Code generated by DATATOOL from 'seqfeat.asn' (module 'NCBI-Seqfeat')

Collaboration diagram for Code generated by DATATOOL from 'seqfeat.asn' (module 'NCBI-Seqfeat'):

Classes
class	CCdregion
	CCdregion –. More...
class	CCdregion_Base
	*** CdRegion *********************************************** * * Instructions to translate from a nucleic acid to a peptide * conflict means it's supposed to translate but doesn't * More...
class	CClone_ref
	CClone_ref –. More...
class	CClone_ref_Base
	*** Clone-ref *********************************************** * * Specification of clone features * More...
class	CClone_seq
	CClone_seq –. More...
class	CClone_seq_Base
	CClone_seq_Base –. More...
class	CClone_seq_set
	CClone_seq_set –. More...
class	CClone_seq_set_Base
	CClone_seq_set_Base –. More...
class	CCode_break
	CCode_break –. More...
class	CCode_break_Base
	specific codon exceptions NCBIstdaa code More...
class	CCode_break_Base::C_Aa
	the amino acid More...
class	CEvidenceBasis
	CEvidenceBasis –. More...
class	CEvidenceBasis_Base
	CEvidenceBasis_Base –. More...
class	CExperimentSupport
	CExperimentSupport –. More...
class	CExperimentSupport_Base
	CExperimentSupport_Base –. More...
class	CFeat_id
	CFeat_id –. More...
class	CFeat_id_Base
	*** Feature identifiers ******************************** * More...
class	CGb_qual_Base
	CGb_qual_Base –. More...
class	CGenetic_code_Base
	each code is 64 cells long, in the order where T=0,C=1,A=2,G=3, TTT=0, TTC=1, TCA=4, etc NOTE: this order does NOT correspond to a Seq-data encoding. More...
class	CGenetic_code_Base::C_E
	C_E –. More...
class	CGenetic_code_table_Base
	table of genetic codes More...
class	CImp_feat_Base
	*** Import *********************************************** * * Features imported from other databases * More...
class	CInferenceSupport
	CInferenceSupport –. More...
class	CInferenceSupport_Base
	CInferenceSupport_Base –. More...
class	CModelEvidenceItem
	CModelEvidenceItem –. More...
class	CModelEvidenceItem_Base
	CModelEvidenceItem_Base –. More...
class	CModelEvidenceSupport
	CModelEvidenceSupport –. More...
class	CModelEvidenceSupport_Base
	CModelEvidenceSupport_Base –. More...
class	CProgram_id
	CProgram_id –. More...
class	CProgram_id_Base
	CProgram_id_Base –. More...
class	CSeq_feat_Base
	*** Seq-feat ******************************************* * sequence feature generalization More...
class	CSeqFeatData_Base
	CSeqFeatData_Base –. More...
class	CSeqFeatSupport
	CSeqFeatSupport –. More...
class	CSeqFeatSupport_Base
	CSeqFeatSupport_Base –. More...
class	CSeqFeatXref
	CSeqFeatXref –. More...
class	CSeqFeatXref_Base
	both optional because can have one or both More...

Typedefs
typedef CCdregion_Base	CCdregion::Tparent
typedef CSerialObject	CCdregion_Base::Tparent
typedef bool	CCdregion_Base::TOrf
typedef EFrame	CCdregion_Base::TFrame
typedef bool	CCdregion_Base::TConflict
typedef TSeqPos	CCdregion_Base::TGaps
typedef TSeqPos	CCdregion_Base::TMismatch
typedef CGenetic_code	CCdregion_Base::TCode
typedef list< CRef< CCode_break > >	CCdregion_Base::TCode_break
typedef TSeqPos	CCdregion_Base::TStops
typedef Tparent::CMemberIndex< E_memberIndex, 9 >	CCdregion_Base::TmemberIndex
typedef CClone_ref_Base	CClone_ref::Tparent
typedef CSerialObject	CClone_ref_Base::Tparent
typedef string	CClone_ref_Base::TName
typedef string	CClone_ref_Base::TLibrary
typedef bool	CClone_ref_Base::TConcordant
typedef bool	CClone_ref_Base::TUnique
typedef int	CClone_ref_Base::TPlacement_method
typedef CClone_seq_set	CClone_ref_Base::TClone_seq
typedef Tparent::CMemberIndex< E_memberIndex, 7 >	CClone_ref_Base::TmemberIndex
typedef CClone_seq_Base	CClone_seq::Tparent
typedef CSerialObject	CClone_seq_Base::Tparent
typedef int	CClone_seq_Base::TType
typedef int	CClone_seq_Base::TConfidence
typedef CSeq_loc	CClone_seq_Base::TLocation
typedef CSeq_loc	CClone_seq_Base::TSeq
typedef CDbtag	CClone_seq_Base::TAlign_id
typedef int	CClone_seq_Base::TSupport
typedef Tparent::CMemberIndex< E_memberIndex, 7 >	CClone_seq_Base::TmemberIndex
typedef CClone_seq_set_Base	CClone_seq_set::Tparent
typedef CSerialObject	CClone_seq_set_Base::Tparent
typedef list< CRef< CClone_seq > >	CClone_seq_set_Base::Tdata
typedef CCode_break_Base	CCode_break::Tparent
typedef CSerialObject	CCode_break_Base::Tparent
typedef CSerialObject	CCode_break_Base::C_Aa::Tparent
typedef int	CCode_break_Base::C_Aa::TNcbieaa
typedef int	CCode_break_Base::C_Aa::TNcbi8aa
typedef int	CCode_break_Base::C_Aa::TNcbistdaa
typedef CSeq_loc	CCode_break_Base::TLoc
typedef C_Aa	CCode_break_Base::TAa
typedef Tparent::CMemberIndex< E_memberIndex, 3 >	CCode_break_Base::TmemberIndex
typedef CEvidenceBasis_Base	CEvidenceBasis::Tparent
typedef CSerialObject	CEvidenceBasis_Base::Tparent
typedef list< CRef< CProgram_id > >	CEvidenceBasis_Base::TPrograms
typedef list< CRef< CSeq_id > >	CEvidenceBasis_Base::TAccessions
typedef Tparent::CMemberIndex< E_memberIndex, 3 >	CEvidenceBasis_Base::TmemberIndex
typedef CExperimentSupport_Base	CExperimentSupport::Tparent
typedef CSerialObject	CExperimentSupport_Base::Tparent
typedef int	CExperimentSupport_Base::TCategory
typedef string	CExperimentSupport_Base::TExplanation
typedef list< CPubMedId >	CExperimentSupport_Base::TPmids
typedef list< CDOI >	CExperimentSupport_Base::TDois
typedef Tparent::CMemberIndex< E_memberIndex, 5 >	CExperimentSupport_Base::TmemberIndex
typedef CFeat_id_Base	CFeat_id::Tparent
typedef CSerialObject	CFeat_id_Base::Tparent
typedef int	CFeat_id_Base::TGibb
typedef CGiimport_id	CFeat_id_Base::TGiim
typedef CObject_id	CFeat_id_Base::TLocal
typedef CDbtag	CFeat_id_Base::TGeneral
typedef CSerialObject	CGb_qual_Base::Tparent
typedef string	CGb_qual_Base::TQual
typedef string	CGb_qual_Base::TVal
typedef Tparent::CMemberIndex< E_memberIndex, 3 >	CGb_qual_Base::TmemberIndex
typedef CSerialObject	CGenetic_code_Base::Tparent
typedef CSerialObject	CGenetic_code_Base::C_E::Tparent
typedef string	CGenetic_code_Base::C_E::TName
typedef int	CGenetic_code_Base::C_E::TId
typedef string	CGenetic_code_Base::C_E::TNcbieaa
typedef vector< char >	CGenetic_code_Base::C_E::TNcbi8aa
typedef vector< char >	CGenetic_code_Base::C_E::TNcbistdaa
typedef string	CGenetic_code_Base::C_E::TSncbieaa
typedef vector< char >	CGenetic_code_Base::C_E::TSncbi8aa
typedef vector< char >	CGenetic_code_Base::C_E::TSncbistdaa
typedef list< CRef< C_E > >	CGenetic_code_Base::Tdata
typedef CSerialObject	CGenetic_code_table_Base::Tparent
typedef list< CRef< CGenetic_code > >	CGenetic_code_table_Base::Tdata
typedef CSerialObject	CImp_feat_Base::Tparent
typedef string	CImp_feat_Base::TKey
typedef string	CImp_feat_Base::TLoc
typedef string	CImp_feat_Base::TDescr
typedef Tparent::CMemberIndex< E_memberIndex, 4 >	CImp_feat_Base::TmemberIndex
typedef CInferenceSupport_Base	CInferenceSupport::Tparent
typedef CSerialObject	CInferenceSupport_Base::Tparent
typedef int	CInferenceSupport_Base::TCategory
typedef int	CInferenceSupport_Base::TType
typedef string	CInferenceSupport_Base::TOther_type
typedef bool	CInferenceSupport_Base::TSame_species
typedef CEvidenceBasis	CInferenceSupport_Base::TBasis
typedef list< CPubMedId >	CInferenceSupport_Base::TPmids
typedef list< CDOI >	CInferenceSupport_Base::TDois
typedef Tparent::CMemberIndex< E_memberIndex, 8 >	CInferenceSupport_Base::TmemberIndex
typedef CModelEvidenceItem_Base	CModelEvidenceItem::Tparent
typedef CSerialObject	CModelEvidenceItem_Base::Tparent
typedef CSeq_id	CModelEvidenceItem_Base::TId
typedef int	CModelEvidenceItem_Base::TExon_count
typedef int	CModelEvidenceItem_Base::TExon_length
typedef bool	CModelEvidenceItem_Base::TFull_length
typedef bool	CModelEvidenceItem_Base::TSupports_all_exon_combo
typedef Tparent::CMemberIndex< E_memberIndex, 6 >	CModelEvidenceItem_Base::TmemberIndex
typedef CModelEvidenceSupport_Base	CModelEvidenceSupport::Tparent
typedef CSerialObject	CModelEvidenceSupport_Base::Tparent
typedef string	CModelEvidenceSupport_Base::TMethod
typedef list< CRef< CModelEvidenceItem > >	CModelEvidenceSupport_Base::TMrna
typedef list< CRef< CModelEvidenceItem > >	CModelEvidenceSupport_Base::TEst
typedef list< CRef< CModelEvidenceItem > >	CModelEvidenceSupport_Base::TProtein
typedef CSeq_id	CModelEvidenceSupport_Base::TIdentification
typedef list< CRef< CDbtag > >	CModelEvidenceSupport_Base::TDbxref
typedef int	CModelEvidenceSupport_Base::TExon_count
typedef int	CModelEvidenceSupport_Base::TExon_length
typedef bool	CModelEvidenceSupport_Base::TFull_length
typedef bool	CModelEvidenceSupport_Base::TSupports_all_exon_combo
typedef Tparent::CMemberIndex< E_memberIndex, 11 >	CModelEvidenceSupport_Base::TmemberIndex
typedef CProgram_id_Base	CProgram_id::Tparent
typedef CSerialObject	CProgram_id_Base::Tparent
typedef string	CProgram_id_Base::TName
typedef string	CProgram_id_Base::TVersion
typedef Tparent::CMemberIndex< E_memberIndex, 3 >	CProgram_id_Base::TmemberIndex
typedef CSerialObject	CSeq_feat_Base::Tparent
typedef CFeat_id	CSeq_feat_Base::TId
typedef CSeqFeatData	CSeq_feat_Base::TData
typedef bool	CSeq_feat_Base::TPartial
typedef bool	CSeq_feat_Base::TExcept
typedef string	CSeq_feat_Base::TComment
typedef CSeq_loc	CSeq_feat_Base::TProduct
typedef CSeq_loc	CSeq_feat_Base::TLocation
typedef vector< CRef< CGb_qual > >	CSeq_feat_Base::TQual
typedef string	CSeq_feat_Base::TTitle
typedef CUser_object	CSeq_feat_Base::TExt
typedef CPub_set	CSeq_feat_Base::TCit
typedef EExp_ev	CSeq_feat_Base::TExp_ev
typedef vector< CRef< CSeqFeatXref > >	CSeq_feat_Base::TXref
typedef vector< CRef< CDbtag > >	CSeq_feat_Base::TDbxref
typedef bool	CSeq_feat_Base::TPseudo
typedef string	CSeq_feat_Base::TExcept_text
typedef list< CRef< CFeat_id > >	CSeq_feat_Base::TIds
typedef list< CRef< CUser_object > >	CSeq_feat_Base::TExts
typedef CSeqFeatSupport	CSeq_feat_Base::TSupport
typedef Tparent::CMemberIndex< E_memberIndex, 20 >	CSeq_feat_Base::TmemberIndex
typedef CSerialObject	CSeqFeatData_Base::Tparent
typedef CGene_ref	CSeqFeatData_Base::TGene
typedef COrg_ref	CSeqFeatData_Base::TOrg
typedef CCdregion	CSeqFeatData_Base::TCdregion
typedef CProt_ref	CSeqFeatData_Base::TProt
typedef CRNA_ref	CSeqFeatData_Base::TRna
typedef CPubdesc	CSeqFeatData_Base::TPub
typedef CSeq_loc	CSeqFeatData_Base::TSeq
typedef CImp_feat	CSeqFeatData_Base::TImp
typedef string	CSeqFeatData_Base::TRegion
typedef EBond	CSeqFeatData_Base::TBond
typedef ESite	CSeqFeatData_Base::TSite
typedef CRsite_ref	CSeqFeatData_Base::TRsite
typedef CUser_object	CSeqFeatData_Base::TUser
typedef CTxinit	CSeqFeatData_Base::TTxinit
typedef CNumbering	CSeqFeatData_Base::TNum
typedef EPsec_str	CSeqFeatData_Base::TPsec_str
typedef string	CSeqFeatData_Base::TNon_std_residue
typedef CHeterogen	CSeqFeatData_Base::THet
typedef CBioSource	CSeqFeatData_Base::TBiosrc
typedef CClone_ref	CSeqFeatData_Base::TClone
typedef CVariation_ref	CSeqFeatData_Base::TVariation
typedef CSeqFeatSupport_Base	CSeqFeatSupport::Tparent
typedef CSerialObject	CSeqFeatSupport_Base::Tparent
typedef list< CRef< CExperimentSupport > >	CSeqFeatSupport_Base::TExperiment
typedef list< CRef< CInferenceSupport > >	CSeqFeatSupport_Base::TInference
typedef list< CRef< CModelEvidenceSupport > >	CSeqFeatSupport_Base::TModel_evidence
typedef Tparent::CMemberIndex< E_memberIndex, 4 >	CSeqFeatSupport_Base::TmemberIndex
typedef CSeqFeatXref_Base	CSeqFeatXref::Tparent
typedef CSerialObject	CSeqFeatXref_Base::Tparent
typedef CFeat_id	CSeqFeatXref_Base::TId
typedef CSeqFeatData	CSeqFeatXref_Base::TData
typedef Tparent::CMemberIndex< E_memberIndex, 3 >	CSeqFeatXref_Base::TmemberIndex

Enumerations
enum	CCdregion_Base::EFrame { CCdregion_Base::eFrame_not_set = 0 , CCdregion_Base::eFrame_one = 1 , CCdregion_Base::eFrame_two = 2 , CCdregion_Base::eFrame_three = 3 }
enum class	CCdregion_Base::E_memberIndex {   CCdregion_Base::e__allMandatory = 0 , CCdregion_Base::e_orf , CCdregion_Base::e_frame , CCdregion_Base::e_conflict ,   CCdregion_Base::e_gaps , CCdregion_Base::e_mismatch , CCdregion_Base::e_code , CCdregion_Base::e_code_break ,   CCdregion_Base::e_stops }
enum	CClone_ref_Base::EPlacement_method {   CClone_ref_Base::ePlacement_method_end_seq = 0 , CClone_ref_Base::ePlacement_method_insert_alignment = 1 , CClone_ref_Base::ePlacement_method_sts = 2 , CClone_ref_Base::ePlacement_method_fish = 3 ,   CClone_ref_Base::ePlacement_method_fingerprint = 4 , CClone_ref_Base::ePlacement_method_end_seq_insert_alignment = 5 , CClone_ref_Base::ePlacement_method_external = 253 , CClone_ref_Base::ePlacement_method_curated = 254 ,   CClone_ref_Base::ePlacement_method_other = 255 }
enum class	CClone_ref_Base::E_memberIndex {   CClone_ref_Base::e__allMandatory = 0 , CClone_ref_Base::e_name , CClone_ref_Base::e_library , CClone_ref_Base::e_concordant ,   CClone_ref_Base::e_unique , CClone_ref_Base::e_placement_method , CClone_ref_Base::e_clone_seq }
enum	CClone_seq_Base::EType { CClone_seq_Base::eType_insert = 0 , CClone_seq_Base::eType_end = 1 , CClone_seq_Base::eType_other = 255 }
enum	CClone_seq_Base::EConfidence {   CClone_seq_Base::eConfidence_multiple = 0 , CClone_seq_Base::eConfidence_na = 1 , CClone_seq_Base::eConfidence_nohit_rep = 2 , CClone_seq_Base::eConfidence_nohitnorep = 3 ,   CClone_seq_Base::eConfidence_other_chrm = 4 , CClone_seq_Base::eConfidence_unique = 5 , CClone_seq_Base::eConfidence_virtual = 6 , CClone_seq_Base::eConfidence_multiple_rep = 7 ,   CClone_seq_Base::eConfidence_multiplenorep = 8 , CClone_seq_Base::eConfidence_no_hit = 9 , CClone_seq_Base::eConfidence_other = 255 }
enum	CClone_seq_Base::ESupport { CClone_seq_Base::eSupport_prototype = 0 , CClone_seq_Base::eSupport_supporting = 1 , CClone_seq_Base::eSupport_supports_other = 2 , CClone_seq_Base::eSupport_non_supporting = 3 }
enum class	CClone_seq_Base::E_memberIndex {   CClone_seq_Base::e__allMandatory = 0 , CClone_seq_Base::e_type , CClone_seq_Base::e_confidence , CClone_seq_Base::e_location ,   CClone_seq_Base::e_seq , CClone_seq_Base::e_align_id , CClone_seq_Base::e_support }
enum	CCode_break_Base::C_Aa::E_Choice { CCode_break_Base::C_Aa::e_not_set = 0 , CCode_break_Base::C_Aa::e_Ncbieaa , CCode_break_Base::C_Aa::e_Ncbi8aa , CCode_break_Base::C_Aa::e_Ncbistdaa }
	Choice variants. More...
enum	CCode_break_Base::C_Aa::E_ChoiceStopper { CCode_break_Base::C_Aa::e_MaxChoice = 4 }
	Maximum+1 value of the choice variant enumerator. More...
enum class	CCode_break_Base::E_memberIndex { CCode_break_Base::e__allMandatory = 0 , CCode_break_Base::e_loc , CCode_break_Base::e_aa }
enum class	CEvidenceBasis_Base::E_memberIndex { CEvidenceBasis_Base::e__allMandatory = 0 , CEvidenceBasis_Base::e_programs , CEvidenceBasis_Base::e_accessions }
enum	EEvidenceCategory { eEvidenceCategory_not_set = 0 , eEvidenceCategory_coordinates = 1 , eEvidenceCategory_description = 2 , eEvidenceCategory_existence = 3 }
	Access to EEvidenceCategory's attributes (values, names) as defined in spec. More...
enum class	CExperimentSupport_Base::E_memberIndex {   CExperimentSupport_Base::e__allMandatory = 0 , CExperimentSupport_Base::e_category , CExperimentSupport_Base::e_explanation , CExperimentSupport_Base::e_pmids ,   CExperimentSupport_Base::e_dois }
enum	CFeat_id_Base::E_Choice {   CFeat_id_Base::e_not_set = 0 , CFeat_id_Base::e_Gibb , CFeat_id_Base::e_Giim , CFeat_id_Base::e_Local ,   CFeat_id_Base::e_General }
	Choice variants. More...
enum	CFeat_id_Base::E_ChoiceStopper { CFeat_id_Base::e_MaxChoice = 5 }
	Maximum+1 value of the choice variant enumerator. More...
enum class	CGb_qual_Base::E_memberIndex { CGb_qual_Base::e__allMandatory = 0 , CGb_qual_Base::e_qual , CGb_qual_Base::e_val }
enum	CGenetic_code_Base::C_E::E_Choice {   CGenetic_code_Base::C_E::e_not_set = 0 , CGenetic_code_Base::C_E::e_Name , CGenetic_code_Base::C_E::e_Id , CGenetic_code_Base::C_E::e_Ncbieaa ,   CGenetic_code_Base::C_E::e_Ncbi8aa , CGenetic_code_Base::C_E::e_Ncbistdaa , CGenetic_code_Base::C_E::e_Sncbieaa , CGenetic_code_Base::C_E::e_Sncbi8aa ,   CGenetic_code_Base::C_E::e_Sncbistdaa }
	Choice variants. More...
enum	CGenetic_code_Base::C_E::E_ChoiceStopper { CGenetic_code_Base::C_E::e_MaxChoice = 9 }
	Maximum+1 value of the choice variant enumerator. More...
enum class	CImp_feat_Base::E_memberIndex { CImp_feat_Base::e__allMandatory = 0 , CImp_feat_Base::e_key , CImp_feat_Base::e_loc , CImp_feat_Base::e_descr }
enum	CInferenceSupport_Base::EType {   CInferenceSupport_Base::eType_not_set = 0 , CInferenceSupport_Base::eType_similar_to_sequence = 1 , CInferenceSupport_Base::eType_similar_to_aa = 2 , CInferenceSupport_Base::eType_similar_to_dna = 3 ,   CInferenceSupport_Base::eType_similar_to_rna = 4 , CInferenceSupport_Base::eType_similar_to_mrna = 5 , CInferenceSupport_Base::eType_similiar_to_est = 6 , CInferenceSupport_Base::eType_similar_to_other_rna = 7 ,   CInferenceSupport_Base::eType_profile = 8 , CInferenceSupport_Base::eType_nucleotide_motif = 9 , CInferenceSupport_Base::eType_protein_motif = 10 , CInferenceSupport_Base::eType_ab_initio_prediction = 11 ,   CInferenceSupport_Base::eType_alignment = 12 , CInferenceSupport_Base::eType_other = 255 }
enum class	CInferenceSupport_Base::E_memberIndex {   CInferenceSupport_Base::e__allMandatory = 0 , CInferenceSupport_Base::e_category , CInferenceSupport_Base::e_type , CInferenceSupport_Base::e_other_type ,   CInferenceSupport_Base::e_same_species , CInferenceSupport_Base::e_basis , CInferenceSupport_Base::e_pmids , CInferenceSupport_Base::e_dois }
enum class	CModelEvidenceItem_Base::E_memberIndex {   CModelEvidenceItem_Base::e__allMandatory = 0 , CModelEvidenceItem_Base::e_id , CModelEvidenceItem_Base::e_exon_count , CModelEvidenceItem_Base::e_exon_length ,   CModelEvidenceItem_Base::e_full_length , CModelEvidenceItem_Base::e_supports_all_exon_combo }
enum class	CModelEvidenceSupport_Base::E_memberIndex {   CModelEvidenceSupport_Base::e__allMandatory = 0 , CModelEvidenceSupport_Base::e_method , CModelEvidenceSupport_Base::e_mrna , CModelEvidenceSupport_Base::e_est ,   CModelEvidenceSupport_Base::e_protein , CModelEvidenceSupport_Base::e_identification , CModelEvidenceSupport_Base::e_dbxref , CModelEvidenceSupport_Base::e_exon_count ,   CModelEvidenceSupport_Base::e_exon_length , CModelEvidenceSupport_Base::e_full_length , CModelEvidenceSupport_Base::e_supports_all_exon_combo }
enum class	CProgram_id_Base::E_memberIndex { CProgram_id_Base::e__allMandatory = 0 , CProgram_id_Base::e_name , CProgram_id_Base::e_version }
enum	CSeq_feat_Base::EExp_ev { CSeq_feat_Base::eExp_ev_experimental = 1 , CSeq_feat_Base::eExp_ev_not_experimental = 2 }
	evidence for existence of feature More...
enum class	CSeq_feat_Base::E_memberIndex {   CSeq_feat_Base::e__allMandatory = 0 , CSeq_feat_Base::e_id , CSeq_feat_Base::e_data , CSeq_feat_Base::e_partial ,   CSeq_feat_Base::e_except , CSeq_feat_Base::e_comment , CSeq_feat_Base::e_product , CSeq_feat_Base::e_location ,   CSeq_feat_Base::e_qual , CSeq_feat_Base::e_title , CSeq_feat_Base::e_ext , CSeq_feat_Base::e_cit ,   CSeq_feat_Base::e_exp_ev , CSeq_feat_Base::e_xref , CSeq_feat_Base::e_dbxref , CSeq_feat_Base::e_pseudo ,   CSeq_feat_Base::e_except_text , CSeq_feat_Base::e_ids , CSeq_feat_Base::e_exts , CSeq_feat_Base::e_support }
enum	CSeqFeatData_Base::EBond {   CSeqFeatData_Base::eBond_disulfide = 1 , CSeqFeatData_Base::eBond_thiolester = 2 , CSeqFeatData_Base::eBond_xlink = 3 , CSeqFeatData_Base::eBond_thioether = 4 ,   CSeqFeatData_Base::eBond_other = 255 }
enum	CSeqFeatData_Base::ESite {   CSeqFeatData_Base::eSite_active = 1 , CSeqFeatData_Base::eSite_binding = 2 , CSeqFeatData_Base::eSite_cleavage = 3 , CSeqFeatData_Base::eSite_inhibit = 4 ,   CSeqFeatData_Base::eSite_modified = 5 , CSeqFeatData_Base::eSite_glycosylation = 6 , CSeqFeatData_Base::eSite_myristoylation = 7 , CSeqFeatData_Base::eSite_mutagenized = 8 ,   CSeqFeatData_Base::eSite_metal_binding = 9 , CSeqFeatData_Base::eSite_phosphorylation = 10 , CSeqFeatData_Base::eSite_acetylation = 11 , CSeqFeatData_Base::eSite_amidation = 12 ,   CSeqFeatData_Base::eSite_methylation = 13 , CSeqFeatData_Base::eSite_hydroxylation = 14 , CSeqFeatData_Base::eSite_sulfatation = 15 , CSeqFeatData_Base::eSite_oxidative_deamination = 16 ,   CSeqFeatData_Base::eSite_pyrrolidone_carboxylic_acid = 17 , CSeqFeatData_Base::eSite_gamma_carboxyglutamic_acid = 18 , CSeqFeatData_Base::eSite_blocked = 19 , CSeqFeatData_Base::eSite_lipid_binding = 20 ,   CSeqFeatData_Base::eSite_np_binding = 21 , CSeqFeatData_Base::eSite_dna_binding = 22 , CSeqFeatData_Base::eSite_signal_peptide = 23 , CSeqFeatData_Base::eSite_transit_peptide = 24 ,   CSeqFeatData_Base::eSite_transmembrane_region = 25 , CSeqFeatData_Base::eSite_nitrosylation = 26 , CSeqFeatData_Base::eSite_other = 255 }
enum	CSeqFeatData_Base::EPsec_str { CSeqFeatData_Base::ePsec_str_helix = 1 , CSeqFeatData_Base::ePsec_str_sheet = 2 , CSeqFeatData_Base::ePsec_str_turn = 3 }
	protein secondary structure More...
enum	CSeqFeatData_Base::E_Choice {   CSeqFeatData_Base::e_not_set = 0 , CSeqFeatData_Base::e_Gene , CSeqFeatData_Base::e_Org , CSeqFeatData_Base::e_Cdregion ,   CSeqFeatData_Base::e_Prot , CSeqFeatData_Base::e_Rna , CSeqFeatData_Base::e_Pub , CSeqFeatData_Base::e_Seq ,   CSeqFeatData_Base::e_Imp , CSeqFeatData_Base::e_Region , CSeqFeatData_Base::e_Comment , CSeqFeatData_Base::e_Bond ,   CSeqFeatData_Base::e_Site , CSeqFeatData_Base::e_Rsite , CSeqFeatData_Base::e_User , CSeqFeatData_Base::e_Txinit ,   CSeqFeatData_Base::e_Num , CSeqFeatData_Base::e_Psec_str , CSeqFeatData_Base::e_Non_std_residue , CSeqFeatData_Base::e_Het ,   CSeqFeatData_Base::e_Biosrc , CSeqFeatData_Base::e_Clone , CSeqFeatData_Base::e_Variation }
	Choice variants. More...
enum	CSeqFeatData_Base::E_ChoiceStopper { CSeqFeatData_Base::e_MaxChoice = 23 }
	Maximum+1 value of the choice variant enumerator. More...
enum class	CSeqFeatSupport_Base::E_memberIndex { CSeqFeatSupport_Base::e__allMandatory = 0 , CSeqFeatSupport_Base::e_experiment , CSeqFeatSupport_Base::e_inference , CSeqFeatSupport_Base::e_model_evidence }
enum class	CSeqFeatXref_Base::E_memberIndex { CSeqFeatXref_Base::e__allMandatory = 0 , CSeqFeatXref_Base::e_id , CSeqFeatXref_Base::e_data }

