GetFieldValueAsString(), CGenomeAnnotComment::GetGenomeBuildNumber(), GetHasFrameShift(), GetHasOrderAssignment(), GetLowTrace(), GetPrefixOrSuffixType(), CProductStringBuilder::GetProductString(), CUser_object::GetRefGeneTrackingStatus(), CCommentItem::GetRefTrackStatus(), CSGSeqGraphJob::GetSeqtableAnnots(), CCommentItem::GetStringForBankIt(), CCommentItem::GetStringForRefTrack(), CCommentItem::GetStringForTLS(), CCommentItem::GetStringForTSA(), CCommentItem::GetStringForWGS(), CFlatGoQVal::GetTextString(), CSequenceTrack::GetTooltip(), CGuiObjectInfoSeq_align::GetToolTip(), CGuiObjectInfoVariation::GetToolTip(), CReadUtil::GetTrackValue(), CBankITCommentField::GetVals(), CLocalIDField::GetVals(), CEditingActionDescGenomeProjectId::GetValue(), CEditingActionDescStructCommDbName::GetValue(), CSeqTableReader::Init(), CPhyloSelectionSet::InitFromUserObject(), CIntronGlyph::IsConsensus(), CLocalIDField::IsEmpty(), IsMatchingIdMissing(), CComment_rule::IsValid(), CTableImportColumn::LoadAsn(), CTestApplication::LoadTable(), CPhyTreeView::OnBioTreeChanged(), CPhyTreeView::OnSomethingEdited(), SSNP_Info::ParseSeq_feat(), CRegistryReadView::ResolveField(), RestoreModelAttributes(), s_CheckTraceMateAlign(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), s_FastaGetOriginalID(), s_FieldHasNonBlankValue(), s_GetAssemblyInfo(), s_GetEncodeValues(), s_GetModelEvidance(), s_GetMrnaProteinLink(), s_GetOriginalID(), s_GetSpliceSite(), s_HasRefSeqPGAPStructuredComment(), s_IsGenomeAnnotationStart(), s_IsGnomonModel(), CMacroFunction_RemoveQual::s_RemoveFields(), s_SeqDescCompare(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), sGetMethodFromModelEvidence(), CMacroFunction_ParseToStructComm::TheFunction(), CGuiObjectInfoSeq_align::x_AddUserObject(), x_AlmostEquals(), CBioseqContext::x_CheckForShowComments(), CSNPSearchJob::x_DoSearch(), CDensegGraphicDataSource::x_GetCigarStr(), CDensegGraphicDataSource::x_GetMismatchStr(), CUser_object::x_GetRefGeneTrackingField(), CModifySeqId::x_GetRemoveOriginalIdCommand(), CMacroFunction_ParsedText::x_GetSpecialField(), CCommonComponentScorer::x_GetUserCompList(), CFeatureItem::x_HasMethodtRNAscanSE(), CValidError_bioseq::x_HasPGAPStructuredComment(), CBioseqIndex::x_InitDescs(), CUser_object::x_IsUnreviewedType(), CUser_object::x_IsUnverifiedType(), CSGAnnotJob::x_PercentileButNotMax(), CBioseqContext::x_SetDataFromUserObjects(), CDeflineGenerator::x_SetFlags(), CAutoDefOptions::x_SetSuppressedFeatures(), CValidError_desc::x_ValidateStructuredCommentSuffix(), and CSrcWriter::xGetOriginalId().

Check if variant Strs is selected.

Strs type is defined as 'typedef vector< CStringUTF8 > TStrs'.

Returns

• true, if the variant is selected.
• false, otherwise.

Definition at line 815 of file User_field_.hpp.

Referenced by GetDBLinkIDs(), GetFieldValueAsString(), s_AddNewDBlinkValue(), s_AddNewUserField(), s_FieldHasNonBlankValue(), s_GatherExistingValues(), CMacroFunction_RemoveQual::s_RemoveFields(), CDBLinkField::SetVal(), CEditingActionDescUserObject::SetValue(), CMacroFunction_AddDBLink::TheFunction(), CValidError_desc::ValidateDblink(), and CAutoDefOptions::x_SetSuppressedFeatures().