Functions
	CCdregion::CCdregion (void)
	CCdregion::~CCdregion (void)
	CCdregion::CCdregion (const CCdregion &value)
CCdregion &	CCdregion::operator= (const CCdregion &value)
	CCdregion_Base::CCdregion_Base (void)
virtual	CCdregion_Base::~CCdregion_Base (void)
	CCdregion_Base::DECLARE_INTERNAL_TYPE_INFO ()
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CCdregion_Base::EFrame (void)
	Access to EFrame's attributes (values, names) as defined in spec. More...
bool	CCdregion_Base::IsSetOrf (void) const
	just an ORF ? Check if a value has been assigned to Orf data member. More...
bool	CCdregion_Base::CanGetOrf (void) const
	Check if it is safe to call GetOrf method. More...
void	CCdregion_Base::ResetOrf (void)
	Reset Orf data member. More...
TOrf	CCdregion_Base::GetOrf (void) const
	Get the Orf member data. More...
void	CCdregion_Base::SetOrf (TOrf value)
	Assign a value to Orf data member. More...
TOrf &	CCdregion_Base::SetOrf (void)
	Assign a value to Orf data member. More...
bool	CCdregion_Base::IsSetFrame (void) const
	Check if a value has been assigned to Frame data member. More...
bool	CCdregion_Base::CanGetFrame (void) const
	Check if it is safe to call GetFrame method. More...
void	CCdregion_Base::ResetFrame (void)
	Reset Frame data member. More...
void	CCdregion_Base::SetDefaultFrame (void)
	Assign default value to Frame data member. More...
TFrame	CCdregion_Base::GetFrame (void) const
	Get the Frame member data. More...
void	CCdregion_Base::SetFrame (TFrame value)
	Assign a value to Frame data member. More...
TFrame &	CCdregion_Base::SetFrame (void)
	Assign a value to Frame data member. More...
bool	CCdregion_Base::IsSetConflict (void) const
	conflict Check if a value has been assigned to Conflict data member. More...
bool	CCdregion_Base::CanGetConflict (void) const
	Check if it is safe to call GetConflict method. More...
void	CCdregion_Base::ResetConflict (void)
	Reset Conflict data member. More...
TConflict	CCdregion_Base::GetConflict (void) const
	Get the Conflict member data. More...
void	CCdregion_Base::SetConflict (TConflict value)
	Assign a value to Conflict data member. More...
TConflict &	CCdregion_Base::SetConflict (void)
	Assign a value to Conflict data member. More...
bool	CCdregion_Base::IsSetGaps (void) const
	number of gaps on conflict/except Check if a value has been assigned to Gaps data member. More...
bool	CCdregion_Base::CanGetGaps (void) const
	Check if it is safe to call GetGaps method. More...
void	CCdregion_Base::ResetGaps (void)
	Reset Gaps data member. More...
TGaps	CCdregion_Base::GetGaps (void) const
	Get the Gaps member data. More...
void	CCdregion_Base::SetGaps (TGaps value)
	Assign a value to Gaps data member. More...
TGaps &	CCdregion_Base::SetGaps (void)
	Assign a value to Gaps data member. More...
bool	CCdregion_Base::IsSetMismatch (void) const
	number of mismatches on above Check if a value has been assigned to Mismatch data member. More...
bool	CCdregion_Base::CanGetMismatch (void) const
	Check if it is safe to call GetMismatch method. More...
void	CCdregion_Base::ResetMismatch (void)
	Reset Mismatch data member. More...
TMismatch	CCdregion_Base::GetMismatch (void) const
	Get the Mismatch member data. More...
void	CCdregion_Base::SetMismatch (TMismatch value)
	Assign a value to Mismatch data member. More...
TMismatch &	CCdregion_Base::SetMismatch (void)
	Assign a value to Mismatch data member. More...
bool	CCdregion_Base::IsSetCode (void) const
	genetic code used Check if a value has been assigned to Code data member. More...
bool	CCdregion_Base::CanGetCode (void) const
	Check if it is safe to call GetCode method. More...
void	CCdregion_Base::ResetCode (void)
	Reset Code data member. More...
const TCode &	CCdregion_Base::GetCode (void) const
	Get the Code member data. More...
void	CCdregion_Base::SetCode (TCode &value)
	Assign a value to Code data member. More...
TCode &	CCdregion_Base::SetCode (void)
	Assign a value to Code data member. More...
bool	CCdregion_Base::IsSetCode_break (void) const
	individual exceptions Check if a value has been assigned to Code_break data member. More...
bool	CCdregion_Base::CanGetCode_break (void) const
	Check if it is safe to call GetCode_break method. More...
void	CCdregion_Base::ResetCode_break (void)
	Reset Code_break data member. More...
const TCode_break &	CCdregion_Base::GetCode_break (void) const
	Get the Code_break member data. More...
TCode_break &	CCdregion_Base::SetCode_break (void)
	Assign a value to Code_break data member. More...
bool	CCdregion_Base::IsSetStops (void) const
	number of stop codons on above Check if a value has been assigned to Stops data member. More...
bool	CCdregion_Base::CanGetStops (void) const
	Check if it is safe to call GetStops method. More...
void	CCdregion_Base::ResetStops (void)
	Reset Stops data member. More...
TStops	CCdregion_Base::GetStops (void) const
	Get the Stops member data. More...
void	CCdregion_Base::SetStops (TStops value)
	Assign a value to Stops data member. More...
TStops &	CCdregion_Base::SetStops (void)
	Assign a value to Stops data member. More...
virtual void	CCdregion_Base::Reset (void)
	Reset the whole object. More...
	CCdregion_Base::CCdregion_Base (const CCdregion_Base &)
CCdregion_Base &	CCdregion_Base::operator= (const CCdregion_Base &)
	CClone_ref::CClone_ref (void)
	CClone_ref::~CClone_ref (void)
	CClone_ref::CClone_ref (const CClone_ref &value)
CClone_ref &	CClone_ref::operator= (const CClone_ref &value)
	CClone_ref_Base::CClone_ref_Base (void)
virtual	CClone_ref_Base::~CClone_ref_Base (void)
	CClone_ref_Base::DECLARE_INTERNAL_TYPE_INFO ()
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CClone_ref_Base::EPlacement_method (void)
	Access to EPlacement_method's attributes (values, names) as defined in spec. More...
bool	CClone_ref_Base::IsSetName (void) const
	Official clone symbol Check if a value has been assigned to Name data member. More...
bool	CClone_ref_Base::CanGetName (void) const
	Check if it is safe to call GetName method. More...
void	CClone_ref_Base::ResetName (void)
	Reset Name data member. More...
const TName &	CClone_ref_Base::GetName (void) const
	Get the Name member data. More...
void	CClone_ref_Base::SetName (const TName &value)
	Assign a value to Name data member. More...
void	CClone_ref_Base::SetName (TName &&value)
TName &	CClone_ref_Base::SetName (void)
	Assign a value to Name data member. More...
bool	CClone_ref_Base::IsSetLibrary (void) const
	Library name Check if a value has been assigned to Library data member. More...
bool	CClone_ref_Base::CanGetLibrary (void) const
	Check if it is safe to call GetLibrary method. More...
void	CClone_ref_Base::ResetLibrary (void)
	Reset Library data member. More...
const TLibrary &	CClone_ref_Base::GetLibrary (void) const
	Get the Library member data. More...
void	CClone_ref_Base::SetLibrary (const TLibrary &value)
	Assign a value to Library data member. More...
void	CClone_ref_Base::SetLibrary (TLibrary &&value)
TLibrary &	CClone_ref_Base::SetLibrary (void)
	Assign a value to Library data member. More...
bool	CClone_ref_Base::IsSetConcordant (void) const
	OPTIONAL? Check if a value has been assigned to Concordant data member. More...
bool	CClone_ref_Base::CanGetConcordant (void) const
	Check if it is safe to call GetConcordant method. More...
void	CClone_ref_Base::ResetConcordant (void)
	Reset Concordant data member. More...
void	CClone_ref_Base::SetDefaultConcordant (void)
	Assign default value to Concordant data member. More...
TConcordant	CClone_ref_Base::GetConcordant (void) const
	Get the Concordant member data. More...
void	CClone_ref_Base::SetConcordant (TConcordant value)
	Assign a value to Concordant data member. More...
TConcordant &	CClone_ref_Base::SetConcordant (void)
	Assign a value to Concordant data member. More...
bool	CClone_ref_Base::IsSetUnique (void) const
	OPTIONAL? Check if a value has been assigned to Unique data member. More...
bool	CClone_ref_Base::CanGetUnique (void) const
	Check if it is safe to call GetUnique method. More...
void	CClone_ref_Base::ResetUnique (void)
	Reset Unique data member. More...
void	CClone_ref_Base::SetDefaultUnique (void)
	Assign default value to Unique data member. More...
TUnique	CClone_ref_Base::GetUnique (void) const
	Get the Unique member data. More...
void	CClone_ref_Base::SetUnique (TUnique value)
	Assign a value to Unique data member. More...
TUnique &	CClone_ref_Base::SetUnique (void)
	Assign a value to Unique data member. More...
bool	CClone_ref_Base::IsSetPlacement_method (void) const
	Check if a value has been assigned to Placement_method data member. More...
bool	CClone_ref_Base::CanGetPlacement_method (void) const
	Check if it is safe to call GetPlacement_method method. More...
void	CClone_ref_Base::ResetPlacement_method (void)
	Reset Placement_method data member. More...
TPlacement_method	CClone_ref_Base::GetPlacement_method (void) const
	Get the Placement_method member data. More...
void	CClone_ref_Base::SetPlacement_method (TPlacement_method value)
	Assign a value to Placement_method data member. More...
TPlacement_method &	CClone_ref_Base::SetPlacement_method (void)
	Assign a value to Placement_method data member. More...
bool	CClone_ref_Base::IsSetClone_seq (void) const
	Check if a value has been assigned to Clone_seq data member. More...
bool	CClone_ref_Base::CanGetClone_seq (void) const
	Check if it is safe to call GetClone_seq method. More...
void	CClone_ref_Base::ResetClone_seq (void)
	Reset Clone_seq data member. More...
const TClone_seq &	CClone_ref_Base::GetClone_seq (void) const
	Get the Clone_seq member data. More...
void	CClone_ref_Base::SetClone_seq (TClone_seq &value)
	Assign a value to Clone_seq data member. More...
TClone_seq &	CClone_ref_Base::SetClone_seq (void)
	Assign a value to Clone_seq data member. More...
virtual void	CClone_ref_Base::Reset (void)
	Reset the whole object. More...
	CClone_ref_Base::CClone_ref_Base (const CClone_ref_Base &)
CClone_ref_Base &	CClone_ref_Base::operator= (const CClone_ref_Base &)
	CClone_seq::CClone_seq (void)
	CClone_seq::~CClone_seq (void)
	CClone_seq::CClone_seq (const CClone_seq &value)
CClone_seq &	CClone_seq::operator= (const CClone_seq &value)
	CClone_seq_Base::CClone_seq_Base (void)
virtual	CClone_seq_Base::~CClone_seq_Base (void)
	CClone_seq_Base::DECLARE_INTERNAL_TYPE_INFO ()
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CClone_seq_Base::EType (void)
	Access to EType's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CClone_seq_Base::EConfidence (void)
	Access to EConfidence's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CClone_seq_Base::ESupport (void)
	Access to ESupport's attributes (values, names) as defined in spec. More...
bool	CClone_seq_Base::IsSetType (void) const
	Check if a value has been assigned to Type data member. More...
bool	CClone_seq_Base::CanGetType (void) const
	Check if it is safe to call GetType method. More...
void	CClone_seq_Base::ResetType (void)
	Reset Type data member. More...
TType	CClone_seq_Base::GetType (void) const
	Get the Type member data. More...
void	CClone_seq_Base::SetType (TType value)
	Assign a value to Type data member. More...
TType &	CClone_seq_Base::SetType (void)
	Assign a value to Type data member. More...
bool	CClone_seq_Base::IsSetConfidence (void) const
	Check if a value has been assigned to Confidence data member. More...
bool	CClone_seq_Base::CanGetConfidence (void) const
	Check if it is safe to call GetConfidence method. More...
void	CClone_seq_Base::ResetConfidence (void)
	Reset Confidence data member. More...
TConfidence	CClone_seq_Base::GetConfidence (void) const
	Get the Confidence member data. More...
void	CClone_seq_Base::SetConfidence (TConfidence value)
	Assign a value to Confidence data member. More...
TConfidence &	CClone_seq_Base::SetConfidence (void)
	Assign a value to Confidence data member. More...
bool	CClone_seq_Base::IsSetLocation (void) const
	location on sequence Check if a value has been assigned to Location data member. More...
bool	CClone_seq_Base::CanGetLocation (void) const
	Check if it is safe to call GetLocation method. More...
void	CClone_seq_Base::ResetLocation (void)
	Reset Location data member. More...
const TLocation &	CClone_seq_Base::GetLocation (void) const
	Get the Location member data. More...
void	CClone_seq_Base::SetLocation (TLocation &value)
	Assign a value to Location data member. More...
TLocation &	CClone_seq_Base::SetLocation (void)
	Assign a value to Location data member. More...
bool	CClone_seq_Base::IsSetSeq (void) const
	clone sequence location Check if a value has been assigned to Seq data member. More...
bool	CClone_seq_Base::CanGetSeq (void) const
	Check if it is safe to call GetSeq method. More...
void	CClone_seq_Base::ResetSeq (void)
	Reset Seq data member. More...
const TSeq &	CClone_seq_Base::GetSeq (void) const
	Get the Seq member data. More...
void	CClone_seq_Base::SetSeq (TSeq &value)
	Assign a value to Seq data member. More...
TSeq &	CClone_seq_Base::SetSeq (void)
	Assign a value to Seq data member. More...
bool	CClone_seq_Base::IsSetAlign_id (void) const
	internal alignment identifier Check if a value has been assigned to Align_id data member. More...
bool	CClone_seq_Base::CanGetAlign_id (void) const
	Check if it is safe to call GetAlign_id method. More...
void	CClone_seq_Base::ResetAlign_id (void)
	Reset Align_id data member. More...
const TAlign_id &	CClone_seq_Base::GetAlign_id (void) const
	Get the Align_id member data. More...
void	CClone_seq_Base::SetAlign_id (TAlign_id &value)
	Assign a value to Align_id data member. More...
TAlign_id &	CClone_seq_Base::SetAlign_id (void)
	Assign a value to Align_id data member. More...
bool	CClone_seq_Base::IsSetSupport (void) const
	Check if a value has been assigned to Support data member. More...
bool	CClone_seq_Base::CanGetSupport (void) const
	Check if it is safe to call GetSupport method. More...
void	CClone_seq_Base::ResetSupport (void)
	Reset Support data member. More...
TSupport	CClone_seq_Base::GetSupport (void) const
	Get the Support member data. More...
void	CClone_seq_Base::SetSupport (TSupport value)
	Assign a value to Support data member. More...
TSupport &	CClone_seq_Base::SetSupport (void)
	Assign a value to Support data member. More...
virtual void	CClone_seq_Base::Reset (void)
	Reset the whole object. More...
	CClone_seq_Base::CClone_seq_Base (const CClone_seq_Base &)
CClone_seq_Base &	CClone_seq_Base::operator= (const CClone_seq_Base &)
	CClone_seq_set::CClone_seq_set (void)
	CClone_seq_set::~CClone_seq_set (void)
	CClone_seq_set::CClone_seq_set (const CClone_seq_set &value)
CClone_seq_set &	CClone_seq_set::operator= (const CClone_seq_set &value)
	CClone_seq_set_Base::CClone_seq_set_Base (void)
virtual	CClone_seq_set_Base::~CClone_seq_set_Base (void)
	CClone_seq_set_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CClone_seq_set_Base::IsSet (void) const
	Check if a value has been assigned to data member. More...
bool	CClone_seq_set_Base::CanGet (void) const
	Check if it is safe to call Get method. More...
void	CClone_seq_set_Base::Reset (void)
	Reset data member. More...
const Tdata &	CClone_seq_set_Base::Get (void) const
	Get the member data. More...
Tdata &	CClone_seq_set_Base::Set (void)
	Assign a value to data member. More...
	CClone_seq_set_Base::operator const Tdata & (void) const
	Conversion operator to 'const Tdata' type. More...
	CClone_seq_set_Base::operator Tdata & (void)
	Conversion operator to 'Tdata' type. More...
	CClone_seq_set_Base::CClone_seq_set_Base (const CClone_seq_set_Base &)
CClone_seq_set_Base &	CClone_seq_set_Base::operator= (const CClone_seq_set_Base &)
	CCode_break::CCode_break (void)
	CCode_break::~CCode_break (void)
	CCode_break::CCode_break (const CCode_break &value)
CCode_break &	CCode_break::operator= (const CCode_break &value)
	CCode_break_Base::CCode_break_Base (void)
virtual	CCode_break_Base::~CCode_break_Base (void)
	CCode_break_Base::DECLARE_INTERNAL_TYPE_INFO ()
	CCode_break_Base::C_Aa::C_Aa (void)
	CCode_break_Base::C_Aa::~C_Aa (void)
	CCode_break_Base::C_Aa::DECLARE_INTERNAL_TYPE_INFO ()
void	CCode_break_Base::C_Aa::Reset (void)
	Reset the whole object. More...
void	CCode_break_Base::C_Aa::ResetSelection (void)
	Reset the selection (set it to e_not_set). More...
E_Choice	CCode_break_Base::C_Aa::Which (void) const
	Which variant is currently selected. More...
void	CCode_break_Base::C_Aa::CheckSelected (E_Choice index) const
	Verify selection, throw exception if it differs from the expected. More...
void	CCode_break_Base::C_Aa::ThrowInvalidSelection (E_Choice index) const
	Throw 'InvalidSelection' exception. More...
static string	CCode_break_Base::C_Aa::SelectionName (E_Choice index)
	Retrieve selection name (for diagnostic purposes). More...
void	CCode_break_Base::C_Aa::Select (E_Choice index, EResetVariant reset=eDoResetVariant)
	Select the requested variant if needed. More...
void	CCode_break_Base::C_Aa::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool)
	Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool	CCode_break_Base::C_Aa::IsNcbieaa (void) const
	Check if variant Ncbieaa is selected. More...
TNcbieaa	CCode_break_Base::C_Aa::GetNcbieaa (void) const
	Get the variant data. More...
TNcbieaa &	CCode_break_Base::C_Aa::SetNcbieaa (void)
	Select the variant. More...
void	CCode_break_Base::C_Aa::SetNcbieaa (TNcbieaa value)
	Select the variant and set its data. More...
bool	CCode_break_Base::C_Aa::IsNcbi8aa (void) const
	Check if variant Ncbi8aa is selected. More...
TNcbi8aa	CCode_break_Base::C_Aa::GetNcbi8aa (void) const
	Get the variant data. More...
TNcbi8aa &	CCode_break_Base::C_Aa::SetNcbi8aa (void)
	Select the variant. More...
void	CCode_break_Base::C_Aa::SetNcbi8aa (TNcbi8aa value)
	Select the variant and set its data. More...
bool	CCode_break_Base::C_Aa::IsNcbistdaa (void) const
	Check if variant Ncbistdaa is selected. More...
TNcbistdaa	CCode_break_Base::C_Aa::GetNcbistdaa (void) const
	Get the variant data. More...
TNcbistdaa &	CCode_break_Base::C_Aa::SetNcbistdaa (void)
	Select the variant. More...
void	CCode_break_Base::C_Aa::SetNcbistdaa (TNcbistdaa value)
	Select the variant and set its data. More...
	CCode_break_Base::C_Aa::C_Aa (const C_Aa &)
C_Aa &	CCode_break_Base::C_Aa::operator= (const C_Aa &)
void	CCode_break_Base::C_Aa::DoSelect (E_Choice index, CObjectMemoryPool *pool=0)
bool	CCode_break_Base::IsSetLoc (void) const
	location of exception Check if a value has been assigned to Loc data member. More...
bool	CCode_break_Base::CanGetLoc (void) const
	Check if it is safe to call GetLoc method. More...
void	CCode_break_Base::ResetLoc (void)
	Reset Loc data member. More...
const TLoc &	CCode_break_Base::GetLoc (void) const
	Get the Loc member data. More...
void	CCode_break_Base::SetLoc (TLoc &value)
	Assign a value to Loc data member. More...
TLoc &	CCode_break_Base::SetLoc (void)
	Assign a value to Loc data member. More...
bool	CCode_break_Base::IsSetAa (void) const
	Check if a value has been assigned to Aa data member. More...
bool	CCode_break_Base::CanGetAa (void) const
	Check if it is safe to call GetAa method. More...
void	CCode_break_Base::ResetAa (void)
	Reset Aa data member. More...
const TAa &	CCode_break_Base::GetAa (void) const
	Get the Aa member data. More...
void	CCode_break_Base::SetAa (TAa &value)
	Assign a value to Aa data member. More...
TAa &	CCode_break_Base::SetAa (void)
	Assign a value to Aa data member. More...
virtual void	CCode_break_Base::Reset (void)
	Reset the whole object. More...
	CCode_break_Base::CCode_break_Base (const CCode_break_Base &)
CCode_break_Base &	CCode_break_Base::operator= (const CCode_break_Base &)
	CEvidenceBasis::CEvidenceBasis (void)
	CEvidenceBasis::~CEvidenceBasis (void)
	CEvidenceBasis::CEvidenceBasis (const CEvidenceBasis &value)
CEvidenceBasis &	CEvidenceBasis::operator= (const CEvidenceBasis &value)
	CEvidenceBasis_Base::CEvidenceBasis_Base (void)
virtual	CEvidenceBasis_Base::~CEvidenceBasis_Base (void)
	CEvidenceBasis_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CEvidenceBasis_Base::IsSetPrograms (void) const
	Check if a value has been assigned to Programs data member. More...
bool	CEvidenceBasis_Base::CanGetPrograms (void) const
	Check if it is safe to call GetPrograms method. More...
void	CEvidenceBasis_Base::ResetPrograms (void)
	Reset Programs data member. More...
const TPrograms &	CEvidenceBasis_Base::GetPrograms (void) const
	Get the Programs member data. More...
TPrograms &	CEvidenceBasis_Base::SetPrograms (void)
	Assign a value to Programs data member. More...
bool	CEvidenceBasis_Base::IsSetAccessions (void) const
	Check if a value has been assigned to Accessions data member. More...
bool	CEvidenceBasis_Base::CanGetAccessions (void) const
	Check if it is safe to call GetAccessions method. More...
void	CEvidenceBasis_Base::ResetAccessions (void)
	Reset Accessions data member. More...
const TAccessions &	CEvidenceBasis_Base::GetAccessions (void) const
	Get the Accessions member data. More...
TAccessions &	CEvidenceBasis_Base::SetAccessions (void)
	Assign a value to Accessions data member. More...
virtual void	CEvidenceBasis_Base::Reset (void)
	Reset the whole object. More...
	CEvidenceBasis_Base::CEvidenceBasis_Base (const CEvidenceBasis_Base &)
CEvidenceBasis_Base &	CEvidenceBasis_Base::operator= (const CEvidenceBasis_Base &)
	CExperimentSupport::CExperimentSupport (void)
	CExperimentSupport::~CExperimentSupport (void)
	CExperimentSupport::CExperimentSupport (const CExperimentSupport &value)
CExperimentSupport &	CExperimentSupport::operator= (const CExperimentSupport &value)
	CExperimentSupport_Base::CExperimentSupport_Base (void)
virtual	CExperimentSupport_Base::~CExperimentSupport_Base (void)
	CExperimentSupport_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CExperimentSupport_Base::IsSetCategory (void) const
	Check if a value has been assigned to Category data member. More...
bool	CExperimentSupport_Base::CanGetCategory (void) const
	Check if it is safe to call GetCategory method. More...
void	CExperimentSupport_Base::ResetCategory (void)
	Reset Category data member. More...
TCategory	CExperimentSupport_Base::GetCategory (void) const
	Get the Category member data. More...
void	CExperimentSupport_Base::SetCategory (TCategory value)
	Assign a value to Category data member. More...
TCategory &	CExperimentSupport_Base::SetCategory (void)
	Assign a value to Category data member. More...
bool	CExperimentSupport_Base::IsSetExplanation (void) const
	Check if a value has been assigned to Explanation data member. More...
bool	CExperimentSupport_Base::CanGetExplanation (void) const
	Check if it is safe to call GetExplanation method. More...
void	CExperimentSupport_Base::ResetExplanation (void)
	Reset Explanation data member. More...
const TExplanation &	CExperimentSupport_Base::GetExplanation (void) const
	Get the Explanation member data. More...
void	CExperimentSupport_Base::SetExplanation (const TExplanation &value)
	Assign a value to Explanation data member. More...
void	CExperimentSupport_Base::SetExplanation (TExplanation &&value)
TExplanation &	CExperimentSupport_Base::SetExplanation (void)
	Assign a value to Explanation data member. More...
bool	CExperimentSupport_Base::IsSetPmids (void) const
	Check if a value has been assigned to Pmids data member. More...
bool	CExperimentSupport_Base::CanGetPmids (void) const
	Check if it is safe to call GetPmids method. More...
void	CExperimentSupport_Base::ResetPmids (void)
	Reset Pmids data member. More...
const TPmids &	CExperimentSupport_Base::GetPmids (void) const
	Get the Pmids member data. More...
TPmids &	CExperimentSupport_Base::SetPmids (void)
	Assign a value to Pmids data member. More...
bool	CExperimentSupport_Base::IsSetDois (void) const
	Check if a value has been assigned to Dois data member. More...
bool	CExperimentSupport_Base::CanGetDois (void) const
	Check if it is safe to call GetDois method. More...
void	CExperimentSupport_Base::ResetDois (void)
	Reset Dois data member. More...
const TDois &	CExperimentSupport_Base::GetDois (void) const
	Get the Dois member data. More...
TDois &	CExperimentSupport_Base::SetDois (void)
	Assign a value to Dois data member. More...
virtual void	CExperimentSupport_Base::Reset (void)
	Reset the whole object. More...
	CExperimentSupport_Base::CExperimentSupport_Base (const CExperimentSupport_Base &)
CExperimentSupport_Base &	CExperimentSupport_Base::operator= (const CExperimentSupport_Base &)
	CFeat_id::CFeat_id (void)
	CFeat_id::~CFeat_id (void)
	CFeat_id::CFeat_id (const CFeat_id &value)
CFeat_id &	CFeat_id::operator= (const CFeat_id &value)
	CFeat_id_Base::CFeat_id_Base (void)
virtual	CFeat_id_Base::~CFeat_id_Base (void)
	CFeat_id_Base::DECLARE_INTERNAL_TYPE_INFO ()
virtual void	CFeat_id_Base::Reset (void)
	Reset the whole object. More...
virtual void	CFeat_id_Base::ResetSelection (void)
	Reset the selection (set it to e_not_set). More...
E_Choice	CFeat_id_Base::Which (void) const
	Which variant is currently selected. More...
void	CFeat_id_Base::CheckSelected (E_Choice index) const
	Verify selection, throw exception if it differs from the expected. More...
void	CFeat_id_Base::ThrowInvalidSelection (E_Choice index) const
	Throw 'InvalidSelection' exception. More...
static string	CFeat_id_Base::SelectionName (E_Choice index)
	Retrieve selection name (for diagnostic purposes). More...
void	CFeat_id_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant)
	Select the requested variant if needed. More...
void	CFeat_id_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool)
	Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool	CFeat_id_Base::IsGibb (void) const
	Check if variant Gibb is selected. More...
TGibb	CFeat_id_Base::GetGibb (void) const
	Get the variant data. More...
TGibb &	CFeat_id_Base::SetGibb (void)
	Select the variant. More...
void	CFeat_id_Base::SetGibb (TGibb value)
	Select the variant and set its data. More...
bool	CFeat_id_Base::IsGiim (void) const
	Check if variant Giim is selected. More...
const TGiim &	CFeat_id_Base::GetGiim (void) const
	Get the variant data. More...
TGiim &	CFeat_id_Base::SetGiim (void)
	Select the variant. More...
void	CFeat_id_Base::SetGiim (TGiim &value)
	Select the variant and set its data. More...
bool	CFeat_id_Base::IsLocal (void) const
	Check if variant Local is selected. More...
const TLocal &	CFeat_id_Base::GetLocal (void) const
	Get the variant data. More...
TLocal &	CFeat_id_Base::SetLocal (void)
	Select the variant. More...
void	CFeat_id_Base::SetLocal (TLocal &value)
	Select the variant and set its data. More...
bool	CFeat_id_Base::IsGeneral (void) const
	Check if variant General is selected. More...
const TGeneral &	CFeat_id_Base::GetGeneral (void) const
	Get the variant data. More...
TGeneral &	CFeat_id_Base::SetGeneral (void)
	Select the variant. More...
void	CFeat_id_Base::SetGeneral (TGeneral &value)
	Select the variant and set its data. More...
	CFeat_id_Base::CFeat_id_Base (const CFeat_id_Base &)
CFeat_id_Base &	CFeat_id_Base::operator= (const CFeat_id_Base &)
void	CFeat_id_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0)
	CGb_qual_Base::CGb_qual_Base (void)
virtual	CGb_qual_Base::~CGb_qual_Base (void)
	CGb_qual_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CGb_qual_Base::IsSetQual (void) const
	Check if a value has been assigned to Qual data member. More...
bool	CGb_qual_Base::CanGetQual (void) const
	Check if it is safe to call GetQual method. More...
void	CGb_qual_Base::ResetQual (void)
	Reset Qual data member. More...
const TQual &	CGb_qual_Base::GetQual (void) const
	Get the Qual member data. More...
void	CGb_qual_Base::SetQual (const TQual &value)
	Assign a value to Qual data member. More...
void	CGb_qual_Base::SetQual (TQual &&value)
TQual &	CGb_qual_Base::SetQual (void)
	Assign a value to Qual data member. More...
bool	CGb_qual_Base::IsSetVal (void) const
	Check if a value has been assigned to Val data member. More...
bool	CGb_qual_Base::CanGetVal (void) const
	Check if it is safe to call GetVal method. More...
void	CGb_qual_Base::ResetVal (void)
	Reset Val data member. More...
const TVal &	CGb_qual_Base::GetVal (void) const
	Get the Val member data. More...
void	CGb_qual_Base::SetVal (const TVal &value)
	Assign a value to Val data member. More...
void	CGb_qual_Base::SetVal (TVal &&value)
TVal &	CGb_qual_Base::SetVal (void)
	Assign a value to Val data member. More...
virtual void	CGb_qual_Base::Reset (void)
	Reset the whole object. More...
	CGb_qual_Base::CGb_qual_Base (const CGb_qual_Base &)
CGb_qual_Base &	CGb_qual_Base::operator= (const CGb_qual_Base &)
	CGenetic_code_Base::CGenetic_code_Base (void)
virtual	CGenetic_code_Base::~CGenetic_code_Base (void)
	CGenetic_code_Base::DECLARE_INTERNAL_TYPE_INFO ()
	CGenetic_code_Base::C_E::C_E (void)
	CGenetic_code_Base::C_E::~C_E (void)
	CGenetic_code_Base::C_E::DECLARE_INTERNAL_TYPE_INFO ()
void	CGenetic_code_Base::C_E::Reset (void)
	Reset the whole object. More...
void	CGenetic_code_Base::C_E::ResetSelection (void)
	Reset the selection (set it to e_not_set). More...
E_Choice	CGenetic_code_Base::C_E::Which (void) const
	Which variant is currently selected. More...
void	CGenetic_code_Base::C_E::CheckSelected (E_Choice index) const
	Verify selection, throw exception if it differs from the expected. More...
void	CGenetic_code_Base::C_E::ThrowInvalidSelection (E_Choice index) const
	Throw 'InvalidSelection' exception. More...
static string	CGenetic_code_Base::C_E::SelectionName (E_Choice index)
	Retrieve selection name (for diagnostic purposes). More...
void	CGenetic_code_Base::C_E::Select (E_Choice index, EResetVariant reset=eDoResetVariant)
	Select the requested variant if needed. More...
void	CGenetic_code_Base::C_E::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool)
	Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool	CGenetic_code_Base::C_E::IsName (void) const
	Check if variant Name is selected. More...
const TName &	CGenetic_code_Base::C_E::GetName (void) const
	Get the variant data. More...
TName &	CGenetic_code_Base::C_E::SetName (void)
	Select the variant. More...
void	CGenetic_code_Base::C_E::SetName (const TName &value)
	Select the variant and set its data. More...
bool	CGenetic_code_Base::C_E::IsId (void) const
	Check if variant Id is selected. More...
TId	CGenetic_code_Base::C_E::GetId (void) const
	Get the variant data. More...
TId &	CGenetic_code_Base::C_E::SetId (void)
	Select the variant. More...
void	CGenetic_code_Base::C_E::SetId (TId value)
	Select the variant and set its data. More...
bool	CGenetic_code_Base::C_E::IsNcbieaa (void) const
	Check if variant Ncbieaa is selected. More...
const TNcbieaa &	CGenetic_code_Base::C_E::GetNcbieaa (void) const
	Get the variant data. More...
TNcbieaa &	CGenetic_code_Base::C_E::SetNcbieaa (void)
	Select the variant. More...
void	CGenetic_code_Base::C_E::SetNcbieaa (const TNcbieaa &value)
	Select the variant and set its data. More...
bool	CGenetic_code_Base::C_E::IsNcbi8aa (void) const
	Check if variant Ncbi8aa is selected. More...
const TNcbi8aa &	CGenetic_code_Base::C_E::GetNcbi8aa (void) const
	Get the variant data. More...
TNcbi8aa &	CGenetic_code_Base::C_E::SetNcbi8aa (void)
	Select the variant. More...
bool	CGenetic_code_Base::C_E::IsNcbistdaa (void) const
	Check if variant Ncbistdaa is selected. More...
const TNcbistdaa &	CGenetic_code_Base::C_E::GetNcbistdaa (void) const
	Get the variant data. More...
TNcbistdaa &	CGenetic_code_Base::C_E::SetNcbistdaa (void)
	Select the variant. More...
bool	CGenetic_code_Base::C_E::IsSncbieaa (void) const
	Check if variant Sncbieaa is selected. More...
const TSncbieaa &	CGenetic_code_Base::C_E::GetSncbieaa (void) const
	Get the variant data. More...
TSncbieaa &	CGenetic_code_Base::C_E::SetSncbieaa (void)
	Select the variant. More...
void	CGenetic_code_Base::C_E::SetSncbieaa (const TSncbieaa &value)
	Select the variant and set its data. More...
bool	CGenetic_code_Base::C_E::IsSncbi8aa (void) const
	Check if variant Sncbi8aa is selected. More...
const TSncbi8aa &	CGenetic_code_Base::C_E::GetSncbi8aa (void) const
	Get the variant data. More...
TSncbi8aa &	CGenetic_code_Base::C_E::SetSncbi8aa (void)
	Select the variant. More...
bool	CGenetic_code_Base::C_E::IsSncbistdaa (void) const
	Check if variant Sncbistdaa is selected. More...
const TSncbistdaa &	CGenetic_code_Base::C_E::GetSncbistdaa (void) const
	Get the variant data. More...
TSncbistdaa &	CGenetic_code_Base::C_E::SetSncbistdaa (void)
	Select the variant. More...
	CGenetic_code_Base::C_E::C_E (const C_E &)
C_E &	CGenetic_code_Base::C_E::operator= (const C_E &)
void	CGenetic_code_Base::C_E::DoSelect (E_Choice index, CObjectMemoryPool *pool=0)
bool	CGenetic_code_Base::IsSet (void) const
	Check if a value has been assigned to data member. More...
bool	CGenetic_code_Base::CanGet (void) const
	Check if it is safe to call Get method. More...
void	CGenetic_code_Base::Reset (void)
	Reset data member. More...
const Tdata &	CGenetic_code_Base::Get (void) const
	Get the member data. More...
Tdata &	CGenetic_code_Base::Set (void)
	Assign a value to data member. More...
	CGenetic_code_Base::operator const Tdata & (void) const
	Conversion operator to 'const Tdata' type. More...
	CGenetic_code_Base::operator Tdata & (void)
	Conversion operator to 'Tdata' type. More...
	CGenetic_code_Base::CGenetic_code_Base (const CGenetic_code_Base &)
CGenetic_code_Base &	CGenetic_code_Base::operator= (const CGenetic_code_Base &)
	CGenetic_code_table_Base::CGenetic_code_table_Base (void)
virtual	CGenetic_code_table_Base::~CGenetic_code_table_Base (void)
	CGenetic_code_table_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CGenetic_code_table_Base::IsSet (void) const
	Check if a value has been assigned to data member. More...
bool	CGenetic_code_table_Base::CanGet (void) const
	Check if it is safe to call Get method. More...
void	CGenetic_code_table_Base::Reset (void)
	Reset data member. More...
const Tdata &	CGenetic_code_table_Base::Get (void) const
	Get the member data. More...
Tdata &	CGenetic_code_table_Base::Set (void)
	Assign a value to data member. More...
	CGenetic_code_table_Base::operator const Tdata & (void) const
	Conversion operator to 'const Tdata' type. More...
	CGenetic_code_table_Base::operator Tdata & (void)
	Conversion operator to 'Tdata' type. More...
	CGenetic_code_table_Base::CGenetic_code_table_Base (const CGenetic_code_table_Base &)
CGenetic_code_table_Base &	CGenetic_code_table_Base::operator= (const CGenetic_code_table_Base &)
	CImp_feat_Base::CImp_feat_Base (void)
virtual	CImp_feat_Base::~CImp_feat_Base (void)
	CImp_feat_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CImp_feat_Base::IsSetKey (void) const
	Check if a value has been assigned to Key data member. More...
bool	CImp_feat_Base::CanGetKey (void) const
	Check if it is safe to call GetKey method. More...
void	CImp_feat_Base::ResetKey (void)
	Reset Key data member. More...
const TKey &	CImp_feat_Base::GetKey (void) const
	Get the Key member data. More...
void	CImp_feat_Base::SetKey (const TKey &value)
	Assign a value to Key data member. More...
void	CImp_feat_Base::SetKey (TKey &&value)
TKey &	CImp_feat_Base::SetKey (void)
	Assign a value to Key data member. More...
bool	CImp_feat_Base::IsSetLoc (void) const
	original location string Check if a value has been assigned to Loc data member. More...
bool	CImp_feat_Base::CanGetLoc (void) const
	Check if it is safe to call GetLoc method. More...
void	CImp_feat_Base::ResetLoc (void)
	Reset Loc data member. More...
const TLoc &	CImp_feat_Base::GetLoc (void) const
	Get the Loc member data. More...
void	CImp_feat_Base::SetLoc (const TLoc &value)
	Assign a value to Loc data member. More...
void	CImp_feat_Base::SetLoc (TLoc &&value)
TLoc &	CImp_feat_Base::SetLoc (void)
	Assign a value to Loc data member. More...
bool	CImp_feat_Base::IsSetDescr (void) const
	text description Check if a value has been assigned to Descr data member. More...
bool	CImp_feat_Base::CanGetDescr (void) const
	Check if it is safe to call GetDescr method. More...
void	CImp_feat_Base::ResetDescr (void)
	Reset Descr data member. More...
const TDescr &	CImp_feat_Base::GetDescr (void) const
	Get the Descr member data. More...
void	CImp_feat_Base::SetDescr (const TDescr &value)
	Assign a value to Descr data member. More...
void	CImp_feat_Base::SetDescr (TDescr &&value)
TDescr &	CImp_feat_Base::SetDescr (void)
	Assign a value to Descr data member. More...
virtual void	CImp_feat_Base::Reset (void)
	Reset the whole object. More...
	CImp_feat_Base::CImp_feat_Base (const CImp_feat_Base &)
CImp_feat_Base &	CImp_feat_Base::operator= (const CImp_feat_Base &)
	CInferenceSupport::CInferenceSupport (void)
	CInferenceSupport::~CInferenceSupport (void)
	CInferenceSupport::CInferenceSupport (const CInferenceSupport &value)
CInferenceSupport &	CInferenceSupport::operator= (const CInferenceSupport &value)
	CInferenceSupport_Base::CInferenceSupport_Base (void)
virtual	CInferenceSupport_Base::~CInferenceSupport_Base (void)
	CInferenceSupport_Base::DECLARE_INTERNAL_TYPE_INFO ()
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CInferenceSupport_Base::EType (void)
	Access to EType's attributes (values, names) as defined in spec. More...
bool	CInferenceSupport_Base::IsSetCategory (void) const
	Check if a value has been assigned to Category data member. More...
bool	CInferenceSupport_Base::CanGetCategory (void) const
	Check if it is safe to call GetCategory method. More...
void	CInferenceSupport_Base::ResetCategory (void)
	Reset Category data member. More...
TCategory	CInferenceSupport_Base::GetCategory (void) const
	Get the Category member data. More...
void	CInferenceSupport_Base::SetCategory (TCategory value)
	Assign a value to Category data member. More...
TCategory &	CInferenceSupport_Base::SetCategory (void)
	Assign a value to Category data member. More...
bool	CInferenceSupport_Base::IsSetType (void) const
	Check if a value has been assigned to Type data member. More...
bool	CInferenceSupport_Base::CanGetType (void) const
	Check if it is safe to call GetType method. More...
void	CInferenceSupport_Base::ResetType (void)
	Reset Type data member. More...
void	CInferenceSupport_Base::SetDefaultType (void)
	Assign default value to Type data member. More...
TType	CInferenceSupport_Base::GetType (void) const
	Get the Type member data. More...
void	CInferenceSupport_Base::SetType (TType value)
	Assign a value to Type data member. More...
TType &	CInferenceSupport_Base::SetType (void)
	Assign a value to Type data member. More...
bool	CInferenceSupport_Base::IsSetOther_type (void) const
	Check if a value has been assigned to Other_type data member. More...
bool	CInferenceSupport_Base::CanGetOther_type (void) const
	Check if it is safe to call GetOther_type method. More...
void	CInferenceSupport_Base::ResetOther_type (void)
	Reset Other_type data member. More...
const TOther_type &	CInferenceSupport_Base::GetOther_type (void) const
	Get the Other_type member data. More...
void	CInferenceSupport_Base::SetOther_type (const TOther_type &value)
	Assign a value to Other_type data member. More...
void	CInferenceSupport_Base::SetOther_type (TOther_type &&value)
TOther_type &	CInferenceSupport_Base::SetOther_type (void)
	Assign a value to Other_type data member. More...
bool	CInferenceSupport_Base::IsSetSame_species (void) const
	Check if a value has been assigned to Same_species data member. More...
bool	CInferenceSupport_Base::CanGetSame_species (void) const
	Check if it is safe to call GetSame_species method. More...
void	CInferenceSupport_Base::ResetSame_species (void)
	Reset Same_species data member. More...
void	CInferenceSupport_Base::SetDefaultSame_species (void)
	Assign default value to Same_species data member. More...