Reset Data data member.

Definition at line 72 of file User_object_.cpp.

References CUser_object_Base::m_Data, and CUser_object_Base::m_set_State.

Referenced by CModifyStructuredComment::ApplyToUserObject(), BOOST_AUTO_TEST_CASE(), CDBLinkField::ClearVal(), CGenomeProjectField::ClearVal(), CStructCommFieldValuePair::ClearVal(), CStructCommDBName::ClearVal(), CStructCommFieldName::ClearVal(), CStructuredCommentField::ClearVal(), CReorderStructuredComment::reorder_comment_by_rule(), CUser_object_Base::Reset(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CUser_object::x_RemoveUnreviewedType(), and CUser_object::x_RemoveUnverifiedType().

Reset the selection (set it to e_not_set).

Definition at line 58 of file Person_id_.cpp.

References CPerson_id_Base::e_Consortium, CPerson_id_Base::e_Dbtag, CPerson_id_Base::e_Ml, CPerson_id_Base::e_Name, CPerson_id_Base::e_not_set, CPerson_id_Base::e_Str, CPerson_id_Base::m_choice, CPerson_id_Base::m_object, and CPerson_id_Base::m_string.

Referenced by CPerson_id_Base::Reset(), CPerson_id_Base::SetDbtag(), and CPerson_id_Base::SetName().

Select the requested variant if needed, allocating CObject variants from memory pool.

Select the requested variant if needed, allocating CObject variants from memory pool.

Select the requested variant if needed, allocating CObject variants from memory pool.

Select the requested variant if needed, allocating CObject variants from memory pool.

Select the requested variant if needed, allocating CObject variants from memory pool.

Select the requested variant if needed.

Parameters

index New selection state. reset Flag that defines the resetting of the variant data. The data will be reset if either the current selection differs from the new one, or the flag is set to eDoResetVariant.

Referenced by CDate_Base::SetStd(), and CDate_Base::SetStr().

Select the requested variant if needed.

Parameters

index New selection state. reset Flag that defines the resetting of the variant data. The data will be reset if either the current selection differs from the new one, or the flag is set to eDoResetVariant.

Referenced by CObject_id_Base::SetId(), and CObject_id_Base::SetStr().

Select the requested variant if needed.

Parameters

index New selection state. reset Flag that defines the resetting of the variant data. The data will be reset if either the current selection differs from the new one, or the flag is set to eDoResetVariant.

Retrieve selection name (for diagnostic purposes).

Parameters

index One of possible selection states.

Returns

Name string.

Definition at line 93 of file Date_.cpp.

References CDate_Base::sm_SelectionNames.

Retrieve selection name (for diagnostic purposes).

Parameters

index One of possible selection states.

Returns

Name string.

Definition at line 160 of file User_field_.cpp.

Assign a value to Data data member.

Parameters

value Reference to value.

Definition at line 258 of file User_field_.cpp.

References CUser_field_Base::m_Data, CRef< C, Locker >::Reset(), and rapidjson::value.

Referenced by AddAssemblyUserFieldsFromSeqTable(), CReadUtil::AddGeneOntologyTerm(), AddGoTermEvidence(), AddGoTermToList(), AddStrsField(), CValidErrorSuppress::AddSuppression(), CGenericStructuredCommentColumn::AddToComment(), AddTpaAssemblyUserObject(), CScoreBuilder::AddTracebacks(), CTable2AsnContext::AddUserTrack(), CSetGlobalRefGeneStatus::ApplyToCSeq_entry(), CSplignFormatter::AsSeqAlignSet(), variation_ref::AttachAssertedSequence(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), ClearGoTermValue(), NSNPVariationHelper::ConvertFeat(), CAnnotationASN1::CImplementationData::create_ModelEvidence_user_object(), CTableAnnotDataSource::CreateFeature(), CTableImportDataSource::ExportTableParms(), CRegistryFile::FromConfigFile(), fta_build_structured_comment(), fta_create_far_fetch_policy_user_object(), fta_create_user_field(), fta_get_dblink_user_object(), fta_get_mga_user_object(), fta_get_project_user_object(), fta_get_user_field(), CBamAlignIterator::GetMatchAlign(), CCSraAlignIterator::GetMatchAlign(), CSequesterSets::GetParams(), GetParams(), CSNPDbFeatIterator::GetSeq_feat(), CAuthorizedAccessPanel::GetUser_object(), CRefGeneTrackingPanel::GetUser_object(), CUser_object::CRefGeneTrackingAccession::MakeAccessionField(), CWig2tableApplication::MakeAnnot(), MakeOriginalIdField(), CBam2Seq_graph::MakeSeq_annot(), MakeStructuredCommentField(), MakeTableMetaInfoField(), CStructuredCommentField::MakeUserObject(), CEditingActionDescUserObject::Modify(), CEditingActionDescLocalId::Modify(), CEditingActionDescComment::Modify(), CSubPrep_panel::OnFlatfileClick(), CPhyTreeView::OnSomethingEdited(), CTextViewProjectItemExtension::ProjectItemAttached(), CRegistryReadView::ResolveField(), CDemoContigAssemblyApp::Run(), s_AddNewDBlinkValue(), s_AddNewUserField(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), CSingleAssemblyTrackingPanel::s_CreateTPAAssemblyField(), s_PackAsUserField(), s_SetDBLinkFieldVals(), s_SetPrimitiveData(), CTableImportColumn::SaveAsn(), CBLASTToolManager::SaveSettings(), CTreeLabel::SaveToUserObject(), CGBProjectHandle::SaveViewSettings(), CRegistryWriteView::Set(), CGuiRegistry::Set(), CSeqTableSetExt::SetBytes(), CSageData::SetCount(), CUser_object::SetFileTrackURL(), SetGoTermValue(), CSeqTableSetExt::SetInt(), CSeqTableSetExt::SetInt8(), CWndLayoutReg::SetLayout(), CSageData::SetMethod(), CSeqTableSetAnyObjField::SetObjectField(), CSeqTableSetExt::SetReal(), CUser_object::SetRefGeneTrackingAssembly(), CUser_object::SetRefGeneTrackingIdenticalTo(), CSeqTableSetExt::SetString(), CSageData::SetTag(), CGenomeProjectField::SetVal(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CEditingActionDescUserObject::SetValue(), CMacroFunction_AddDBLink::TheFunction(), CMacroFunction_ParseToStructComm::TheFunction(), CRefGeneTrackLocListPanel::TransferDataFromWindow(), CSequencingTechnologyPanel::TransferDataFromWindow(), CSingleRefGeneTrackLocPanel::TransferDataFromWindow(), CUserFieldStringListValidator::TransferFromWindow(), CUser_object::UpdateNcbiCleanup(), CCSraAlignIterator::x_AddField(), CSourceModParser::x_ApplyGenomeProjectsDBMods(), CSourceModParser::x_ApplyTPAMods(), CCleanup::x_CleanupUserField(), CSplitDblinkQuals::x_ConvertStrToStrs(), CTableViewWithTextViewNav::x_CreateDefaultTextView(), CSeqDBVol::x_GetAsnDefline(), CAutoDefOptions::x_MakeBooleanField(), CAutoDefOptions::x_MakeCustomFeatureClause(), CAutoDefOptions::x_MakeMaxMods(), CAutoDefOptions::x_MakeModifierList(), CAutoDefOptions::x_MakeSuppressedFeatures(), CAutoDefOptions::x_MakeTargetedLocusName(), CURLTooltipHandler::x_ParseGenomicLinkHref(), CFeaturePanel::x_SaveSettings(), CDescrModApply::x_SetDBLinkFieldVals(), CSeqTableSetExt::x_SetField(), and SSNP_Info::x_UpdateSeq_featData().