TSame_species	CInferenceSupport_Base::GetSame_species (void) const
	Get the Same_species member data. More...
void	CInferenceSupport_Base::SetSame_species (TSame_species value)
	Assign a value to Same_species data member. More...
TSame_species &	CInferenceSupport_Base::SetSame_species (void)
	Assign a value to Same_species data member. More...
bool	CInferenceSupport_Base::IsSetBasis (void) const
	Check if a value has been assigned to Basis data member. More...
bool	CInferenceSupport_Base::CanGetBasis (void) const
	Check if it is safe to call GetBasis method. More...
void	CInferenceSupport_Base::ResetBasis (void)
	Reset Basis data member. More...
const TBasis &	CInferenceSupport_Base::GetBasis (void) const
	Get the Basis member data. More...
void	CInferenceSupport_Base::SetBasis (TBasis &value)
	Assign a value to Basis data member. More...
TBasis &	CInferenceSupport_Base::SetBasis (void)
	Assign a value to Basis data member. More...
bool	CInferenceSupport_Base::IsSetPmids (void) const
	Check if a value has been assigned to Pmids data member. More...
bool	CInferenceSupport_Base::CanGetPmids (void) const
	Check if it is safe to call GetPmids method. More...
void	CInferenceSupport_Base::ResetPmids (void)
	Reset Pmids data member. More...
const TPmids &	CInferenceSupport_Base::GetPmids (void) const
	Get the Pmids member data. More...
TPmids &	CInferenceSupport_Base::SetPmids (void)
	Assign a value to Pmids data member. More...
bool	CInferenceSupport_Base::IsSetDois (void) const
	Check if a value has been assigned to Dois data member. More...
bool	CInferenceSupport_Base::CanGetDois (void) const
	Check if it is safe to call GetDois method. More...
void	CInferenceSupport_Base::ResetDois (void)
	Reset Dois data member. More...
const TDois &	CInferenceSupport_Base::GetDois (void) const
	Get the Dois member data. More...
TDois &	CInferenceSupport_Base::SetDois (void)
	Assign a value to Dois data member. More...
virtual void	CInferenceSupport_Base::Reset (void)
	Reset the whole object. More...
	CInferenceSupport_Base::CInferenceSupport_Base (const CInferenceSupport_Base &)
CInferenceSupport_Base &	CInferenceSupport_Base::operator= (const CInferenceSupport_Base &)
	CModelEvidenceItem::CModelEvidenceItem (void)
	CModelEvidenceItem::~CModelEvidenceItem (void)
	CModelEvidenceItem::CModelEvidenceItem (const CModelEvidenceItem &value)
CModelEvidenceItem &	CModelEvidenceItem::operator= (const CModelEvidenceItem &value)
	CModelEvidenceItem_Base::CModelEvidenceItem_Base (void)
virtual	CModelEvidenceItem_Base::~CModelEvidenceItem_Base (void)
	CModelEvidenceItem_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CModelEvidenceItem_Base::IsSetId (void) const
	Check if a value has been assigned to Id data member. More...
bool	CModelEvidenceItem_Base::CanGetId (void) const
	Check if it is safe to call GetId method. More...
void	CModelEvidenceItem_Base::ResetId (void)
	Reset Id data member. More...
const TId &	CModelEvidenceItem_Base::GetId (void) const
	Get the Id member data. More...
void	CModelEvidenceItem_Base::SetId (TId &value)
	Assign a value to Id data member. More...
TId &	CModelEvidenceItem_Base::SetId (void)
	Assign a value to Id data member. More...
bool	CModelEvidenceItem_Base::IsSetExon_count (void) const
	Check if a value has been assigned to Exon_count data member. More...
bool	CModelEvidenceItem_Base::CanGetExon_count (void) const
	Check if it is safe to call GetExon_count method. More...
void	CModelEvidenceItem_Base::ResetExon_count (void)
	Reset Exon_count data member. More...
TExon_count	CModelEvidenceItem_Base::GetExon_count (void) const
	Get the Exon_count member data. More...
void	CModelEvidenceItem_Base::SetExon_count (TExon_count value)
	Assign a value to Exon_count data member. More...
TExon_count &	CModelEvidenceItem_Base::SetExon_count (void)
	Assign a value to Exon_count data member. More...
bool	CModelEvidenceItem_Base::IsSetExon_length (void) const
	Check if a value has been assigned to Exon_length data member. More...
bool	CModelEvidenceItem_Base::CanGetExon_length (void) const
	Check if it is safe to call GetExon_length method. More...
void	CModelEvidenceItem_Base::ResetExon_length (void)
	Reset Exon_length data member. More...
TExon_length	CModelEvidenceItem_Base::GetExon_length (void) const
	Get the Exon_length member data. More...
void	CModelEvidenceItem_Base::SetExon_length (TExon_length value)
	Assign a value to Exon_length data member. More...
TExon_length &	CModelEvidenceItem_Base::SetExon_length (void)
	Assign a value to Exon_length data member. More...
bool	CModelEvidenceItem_Base::IsSetFull_length (void) const
	Check if a value has been assigned to Full_length data member. More...
bool	CModelEvidenceItem_Base::CanGetFull_length (void) const
	Check if it is safe to call GetFull_length method. More...
void	CModelEvidenceItem_Base::ResetFull_length (void)
	Reset Full_length data member. More...
void	CModelEvidenceItem_Base::SetDefaultFull_length (void)
	Assign default value to Full_length data member. More...
TFull_length	CModelEvidenceItem_Base::GetFull_length (void) const
	Get the Full_length member data. More...
void	CModelEvidenceItem_Base::SetFull_length (TFull_length value)
	Assign a value to Full_length data member. More...
TFull_length &	CModelEvidenceItem_Base::SetFull_length (void)
	Assign a value to Full_length data member. More...
bool	CModelEvidenceItem_Base::IsSetSupports_all_exon_combo (void) const
	Check if a value has been assigned to Supports_all_exon_combo data member. More...
bool	CModelEvidenceItem_Base::CanGetSupports_all_exon_combo (void) const
	Check if it is safe to call GetSupports_all_exon_combo method. More...
void	CModelEvidenceItem_Base::ResetSupports_all_exon_combo (void)
	Reset Supports_all_exon_combo data member. More...
void	CModelEvidenceItem_Base::SetDefaultSupports_all_exon_combo (void)
	Assign default value to Supports_all_exon_combo data member. More...
TSupports_all_exon_combo	CModelEvidenceItem_Base::GetSupports_all_exon_combo (void) const
	Get the Supports_all_exon_combo member data. More...
void	CModelEvidenceItem_Base::SetSupports_all_exon_combo (TSupports_all_exon_combo value)
	Assign a value to Supports_all_exon_combo data member. More...
TSupports_all_exon_combo &	CModelEvidenceItem_Base::SetSupports_all_exon_combo (void)
	Assign a value to Supports_all_exon_combo data member. More...
virtual void	CModelEvidenceItem_Base::Reset (void)
	Reset the whole object. More...
	CModelEvidenceItem_Base::CModelEvidenceItem_Base (const CModelEvidenceItem_Base &)
CModelEvidenceItem_Base &	CModelEvidenceItem_Base::operator= (const CModelEvidenceItem_Base &)
	CModelEvidenceSupport::CModelEvidenceSupport (void)
	CModelEvidenceSupport::~CModelEvidenceSupport (void)
	CModelEvidenceSupport::CModelEvidenceSupport (const CModelEvidenceSupport &value)
CModelEvidenceSupport &	CModelEvidenceSupport::operator= (const CModelEvidenceSupport &value)
	CModelEvidenceSupport_Base::CModelEvidenceSupport_Base (void)
virtual	CModelEvidenceSupport_Base::~CModelEvidenceSupport_Base (void)
	CModelEvidenceSupport_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CModelEvidenceSupport_Base::IsSetMethod (void) const
	Check if a value has been assigned to Method data member. More...
bool	CModelEvidenceSupport_Base::CanGetMethod (void) const
	Check if it is safe to call GetMethod method. More...
void	CModelEvidenceSupport_Base::ResetMethod (void)
	Reset Method data member. More...
const TMethod &	CModelEvidenceSupport_Base::GetMethod (void) const
	Get the Method member data. More...
void	CModelEvidenceSupport_Base::SetMethod (const TMethod &value)
	Assign a value to Method data member. More...
void	CModelEvidenceSupport_Base::SetMethod (TMethod &&value)
TMethod &	CModelEvidenceSupport_Base::SetMethod (void)
	Assign a value to Method data member. More...
bool	CModelEvidenceSupport_Base::IsSetMrna (void) const
	Check if a value has been assigned to Mrna data member. More...
bool	CModelEvidenceSupport_Base::CanGetMrna (void) const
	Check if it is safe to call GetMrna method. More...
void	CModelEvidenceSupport_Base::ResetMrna (void)
	Reset Mrna data member. More...
const TMrna &	CModelEvidenceSupport_Base::GetMrna (void) const
	Get the Mrna member data. More...
TMrna &	CModelEvidenceSupport_Base::SetMrna (void)
	Assign a value to Mrna data member. More...
bool	CModelEvidenceSupport_Base::IsSetEst (void) const
	Check if a value has been assigned to Est data member. More...
bool	CModelEvidenceSupport_Base::CanGetEst (void) const
	Check if it is safe to call GetEst method. More...
void	CModelEvidenceSupport_Base::ResetEst (void)
	Reset Est data member. More...
const TEst &	CModelEvidenceSupport_Base::GetEst (void) const
	Get the Est member data. More...
TEst &	CModelEvidenceSupport_Base::SetEst (void)
	Assign a value to Est data member. More...
bool	CModelEvidenceSupport_Base::IsSetProtein (void) const
	Check if a value has been assigned to Protein data member. More...
bool	CModelEvidenceSupport_Base::CanGetProtein (void) const
	Check if it is safe to call GetProtein method. More...
void	CModelEvidenceSupport_Base::ResetProtein (void)
	Reset Protein data member. More...
const TProtein &	CModelEvidenceSupport_Base::GetProtein (void) const
	Get the Protein member data. More...
TProtein &	CModelEvidenceSupport_Base::SetProtein (void)
	Assign a value to Protein data member. More...
bool	CModelEvidenceSupport_Base::IsSetIdentification (void) const
	Check if a value has been assigned to Identification data member. More...
bool	CModelEvidenceSupport_Base::CanGetIdentification (void) const
	Check if it is safe to call GetIdentification method. More...
void	CModelEvidenceSupport_Base::ResetIdentification (void)
	Reset Identification data member. More...
const TIdentification &	CModelEvidenceSupport_Base::GetIdentification (void) const
	Get the Identification member data. More...
void	CModelEvidenceSupport_Base::SetIdentification (TIdentification &value)
	Assign a value to Identification data member. More...
TIdentification &	CModelEvidenceSupport_Base::SetIdentification (void)
	Assign a value to Identification data member. More...
bool	CModelEvidenceSupport_Base::IsSetDbxref (void) const
	Check if a value has been assigned to Dbxref data member. More...
bool	CModelEvidenceSupport_Base::CanGetDbxref (void) const
	Check if it is safe to call GetDbxref method. More...
void	CModelEvidenceSupport_Base::ResetDbxref (void)
	Reset Dbxref data member. More...
const TDbxref &	CModelEvidenceSupport_Base::GetDbxref (void) const
	Get the Dbxref member data. More...
TDbxref &	CModelEvidenceSupport_Base::SetDbxref (void)
	Assign a value to Dbxref data member. More...
bool	CModelEvidenceSupport_Base::IsSetExon_count (void) const
	Check if a value has been assigned to Exon_count data member. More...
bool	CModelEvidenceSupport_Base::CanGetExon_count (void) const
	Check if it is safe to call GetExon_count method. More...
void	CModelEvidenceSupport_Base::ResetExon_count (void)
	Reset Exon_count data member. More...
TExon_count	CModelEvidenceSupport_Base::GetExon_count (void) const
	Get the Exon_count member data. More...
void	CModelEvidenceSupport_Base::SetExon_count (TExon_count value)
	Assign a value to Exon_count data member. More...
TExon_count &	CModelEvidenceSupport_Base::SetExon_count (void)
	Assign a value to Exon_count data member. More...
bool	CModelEvidenceSupport_Base::IsSetExon_length (void) const
	Check if a value has been assigned to Exon_length data member. More...
bool	CModelEvidenceSupport_Base::CanGetExon_length (void) const
	Check if it is safe to call GetExon_length method. More...
void	CModelEvidenceSupport_Base::ResetExon_length (void)
	Reset Exon_length data member. More...
TExon_length	CModelEvidenceSupport_Base::GetExon_length (void) const
	Get the Exon_length member data. More...
void	CModelEvidenceSupport_Base::SetExon_length (TExon_length value)
	Assign a value to Exon_length data member. More...
TExon_length &	CModelEvidenceSupport_Base::SetExon_length (void)
	Assign a value to Exon_length data member. More...
bool	CModelEvidenceSupport_Base::IsSetFull_length (void) const
	Check if a value has been assigned to Full_length data member. More...
bool	CModelEvidenceSupport_Base::CanGetFull_length (void) const
	Check if it is safe to call GetFull_length method. More...
void	CModelEvidenceSupport_Base::ResetFull_length (void)
	Reset Full_length data member. More...
void	CModelEvidenceSupport_Base::SetDefaultFull_length (void)
	Assign default value to Full_length data member. More...
TFull_length	CModelEvidenceSupport_Base::GetFull_length (void) const
	Get the Full_length member data. More...
void	CModelEvidenceSupport_Base::SetFull_length (TFull_length value)
	Assign a value to Full_length data member. More...
TFull_length &	CModelEvidenceSupport_Base::SetFull_length (void)
	Assign a value to Full_length data member. More...
bool	CModelEvidenceSupport_Base::IsSetSupports_all_exon_combo (void) const
	Check if a value has been assigned to Supports_all_exon_combo data member. More...
bool	CModelEvidenceSupport_Base::CanGetSupports_all_exon_combo (void) const
	Check if it is safe to call GetSupports_all_exon_combo method. More...
void	CModelEvidenceSupport_Base::ResetSupports_all_exon_combo (void)
	Reset Supports_all_exon_combo data member. More...
void	CModelEvidenceSupport_Base::SetDefaultSupports_all_exon_combo (void)
	Assign default value to Supports_all_exon_combo data member. More...
TSupports_all_exon_combo	CModelEvidenceSupport_Base::GetSupports_all_exon_combo (void) const
	Get the Supports_all_exon_combo member data. More...
void	CModelEvidenceSupport_Base::SetSupports_all_exon_combo (TSupports_all_exon_combo value)
	Assign a value to Supports_all_exon_combo data member. More...
TSupports_all_exon_combo &	CModelEvidenceSupport_Base::SetSupports_all_exon_combo (void)
	Assign a value to Supports_all_exon_combo data member. More...
virtual void	CModelEvidenceSupport_Base::Reset (void)
	Reset the whole object. More...
	CModelEvidenceSupport_Base::CModelEvidenceSupport_Base (const CModelEvidenceSupport_Base &)
CModelEvidenceSupport_Base &	CModelEvidenceSupport_Base::operator= (const CModelEvidenceSupport_Base &)
	CProgram_id::CProgram_id (void)
	CProgram_id::~CProgram_id (void)
	CProgram_id::CProgram_id (const CProgram_id &value)
CProgram_id &	CProgram_id::operator= (const CProgram_id &value)
	CProgram_id_Base::CProgram_id_Base (void)
virtual	CProgram_id_Base::~CProgram_id_Base (void)
	CProgram_id_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CProgram_id_Base::IsSetName (void) const
	Check if a value has been assigned to Name data member. More...
bool	CProgram_id_Base::CanGetName (void) const
	Check if it is safe to call GetName method. More...
void	CProgram_id_Base::ResetName (void)
	Reset Name data member. More...
const TName &	CProgram_id_Base::GetName (void) const
	Get the Name member data. More...
void	CProgram_id_Base::SetName (const TName &value)
	Assign a value to Name data member. More...
void	CProgram_id_Base::SetName (TName &&value)
TName &	CProgram_id_Base::SetName (void)
	Assign a value to Name data member. More...
bool	CProgram_id_Base::IsSetVersion (void) const
	Check if a value has been assigned to Version data member. More...
bool	CProgram_id_Base::CanGetVersion (void) const
	Check if it is safe to call GetVersion method. More...
void	CProgram_id_Base::ResetVersion (void)
	Reset Version data member. More...
const TVersion &	CProgram_id_Base::GetVersion (void) const
	Get the Version member data. More...
void	CProgram_id_Base::SetVersion (const TVersion &value)
	Assign a value to Version data member. More...
void	CProgram_id_Base::SetVersion (TVersion &&value)
TVersion &	CProgram_id_Base::SetVersion (void)
	Assign a value to Version data member. More...
virtual void	CProgram_id_Base::Reset (void)
	Reset the whole object. More...
	CProgram_id_Base::CProgram_id_Base (const CProgram_id_Base &)
CProgram_id_Base &	CProgram_id_Base::operator= (const CProgram_id_Base &)
	CSeq_feat_Base::CSeq_feat_Base (void)
virtual	CSeq_feat_Base::~CSeq_feat_Base (void)
	CSeq_feat_Base::DECLARE_INTERNAL_TYPE_INFO ()
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CSeq_feat_Base::EExp_ev (void)
	Access to EExp_ev's attributes (values, names) as defined in spec. More...
bool	CSeq_feat_Base::IsSetId (void) const
	Check if a value has been assigned to Id data member. More...
bool	CSeq_feat_Base::CanGetId (void) const
	Check if it is safe to call GetId method. More...
void	CSeq_feat_Base::ResetId (void)
	Reset Id data member. More...
const TId &	CSeq_feat_Base::GetId (void) const
	Get the Id member data. More...
void	CSeq_feat_Base::SetId (TId &value)
	Assign a value to Id data member. More...
TId &	CSeq_feat_Base::SetId (void)
	Assign a value to Id data member. More...
bool	CSeq_feat_Base::IsSetData (void) const
	the specific data Check if a value has been assigned to Data data member. More...
bool	CSeq_feat_Base::CanGetData (void) const
	Check if it is safe to call GetData method. More...
void	CSeq_feat_Base::ResetData (void)
	Reset Data data member. More...
const TData &	CSeq_feat_Base::GetData (void) const
	Get the Data member data. More...
void	CSeq_feat_Base::SetData (TData &value)
	Assign a value to Data data member. More...
TData &	CSeq_feat_Base::SetData (void)
	Assign a value to Data data member. More...
bool	CSeq_feat_Base::IsSetPartial (void) const
	incomplete in some way? Check if a value has been assigned to Partial data member. More...
bool	CSeq_feat_Base::CanGetPartial (void) const
	Check if it is safe to call GetPartial method. More...
void	CSeq_feat_Base::ResetPartial (void)
	Reset Partial data member. More...
TPartial	CSeq_feat_Base::GetPartial (void) const
	Get the Partial member data. More...
void	CSeq_feat_Base::SetPartial (TPartial value)
	Assign a value to Partial data member. More...
TPartial &	CSeq_feat_Base::SetPartial (void)
	Assign a value to Partial data member. More...
bool	CSeq_feat_Base::IsSetExcept (void) const
	something funny about this? Check if a value has been assigned to Except data member. More...
bool	CSeq_feat_Base::CanGetExcept (void) const
	Check if it is safe to call GetExcept method. More...
void	CSeq_feat_Base::ResetExcept (void)
	Reset Except data member. More...
TExcept	CSeq_feat_Base::GetExcept (void) const
	Get the Except member data. More...
void	CSeq_feat_Base::SetExcept (TExcept value)
	Assign a value to Except data member. More...
TExcept &	CSeq_feat_Base::SetExcept (void)
	Assign a value to Except data member. More...
bool	CSeq_feat_Base::IsSetComment (void) const
	Check if a value has been assigned to Comment data member. More...
bool	CSeq_feat_Base::CanGetComment (void) const
	Check if it is safe to call GetComment method. More...
void	CSeq_feat_Base::ResetComment (void)
	Reset Comment data member. More...
const TComment &	CSeq_feat_Base::GetComment (void) const
	Get the Comment member data. More...
void	CSeq_feat_Base::SetComment (const TComment &value)
	Assign a value to Comment data member. More...
void	CSeq_feat_Base::SetComment (TComment &&value)
TComment &	CSeq_feat_Base::SetComment (void)
	Assign a value to Comment data member. More...
bool	CSeq_feat_Base::IsSetProduct (void) const
	product of process Check if a value has been assigned to Product data member. More...
bool	CSeq_feat_Base::CanGetProduct (void) const
	Check if it is safe to call GetProduct method. More...
void	CSeq_feat_Base::ResetProduct (void)
	Reset Product data member. More...
const TProduct &	CSeq_feat_Base::GetProduct (void) const
	Get the Product member data. More...
void	CSeq_feat_Base::SetProduct (TProduct &value)
	Assign a value to Product data member. More...
TProduct &	CSeq_feat_Base::SetProduct (void)
	Assign a value to Product data member. More...
bool	CSeq_feat_Base::IsSetLocation (void) const
	feature made from Check if a value has been assigned to Location data member. More...
bool	CSeq_feat_Base::CanGetLocation (void) const
	Check if it is safe to call GetLocation method. More...
void	CSeq_feat_Base::ResetLocation (void)
	Reset Location data member. More...
const TLocation &	CSeq_feat_Base::GetLocation (void) const
	Get the Location member data. More...
void	CSeq_feat_Base::SetLocation (TLocation &value)
	Assign a value to Location data member. More...
TLocation &	CSeq_feat_Base::SetLocation (void)
	Assign a value to Location data member. More...
bool	CSeq_feat_Base::IsSetQual (void) const
	qualifiers Check if a value has been assigned to Qual data member. More...
bool	CSeq_feat_Base::CanGetQual (void) const
	Check if it is safe to call GetQual method. More...
void	CSeq_feat_Base::ResetQual (void)
	Reset Qual data member. More...
const TQual &	CSeq_feat_Base::GetQual (void) const
	Get the Qual member data. More...
TQual &	CSeq_feat_Base::SetQual (void)
	Assign a value to Qual data member. More...
bool	CSeq_feat_Base::IsSetTitle (void) const
	for user defined label Check if a value has been assigned to Title data member. More...
bool	CSeq_feat_Base::CanGetTitle (void) const
	Check if it is safe to call GetTitle method. More...
void	CSeq_feat_Base::ResetTitle (void)
	Reset Title data member. More...
const TTitle &	CSeq_feat_Base::GetTitle (void) const
	Get the Title member data. More...
void	CSeq_feat_Base::SetTitle (const TTitle &value)
	Assign a value to Title data member. More...
void	CSeq_feat_Base::SetTitle (TTitle &&value)
TTitle &	CSeq_feat_Base::SetTitle (void)
	Assign a value to Title data member. More...
bool	CSeq_feat_Base::IsSetExt (void) const
	user defined structure extension Check if a value has been assigned to Ext data member. More...
bool	CSeq_feat_Base::CanGetExt (void) const
	Check if it is safe to call GetExt method. More...
void	CSeq_feat_Base::ResetExt (void)
	Reset Ext data member. More...
const TExt &	CSeq_feat_Base::GetExt (void) const
	Get the Ext member data. More...
void	CSeq_feat_Base::SetExt (TExt &value)
	Assign a value to Ext data member. More...
TExt &	CSeq_feat_Base::SetExt (void)
	Assign a value to Ext data member. More...
bool	CSeq_feat_Base::IsSetCit (void) const
	citations for this feature Check if a value has been assigned to Cit data member. More...
bool	CSeq_feat_Base::CanGetCit (void) const
	Check if it is safe to call GetCit method. More...
void	CSeq_feat_Base::ResetCit (void)
	Reset Cit data member. More...
const TCit &	CSeq_feat_Base::GetCit (void) const
	Get the Cit member data. More...
void	CSeq_feat_Base::SetCit (TCit &value)
	Assign a value to Cit data member. More...
TCit &	CSeq_feat_Base::SetCit (void)
	Assign a value to Cit data member. More...
bool	CSeq_feat_Base::IsSetExp_ev (void) const
	Check if a value has been assigned to Exp_ev data member. More...
bool	CSeq_feat_Base::CanGetExp_ev (void) const
	Check if it is safe to call GetExp_ev method. More...
void	CSeq_feat_Base::ResetExp_ev (void)
	Reset Exp_ev data member. More...
TExp_ev	CSeq_feat_Base::GetExp_ev (void) const
	Get the Exp_ev member data. More...
void	CSeq_feat_Base::SetExp_ev (TExp_ev value)
	Assign a value to Exp_ev data member. More...
TExp_ev &	CSeq_feat_Base::SetExp_ev (void)
	Assign a value to Exp_ev data member. More...
bool	CSeq_feat_Base::IsSetXref (void) const
	cite other relevant features Check if a value has been assigned to Xref data member. More...
bool	CSeq_feat_Base::CanGetXref (void) const
	Check if it is safe to call GetXref method. More...
void	CSeq_feat_Base::ResetXref (void)
	Reset Xref data member. More...
const TXref &	CSeq_feat_Base::GetXref (void) const
	Get the Xref member data. More...
TXref &	CSeq_feat_Base::SetXref (void)
	Assign a value to Xref data member. More...
bool	CSeq_feat_Base::IsSetDbxref (void) const
	support for xref to other databases Check if a value has been assigned to Dbxref data member. More...
bool	CSeq_feat_Base::CanGetDbxref (void) const
	Check if it is safe to call GetDbxref method. More...
void	CSeq_feat_Base::ResetDbxref (void)
	Reset Dbxref data member. More...
const TDbxref &	CSeq_feat_Base::GetDbxref (void) const
	Get the Dbxref member data. More...
TDbxref &	CSeq_feat_Base::SetDbxref (void)
	Assign a value to Dbxref data member. More...
bool	CSeq_feat_Base::IsSetPseudo (void) const
	annotated on pseudogene? Check if a value has been assigned to Pseudo data member. More...
bool	CSeq_feat_Base::CanGetPseudo (void) const
	Check if it is safe to call GetPseudo method. More...
void	CSeq_feat_Base::ResetPseudo (void)
	Reset Pseudo data member. More...
TPseudo	CSeq_feat_Base::GetPseudo (void) const
	Get the Pseudo member data. More...
void	CSeq_feat_Base::SetPseudo (TPseudo value)
	Assign a value to Pseudo data member. More...
TPseudo &	CSeq_feat_Base::SetPseudo (void)
	Assign a value to Pseudo data member. More...
bool	CSeq_feat_Base::IsSetExcept_text (void) const
	explain if except=TRUE Check if a value has been assigned to Except_text data member. More...
bool	CSeq_feat_Base::CanGetExcept_text (void) const
	Check if it is safe to call GetExcept_text method. More...
void	CSeq_feat_Base::ResetExcept_text (void)
	Reset Except_text data member. More...
const TExcept_text &	CSeq_feat_Base::GetExcept_text (void) const
	Get the Except_text member data. More...
void	CSeq_feat_Base::SetExcept_text (const TExcept_text &value)
	Assign a value to Except_text data member. More...
void	CSeq_feat_Base::SetExcept_text (TExcept_text &&value)
TExcept_text &	CSeq_feat_Base::SetExcept_text (void)
	Assign a value to Except_text data member. More...
bool	CSeq_feat_Base::IsSetIds (void) const
	set of Ids; will replace 'id' field Check if a value has been assigned to Ids data member. More...
bool	CSeq_feat_Base::CanGetIds (void) const
	Check if it is safe to call GetIds method. More...
void	CSeq_feat_Base::ResetIds (void)
	Reset Ids data member. More...
const TIds &	CSeq_feat_Base::GetIds (void) const
	Get the Ids member data. More...
TIds &	CSeq_feat_Base::SetIds (void)
	Assign a value to Ids data member. More...
bool	CSeq_feat_Base::IsSetExts (void) const
	set of extensions; will replace 'ext' field Check if a value has been assigned to Exts data member. More...
bool	CSeq_feat_Base::CanGetExts (void) const
	Check if it is safe to call GetExts method. More...
void	CSeq_feat_Base::ResetExts (void)
	Reset Exts data member. More...
const TExts &	CSeq_feat_Base::GetExts (void) const
	Get the Exts member data. More...
TExts &	CSeq_feat_Base::SetExts (void)
	Assign a value to Exts data member. More...
bool	CSeq_feat_Base::IsSetSupport (void) const
	will replace /experiment, /inference, model-evidence Check if a value has been assigned to Support data member. More...
bool	CSeq_feat_Base::CanGetSupport (void) const
	Check if it is safe to call GetSupport method. More...
void	CSeq_feat_Base::ResetSupport (void)
	Reset Support data member. More...
const TSupport &	CSeq_feat_Base::GetSupport (void) const
	Get the Support member data. More...
void	CSeq_feat_Base::SetSupport (TSupport &value)
	Assign a value to Support data member. More...
TSupport &	CSeq_feat_Base::SetSupport (void)
	Assign a value to Support data member. More...
virtual void	CSeq_feat_Base::Reset (void)
	Reset the whole object. More...
	CSeq_feat_Base::CSeq_feat_Base (const CSeq_feat_Base &)
CSeq_feat_Base &	CSeq_feat_Base::operator= (const CSeq_feat_Base &)
	CSeqFeatData_Base::CSeqFeatData_Base (void)
virtual	CSeqFeatData_Base::~CSeqFeatData_Base (void)
	CSeqFeatData_Base::DECLARE_INTERNAL_TYPE_INFO ()
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CSeqFeatData_Base::EBond (void)
	Access to EBond's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CSeqFeatData_Base::ESite (void)
	Access to ESite's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	CSeqFeatData_Base::EPsec_str (void)
	Access to EPsec_str's attributes (values, names) as defined in spec. More...
virtual void	CSeqFeatData_Base::Reset (void)
	Reset the whole object. More...
virtual void	CSeqFeatData_Base::ResetSelection (void)
	Reset the selection (set it to e_not_set). More...
E_Choice	CSeqFeatData_Base::Which (void) const
	Which variant is currently selected. More...
void	CSeqFeatData_Base::CheckSelected (E_Choice index) const
	Verify selection, throw exception if it differs from the expected. More...
void	CSeqFeatData_Base::ThrowInvalidSelection (E_Choice index) const
	Throw 'InvalidSelection' exception. More...
static string	CSeqFeatData_Base::SelectionName (E_Choice index)
	Retrieve selection name (for diagnostic purposes). More...
void	CSeqFeatData_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant)
	Select the requested variant if needed. More...
void	CSeqFeatData_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool)
	Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool	CSeqFeatData_Base::IsGene (void) const
	Check if variant Gene is selected. More...
const TGene &	CSeqFeatData_Base::GetGene (void) const
	Get the variant data. More...
TGene &	CSeqFeatData_Base::SetGene (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetGene (TGene &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsOrg (void) const
	Check if variant Org is selected. More...
const TOrg &	CSeqFeatData_Base::GetOrg (void) const
	Get the variant data. More...
TOrg &	CSeqFeatData_Base::SetOrg (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetOrg (TOrg &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsCdregion (void) const
	Check if variant Cdregion is selected. More...
const TCdregion &	CSeqFeatData_Base::GetCdregion (void) const
	Get the variant data. More...
TCdregion &	CSeqFeatData_Base::SetCdregion (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetCdregion (TCdregion &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsProt (void) const
	Check if variant Prot is selected. More...
const TProt &	CSeqFeatData_Base::GetProt (void) const
	Get the variant data. More...
TProt &	CSeqFeatData_Base::SetProt (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetProt (TProt &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsRna (void) const
	Check if variant Rna is selected. More...
const TRna &	CSeqFeatData_Base::GetRna (void) const
	Get the variant data. More...
TRna &	CSeqFeatData_Base::SetRna (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetRna (TRna &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsPub (void) const
	Check if variant Pub is selected. More...
const TPub &	CSeqFeatData_Base::GetPub (void) const
	Get the variant data. More...
TPub &	CSeqFeatData_Base::SetPub (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetPub (TPub &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsSeq (void) const
	Check if variant Seq is selected. More...
const TSeq &	CSeqFeatData_Base::GetSeq (void) const
	Get the variant data. More...
TSeq &	CSeqFeatData_Base::SetSeq (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetSeq (TSeq &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsImp (void) const
	Check if variant Imp is selected. More...
const TImp &	CSeqFeatData_Base::GetImp (void) const
	Get the variant data. More...
TImp &	CSeqFeatData_Base::SetImp (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetImp (TImp &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsRegion (void) const
	Check if variant Region is selected. More...
const TRegion &	CSeqFeatData_Base::GetRegion (void) const
	Get the variant data. More...
TRegion &	CSeqFeatData_Base::SetRegion (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetRegion (const TRegion &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsComment (void) const
	Check if variant Comment is selected. More...
void	CSeqFeatData_Base::SetComment (void)
	Select the variant. More...
bool	CSeqFeatData_Base::IsBond (void) const
	Check if variant Bond is selected. More...
TBond	CSeqFeatData_Base::GetBond (void) const
	Get the variant data. More...
TBond &	CSeqFeatData_Base::SetBond (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetBond (TBond value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsSite (void) const
	Check if variant Site is selected. More...
TSite	CSeqFeatData_Base::GetSite (void) const
	Get the variant data. More...
TSite &	CSeqFeatData_Base::SetSite (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetSite (TSite value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsRsite (void) const
	Check if variant Rsite is selected. More...
const TRsite &	CSeqFeatData_Base::GetRsite (void) const
	Get the variant data. More...
TRsite &	CSeqFeatData_Base::SetRsite (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetRsite (TRsite &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsUser (void) const
	Check if variant User is selected. More...
const TUser &	CSeqFeatData_Base::GetUser (void) const
	Get the variant data. More...
TUser &	CSeqFeatData_Base::SetUser (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetUser (TUser &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsTxinit (void) const
	Check if variant Txinit is selected. More...
const TTxinit &	CSeqFeatData_Base::GetTxinit (void) const
	Get the variant data. More...
TTxinit &	CSeqFeatData_Base::SetTxinit (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetTxinit (TTxinit &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsNum (void) const
	Check if variant Num is selected. More...
const TNum &	CSeqFeatData_Base::GetNum (void) const
	Get the variant data. More...
TNum &	CSeqFeatData_Base::SetNum (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetNum (TNum &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsPsec_str (void) const
	Check if variant Psec_str is selected. More...
TPsec_str	CSeqFeatData_Base::GetPsec_str (void) const
	Get the variant data. More...
TPsec_str &	CSeqFeatData_Base::SetPsec_str (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetPsec_str (TPsec_str value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsNon_std_residue (void) const
	Check if variant Non_std_residue is selected. More...
const TNon_std_residue &	CSeqFeatData_Base::GetNon_std_residue (void) const
	Get the variant data. More...
TNon_std_residue &	CSeqFeatData_Base::SetNon_std_residue (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetNon_std_residue (const TNon_std_residue &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsHet (void) const
	Check if variant Het is selected. More...
const THet &	CSeqFeatData_Base::GetHet (void) const
	Get the variant data. More...
THet &	CSeqFeatData_Base::SetHet (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetHet (const THet &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsBiosrc (void) const
	Check if variant Biosrc is selected. More...
const TBiosrc &	CSeqFeatData_Base::GetBiosrc (void) const
	Get the variant data. More...
TBiosrc &	CSeqFeatData_Base::SetBiosrc (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetBiosrc (TBiosrc &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsClone (void) const
	Check if variant Clone is selected. More...
const TClone &	CSeqFeatData_Base::GetClone (void) const
	Get the variant data. More...
TClone &	CSeqFeatData_Base::SetClone (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetClone (TClone &value)
	Select the variant and set its data. More...
bool	CSeqFeatData_Base::IsVariation (void) const
	Check if variant Variation is selected. More...
const TVariation &	CSeqFeatData_Base::GetVariation (void) const
	Get the variant data. More...
TVariation &	CSeqFeatData_Base::SetVariation (void)
	Select the variant. More...
void	CSeqFeatData_Base::SetVariation (TVariation &value)
	Select the variant and set its data. More...
	CSeqFeatData_Base::CSeqFeatData_Base (const CSeqFeatData_Base &)
CSeqFeatData_Base &	CSeqFeatData_Base::operator= (const CSeqFeatData_Base &)
void	CSeqFeatData_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0)
	CSeqFeatSupport::CSeqFeatSupport (void)
	CSeqFeatSupport::~CSeqFeatSupport (void)
	CSeqFeatSupport::CSeqFeatSupport (const CSeqFeatSupport &value)
CSeqFeatSupport &	CSeqFeatSupport::operator= (const CSeqFeatSupport &value)
	CSeqFeatSupport_Base::CSeqFeatSupport_Base (void)
virtual	CSeqFeatSupport_Base::~CSeqFeatSupport_Base (void)
	CSeqFeatSupport_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CSeqFeatSupport_Base::IsSetExperiment (void) const
	Check if a value has been assigned to Experiment data member. More...
bool	CSeqFeatSupport_Base::CanGetExperiment (void) const
	Check if it is safe to call GetExperiment method. More...
void	CSeqFeatSupport_Base::ResetExperiment (void)
	Reset Experiment data member. More...
const TExperiment &	CSeqFeatSupport_Base::GetExperiment (void) const
	Get the Experiment member data. More...
TExperiment &	CSeqFeatSupport_Base::SetExperiment (void)
	Assign a value to Experiment data member. More...
bool	CSeqFeatSupport_Base::IsSetInference (void) const
	Check if a value has been assigned to Inference data member. More...
bool	CSeqFeatSupport_Base::CanGetInference (void) const
	Check if it is safe to call GetInference method. More...
void	CSeqFeatSupport_Base::ResetInference (void)
	Reset Inference data member. More...
const TInference &	CSeqFeatSupport_Base::GetInference (void) const
	Get the Inference member data. More...
TInference &	CSeqFeatSupport_Base::SetInference (void)
	Assign a value to Inference data member. More...
bool	CSeqFeatSupport_Base::IsSetModel_evidence (void) const
	Check if a value has been assigned to Model_evidence data member. More...
bool	CSeqFeatSupport_Base::CanGetModel_evidence (void) const
	Check if it is safe to call GetModel_evidence method. More...
void	CSeqFeatSupport_Base::ResetModel_evidence (void)
	Reset Model_evidence data member. More...
const TModel_evidence &	CSeqFeatSupport_Base::GetModel_evidence (void) const
	Get the Model_evidence member data. More...
TModel_evidence &	CSeqFeatSupport_Base::SetModel_evidence (void)
	Assign a value to Model_evidence data member. More...
virtual void	CSeqFeatSupport_Base::Reset (void)
	Reset the whole object. More...
	CSeqFeatSupport_Base::CSeqFeatSupport_Base (const CSeqFeatSupport_Base &)
CSeqFeatSupport_Base &	CSeqFeatSupport_Base::operator= (const CSeqFeatSupport_Base &)
	CSeqFeatXref::CSeqFeatXref (void)
	CSeqFeatXref::~CSeqFeatXref (void)
	CSeqFeatXref::CSeqFeatXref (const CSeqFeatXref &value)
CSeqFeatXref &	CSeqFeatXref::operator= (const CSeqFeatXref &value)
	CSeqFeatXref_Base::CSeqFeatXref_Base (void)
virtual	CSeqFeatXref_Base::~CSeqFeatXref_Base (void)
	CSeqFeatXref_Base::DECLARE_INTERNAL_TYPE_INFO ()
bool	CSeqFeatXref_Base::IsSetId (void) const
	the feature copied Check if a value has been assigned to Id data member. More...
bool	CSeqFeatXref_Base::CanGetId (void) const
	Check if it is safe to call GetId method. More...
void	CSeqFeatXref_Base::ResetId (void)
	Reset Id data member. More...
const TId &	CSeqFeatXref_Base::GetId (void) const
	Get the Id member data. More...
void	CSeqFeatXref_Base::SetId (TId &value)
	Assign a value to Id data member. More...
TId &	CSeqFeatXref_Base::SetId (void)
	Assign a value to Id data member. More...
bool	CSeqFeatXref_Base::IsSetData (void) const
	the specific data Check if a value has been assigned to Data data member. More...
bool	CSeqFeatXref_Base::CanGetData (void) const
	Check if it is safe to call GetData method. More...
void	CSeqFeatXref_Base::ResetData (void)
	Reset Data data member. More...
const TData &	CSeqFeatXref_Base::GetData (void) const
	Get the Data member data. More...
void	CSeqFeatXref_Base::SetData (TData &value)
	Assign a value to Data data member. More...
TData &	CSeqFeatXref_Base::SetData (void)
	Assign a value to Data data member. More...
virtual void	CSeqFeatXref_Base::Reset (void)
	Reset the whole object. More...
	CSeqFeatXref_Base::CSeqFeatXref_Base (const CSeqFeatXref_Base &)
CSeqFeatXref_Base &	CSeqFeatXref_Base::operator= (const CSeqFeatXref_Base &)

Variables
Uint4	CCdregion_Base::m_set_State [1]
bool	CCdregion_Base::m_Orf
EFrame	CCdregion_Base::m_Frame
bool	CCdregion_Base::m_Conflict
TSeqPos	CCdregion_Base::m_Gaps
TSeqPos	CCdregion_Base::m_Mismatch
CRef< TCode >	CCdregion_Base::m_Code
list< CRef< CCode_break > >	CCdregion_Base::m_Code_break
TSeqPos	CCdregion_Base::m_Stops
Uint4	CClone_ref_Base::m_set_State [1]
string	CClone_ref_Base::m_Name
string	CClone_ref_Base::m_Library
bool	CClone_ref_Base::m_Concordant
bool	CClone_ref_Base::m_Unique
int	CClone_ref_Base::m_Placement_method
CRef< TClone_seq >	CClone_ref_Base::m_Clone_seq
Uint4	CClone_seq_Base::m_set_State [1]
int	CClone_seq_Base::m_Type
int	CClone_seq_Base::m_Confidence
CRef< TLocation >	CClone_seq_Base::m_Location
CRef< TSeq >	CClone_seq_Base::m_Seq
CRef< TAlign_id >	CClone_seq_Base::m_Align_id
int	CClone_seq_Base::m_Support
Uint4	CClone_seq_set_Base::m_set_State [1]
list< CRef< CClone_seq > >	CClone_seq_set_Base::m_data
E_Choice	CCode_break_Base::C_Aa::m_choice
static const char *const	CCode_break_Base::C_Aa::sm_SelectionNames []
TNcbieaa   CCode_break_Base::C_Aa::m_Ncbieaa
TNcbi8aa   CCode_break_Base::C_Aa::m_Ncbi8aa
TNcbistdaa   CCode_break_Base::C_Aa::m_Ncbistdaa
union {
TNcbieaa   CCode_break_Base::C_Aa::m_Ncbieaa
TNcbi8aa   CCode_break_Base::C_Aa::m_Ncbi8aa
TNcbistdaa   CCode_break_Base::C_Aa::m_Ncbistdaa
};
Uint4	CCode_break_Base::m_set_State [1]
CRef< TLoc >	CCode_break_Base::m_Loc
CRef< TAa >	CCode_break_Base::m_Aa
Uint4	CEvidenceBasis_Base::m_set_State [1]
list< CRef< CProgram_id > >	CEvidenceBasis_Base::m_Programs
list< CRef< CSeq_id > >	CEvidenceBasis_Base::m_Accessions
Uint4	CExperimentSupport_Base::m_set_State [1]
int	CExperimentSupport_Base::m_Category
string	CExperimentSupport_Base::m_Explanation
list< CPubMedId >	CExperimentSupport_Base::m_Pmids
list< CDOI >	CExperimentSupport_Base::m_Dois
E_Choice	CFeat_id_Base::m_choice
static const char *const	CFeat_id_Base::sm_SelectionNames []
TGibb   CFeat_id_Base::m_Gibb
NCBI_NS_NCBI::CSerialObject *   CFeat_id_Base::m_object
union {
TGibb   CFeat_id_Base::m_Gibb
NCBI_NS_NCBI::CSerialObject *   CFeat_id_Base::m_object
};
Uint4	CGb_qual_Base::m_set_State [1]
string	CGb_qual_Base::m_Qual
string	CGb_qual_Base::m_Val
E_Choice	CGenetic_code_Base::C_E::m_choice
static const char *const	CGenetic_code_Base::C_E::sm_SelectionNames []
TId   CGenetic_code_Base::C_E::m_Id
NCBI_NS_NCBI::CUnionBuffer< TNcbi8aa >   CGenetic_code_Base::C_E::m_Ncbi8aa
NCBI_NS_NCBI::CUnionBuffer< TNcbistdaa >   CGenetic_code_Base::C_E::m_Ncbistdaa
NCBI_NS_NCBI::CUnionBuffer< TSncbi8aa >   CGenetic_code_Base::C_E::m_Sncbi8aa
NCBI_NS_NCBI::CUnionBuffer< TSncbistdaa >   CGenetic_code_Base::C_E::m_Sncbistdaa
NCBI_NS_NCBI::CUnionBuffer< NCBI_NS_STD::string >   CGenetic_code_Base::C_E::m_string
void *   CGenetic_code_Base::C_E::m_dummy_pointer_for_alignment
union {
TId   CGenetic_code_Base::C_E::m_Id
NCBI_NS_NCBI::CUnionBuffer< TNcbi8aa >   CGenetic_code_Base::C_E::m_Ncbi8aa
NCBI_NS_NCBI::CUnionBuffer< TNcbistdaa >   CGenetic_code_Base::C_E::m_Ncbistdaa
NCBI_NS_NCBI::CUnionBuffer< TSncbi8aa >   CGenetic_code_Base::C_E::m_Sncbi8aa
NCBI_NS_NCBI::CUnionBuffer< TSncbistdaa >   CGenetic_code_Base::C_E::m_Sncbistdaa
NCBI_NS_NCBI::CUnionBuffer< NCBI_NS_STD::string >   CGenetic_code_Base::C_E::m_string
void *   CGenetic_code_Base::C_E::m_dummy_pointer_for_alignment
};
Uint4	CGenetic_code_Base::m_set_State [1]
list< CRef< C_E > >	CGenetic_code_Base::m_data
Uint4	CGenetic_code_table_Base::m_set_State [1]
list< CRef< CGenetic_code > >	CGenetic_code_table_Base::m_data
Uint4	CImp_feat_Base::m_set_State [1]
string	CImp_feat_Base::m_Key
string	CImp_feat_Base::m_Loc
string	CImp_feat_Base::m_Descr
Uint4	CInferenceSupport_Base::m_set_State [1]
int	CInferenceSupport_Base::m_Category
int	CInferenceSupport_Base::m_Type
string	CInferenceSupport_Base::m_Other_type
bool	CInferenceSupport_Base::m_Same_species
CRef< TBasis >	CInferenceSupport_Base::m_Basis
list< CPubMedId >	CInferenceSupport_Base::m_Pmids
list< CDOI >	CInferenceSupport_Base::m_Dois
Uint4	CModelEvidenceItem_Base::m_set_State [1]
CRef< TId >	CModelEvidenceItem_Base::m_Id
int	CModelEvidenceItem_Base::m_Exon_count
int	CModelEvidenceItem_Base::m_Exon_length
bool	CModelEvidenceItem_Base::m_Full_length
bool	CModelEvidenceItem_Base::m_Supports_all_exon_combo
Uint4	CModelEvidenceSupport_Base::m_set_State [1]
string	CModelEvidenceSupport_Base::m_Method
list< CRef< CModelEvidenceItem > >	CModelEvidenceSupport_Base::m_Mrna
list< CRef< CModelEvidenceItem > >	CModelEvidenceSupport_Base::m_Est
list< CRef< CModelEvidenceItem > >	CModelEvidenceSupport_Base::m_Protein
CRef< TIdentification >	CModelEvidenceSupport_Base::m_Identification
list< CRef< CDbtag > >	CModelEvidenceSupport_Base::m_Dbxref
int	CModelEvidenceSupport_Base::m_Exon_count
int	CModelEvidenceSupport_Base::m_Exon_length
bool	CModelEvidenceSupport_Base::m_Full_length
bool	CModelEvidenceSupport_Base::m_Supports_all_exon_combo
Uint4	CProgram_id_Base::m_set_State [1]
string	CProgram_id_Base::m_Name
string	CProgram_id_Base::m_Version
Uint4	CSeq_feat_Base::m_set_State [2]
CRef< TId >	CSeq_feat_Base::m_Id
CRef< TData >	CSeq_feat_Base::m_Data
bool	CSeq_feat_Base::m_Partial
bool	CSeq_feat_Base::m_Except
string	CSeq_feat_Base::m_Comment
CRef< TProduct >	CSeq_feat_Base::m_Product
CRef< TLocation >	CSeq_feat_Base::m_Location
vector< CRef< CGb_qual > >	CSeq_feat_Base::m_Qual
string	CSeq_feat_Base::m_Title
CRef< TExt >	CSeq_feat_Base::m_Ext
CRef< TCit >	CSeq_feat_Base::m_Cit
EExp_ev	CSeq_feat_Base::m_Exp_ev
vector< CRef< CSeqFeatXref > >	CSeq_feat_Base::m_Xref
vector< CRef< CDbtag > >	CSeq_feat_Base::m_Dbxref
bool	CSeq_feat_Base::m_Pseudo
string	CSeq_feat_Base::m_Except_text
list< CRef< CFeat_id > >	CSeq_feat_Base::m_Ids
list< CRef< CUser_object > >	CSeq_feat_Base::m_Exts
CRef< TSupport >	CSeq_feat_Base::m_Support
E_Choice	CSeqFeatData_Base::m_choice
static const char *const	CSeqFeatData_Base::sm_SelectionNames []
TBond   CSeqFeatData_Base::m_Bond
TSite   CSeqFeatData_Base::m_Site
TPsec_str   CSeqFeatData_Base::m_Psec_str
NCBI_NS_NCBI::CUnionBuffer< THet >   CSeqFeatData_Base::m_Het
NCBI_NS_NCBI::CUnionBuffer< NCBI_NS_STD::string >   CSeqFeatData_Base::m_string
NCBI_NS_NCBI::CSerialObject *   CSeqFeatData_Base::m_object
union {
TBond   CSeqFeatData_Base::m_Bond
TSite   CSeqFeatData_Base::m_Site
TPsec_str   CSeqFeatData_Base::m_Psec_str
NCBI_NS_NCBI::CUnionBuffer< THet >   CSeqFeatData_Base::m_Het
NCBI_NS_NCBI::CUnionBuffer< NCBI_NS_STD::string >   CSeqFeatData_Base::m_string
NCBI_NS_NCBI::CSerialObject *   CSeqFeatData_Base::m_object
};
Uint4	CSeqFeatSupport_Base::m_set_State [1]
list< CRef< CExperimentSupport > >	CSeqFeatSupport_Base::m_Experiment
list< CRef< CInferenceSupport > >	CSeqFeatSupport_Base::m_Inference
list< CRef< CModelEvidenceSupport > >	CSeqFeatSupport_Base::m_Model_evidence
Uint4	CSeqFeatXref_Base::m_set_State [1]
CRef< TId >	CSeqFeatXref_Base::m_Id
CRef< TData >	CSeqFeatXref_Base::m_Data