Assign a value to Data data member.

Returns

Reference to the data value.

Definition at line 341 of file User_object_.hpp.

References CUser_object_Base::m_Data, and CUser_object_Base::m_set_State.

Referenced by AddAssemblyUserFieldsFromSeqTable(), CUser_object::AddField(), AddLocalIdUserObjects(), AddStrsField(), CValidErrorSuppress::AddSuppression(), AddTpaAssemblyUserObject(), CModifyStructuredComment::ApplyToUserObject(), CSplignFormatter::AsSeqAlignSet(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), CGenericStructuredCommentColumn::ClearInComment(), CDBLinkField::ClearVal(), CGenomeProjectField::ClearVal(), CStructCommFieldValuePair::ClearVal(), CStructCommDBName::ClearVal(), CStructCommFieldName::ClearVal(), CStructuredCommentField::ClearVal(), CAnnotationASN1::CImplementationData::create_ModelEvidence_user_object(), CTableAnnotDataSource::CreateFeature(), CTableImportDataSource::ExportTableParms(), CBedAnnotAssembler::FinalizeAnnot(), fta_build_ena_user_object(), fta_build_structured_comment(), fta_create_far_fetch_policy_user_object(), fta_get_dblink_user_object(), fta_get_mga_user_object(), fta_get_project_user_object(), fta_get_str_user_field(), fta_get_user_field(), CAutoAddDBLink::Get(), CBamAlignIterator::GetMatchAlign(), CCSraAlignIterator::GetMatchAlign(), CSequesterSets::GetParams(), GetParams(), CSNPDbFeatIterator::GetSeq_feat(), CAuthorizedAccessPanel::GetUser_object(), CRefGeneTrackingPanel::GetUser_object(), CMultiReader::LoadTemplate(), CWig2tableApplication::MakeAnnot(), NMacroUtil::MakeNcbiAutofixUserObject(), CAutoDefOptions::MakeUserObject(), CStructuredCommentField::MakeUserObject(), CEditingActionDescUserObject::Modify(), CEditingActionDescStructCommFieldName::Modify(), CSubPrep_panel::OnFlatfileClick(), PackAsUserObject(), CUserFieldListPanel::PopulateFields(), CTextViewProjectItemExtension::ProjectItemAttached(), RemoveDuplicateGoTerms(), CSeq_feat::RemoveExt(), CUser_object::RemoveNamedField(), CTableAnnotDataSource::RemoveSeqLocs(), CReorderStructuredComment::reorder_comment_by_rule(), CComment_rule::ReorderFields(), s_AddNewUserField(), CCleanup::s_CleanupDBLink(), CCleanup::s_CleanupGeneOntology(), CCleanup::s_CleanupGenomeAssembly(), CCleanup::s_CleanupStructuredComment(), CMacroFunction_SetStructCommDb::s_MoveSuffixToTheEnd(), s_PopulateUserObject(), CCleanup::s_RemoveEmptyFields(), s_SetFieldAt(), CPhyloSelectionSetMgr::SaveToUserObject(), CUser_object::SetFieldRef(), CTableDataValidateParams::SetNamedBoolField(), CProjectItemExtra::SetStr(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CGenomeProjectField::SetVal(), sx_GetSecondaryIndicator(), CTrackData::WriteToAnnot(), CCSraAlignIterator::x_AddField(), CTableViewWithTextViewNav::x_CreateDefaultTextView(), SSNP_Info::x_CreateSeq_feat(), CSeqDBVol::x_GetAsnDefline(), CCSraAlignIterator::x_GetSecondaryIndicator(), CStructuredCommentField::x_InsertFieldAtCorrectPosition(), CStructCommFieldValuePair::x_InsertFieldAtCorrectPosition(), x_MakeDefaultTextOptions(), CAutoDefOptions::x_MakeModifierList(), CAutoDefOptions::x_MakeSuppressedFeatures(), CSubmissionWizard::x_MergeDBLink(), CURLTooltipHandler::x_ParseGenomicLinkHref(), CUser_object::x_RemoveUnreviewedType(), CUser_object::x_RemoveUnverifiedType(), CDescrModApply::x_SetDBLinkFieldVals(), SSNP_Info::x_UpdateSeq_featData(), and CVcfReader::xProcessFormat().