Detailed Description

Typedef Documentation

TAa

typedef C_Aa CCode_break_Base::TAa

Definition at line 273 of file Code_break_.hpp.

TAccessions

typedef list< CRef< CSeq_id > > CEvidenceBasis_Base::TAccessions

Definition at line 91 of file EvidenceBasis_.hpp.

TAlign_id

typedef CDbtag CClone_seq_Base::TAlign_id

Definition at line 126 of file Clone_seq_.hpp.

TBasis

typedef CEvidenceBasis CInferenceSupport_Base::TBasis

Definition at line 117 of file InferenceSupport_.hpp.

TBiosrc

typedef CBioSource CSeqFeatData_Base::TBiosrc

Definition at line 255 of file SeqFeatData_.hpp.

TBond

typedef EBond CSeqFeatData_Base::TBond

Definition at line 246 of file SeqFeatData_.hpp.

TCategory [1/2]

typedef int CExperimentSupport_Base::TCategory

Definition at line 89 of file ExperimentSupport_.hpp.

TCategory [2/2]

typedef int CInferenceSupport_Base::TCategory

Definition at line 113 of file InferenceSupport_.hpp.

TCdregion

typedef CCdregion CSeqFeatData_Base::TCdregion

Definition at line 239 of file SeqFeatData_.hpp.

TCit

typedef CPub_set CSeq_feat_Base::TCit

Definition at line 120 of file Seq_feat_.hpp.

TClone

typedef CClone_ref CSeqFeatData_Base::TClone

Definition at line 256 of file SeqFeatData_.hpp.

TClone_seq

typedef CClone_seq_set CClone_ref_Base::TClone_seq

Definition at line 113 of file Clone_ref_.hpp.

TCode

typedef CGenetic_code CCdregion_Base::TCode

Definition at line 110 of file Cdregion_.hpp.

TCode_break

typedef list< CRef< CCode_break > > CCdregion_Base::TCode_break

Definition at line 111 of file Cdregion_.hpp.

TComment

typedef string CSeq_feat_Base::TComment

Definition at line 114 of file Seq_feat_.hpp.

TConcordant

typedef bool CClone_ref_Base::TConcordant

Definition at line 110 of file Clone_ref_.hpp.

TConfidence

typedef int CClone_seq_Base::TConfidence

Definition at line 123 of file Clone_seq_.hpp.

TConflict

typedef bool CCdregion_Base::TConflict

Definition at line 107 of file Cdregion_.hpp.

Tdata [1/3]

typedef list< CRef< CClone_seq > > CClone_seq_set_Base::Tdata

Definition at line 89 of file Clone_seq_set_.hpp.

Tdata [2/3]

typedef list< CRef< C_E > > CGenetic_code_Base::Tdata

Definition at line 406 of file Genetic_code_.hpp.

Tdata [3/3]

typedef list< CRef< CGenetic_code > > CGenetic_code_table_Base::Tdata

Definition at line 90 of file Genetic_code_table_.hpp.

TData [1/2]

typedef CSeqFeatData CSeq_feat_Base::TData

Definition at line 111 of file Seq_feat_.hpp.

TData [2/2]

typedef CSeqFeatData CSeqFeatXref_Base::TData

Definition at line 88 of file SeqFeatXref_.hpp.

TDbxref [1/2]

typedef list< CRef< CDbtag > > CModelEvidenceSupport_Base::TDbxref

Definition at line 97 of file ModelEvidenceSupport_.hpp.

TDbxref [2/2]

typedef vector< CRef< CDbtag > > CSeq_feat_Base::TDbxref

Definition at line 123 of file Seq_feat_.hpp.

TDescr

typedef string CImp_feat_Base::TDescr

Definition at line 91 of file Imp_feat_.hpp.

TDois [1/2]

typedef list< CDOI > CExperimentSupport_Base::TDois

Definition at line 92 of file ExperimentSupport_.hpp.

TDois [2/2]

typedef list< CDOI > CInferenceSupport_Base::TDois

Definition at line 119 of file InferenceSupport_.hpp.

TEst

typedef list< CRef< CModelEvidenceItem > > CModelEvidenceSupport_Base::TEst

Definition at line 94 of file ModelEvidenceSupport_.hpp.

TExcept

typedef bool CSeq_feat_Base::TExcept

Definition at line 113 of file Seq_feat_.hpp.

TExcept_text

typedef string CSeq_feat_Base::TExcept_text

Definition at line 125 of file Seq_feat_.hpp.

TExon_count [1/2]

typedef int CModelEvidenceItem_Base::TExon_count

Definition at line 86 of file ModelEvidenceItem_.hpp.

TExon_count [2/2]

typedef int CModelEvidenceSupport_Base::TExon_count

Definition at line 98 of file ModelEvidenceSupport_.hpp.

TExon_length [1/2]

typedef int CModelEvidenceItem_Base::TExon_length

Definition at line 87 of file ModelEvidenceItem_.hpp.

TExon_length [2/2]

typedef int CModelEvidenceSupport_Base::TExon_length

Definition at line 99 of file ModelEvidenceSupport_.hpp.

TExp_ev

typedef EExp_ev CSeq_feat_Base::TExp_ev

Definition at line 121 of file Seq_feat_.hpp.

TExperiment

typedef list< CRef< CExperimentSupport > > CSeqFeatSupport_Base::TExperiment

Definition at line 91 of file SeqFeatSupport_.hpp.

TExplanation

typedef string CExperimentSupport_Base::TExplanation

Definition at line 90 of file ExperimentSupport_.hpp.

TExt

typedef CUser_object CSeq_feat_Base::TExt

Definition at line 119 of file Seq_feat_.hpp.

TExts

typedef list< CRef< CUser_object > > CSeq_feat_Base::TExts

Definition at line 127 of file Seq_feat_.hpp.

TFrame

typedef EFrame CCdregion_Base::TFrame

Definition at line 106 of file Cdregion_.hpp.

TFull_length [1/2]

typedef bool CModelEvidenceItem_Base::TFull_length

Definition at line 88 of file ModelEvidenceItem_.hpp.

TFull_length [2/2]

typedef bool CModelEvidenceSupport_Base::TFull_length

Definition at line 100 of file ModelEvidenceSupport_.hpp.

TGaps

typedef TSeqPos CCdregion_Base::TGaps

Definition at line 108 of file Cdregion_.hpp.

TGene

typedef CGene_ref CSeqFeatData_Base::TGene

Definition at line 237 of file SeqFeatData_.hpp.

TGeneral

typedef CDbtag CFeat_id_Base::TGeneral

Definition at line 153 of file Feat_id_.hpp.

TGibb

typedef int CFeat_id_Base::TGibb

Definition at line 150 of file Feat_id_.hpp.

TGiim

typedef CGiimport_id CFeat_id_Base::TGiim

Definition at line 151 of file Feat_id_.hpp.

THet

typedef CHeterogen CSeqFeatData_Base::THet

Definition at line 254 of file SeqFeatData_.hpp.

TId [1/4]

typedef int CGenetic_code_Base::C_E::TId

Definition at line 180 of file Genetic_code_.hpp.

TId [2/4]

typedef CSeq_id CModelEvidenceItem_Base::TId

Definition at line 85 of file ModelEvidenceItem_.hpp.