Assign a value to Day data member.

Parameters

Definition at line 529 of file Date_std_.hpp.

References CDate_std_Base::m_Day, CDate_std_Base::m_set_State, and rapidjson::value.

Referenced by BOOST_AUTO_TEST_CASE(), CSubSource::DateFromCollectionDate(), get_lanl_date(), CSubSource::GetDateFromISODate(), GetEmblDate(), CSeq_id_PDB_Info::GetPackedSeqId(), MakeBadSeasonDate(), s_GetDateFromArticleDate(), s_GetDateFromPubDate(), and s_GetDateFromPubMedPubDate().

Assign a value to Db data member.

Parameters

Definition at line 229 of file Dbtag_.hpp.

References CDbtag_Base::m_Db, CDbtag_Base::m_set_State, and rapidjson::value.

Referenced by CSeq_feat::AddDbxref(), Sequence::AddMMDBAnnotTag(), CSrcTableDbxrefColumn::AddToBioSource(), CApplyFBOL::apply(), CBarcodeTool::ApplyDbxrefs(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildGoodSegSet(), CLocalToGeneralId::CLocalToGeneralId(), CConvertImpToProt::Convert(), CNewCleanup_imp::DbtagBC(), CSeq_id_General_Tree::FindMatch(), CNewCleanup_imp::GBQualSeqFeatBC(), CWGSDb_Impl::GetGeneralSeq_id(), GetNewGeneralProtId(), CSeq_id_General_PlainInfo::GetPackedSeqId(), GetProtRefSeqId(), CIdHandler::GnomonMRNA(), CIdHandler::GnomonProtein(), CCSraDb_Impl::MakeShortReadId(), PssmMaker::modifyQuery(), CNewCleanup_imp::MoveDbxrefs(), CProcessor_ExtAnnot::Process(), CDUpdater::reformatBioseq(), CFindASN1Dlg::ReplaceInDbxref(), CSeq_id_General_Id_Info::Restore(), CSeq_id_General_Str_Info::Restore(), CAgpconvertApplication::Run(), s_AddGeneralAndLocal(), s_AssignDbtag(), variation::CVariationUtil::s_AttachGeneIDdbxref(), s_GetArticleIdSet(), CMacroFunction_MakeBoldXrefs::s_MakeBarcodeDbXref(), s_NewDbtagId(), s_ProcessOrgRefMapLine(), CSeq_id::Set(), SetDbxref(), CSeqTableSetDbxref::SetInt(), CSeqTableSetDbxref::SetInt8(), CTaxon2_data::SetProperty(), CSeqTableSetDbxref::SetString(), COrg_ref::SetTaxId(), CEditingActionBiosourceDbxref::SetValue(), CEditingActionFeatDbxref::SetValue(), StrToSeqId(), TestTrimForFrame(), TryOneCDSCase(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureGenerator::SImplementation::x_AddSelectMarkup(), CSourceModParser::x_ApplyMods(), x_Assign(), CEditSeqId::x_CollectChangedIds(), SSNP_Info::x_CreateSeq_feat(), CWriteDB_Impl::x_ExtractDeflines(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CSeqDBVol::x_GetTaxonomy(), CGff2Reader::x_ParseDbtag(), SSNP_Info::x_UpdateSeq_featData(), CVcfReader::xAssignVariantProps(), and CGff3ImportData::xInitializeDbxref().