TId [3/4]

typedef CFeat_id CSeq_feat_Base::TId

Definition at line 110 of file Seq_feat_.hpp.

TId [4/4]

typedef CFeat_id CSeqFeatXref_Base::TId

Definition at line 87 of file SeqFeatXref_.hpp.

TIdentification

typedef CSeq_id CModelEvidenceSupport_Base::TIdentification

Definition at line 96 of file ModelEvidenceSupport_.hpp.

TIds

typedef list< CRef< CFeat_id > > CSeq_feat_Base::TIds

Definition at line 126 of file Seq_feat_.hpp.

TImp

typedef CImp_feat CSeqFeatData_Base::TImp

Definition at line 244 of file SeqFeatData_.hpp.

TInference

typedef list< CRef< CInferenceSupport > > CSeqFeatSupport_Base::TInference

Definition at line 92 of file SeqFeatSupport_.hpp.

TKey

typedef string CImp_feat_Base::TKey

Definition at line 89 of file Imp_feat_.hpp.

TLibrary

typedef string CClone_ref_Base::TLibrary

Definition at line 109 of file Clone_ref_.hpp.

TLoc [1/2]

typedef CSeq_loc CCode_break_Base::TLoc

Definition at line 272 of file Code_break_.hpp.

TLoc [2/2]

typedef string CImp_feat_Base::TLoc

Definition at line 90 of file Imp_feat_.hpp.

TLocal

typedef CObject_id CFeat_id_Base::TLocal

Definition at line 152 of file Feat_id_.hpp.

TLocation [1/2]

typedef CSeq_loc CClone_seq_Base::TLocation

Definition at line 124 of file Clone_seq_.hpp.

TLocation [2/2]

typedef CSeq_loc CSeq_feat_Base::TLocation

Definition at line 116 of file Seq_feat_.hpp.

TmemberIndex [1/15]

typedef Tparent::CMemberIndex<E_memberIndex, 9> CCdregion_Base::TmemberIndex

Definition at line 126 of file Cdregion_.hpp.

TmemberIndex [2/15]

typedef Tparent::CMemberIndex<E_memberIndex, 7> CClone_ref_Base::TmemberIndex

Definition at line 125 of file Clone_ref_.hpp.

TmemberIndex [3/15]

typedef Tparent::CMemberIndex<E_memberIndex, 7> CClone_seq_Base::TmemberIndex

Definition at line 139 of file Clone_seq_.hpp.

TmemberIndex [4/15]

typedef Tparent::CMemberIndex<E_memberIndex, 3> CCode_break_Base::TmemberIndex

Definition at line 281 of file Code_break_.hpp.

TmemberIndex [5/15]

typedef Tparent::CMemberIndex<E_memberIndex, 3> CEvidenceBasis_Base::TmemberIndex

Definition at line 99 of file EvidenceBasis_.hpp.

TmemberIndex [6/15]

typedef Tparent::CMemberIndex<E_memberIndex, 5> CExperimentSupport_Base::TmemberIndex

Definition at line 102 of file ExperimentSupport_.hpp.

TmemberIndex [7/15]

typedef Tparent::CMemberIndex<E_memberIndex, 3> CGb_qual_Base::TmemberIndex

Definition at line 94 of file Gb_qual_.hpp.

TmemberIndex [8/15]

typedef Tparent::CMemberIndex<E_memberIndex, 4> CImp_feat_Base::TmemberIndex

Definition at line 100 of file Imp_feat_.hpp.

TmemberIndex [9/15]

typedef Tparent::CMemberIndex<E_memberIndex, 8> CInferenceSupport_Base::TmemberIndex

Definition at line 132 of file InferenceSupport_.hpp.

TmemberIndex [10/15]

typedef Tparent::CMemberIndex<E_memberIndex, 6> CModelEvidenceItem_Base::TmemberIndex

Definition at line 100 of file ModelEvidenceItem_.hpp.

TmemberIndex [11/15]

typedef Tparent::CMemberIndex<E_memberIndex, 11> CModelEvidenceSupport_Base::TmemberIndex

Definition at line 117 of file ModelEvidenceSupport_.hpp.

TmemberIndex [12/15]

typedef Tparent::CMemberIndex<E_memberIndex, 3> CProgram_id_Base::TmemberIndex

Definition at line 94 of file Program_id_.hpp.

TmemberIndex [13/15]

typedef Tparent::CMemberIndex<E_memberIndex, 20> CSeq_feat_Base::TmemberIndex

Definition at line 153 of file Seq_feat_.hpp.

TmemberIndex [14/15]

typedef Tparent::CMemberIndex<E_memberIndex, 4> CSeqFeatSupport_Base::TmemberIndex

Definition at line 102 of file SeqFeatSupport_.hpp.

TmemberIndex [15/15]

typedef Tparent::CMemberIndex<E_memberIndex, 3> CSeqFeatXref_Base::TmemberIndex

Definition at line 96 of file SeqFeatXref_.hpp.

TMethod

typedef string CModelEvidenceSupport_Base::TMethod

Definition at line 92 of file ModelEvidenceSupport_.hpp.

TMismatch

typedef TSeqPos CCdregion_Base::TMismatch

Definition at line 109 of file Cdregion_.hpp.

TModel_evidence

typedef list< CRef< CModelEvidenceSupport > > CSeqFeatSupport_Base::TModel_evidence

Definition at line 93 of file SeqFeatSupport_.hpp.

TMrna

typedef list< CRef< CModelEvidenceItem > > CModelEvidenceSupport_Base::TMrna

Definition at line 93 of file ModelEvidenceSupport_.hpp.

TName [1/3]

typedef string CClone_ref_Base::TName

Definition at line 108 of file Clone_ref_.hpp.

TName [2/3]

typedef string CGenetic_code_Base::C_E::TName

Definition at line 179 of file Genetic_code_.hpp.

TName [3/3]

typedef string CProgram_id_Base::TName

Definition at line 85 of file Program_id_.hpp.

TNcbi8aa [1/2]

typedef int CCode_break_Base::C_Aa::TNcbi8aa

Definition at line 166 of file Code_break_.hpp.

TNcbi8aa [2/2]

typedef vector< char > CGenetic_code_Base::C_E::TNcbi8aa

Definition at line 182 of file Genetic_code_.hpp.

TNcbieaa [1/2]

typedef int CCode_break_Base::C_Aa::TNcbieaa

Definition at line 165 of file Code_break_.hpp.

TNcbieaa [2/2]

typedef string CGenetic_code_Base::C_E::TNcbieaa

Definition at line 181 of file Genetic_code_.hpp.

TNcbistdaa [1/2]

typedef int CCode_break_Base::C_Aa::TNcbistdaa

Definition at line 167 of file Code_break_.hpp.

TNcbistdaa [2/2]

typedef vector< char > CGenetic_code_Base::C_E::TNcbistdaa

Definition at line 183 of file Genetic_code_.hpp.

TNon_std_residue

typedef string CSeqFeatData_Base::TNon_std_residue

Definition at line 253 of file SeqFeatData_.hpp.

TNum

typedef CNumbering CSeqFeatData_Base::TNum

Definition at line 251 of file SeqFeatData_.hpp.

TOrf

typedef bool CCdregion_Base::TOrf

Definition at line 105 of file Cdregion_.hpp.

TOrg

typedef COrg_ref CSeqFeatData_Base::TOrg

Definition at line 238 of file SeqFeatData_.hpp.

TOther_type

typedef string CInferenceSupport_Base::TOther_type

Definition at line 115 of file InferenceSupport_.hpp.

Tparent [1/36]

typedef CCdregion_Base CCdregion::Tparent

private

Definition at line 67 of file Cdregion.hpp.

Tparent [2/36]

typedef CSerialObject CCdregion_Base::Tparent

private

Definition at line 84 of file Cdregion_.hpp.

Tparent [3/36]

typedef CClone_ref_Base CClone_ref::Tparent

private

Definition at line 67 of file Clone_ref.hpp.

Tparent [4/36]

typedef CSerialObject CClone_ref_Base::Tparent

private

Definition at line 82 of file Clone_ref_.hpp.

Tparent [5/36]

typedef CClone_seq_Base CClone_seq::Tparent

private

Definition at line 67 of file Clone_seq.hpp.

Tparent [6/36]

typedef CSerialObject CClone_seq_Base::Tparent

private

Definition at line 75 of file Clone_seq_.hpp.

Tparent [7/36]

typedef CClone_seq_set_Base CClone_seq_set::Tparent

private

Definition at line 67 of file Clone_seq_set.hpp.

Tparent [8/36]

typedef CSerialObject CClone_seq_set_Base::Tparent

private

Definition at line 78 of file Clone_seq_set_.hpp.

Tparent [9/36]

typedef CCode_break_Base CCode_break::Tparent

private

Definition at line 67 of file Code_break.hpp.

Tparent [10/36]

typedef CSerialObject CCode_break_Base::Tparent

private

Definition at line 76 of file Code_break_.hpp.

Tparent [11/36]

typedef CSerialObject CCode_break_Base::C_Aa::Tparent

private

Definition at line 94 of file Code_break_.hpp.

Tparent [12/36]

typedef CEvidenceBasis_Base CEvidenceBasis::Tparent

private

Definition at line 67 of file EvidenceBasis.hpp.

Tparent [13/36]

typedef CSerialObject CEvidenceBasis_Base::Tparent

private

Definition at line 79 of file EvidenceBasis_.hpp.

Tparent [14/36]

typedef CExperimentSupport_Base CExperimentSupport::Tparent

private

Definition at line 67 of file ExperimentSupport.hpp.

Tparent [15/36]

typedef CSerialObject CExperimentSupport_Base::Tparent

private

Definition at line 78 of file ExperimentSupport_.hpp.

Tparent [16/36]

typedef CFeat_id_Base CFeat_id::Tparent

private

Definition at line 67 of file Feat_id.hpp.

Tparent [17/36]

typedef CSerialObject CFeat_id_Base::Tparent

private

Definition at line 78 of file Feat_id_.hpp.

Tparent [18/36]

typedef CSerialObject CGb_qual_Base::Tparent

private

Definition at line 74 of file Gb_qual_.hpp.

Tparent [19/36]

typedef CSerialObject CGenetic_code_Base::Tparent

private

Definition at line 86 of file Genetic_code_.hpp.

Tparent [20/36]

typedef CSerialObject CGenetic_code_Base::C_E::Tparent

private

Definition at line 103 of file Genetic_code_.hpp.

Tparent [21/36]

typedef CSerialObject CGenetic_code_table_Base::Tparent

private

Definition at line 79 of file Genetic_code_table_.hpp.

Tparent [22/36]

typedef CSerialObject CImp_feat_Base::Tparent

private

Definition at line 78 of file Imp_feat_.hpp.

Tparent [23/36]

typedef CInferenceSupport_Base CInferenceSupport::Tparent

private

Definition at line 67 of file InferenceSupport.hpp.

Tparent [24/36]

typedef CSerialObject CInferenceSupport_Base::Tparent

private

Definition at line 82 of file InferenceSupport_.hpp.

Tparent [25/36]

typedef CModelEvidenceItem_Base CModelEvidenceItem::Tparent

private

Definition at line 67 of file ModelEvidenceItem.hpp.

Tparent [26/36]

typedef CSerialObject CModelEvidenceItem_Base::Tparent

private

Definition at line 74 of file ModelEvidenceItem_.hpp.

Tparent [27/36]

typedef CModelEvidenceSupport_Base CModelEvidenceSupport::Tparent

private

Definition at line 67 of file ModelEvidenceSupport.hpp.

Tparent [28/36]

typedef CSerialObject CModelEvidenceSupport_Base::Tparent

private

Definition at line 81 of file ModelEvidenceSupport_.hpp.

Tparent [29/36]

typedef CProgram_id_Base CProgram_id::Tparent

private

Definition at line 67 of file Program_id.hpp.

Tparent [30/36]

typedef CSerialObject CProgram_id_Base::Tparent

private

Definition at line 74 of file Program_id_.hpp.

Tparent [31/36]

typedef CSerialObject CSeq_feat_Base::Tparent

private

Definition at line 90 of file Seq_feat_.hpp.

Tparent [32/36]

typedef CSerialObject CSeqFeatData_Base::Tparent

private

Definition at line 93 of file SeqFeatData_.hpp.

Tparent [33/36]

typedef CSeqFeatSupport_Base CSeqFeatSupport::Tparent

private

Definition at line 67 of file SeqFeatSupport.hpp.

Tparent [34/36]

typedef CSerialObject CSeqFeatSupport_Base::Tparent

private

Definition at line 80 of file SeqFeatSupport_.hpp.

Tparent [35/36]

typedef CSeqFeatXref_Base CSeqFeatXref::Tparent

private

Definition at line 67 of file SeqFeatXref.hpp.

Tparent [36/36]

typedef CSerialObject CSeqFeatXref_Base::Tparent

private

Definition at line 76 of file SeqFeatXref_.hpp.

TPartial

typedef bool CSeq_feat_Base::TPartial

Definition at line 112 of file Seq_feat_.hpp.

TPlacement_method

typedef int CClone_ref_Base::TPlacement_method

Definition at line 112 of file Clone_ref_.hpp.

TPmids [1/2]

typedef list< CPubMedId > CExperimentSupport_Base::TPmids

Definition at line 91 of file ExperimentSupport_.hpp.

TPmids [2/2]

typedef list< CPubMedId > CInferenceSupport_Base::TPmids

Definition at line 118 of file InferenceSupport_.hpp.

TProduct

typedef CSeq_loc CSeq_feat_Base::TProduct

Definition at line 115 of file Seq_feat_.hpp.

TPrograms

typedef list< CRef< CProgram_id > > CEvidenceBasis_Base::TPrograms

Definition at line 90 of file EvidenceBasis_.hpp.

TProt

typedef CProt_ref CSeqFeatData_Base::TProt

Definition at line 240 of file SeqFeatData_.hpp.

TProtein

typedef list< CRef< CModelEvidenceItem > > CModelEvidenceSupport_Base::TProtein

Definition at line 95 of file ModelEvidenceSupport_.hpp.

TPsec_str

typedef EPsec_str CSeqFeatData_Base::TPsec_str

Definition at line 252 of file SeqFeatData_.hpp.

TPseudo

typedef bool CSeq_feat_Base::TPseudo

Definition at line 124 of file Seq_feat_.hpp.

TPub

typedef CPubdesc CSeqFeatData_Base::TPub

Definition at line 242 of file SeqFeatData_.hpp.

TQual [1/2]

typedef string CGb_qual_Base::TQual

Definition at line 85 of file Gb_qual_.hpp.

TQual [2/2]

typedef vector< CRef< CGb_qual > > CSeq_feat_Base::TQual

Definition at line 117 of file Seq_feat_.hpp.

TRegion

typedef string CSeqFeatData_Base::TRegion

Definition at line 245 of file SeqFeatData_.hpp.

TRna

typedef CRNA_ref CSeqFeatData_Base::TRna

Definition at line 241 of file SeqFeatData_.hpp.

TRsite

typedef CRsite_ref CSeqFeatData_Base::TRsite

Definition at line 248 of file SeqFeatData_.hpp.

TSame_species

typedef bool CInferenceSupport_Base::TSame_species

Definition at line 116 of file InferenceSupport_.hpp.

TSeq [1/2]

typedef CSeq_loc CClone_seq_Base::TSeq

Definition at line 125 of file Clone_seq_.hpp.

TSeq [2/2]

typedef CSeq_loc CSeqFeatData_Base::TSeq

Definition at line 243 of file SeqFeatData_.hpp.

TSite

typedef ESite CSeqFeatData_Base::TSite

Definition at line 247 of file SeqFeatData_.hpp.

TSncbi8aa

typedef vector< char > CGenetic_code_Base::C_E::TSncbi8aa

Definition at line 185 of file Genetic_code_.hpp.

TSncbieaa

typedef string CGenetic_code_Base::C_E::TSncbieaa

Definition at line 184 of file Genetic_code_.hpp.

TSncbistdaa

typedef vector< char > CGenetic_code_Base::C_E::TSncbistdaa

Definition at line 186 of file Genetic_code_.hpp.

TStops

typedef TSeqPos CCdregion_Base::TStops

Definition at line 112 of file Cdregion_.hpp.

TSupport [1/2]

typedef int CClone_seq_Base::TSupport

Definition at line 127 of file Clone_seq_.hpp.

TSupport [2/2]

typedef CSeqFeatSupport CSeq_feat_Base::TSupport

Definition at line 128 of file Seq_feat_.hpp.

TSupports_all_exon_combo [1/2]

typedef bool CModelEvidenceItem_Base::TSupports_all_exon_combo

Definition at line 89 of file ModelEvidenceItem_.hpp.

TSupports_all_exon_combo [2/2]

typedef bool CModelEvidenceSupport_Base::TSupports_all_exon_combo

Definition at line 101 of file ModelEvidenceSupport_.hpp.

TTitle

typedef string CSeq_feat_Base::TTitle

Definition at line 118 of file Seq_feat_.hpp.

TTxinit

typedef CTxinit CSeqFeatData_Base::TTxinit

Definition at line 250 of file SeqFeatData_.hpp.

TType [1/2]

typedef int CClone_seq_Base::TType

Definition at line 122 of file Clone_seq_.hpp.

TType [2/2]

typedef int CInferenceSupport_Base::TType

Definition at line 114 of file InferenceSupport_.hpp.

TUnique

typedef bool CClone_ref_Base::TUnique

Definition at line 111 of file Clone_ref_.hpp.

TUser

typedef CUser_object CSeqFeatData_Base::TUser

Definition at line 249 of file SeqFeatData_.hpp.

TVal

typedef string CGb_qual_Base::TVal

Definition at line 86 of file Gb_qual_.hpp.

TVariation

typedef CVariation_ref CSeqFeatData_Base::TVariation

Definition at line 257 of file SeqFeatData_.hpp.

TVersion

typedef string CProgram_id_Base::TVersion

Definition at line 86 of file Program_id_.hpp.

TXref

typedef vector< CRef< CSeqFeatXref > > CSeq_feat_Base::TXref

Definition at line 122 of file Seq_feat_.hpp.

Enumeration Type Documentation

E_Choice [1/4]

enum CCode_break_Base::C_Aa::E_Choice

Choice variants.

Enumerator
e_not_set	No variant selected.
e_Ncbieaa	ASCII value of NCBIeaa code.
e_Ncbi8aa	NCBI8aa code.
e_Ncbistdaa

Definition at line 106 of file Code_break_.hpp.

E_Choice [2/4]

enum CFeat_id_Base::E_Choice

Choice variants.

Enumerator
e_not_set	No variant selected.
e_Gibb	geninfo backbone
e_Giim	geninfo import
e_Local	for local software use
e_General	for use by various databases

Definition at line 90 of file Feat_id_.hpp.

E_Choice [3/4]

enum CGenetic_code_Base::C_E::E_Choice

Choice variants.

Enumerator
e_not_set	No variant selected.
e_Name	name of a code
e_Id	id in dbase
e_Ncbieaa	indexed to IUPAC extended
e_Ncbi8aa	indexed to NCBI8aa
e_Ncbistdaa	indexed to NCBIstdaa
e_Sncbieaa	start, indexed to IUPAC extended
e_Sncbi8aa	start, indexed to NCBI8aa
e_Sncbistdaa	start, indexed to NCBIstdaa

Definition at line 115 of file Genetic_code_.hpp.

E_Choice [4/4]

enum CSeqFeatData_Base::E_Choice

Choice variants.

Enumerator
e_not_set	No variant selected.
e_Gene
e_Org
e_Cdregion
e_Prot
e_Rna
e_Pub	publication applies to this seq
e_Seq	to annotate origin from another seq
e_Imp
e_Region	named region (globin locus)
e_Comment	just a comment
e_Bond
e_Site
e_Rsite	restriction site (for maps really)
e_User	user defined structure
e_Txinit	transcription initiation
e_Num	a numbering system
e_Psec_str
e_Non_std_residue	non-standard residue here in seq
e_Het	cofactor, prosthetic grp, etc, bound to seq
e_Biosrc
e_Clone
e_Variation

Definition at line 159 of file SeqFeatData_.hpp.

E_ChoiceStopper [1/4]

enum CCode_break_Base::C_Aa::E_ChoiceStopper

Maximum+1 value of the choice variant enumerator.

Enumerator
e_MaxChoice	== e_Ncbistdaa+1

Definition at line 113 of file Code_break_.hpp.

E_ChoiceStopper [2/4]

enum CFeat_id_Base::E_ChoiceStopper

Maximum+1 value of the choice variant enumerator.

Enumerator
e_MaxChoice	== e_General+1

Definition at line 98 of file Feat_id_.hpp.

E_ChoiceStopper [3/4]

enum CGenetic_code_Base::C_E::E_ChoiceStopper

Maximum+1 value of the choice variant enumerator.

Enumerator
e_MaxChoice	== e_Sncbistdaa+1

Definition at line 127 of file Genetic_code_.hpp.

E_ChoiceStopper [4/4]

enum CSeqFeatData_Base::E_ChoiceStopper

Maximum+1 value of the choice variant enumerator.

Enumerator
e_MaxChoice	== e_Variation+1

Definition at line 185 of file SeqFeatData_.hpp.

E_memberIndex [1/15]

enum CCdregion_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_orf
e_frame
e_conflict
e_gaps
e_mismatch
e_code
e_code_break
e_stops

Definition at line 115 of file Cdregion_.hpp.

E_memberIndex [2/15]

enum CClone_ref_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_name
e_library
e_concordant
e_unique
e_placement_method
e_clone_seq

Definition at line 116 of file Clone_ref_.hpp.

E_memberIndex [3/15]

enum CClone_seq_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_type
e_confidence
e_location
e_seq
e_align_id
e_support

Definition at line 130 of file Clone_seq_.hpp.

E_memberIndex [4/15]

enum CCode_break_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_loc
e_aa

Definition at line 276 of file Code_break_.hpp.

E_memberIndex [5/15]

enum CEvidenceBasis_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_programs
e_accessions

Definition at line 94 of file EvidenceBasis_.hpp.

E_memberIndex [6/15]

enum CExperimentSupport_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_category
e_explanation
e_pmids
e_dois

Definition at line 95 of file ExperimentSupport_.hpp.

E_memberIndex [7/15]

enum CGb_qual_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_qual
e_val

Definition at line 89 of file Gb_qual_.hpp.

E_memberIndex [8/15]

enum CImp_feat_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_key
e_loc
e_descr

Definition at line 94 of file Imp_feat_.hpp.

E_memberIndex [9/15]

enum CInferenceSupport_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_category
e_type
e_other_type
e_same_species
e_basis
e_pmids
e_dois

Definition at line 122 of file InferenceSupport_.hpp.

E_memberIndex [10/15]

enum CModelEvidenceItem_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_id
e_exon_count
e_exon_length
e_full_length
e_supports_all_exon_combo

Definition at line 92 of file ModelEvidenceItem_.hpp.

E_memberIndex [11/15]

enum CModelEvidenceSupport_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_method
e_mrna
e_est
e_protein
e_identification
e_dbxref
e_exon_count
e_exon_length
e_full_length
e_supports_all_exon_combo

Definition at line 104 of file ModelEvidenceSupport_.hpp.

E_memberIndex [12/15]

enum CProgram_id_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_name
e_version

Definition at line 89 of file Program_id_.hpp.

E_memberIndex [13/15]

enum CSeq_feat_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_id
e_data
e_partial
e_except
e_comment
e_product
e_location
e_qual
e_title
e_ext
e_cit
e_exp_ev
e_xref
e_dbxref
e_pseudo
e_except_text
e_ids
e_exts
e_support

Definition at line 131 of file Seq_feat_.hpp.

E_memberIndex [14/15]

enum CSeqFeatSupport_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_experiment
e_inference
e_model_evidence

Definition at line 96 of file SeqFeatSupport_.hpp.

E_memberIndex [15/15]

enum CSeqFeatXref_Base::E_memberIndex

strong

Enumerator
e__allMandatory
e_id
e_data

Definition at line 91 of file SeqFeatXref_.hpp.

EBond

enum CSeqFeatData_Base::EBond

Enumerator
eBond_disulfide
eBond_thiolester
eBond_xlink
eBond_thioether
eBond_other

Definition at line 103 of file SeqFeatData_.hpp.

EConfidence

enum CClone_seq_Base::EConfidence

Enumerator
eConfidence_multiple	Multiple hits.
eConfidence_na	Unspecified.
eConfidence_nohit_rep	No hits, end flagged repetitive.
eConfidence_nohitnorep	No hits, end not flagged repetitive.
eConfidence_other_chrm	Hit on different chromosome.
eConfidence_unique
eConfidence_virtual	Virtual (hasn't been sequenced)
eConfidence_multiple_rep	Multiple hits, end flagged repetitive.
eConfidence_multiplenorep	Multiple hits, end not flagged repetitive.
eConfidence_no_hit	No hits.
eConfidence_other

Definition at line 94 of file Clone_seq_.hpp.

EEvidenceCategory

enum EEvidenceCategory

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

Enumerator
eEvidenceCategory_not_set
eEvidenceCategory_coordinates
eEvidenceCategory_description
eEvidenceCategory_existence

Definition at line 63 of file EvidenceCategory_.hpp.

EExp_ev

enum CSeq_feat_Base::EExp_ev

evidence for existence of feature

Enumerator
eExp_ev_experimental	any reasonable experimental check
eExp_ev_not_experimental	similarity, pattern, etc

Definition at line 101 of file Seq_feat_.hpp.

EFrame

enum CCdregion_Base::EFrame

Enumerator
eFrame_not_set	not set, code uses one
eFrame_one
eFrame_two
eFrame_three	reading frame

Definition at line 94 of file Cdregion_.hpp.

EPlacement_method

enum CClone_ref_Base::EPlacement_method

Enumerator
ePlacement_method_end_seq	Clone placed by end sequence.
ePlacement_method_insert_alignment	Clone placed by insert alignment.
ePlacement_method_sts	Clone placed by STS.
ePlacement_method_fish
ePlacement_method_fingerprint
ePlacement_method_end_seq_insert_alignment	combined end-seq and insert align
ePlacement_method_external	Placement provided externally.
ePlacement_method_curated	Human placed or approved.
ePlacement_method_other

Definition at line 92 of file Clone_ref_.hpp.

EPsec_str

enum CSeqFeatData_Base::EPsec_str

protein secondary structure

Enumerator
ePsec_str_helix	any helix
ePsec_str_sheet	beta sheet
ePsec_str_turn	beta or gamma turn

Definition at line 148 of file SeqFeatData_.hpp.

ESite

enum CSeqFeatData_Base::ESite

Enumerator
eSite_active
eSite_binding
eSite_cleavage
eSite_inhibit
eSite_modified
eSite_glycosylation
eSite_myristoylation
eSite_mutagenized
eSite_metal_binding
eSite_phosphorylation
eSite_acetylation
eSite_amidation
eSite_methylation
eSite_hydroxylation
eSite_sulfatation
eSite_oxidative_deamination
eSite_pyrrolidone_carboxylic_acid
eSite_gamma_carboxyglutamic_acid
eSite_blocked
eSite_lipid_binding
eSite_np_binding
eSite_dna_binding
eSite_signal_peptide
eSite_transit_peptide
eSite_transmembrane_region
eSite_nitrosylation
eSite_other

Definition at line 114 of file SeqFeatData_.hpp.

ESupport

enum CClone_seq_Base::ESupport

Enumerator
eSupport_prototype	sequence used to place clone
eSupport_supporting	sequence supports placement
eSupport_supports_other	supports a different placement
eSupport_non_supporting	does not support any placement

Definition at line 111 of file Clone_seq_.hpp.

EType [1/2]

enum CClone_seq_Base::EType

(

void

)

Enumerator
eType_insert
eType_end
eType_other

Definition at line 85 of file Clone_seq_.hpp.

EType [2/2]

enum CInferenceSupport_Base::EType

(

void

)

Enumerator
eType_not_set
eType_similar_to_sequence
eType_similar_to_aa
eType_similar_to_dna
eType_similar_to_rna
eType_similar_to_mrna
eType_similiar_to_est
eType_similar_to_other_rna
eType_profile
eType_nucleotide_motif
eType_protein_motif
eType_ab_initio_prediction
eType_alignment
eType_other

Definition at line 92 of file InferenceSupport_.hpp.

Function Documentation

C_Aa() [1/2]

CCode_break_Base::C_Aa::C_Aa ( const C_Aa &  )

private

C_Aa() [2/2]

END_CHOICE_INFO CCode_break_Base::C_Aa::C_Aa

(

void

)

Definition at line 113 of file Code_break_.cpp.

C_E() [1/2]

CGenetic_code_Base::C_E::C_E ( const C_E &  )

private

C_E() [2/2]

END_CHOICE_INFO CGenetic_code_Base::C_E::C_E

(

void

)

Definition at line 172 of file Genetic_code_.cpp.

CanGet() [1/3]

bool CClone_seq_set_Base::CanGet ( void  ) const

inline

Check if it is safe to call Get method.

Returns

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

Definition at line 158 of file Clone_seq_set_.hpp.

CanGet() [2/3]

bool CGenetic_code_Base::CanGet ( void  ) const

inline

Check if it is safe to call Get method.

Returns

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

Definition at line 671 of file Genetic_code_.hpp.

CanGet() [3/3]

bool CGenetic_code_table_Base::CanGet ( void  ) const

inline

Check if it is safe to call Get method.

Returns

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

Definition at line 159 of file Genetic_code_table_.hpp.

CanGetAa()

bool CCode_break_Base::CanGetAa ( void  ) const

inline

Check if it is safe to call GetAa method.

Returns

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

Definition at line 532 of file Code_break_.hpp.

CanGetAccessions()

bool CEvidenceBasis_Base::CanGetAccessions ( void  ) const

inline

Check if it is safe to call GetAccessions method.

Returns

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

Definition at line 222 of file EvidenceBasis_.hpp.

CanGetAlign_id()

bool CClone_seq_Base::CanGetAlign_id ( void  ) const

inline

Check if it is safe to call GetAlign_id method.

Returns

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

Definition at line 549 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetAlign_id().

Referenced by CClone_seq_Base::GetAlign_id().

CanGetBasis()

bool CInferenceSupport_Base::CanGetBasis ( void  ) const

inline

Check if it is safe to call GetBasis method.

Returns

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

Definition at line 621 of file InferenceSupport_.hpp.

CanGetCategory() [1/2]

bool CExperimentSupport_Base::CanGetCategory ( void  ) const

inline

Check if it is safe to call GetCategory method.

Returns

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

Definition at line 277 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::IsSetCategory().

Referenced by CExperimentSupport_Base::GetCategory().

CanGetCategory() [2/2]

bool CInferenceSupport_Base::CanGetCategory ( void  ) const

inline

Check if it is safe to call GetCategory method.

Returns

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

Definition at line 427 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::IsSetCategory().

Referenced by CInferenceSupport_Base::GetCategory().

CanGetCit()

bool CSeq_feat_Base::CanGetCit ( void  ) const

inline

Check if it is safe to call GetCit method.

Returns

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

Definition at line 1234 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetCit().

Referenced by CSeq_feat_Base::GetCit(), and CCmdFactory::RemoveCitations().

CanGetClone_seq()

bool CClone_ref_Base::CanGetClone_seq ( void  ) const

inline

Check if it is safe to call GetClone_seq method.

Returns

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

Definition at line 640 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetClone_seq().

Referenced by CClone_ref_Base::GetClone_seq(), and CClonePlacementGlyph::x_GetSupportTypeForNonPrototypeEnds().

CanGetCode()

bool CCdregion_Base::CanGetCode ( void  ) const

inline

Check if it is safe to call GetCode method.

Returns

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

Definition at line 706 of file Cdregion_.hpp.

References CCdregion_Base::IsSetCode().

Referenced by CCdregion_Base::GetCode(), CTestSingleAln_All::RunTest(), s_GetCode(), CCDSTranslationProblems::x_GetTranslExceptProblems(), and CCdregionValidator::x_ValidateGeneticCode().

CanGetCode_break()

bool CCdregion_Base::CanGetCode_break ( void  ) const

inline

Check if it is safe to call GetCode_break method.

Returns

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

Definition at line 727 of file Cdregion_.hpp.

CanGetComment()

bool CSeq_feat_Base::CanGetComment ( void  ) const

inline

Check if it is safe to call GetComment method.

Returns

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

Definition at line 1043 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetComment().

Referenced by AddMiscRNAFeatures(), CGffRecord::AssignAttributesExtended(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CAutoDefFeatureClause::CAutoDefFeatureClause(), CAutoDefMiscCommentClause::CAutoDefMiscCommentClause(), FeatureClauseFactory(), CSeq_feat_Base::GetComment(), CSeq_featHandler::GetLabel(), CAutoDefFeatureClause::IsControlRegion(), CAutoDefFeatureClause::IsGeneCluster(), CFeatureTableReader_Imp::x_AddNoteToFeature(), CCommentItem::x_GatherFeatInfo(), CAutoDefFeatureClause::x_GetDescription(), CAutoDefFeatureClause::x_GetFeatureTypeWord(), CAutoDefFeatureClause::x_GetNoncodingProductFeatProduct(), and CAutoDefFeatureClause::x_GetProductName().

CanGetConcordant()

bool CClone_ref_Base::CanGetConcordant ( void  ) const

inline

Check if it is safe to call GetConcordant method.

Returns

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

Definition at line 493 of file Clone_ref_.hpp.

CanGetConfidence()

bool CClone_seq_Base::CanGetConfidence ( void  ) const

inline

Check if it is safe to call GetConfidence method.

Returns

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

Definition at line 451 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetConfidence().

Referenced by CClone_seq_Base::GetConfidence().

CanGetConflict()

bool CCdregion_Base::CanGetConflict ( void  ) const

inline

Check if it is safe to call GetConflict method.

Returns

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

Definition at line 565 of file Cdregion_.hpp.

References CCdregion_Base::IsSetConflict().

Referenced by CCdregion_Base::GetConflict().

CanGetData() [1/2]

bool CSeq_feat_Base::CanGetData ( void  ) const

inline

Check if it is safe to call GetData method.

Returns

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

Definition at line 919 of file Seq_feat_.hpp.

Referenced by AdjustCdregionFrame(), CRemoveFeaturesDlg::ApplyToCSeq_entry(), CGffRecord::AssignPhase(), CGffRecord::AssignType(), InspectSeqFeat(), CCompareFeats::IsSameSubtype(), CCompareFeats::IsSameType(), CDiscrepancyPanel::OnDblClk(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), s_GetClipLoc(), CCompareSeqRegions::s_GetGeneId(), CClippedScorer::ScoreAlignments(), CPromote::x_PromoteFeatures(), and CCdregionValidator::x_ValidateCDSPeptides().

CanGetData() [2/2]

bool CSeqFeatXref_Base::CanGetData ( void  ) const

inline

Check if it is safe to call GetData method.

Returns

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

Definition at line 229 of file SeqFeatXref_.hpp.

References CSeqFeatXref_Base::IsSetData().

Referenced by CSeqFeatXref_Base::GetData().

CanGetDbxref() [1/2]

bool CModelEvidenceSupport_Base::CanGetDbxref ( void  ) const

inline

Check if it is safe to call GetDbxref method.

Returns

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

Definition at line 657 of file ModelEvidenceSupport_.hpp.

CanGetDbxref() [2/2]

bool CSeq_feat_Base::CanGetDbxref ( void  ) const

inline

Check if it is safe to call GetDbxref method.

Returns

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

Definition at line 1327 of file Seq_feat_.hpp.

Referenced by CRmvCddFeatDbxref::apply_to(), CGffRecord::AssignAttributesExtended(), and CDbXrefColumn::GetFromFeat().

CanGetDescr()

bool CImp_feat_Base::CanGetDescr ( void  ) const

inline

Check if it is safe to call GetDescr method.

Returns

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

Definition at line 347 of file Imp_feat_.hpp.

References CImp_feat_Base::IsSetDescr().

Referenced by CImp_feat_Base::GetDescr().

CanGetDois() [1/2]

bool CExperimentSupport_Base::CanGetDois ( void  ) const

inline

Check if it is safe to call GetDois method.

Returns

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

Definition at line 396 of file ExperimentSupport_.hpp.

CanGetDois() [2/2]

bool CInferenceSupport_Base::CanGetDois ( void  ) const

inline

Check if it is safe to call GetDois method.

Returns

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

Definition at line 676 of file InferenceSupport_.hpp.

CanGetEst()

bool CModelEvidenceSupport_Base::CanGetEst ( void  ) const

inline

Check if it is safe to call GetEst method.

Returns

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

Definition at line 586 of file ModelEvidenceSupport_.hpp.

CanGetExcept()

bool CSeq_feat_Base::CanGetExcept ( void  ) const

inline

Check if it is safe to call GetExcept method.

Returns

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

Definition at line 996 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetExcept().

Referenced by CSeq_feat_Base::GetExcept(), GetMRNATranslationProblems(), HasBadStartCodon(), HasInternalStop(), CCdregionValidator::x_BypassCDSPartialTest(), and CRNAValidator::x_ValidateAnticodon().

CanGetExcept_text()

bool CSeq_feat_Base::CanGetExcept_text ( void  ) const

inline

Check if it is safe to call GetExcept_text method.

Returns

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

Definition at line 1399 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetExcept_text().

Referenced by CSeq_feat_Base::GetExcept_text(), GetMRNATranslationProblems(), HasBadStartCodon(), HasInternalStop(), CValidError_imp::ValidateSeqLoc(), CCdregionValidator::x_BypassCDSPartialTest(), CValidError_imp::x_ReportInvalidFuzz(), CRNAValidator::x_ValidateAnticodon(), and CCdregionValidator::x_ValidateBadMRNAOverlap().

CanGetExon_count() [1/2]

bool CModelEvidenceItem_Base::CanGetExon_count ( void  ) const

inline

Check if it is safe to call GetExon_count method.

Returns

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

Definition at line 360 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::IsSetExon_count().

Referenced by CModelEvidenceItem_Base::GetExon_count().

CanGetExon_count() [2/2]

bool CModelEvidenceSupport_Base::CanGetExon_count ( void  ) const

inline

Check if it is safe to call GetExon_count method.

Returns

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

Definition at line 682 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetExon_count().

Referenced by CModelEvidenceSupport_Base::GetExon_count().

CanGetExon_length() [1/2]

bool CModelEvidenceItem_Base::CanGetExon_length ( void  ) const

inline

Check if it is safe to call GetExon_length method.

Returns

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

Definition at line 407 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::IsSetExon_length().

Referenced by CModelEvidenceItem_Base::GetExon_length().

CanGetExon_length() [2/2]

bool CModelEvidenceSupport_Base::CanGetExon_length ( void  ) const

inline

Check if it is safe to call GetExon_length method.

Returns

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

Definition at line 729 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetExon_length().

Referenced by CModelEvidenceSupport_Base::GetExon_length().

CanGetExp_ev()

bool CSeq_feat_Base::CanGetExp_ev ( void  ) const

inline

Check if it is safe to call GetExp_ev method.

Returns

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

Definition at line 1255 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetExp_ev().

Referenced by CSeq_feat_Base::GetExp_ev(), and CEvidenceColumn::GetFromFeat().

CanGetExperiment()

bool CSeqFeatSupport_Base::CanGetExperiment ( void  ) const

inline

Check if it is safe to call GetExperiment method.

Returns

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

Definition at line 232 of file SeqFeatSupport_.hpp.

CanGetExplanation()

bool CExperimentSupport_Base::CanGetExplanation ( void  ) const

inline

Check if it is safe to call GetExplanation method.

Returns

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

Definition at line 324 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::IsSetExplanation().

Referenced by CExperimentSupport_Base::GetExplanation().

CanGetExt()

bool CSeq_feat_Base::CanGetExt ( void  ) const

inline

Check if it is safe to call GetExt method.

Returns

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

Definition at line 1213 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetExt().

Referenced by CRmvCddFeatDbxref::apply_to(), and CSeq_feat_Base::GetExt().

CanGetExts()

bool CSeq_feat_Base::CanGetExts ( void  ) const

inline

Check if it is safe to call GetExts method.

Returns

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

Definition at line 1471 of file Seq_feat_.hpp.

CanGetFrame()

bool CCdregion_Base::CanGetFrame ( void  ) const

inline

Check if it is safe to call GetFrame method.

Returns

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

Definition at line 515 of file Cdregion_.hpp.

Referenced by ExtendToGapsOrEnds(), RestoreModelReadingFrame(), and s_FixIntervalProtToCds().

CanGetFull_length() [1/2]

bool CModelEvidenceItem_Base::CanGetFull_length ( void  ) const

inline

Check if it is safe to call GetFull_length method.

Returns

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

Definition at line 454 of file ModelEvidenceItem_.hpp.

CanGetFull_length() [2/2]

bool CModelEvidenceSupport_Base::CanGetFull_length ( void  ) const

inline

Check if it is safe to call GetFull_length method.

Returns

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

Definition at line 776 of file ModelEvidenceSupport_.hpp.

CanGetGaps()

bool CCdregion_Base::CanGetGaps ( void  ) const

inline

Check if it is safe to call GetGaps method.

Returns

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

Definition at line 612 of file Cdregion_.hpp.

References CCdregion_Base::IsSetGaps().

Referenced by CCdregion_Base::GetGaps().

CanGetId() [1/3]

bool CModelEvidenceItem_Base::CanGetId ( void  ) const

inline

Check if it is safe to call GetId method.

Returns

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

Definition at line 330 of file ModelEvidenceItem_.hpp.

CanGetId() [2/3]

bool CSeq_feat_Base::CanGetId ( void  ) const

inline

Check if it is safe to call GetId method.

Returns

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

Definition at line 898 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetId().

Referenced by CGffRecord::AssignAttributesCore(), CSeq_feat_Base::GetId(), IsGeneInXref(), SFeats_OpLess::operator()(), and CXcompareAnnotsApplication::x_ProcessComparison().

CanGetId() [3/3]

bool CSeqFeatXref_Base::CanGetId ( void  ) const

inline

Check if it is safe to call GetId method.

Returns

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

Definition at line 208 of file SeqFeatXref_.hpp.

References CSeqFeatXref_Base::IsSetId().

Referenced by CSeqFeatXref_Base::GetId(), and CXcompareAnnotsApplication::x_ProcessComparison().

CanGetIdentification()

bool CModelEvidenceSupport_Base::CanGetIdentification ( void  ) const

inline

Check if it is safe to call GetIdentification method.

Returns

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

Definition at line 636 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetIdentification().

Referenced by CModelEvidenceSupport_Base::GetIdentification().

CanGetIds()

bool CSeq_feat_Base::CanGetIds ( void  ) const

inline

Check if it is safe to call GetIds method.

Returns

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

Definition at line 1446 of file Seq_feat_.hpp.

CanGetInference()

bool CSeqFeatSupport_Base::CanGetInference ( void  ) const

inline

Check if it is safe to call GetInference method.

Returns

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

Definition at line 257 of file SeqFeatSupport_.hpp.

CanGetKey()

bool CImp_feat_Base::CanGetKey ( void  ) const

inline

Check if it is safe to call GetKey method.

Returns

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

Definition at line 253 of file Imp_feat_.hpp.

References CImp_feat_Base::IsSetKey().

Referenced by CImp_feat_Base::GetKey().

CanGetLibrary()

bool CClone_ref_Base::CanGetLibrary ( void  ) const

inline

Check if it is safe to call GetLibrary method.

Returns

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

Definition at line 446 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetLibrary().

Referenced by CClone_ref_Base::GetLibrary().

CanGetLoc() [1/2]

bool CCode_break_Base::CanGetLoc ( void  ) const

inline

Check if it is safe to call GetLoc method.

Returns

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

Definition at line 502 of file Code_break_.hpp.

CanGetLoc() [2/2]

bool CImp_feat_Base::CanGetLoc ( void  ) const

inline

Check if it is safe to call GetLoc method.

Returns

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

Definition at line 300 of file Imp_feat_.hpp.

References CImp_feat_Base::IsSetLoc().

Referenced by CImp_feat_Base::GetLoc().

CanGetLocation() [1/2]

bool CClone_seq_Base::CanGetLocation ( void  ) const

inline

Check if it is safe to call GetLocation method.

Returns

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

Definition at line 498 of file Clone_seq_.hpp.

CanGetLocation() [2/2]

bool CSeq_feat_Base::CanGetLocation ( void  ) const

inline

Check if it is safe to call GetLocation method.

Returns

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

Definition at line 1111 of file Seq_feat_.hpp.

Referenced by CLinkUtils::AddDbxrefLinksForSNP(), AdjustCdregionFrame(), CGffRecord::AssignSeqId(), CGffRecord::AssignStart(), CGffRecord::AssignStop(), CGffRecord::AssignStrand(), CSeq_featHandler::GetLabel(), NSnp::GetLength(), GetRetranslateCDSCommand(), GetSequenceFromFeature(), CSelectionEvent::MatchFeatWithLoc(), RetranslateCdregion(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), CExtendCDSToStop::RetranslateCDSCommand(), s_GetClipLoc(), CClippedScorer::ScoreAlignments(), TrimSeqFeat(), TrimStopsFromCompleteCDS(), CPromote::x_PromoteFeatures(), CVectorTrimPanel::x_RetranslateCDS(), and CVectorTrimPanel::x_TrimFeatureLocations().

CanGetMethod()

bool CModelEvidenceSupport_Base::CanGetMethod ( void  ) const

inline

Check if it is safe to call GetMethod method.

Returns

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

Definition at line 514 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetMethod().

Referenced by CModelEvidenceSupport_Base::GetMethod().

CanGetMismatch()

bool CCdregion_Base::CanGetMismatch ( void  ) const

inline

Check if it is safe to call GetMismatch method.

Returns

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

Definition at line 659 of file Cdregion_.hpp.

References CCdregion_Base::IsSetMismatch().

Referenced by CCdregion_Base::GetMismatch().

CanGetModel_evidence()

bool CSeqFeatSupport_Base::CanGetModel_evidence ( void  ) const

inline

Check if it is safe to call GetModel_evidence method.

Returns

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

Definition at line 282 of file SeqFeatSupport_.hpp.

CanGetMrna()

bool CModelEvidenceSupport_Base::CanGetMrna ( void  ) const

inline

Check if it is safe to call GetMrna method.

Returns

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

Definition at line 561 of file ModelEvidenceSupport_.hpp.

CanGetName() [1/2]

bool CClone_ref_Base::CanGetName ( void  ) const

inline

Check if it is safe to call GetName method.

Returns

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

Definition at line 399 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetName().

Referenced by CClone_ref_Base::GetName().

CanGetName() [2/2]

bool CProgram_id_Base::CanGetName ( void  ) const

inline

Check if it is safe to call GetName method.

Returns

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

Definition at line 206 of file Program_id_.hpp.

References CProgram_id_Base::IsSetName().

Referenced by CProgram_id_Base::GetName().

CanGetOrf()

bool CCdregion_Base::CanGetOrf ( void  ) const

inline

Check if it is safe to call GetOrf method.

Returns

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

Definition at line 468 of file Cdregion_.hpp.

References CCdregion_Base::IsSetOrf().

Referenced by CCdregion_Base::GetOrf(), and CCdregionValidator::x_ValidateCommonProduct().

CanGetOther_type()

bool CInferenceSupport_Base::CanGetOther_type ( void  ) const

inline

Check if it is safe to call GetOther_type method.

Returns

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

Definition at line 524 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::IsSetOther_type().

Referenced by CInferenceSupport_Base::GetOther_type().

CanGetPartial()

bool CSeq_feat_Base::CanGetPartial ( void  ) const

inline

Check if it is safe to call GetPartial method.

Returns

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

Definition at line 949 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetPartial().

Referenced by CCDSTranslationProblems::CalculateTranslationProblems(), and CSeq_feat_Base::GetPartial().

CanGetPlacement_method()

bool CClone_ref_Base::CanGetPlacement_method ( void  ) const

inline

Check if it is safe to call GetPlacement_method method.

Returns

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

Definition at line 593 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetPlacement_method().

Referenced by CClone_ref_Base::GetPlacement_method().

CanGetPmids() [1/2]

bool CExperimentSupport_Base::CanGetPmids ( void  ) const

inline

Check if it is safe to call GetPmids method.

Returns

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

Definition at line 371 of file ExperimentSupport_.hpp.

CanGetPmids() [2/2]

bool CInferenceSupport_Base::CanGetPmids ( void  ) const

inline

Check if it is safe to call GetPmids method.

Returns

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

Definition at line 651 of file InferenceSupport_.hpp.

CanGetProduct()

bool CSeq_feat_Base::CanGetProduct ( void  ) const

inline

Check if it is safe to call GetProduct method.

Returns

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

Definition at line 1090 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetProduct().

Referenced by CSeqUtils::GetCdsMappingInfoFromRna(), GetMRNATranslationProblems(), CSeq_feat_Base::GetProduct(), GetProductLabel(), GetSequenceFromFeature(), CSelectionEvent::MatchFeatWithLoc(), SFeats_OpLess::operator()(), RenameGeneratedBioseqs(), s_CompareProtProdToTrans(), TrimSeqFeat(), CFeatureGenerator::SImplementation::x_CheckInconsistentDbxrefs(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CCreateGeneModelTask::x_GetCommand(), CPromote::x_PromoteCdregion(), CPromote::x_PromoteFeatures(), CVectorTrimPanel::x_TrimFeatureLocations(), and CCdregionValidator::x_ValidateCDSPeptides().

CanGetPrograms()

bool CEvidenceBasis_Base::CanGetPrograms ( void  ) const

inline

Check if it is safe to call GetPrograms method.

Returns

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

Definition at line 197 of file EvidenceBasis_.hpp.

CanGetProtein()

bool CModelEvidenceSupport_Base::CanGetProtein ( void  ) const

inline

Check if it is safe to call GetProtein method.

Returns

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

Definition at line 611 of file ModelEvidenceSupport_.hpp.

CanGetPseudo()

bool CSeq_feat_Base::CanGetPseudo ( void  ) const

inline

Check if it is safe to call GetPseudo method.

Returns

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

Definition at line 1352 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetPseudo().

Referenced by GetMRNATranslationProblems(), CSeq_feat_Base::GetPseudo(), and CAutoDefFeatureClause::x_GetProductName().

CanGetQual() [1/2]

bool CGb_qual_Base::CanGetQual ( void  ) const

inline

Check if it is safe to call GetQual method.

Returns

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

Definition at line 206 of file Gb_qual_.hpp.

References CGb_qual_Base::IsSetQual().

Referenced by CGb_qual_Base::GetQual(), CSingleFeatValidator::x_ValidateGeneXRef(), CMRNAValidator::x_ValidateMrna(), CGeneValidator::x_ValidateOperon(), and CCdregionValidator::x_ValidateQuals().

CanGetQual() [2/2]

bool CSeq_feat_Base::CanGetQual ( void  ) const

inline

Check if it is safe to call GetQual method.

Returns

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

Definition at line 1141 of file Seq_feat_.hpp.

Referenced by CGffRecord::AssignAttributesCore(), CGffRecord::AssignScore(), CGffRecord::AssignSource(), CGffRecord::AssignType(), NSnp::GetAlleles(), GetRNAProductString(), NSnp::IsSnpKnown(), s_GetRnaRefLabel(), CSeqTextDataSourceInterval::x_AddVariationsFromFeature(), CNewCleanup_imp::x_ConvertGoQualifiers(), and CFeat_qual_choice::x_GetFirstGBQualMatchConstraintName().

CanGetSame_species()

bool CInferenceSupport_Base::CanGetSame_species ( void  ) const

inline

Check if it is safe to call GetSame_species method.

Returns

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

Definition at line 571 of file InferenceSupport_.hpp.

CanGetSeq()

bool CClone_seq_Base::CanGetSeq ( void  ) const

inline

Check if it is safe to call GetSeq method.

Returns

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

Definition at line 528 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetSeq().

Referenced by CSeq_featHandler::GetLabel(), CClone_seq_Base::GetSeq(), CGuiObjectInfoClone::GetToolTip(), CClonePlacementGlyph::x_GetCloneEnds(), and CClonePlacementGlyph::x_GetSupportTypeForNonPrototypeEnds().

CanGetStops()

bool CCdregion_Base::CanGetStops ( void  ) const

inline

Check if it is safe to call GetStops method.

Returns

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

Definition at line 752 of file Cdregion_.hpp.

References CCdregion_Base::IsSetStops().

Referenced by CCdregion_Base::GetStops().

CanGetSupport() [1/2]

bool CClone_seq_Base::CanGetSupport ( void  ) const

inline

Check if it is safe to call GetSupport method.

Returns

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

Definition at line 570 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetSupport().

Referenced by CSeq_featHandler::GetLabel(), CClone_seq_Base::GetSupport(), CGuiObjectInfoClone::GetToolTip(), CClonePlacementGlyph::x_GetCloneEnds(), and CClonePlacementGlyph::x_GetSupportTypeForNonPrototypeEnds().

CanGetSupport() [2/2]

bool CSeq_feat_Base::CanGetSupport ( void  ) const

inline

Check if it is safe to call GetSupport method.

Returns

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

Definition at line 1496 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetSupport().

Referenced by CSeq_feat_Base::GetSupport().

CanGetSupports_all_exon_combo() [1/2]

bool CModelEvidenceItem_Base::CanGetSupports_all_exon_combo ( void  ) const

inline

Check if it is safe to call GetSupports_all_exon_combo method.

Returns

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

Definition at line 504 of file ModelEvidenceItem_.hpp.

CanGetSupports_all_exon_combo() [2/2]

bool CModelEvidenceSupport_Base::CanGetSupports_all_exon_combo ( void  ) const

inline

Check if it is safe to call GetSupports_all_exon_combo method.

Returns

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

Definition at line 826 of file ModelEvidenceSupport_.hpp.

CanGetTitle()

bool CSeq_feat_Base::CanGetTitle ( void  ) const

inline

Check if it is safe to call GetTitle method.

Returns

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

Definition at line 1166 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetTitle().

Referenced by CSeq_featHandler::GetLabel(), CSeq_feat_Base::GetTitle(), CUCSCRegionReader::xParseFeature(), and CUCSCRegionReader::xParseFeatureUCSCFormat().

CanGetType() [1/2]

bool CClone_seq_Base::CanGetType ( void  ) const

inline

Check if it is safe to call GetType method.

Returns

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

Definition at line 404 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetType().

Referenced by CClone_seq_Base::GetType().

CanGetType() [2/2]

bool CInferenceSupport_Base::CanGetType ( void  ) const

inline

Check if it is safe to call GetType method.

Returns

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

Definition at line 474 of file InferenceSupport_.hpp.

CanGetUnique()

bool CClone_ref_Base::CanGetUnique ( void  ) const

inline

Check if it is safe to call GetUnique method.

Returns

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

Definition at line 543 of file Clone_ref_.hpp.

CanGetVal()

bool CGb_qual_Base::CanGetVal ( void  ) const

inline

Check if it is safe to call GetVal method.

Returns

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

Definition at line 253 of file Gb_qual_.hpp.

References CGb_qual_Base::IsSetVal().

Referenced by CGb_qual_Base::GetVal(), CTable2AsnContext::RenameProteinIdsQuals(), CSingleFeatValidator::x_ValidateGeneXRef(), and CGeneValidator::x_ValidateOperon().

CanGetVersion()

bool CProgram_id_Base::CanGetVersion ( void  ) const

inline

Check if it is safe to call GetVersion method.

Returns

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

Definition at line 253 of file Program_id_.hpp.

References CProgram_id_Base::IsSetVersion().

Referenced by CProgram_id_Base::GetVersion().

CanGetXref()

bool CSeq_feat_Base::CanGetXref ( void  ) const

inline

Check if it is safe to call GetXref method.

Returns

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

Definition at line 1302 of file Seq_feat_.hpp.

Referenced by CGffRecord::AssignAttributesCore(), and CClearFeatureId::ClearFeatureIds().

CCdregion() [1/2]

CCdregion::CCdregion ( const CCdregion &  value )

private

CCdregion() [2/2]

CCdregion::CCdregion ( void  )

inline

Definition at line 86 of file Cdregion.hpp.

CCdregion_Base() [1/2]

CCdregion_Base::CCdregion_Base ( const CCdregion_Base &  )

private

CCdregion_Base() [2/2]

END_CLASS_INFO CCdregion_Base::CCdregion_Base

(

void

)

Definition at line 116 of file Cdregion_.cpp.

References CCdregion_Base::m_set_State.

CClone_ref() [1/2]

CClone_ref::CClone_ref ( const CClone_ref &  value )

private

CClone_ref() [2/2]

CClone_ref::CClone_ref ( void  )

inline

Definition at line 86 of file Clone_ref.hpp.

CClone_ref_Base() [1/2]

CClone_ref_Base::CClone_ref_Base ( const CClone_ref_Base &  )

private

CClone_ref_Base() [2/2]

END_CLASS_INFO CClone_ref_Base::CClone_ref_Base

(

void

)

Definition at line 122 of file Clone_ref_.cpp.

References CClone_ref_Base::m_set_State.

CClone_seq() [1/2]

CClone_seq::CClone_seq ( const CClone_seq &  value )

private

CClone_seq() [2/2]

CClone_seq::CClone_seq ( void  )

inline

Definition at line 86 of file Clone_seq.hpp.

CClone_seq_Base() [1/2]

CClone_seq_Base::CClone_seq_Base ( const CClone_seq_Base &  )

private

CClone_seq_Base() [2/2]

END_CLASS_INFO CClone_seq_Base::CClone_seq_Base

(

void

)

Definition at line 165 of file Clone_seq_.cpp.

References CObject::IsAllocatedInPool(), CClone_seq_Base::m_set_State, and CClone_seq_Base::ResetLocation().

CClone_seq_set() [1/2]

CClone_seq_set::CClone_seq_set ( const CClone_seq_set &  value )

private

CClone_seq_set() [2/2]

CClone_seq_set::CClone_seq_set ( void  )

inline

Definition at line 86 of file Clone_seq_set.hpp.

CClone_seq_set_Base() [1/2]

CClone_seq_set_Base::CClone_seq_set_Base ( const CClone_seq_set_Base &  )

private

CClone_seq_set_Base() [2/2]

END_CLASS_INFO CClone_seq_set_Base::CClone_seq_set_Base

(

void

)

Definition at line 68 of file Clone_seq_set_.cpp.

References CClone_seq_set_Base::m_set_State.

CCode_break() [1/2]

CCode_break::CCode_break ( const CCode_break &  value )

private

CCode_break() [2/2]

CCode_break::CCode_break ( void  )

inline

Definition at line 86 of file Code_break.hpp.

CCode_break_Base() [1/2]

CCode_break_Base::CCode_break_Base ( const CCode_break_Base &  )

private

CCode_break_Base() [2/2]

END_CLASS_INFO CCode_break_Base::CCode_break_Base

(

void

)

Definition at line 171 of file Code_break_.cpp.

References CObject::IsAllocatedInPool(), CCode_break_Base::m_set_State, CCode_break_Base::ResetAa(), and CCode_break_Base::ResetLoc().

CEvidenceBasis() [1/2]

CEvidenceBasis::CEvidenceBasis ( const CEvidenceBasis &  value )

private

CEvidenceBasis() [2/2]

CEvidenceBasis::CEvidenceBasis ( void  )

inline

Definition at line 86 of file EvidenceBasis.hpp.

CEvidenceBasis_Base() [1/2]

CEvidenceBasis_Base::CEvidenceBasis_Base ( const CEvidenceBasis_Base &  )

private

CEvidenceBasis_Base() [2/2]

END_CLASS_INFO CEvidenceBasis_Base::CEvidenceBasis_Base

(

void

)

Definition at line 82 of file EvidenceBasis_.cpp.

References CEvidenceBasis_Base::m_set_State.

CExperimentSupport() [1/2]

CExperimentSupport::CExperimentSupport ( const CExperimentSupport &  value )

private

CExperimentSupport() [2/2]

CExperimentSupport::CExperimentSupport ( void  )

inline

Definition at line 86 of file ExperimentSupport.hpp.

CExperimentSupport_Base() [1/2]

CExperimentSupport_Base::CExperimentSupport_Base ( const CExperimentSupport_Base &  )

private

CExperimentSupport_Base() [2/2]

END_CLASS_INFO CExperimentSupport_Base::CExperimentSupport_Base

(

void

)

Definition at line 90 of file ExperimentSupport_.cpp.

References CExperimentSupport_Base::m_set_State.

CFeat_id() [1/2]

CFeat_id::CFeat_id ( const CFeat_id &  value )

private

CFeat_id() [2/2]

CFeat_id::CFeat_id ( void  )

inline

Definition at line 86 of file Feat_id.hpp.

CFeat_id_Base() [1/2]

CFeat_id_Base::CFeat_id_Base ( const CFeat_id_Base &  )

private

CFeat_id_Base() [2/2]

END_CHOICE_INFO CFeat_id_Base::CFeat_id_Base

(

void

)

Definition at line 194 of file Feat_id_.cpp.

CGb_qual_Base() [1/2]

CGb_qual_Base::CGb_qual_Base ( const CGb_qual_Base &  )

private

CGb_qual_Base() [2/2]

END_CLASS_INFO CGb_qual_Base::CGb_qual_Base

(

void

)

Definition at line 80 of file Gb_qual_.cpp.

References CGb_qual_Base::m_set_State.

CGenetic_code_Base() [1/2]

CGenetic_code_Base::CGenetic_code_Base ( const CGenetic_code_Base &  )

private

CGenetic_code_Base() [2/2]

END_CLASS_INFO CGenetic_code_Base::CGenetic_code_Base

(

void

)

Definition at line 201 of file Genetic_code_.cpp.

References CGenetic_code_Base::m_set_State.

CGenetic_code_table_Base() [1/2]

CGenetic_code_table_Base::CGenetic_code_table_Base ( const CGenetic_code_table_Base &  )

private

CGenetic_code_table_Base() [2/2]

END_CLASS_INFO CGenetic_code_table_Base::CGenetic_code_table_Base

(

void

)

Definition at line 68 of file Genetic_code_table_.cpp.

References CGenetic_code_table_Base::m_set_State.

CheckSelected() [1/4]

void CCode_break_Base::C_Aa::CheckSelected ( E_Choice  index ) const

inline

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

Parameters

index

Expected selection.

Definition at line 392 of file Code_break_.hpp.

CheckSelected() [2/4]

void CFeat_id_Base::CheckSelected ( E_Choice  index ) const

inline

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

Parameters

index

Expected selection.

Definition at line 297 of file Feat_id_.hpp.

References CFeat_id_Base::m_choice, and CFeat_id_Base::ThrowInvalidSelection().

Referenced by CFeat_id_Base::GetGeneral(), CFeat_id_Base::GetGibb(), CFeat_id_Base::GetGiim(), and CFeat_id_Base::GetLocal().

CheckSelected() [3/4]

void CGenetic_code_Base::C_E::CheckSelected ( E_Choice  index ) const

inline

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

Parameters

index

Expected selection.

Definition at line 475 of file Genetic_code_.hpp.

CheckSelected() [4/4]

void CSeqFeatData_Base::CheckSelected ( E_Choice  index ) const

inline

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

Parameters

index

Expected selection.

Definition at line 863 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::m_choice, and CSeqFeatData_Base::ThrowInvalidSelection().

Referenced by CSeqFeatData_Base::GetBiosrc(), CSeqFeatData_Base::GetBond(), CSeqFeatData_Base::GetCdregion(), CSeqFeatData_Base::GetClone(), CSeqFeatData_Base::GetGene(), CSeqFeatData_Base::GetHet(), CSeqFeatData_Base::GetImp(), CSeqFeatData_Base::GetNon_std_residue(), CSeqFeatData_Base::GetNum(), CSeqFeatData_Base::GetOrg(), CSeqFeatData_Base::GetProt(), CSeqFeatData_Base::GetPsec_str(), CSeqFeatData_Base::GetPub(), CSeqFeatData_Base::GetRegion(), CSeqFeatData_Base::GetRna(), CSeqFeatData_Base::GetRsite(), CSeqFeatData_Base::GetSeq(), CSeqFeatData_Base::GetSite(), CSeqFeatData_Base::GetTxinit(), CSeqFeatData_Base::GetUser(), and CSeqFeatData_Base::GetVariation().

CImp_feat_Base() [1/2]

CImp_feat_Base::CImp_feat_Base ( const CImp_feat_Base &  )

private

CImp_feat_Base() [2/2]

END_CLASS_INFO CImp_feat_Base::CImp_feat_Base

(

void

)

Definition at line 88 of file Imp_feat_.cpp.

References CImp_feat_Base::m_set_State.

CInferenceSupport() [1/2]

CInferenceSupport::CInferenceSupport ( const CInferenceSupport &  value )

private

CInferenceSupport() [2/2]

CInferenceSupport::CInferenceSupport ( void  )

inline

Definition at line 86 of file InferenceSupport.hpp.

CInferenceSupport_Base() [1/2]

CInferenceSupport_Base::CInferenceSupport_Base ( const CInferenceSupport_Base &  )

private

CInferenceSupport_Base() [2/2]

END_CLASS_INFO CInferenceSupport_Base::CInferenceSupport_Base

(

void

)

Definition at line 132 of file InferenceSupport_.cpp.

References CObject::IsAllocatedInPool(), CInferenceSupport_Base::m_set_State, and CInferenceSupport_Base::ResetBasis().

CModelEvidenceItem() [1/2]

CModelEvidenceItem::CModelEvidenceItem ( const CModelEvidenceItem &  value )

private

CModelEvidenceItem() [2/2]

CModelEvidenceItem::CModelEvidenceItem ( void  )

inline

Definition at line 86 of file ModelEvidenceItem.hpp.

CModelEvidenceItem_Base() [1/2]

CModelEvidenceItem_Base::CModelEvidenceItem_Base ( const CModelEvidenceItem_Base &  )

private

CModelEvidenceItem_Base() [2/2]

END_CLASS_INFO CModelEvidenceItem_Base::CModelEvidenceItem_Base

(

void

)

Definition at line 89 of file ModelEvidenceItem_.cpp.

References CObject::IsAllocatedInPool(), CModelEvidenceItem_Base::m_set_State, and CModelEvidenceItem_Base::ResetId().

CModelEvidenceSupport() [1/2]

CModelEvidenceSupport::CModelEvidenceSupport ( const CModelEvidenceSupport &  value )

private

CModelEvidenceSupport() [2/2]

CModelEvidenceSupport::CModelEvidenceSupport ( void  )

inline

Definition at line 86 of file ModelEvidenceSupport.hpp.

CModelEvidenceSupport_Base() [1/2]

CModelEvidenceSupport_Base::CModelEvidenceSupport_Base ( const CModelEvidenceSupport_Base &  )

private

CModelEvidenceSupport_Base() [2/2]

END_CLASS_INFO CModelEvidenceSupport_Base::CModelEvidenceSupport_Base

(

void

)

Definition at line 134 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_set_State.

CProgram_id() [1/2]

CProgram_id::CProgram_id ( const CProgram_id &  value )

private

CProgram_id() [2/2]

CProgram_id::CProgram_id ( void  )

inline

Definition at line 86 of file Program_id.hpp.

CProgram_id_Base() [1/2]

CProgram_id_Base::CProgram_id_Base ( const CProgram_id_Base &  )

private

CProgram_id_Base() [2/2]

END_CLASS_INFO CProgram_id_Base::CProgram_id_Base

(

void

)

Definition at line 80 of file Program_id_.cpp.

References CProgram_id_Base::m_set_State.

CSeq_feat_Base() [1/2]

CSeq_feat_Base::CSeq_feat_Base ( const CSeq_feat_Base &  )

private

CSeq_feat_Base() [2/2]

END_CLASS_INFO CSeq_feat_Base::CSeq_feat_Base

(

void

)

Definition at line 281 of file Seq_feat_.cpp.

References CObject::IsAllocatedInPool(), CSeq_feat_Base::m_set_State, CSeq_feat_Base::ResetData(), and CSeq_feat_Base::ResetLocation().

CSeqFeatData_Base() [1/2]

CSeqFeatData_Base::CSeqFeatData_Base ( const CSeqFeatData_Base &  )

private

CSeqFeatData_Base() [2/2]

END_CHOICE_INFO CSeqFeatData_Base::CSeqFeatData_Base

(

void

)

Definition at line 648 of file SeqFeatData_.cpp.

CSeqFeatSupport() [1/2]

CSeqFeatSupport::CSeqFeatSupport ( const CSeqFeatSupport &  value )

private

CSeqFeatSupport() [2/2]

CSeqFeatSupport::CSeqFeatSupport ( void  )

inline

Definition at line 86 of file SeqFeatSupport.hpp.

CSeqFeatSupport_Base() [1/2]

CSeqFeatSupport_Base::CSeqFeatSupport_Base ( const CSeqFeatSupport_Base &  )

private

CSeqFeatSupport_Base() [2/2]

END_CLASS_INFO CSeqFeatSupport_Base::CSeqFeatSupport_Base

(

void

)

Definition at line 91 of file SeqFeatSupport_.cpp.

References CSeqFeatSupport_Base::m_set_State.

CSeqFeatXref() [1/2]

CSeqFeatXref::CSeqFeatXref ( const CSeqFeatXref &  value )

private

CSeqFeatXref() [2/2]

CSeqFeatXref::CSeqFeatXref ( void  )

inline

Definition at line 86 of file SeqFeatXref.hpp.

CSeqFeatXref_Base() [1/2]

CSeqFeatXref_Base::CSeqFeatXref_Base ( const CSeqFeatXref_Base &  )

private

CSeqFeatXref_Base() [2/2]

END_CLASS_INFO CSeqFeatXref_Base::CSeqFeatXref_Base

(

void

)

Definition at line 104 of file SeqFeatXref_.cpp.

References CSeqFeatXref_Base::m_set_State.

DECLARE_INTERNAL_TYPE_INFO() [1/22]

CCdregion_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [2/22]

CClone_ref_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [3/22]

CClone_seq_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [4/22]

CClone_seq_set_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [5/22]

CCode_break_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [6/22]

CCode_break_Base::C_Aa::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [7/22]

CEvidenceBasis_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [8/22]

CExperimentSupport_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [9/22]

CFeat_id_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [10/22]

CGb_qual_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [11/22]

CGenetic_code_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [12/22]

CGenetic_code_Base::C_E::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [13/22]

CGenetic_code_table_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [14/22]

CImp_feat_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [15/22]

CInferenceSupport_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [16/22]

CModelEvidenceItem_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [17/22]

CModelEvidenceSupport_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [18/22]

CProgram_id_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [19/22]

CSeq_feat_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [20/22]

CSeqFeatData_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [21/22]

CSeqFeatSupport_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DECLARE_INTERNAL_TYPE_INFO() [22/22]

CSeqFeatXref_Base::DECLARE_INTERNAL_TYPE_INFO

(

)

DoSelect() [1/4]

void CCode_break_Base::C_Aa::DoSelect ( E_Choice  index, CObjectMemoryPool *  pool = 0  )

private

Definition at line 62 of file Code_break_.cpp.

DoSelect() [2/4]

void CFeat_id_Base::DoSelect ( E_Choice  index, CObjectMemoryPool *  pool = 0  )

private

Definition at line 73 of file Feat_id_.cpp.

References CObject::AddReference(), CFeat_id_Base::e_General, CFeat_id_Base::e_Gibb, CFeat_id_Base::e_Giim, CFeat_id_Base::e_Local, CFeat_id_Base::m_choice, CFeat_id_Base::m_Gibb, and CFeat_id_Base::m_object.

DoSelect() [3/4]

void CGenetic_code_Base::C_E::DoSelect ( E_Choice  index, CObjectMemoryPool *  pool = 0  )

private

Definition at line 82 of file Genetic_code_.cpp.

DoSelect() [4/4]

void CSeqFeatData_Base::DoSelect ( E_Choice  index, CObjectMemoryPool *  pool = 0  )

private

Definition at line 160 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Biosrc, CSeqFeatData_Base::e_Bond, CSeqFeatData_Base::e_Cdregion, CSeqFeatData_Base::e_Clone, CSeqFeatData_Base::e_Gene, CSeqFeatData_Base::e_Het, CSeqFeatData_Base::e_Imp, CSeqFeatData_Base::e_Non_std_residue, CSeqFeatData_Base::e_Num, CSeqFeatData_Base::e_Org, CSeqFeatData_Base::e_Prot, CSeqFeatData_Base::e_Psec_str, CSeqFeatData_Base::e_Pub, CSeqFeatData_Base::e_Region, CSeqFeatData_Base::e_Rna, CSeqFeatData_Base::e_Rsite, CSeqFeatData_Base::e_Seq, CSeqFeatData_Base::e_Site, CSeqFeatData_Base::e_Txinit, CSeqFeatData_Base::e_User, CSeqFeatData_Base::e_Variation, CSeqFeatData_Base::m_Bond, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_Het, CSeqFeatData_Base::m_object, CSeqFeatData_Base::m_Psec_str, CSeqFeatData_Base::m_Site, and CSeqFeatData_Base::m_string.

EBond()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CSeqFeatData_Base::EBond ( void  )

static

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

EConfidence()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CClone_seq_Base::EConfidence ( void  )

static

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

EExp_ev()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CSeq_feat_Base::EExp_ev ( void  )

static

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

EFrame()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CCdregion_Base::EFrame ( void  )

static

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

EPlacement_method()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CClone_ref_Base::EPlacement_method ( void  )

static

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

EPsec_str()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CSeqFeatData_Base::EPsec_str ( void  )

static

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

ESite()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CSeqFeatData_Base::ESite ( void  )

static

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

ESupport()

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CClone_seq_Base::ESupport ( void  )

static

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

EType() [1/2]

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CClone_seq_Base::EType ( void  )

static

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

EType() [2/2]

static const NCBI_NS_NCBI::CEnumeratedTypeValues* ENUM_METHOD_NAME() CInferenceSupport_Base::EType ( void  )

static

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

Get() [1/3]

const CClone_seq_set_Base::Tdata & CClone_seq_set_Base::Get ( void  ) const

inline

Get the member data.

Returns

Reference to the member data.

Definition at line 164 of file Clone_seq_set_.hpp.

References CClone_seq_set_Base::m_data.

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CClonePlacementGlyph::x_GetCloneEnds(), and CClonePlacementGlyph::x_GetSupportTypeForNonPrototypeEnds().

Get() [2/3]

const CGenetic_code_Base::Tdata & CGenetic_code_Base::Get ( void  ) const

inline

Get the member data.

Returns

Reference to the member data.

Definition at line 677 of file Genetic_code_.hpp.

References CGenetic_code_Base::m_data.

Referenced by CTrans_table::CTrans_table(), GetGcodeForInternalStopErrors(), CGenetic_code::GetId(), CGenetic_code::GetName(), CGenetic_code::GetNcbieaa(), CGenetic_code::GetSncbieaa(), CGen_code_table_imp::GetTransTable(), and CValidError_bioseq::ValidateSeqFeatContext().

Get() [3/3]

const CGenetic_code_table_Base::Tdata & CGenetic_code_table_Base::Get ( void  ) const

inline

Get the member data.

Returns

Reference to the member data.

Definition at line 165 of file Genetic_code_table_.hpp.

References CGenetic_code_table_Base::m_data.

Referenced by CCDSProductPanel::CreateControls(), CCDSTranslationPanel::CreateControls(), GetGcodeForName(), CBLASTParams::GetGeneticCodeByLabel(), CBLASTParams::GetGeneticCodeLabel(), CBLASTParams::GetGeneticCodeLabels(), GetGeneticCodeName(), CGen_code_table_imp::GetNcbieaa(), CGen_code_table_imp::GetSncbieaa(), CGen_code_table_imp::GetTransTable(), CEditingActionFeatTranslTable::GetValue(), COrfSearchForm::GetWidget(), CApplyGCode::Init(), CLocAndGCodePanel::Init(), s_GetGeneticCode(), CEditingActionFeatTranslTable::SetValue(), CCDSTranslationPanel::TransferDataToWindow(), COrfSearchJob::x_DecodeGeneticCode(), CSixFramesTransTrack::x_InitGeneticCodeName(), and CSixFramesTransTrack::x_OnGeneticIconClicked().

GetAa()

const CCode_break_Base::TAa & CCode_break_Base::GetAa ( void  ) const

inline

Get the Aa member data.

Returns

Reference to the member data.

Definition at line 538 of file Code_break_.hpp.

References CCode_break_Base::m_Aa, and CCode_break_Base::ResetAa().

Referenced by CNewCleanup_imp::CdregionFeatBC(), CkCdRegion(), CWriteUtil::GetAaName(), CEditingActionFeatTranslExcept::GetValue(), CCleanup::IsMethionine(), s_IsEmpty(), s_IsSelenocysteine(), CSeqTranslator::Translate(), and CSeqTranslator::TranslateToProtein().

GetAccessions()

const CEvidenceBasis_Base::TAccessions & CEvidenceBasis_Base::GetAccessions ( void  ) const

inline

Get the Accessions member data.

Returns

Reference to the member data.

Definition at line 228 of file EvidenceBasis_.hpp.

References CEvidenceBasis_Base::m_Accessions.

GetAlign_id()

const CClone_seq_Base::TAlign_id & CClone_seq_Base::GetAlign_id ( void  ) const

inline

Get the Align_id member data.

Returns

Reference to the member data.

Definition at line 555 of file Clone_seq_.hpp.

References CClone_seq_Base::CanGetAlign_id(), CClone_seq_Base::m_Align_id, and CSerialObject::ThrowUnassigned().

GetBasis()

const CInferenceSupport_Base::TBasis & CInferenceSupport_Base::GetBasis ( void  ) const

inline

Get the Basis member data.

Returns

Reference to the member data.

Definition at line 627 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Basis, and CInferenceSupport_Base::ResetBasis().

GetBiosrc()

const CSeqFeatData_Base::TBiosrc & CSeqFeatData_Base::GetBiosrc

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 548 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Biosrc, and CSeqFeatData_Base::m_object.

Referenced by CQualLookupMap::AddFeat(), CDiscrepancyContext::CParseNode::AddFeature(), CCleanup::CleanupCollectionDates(), CExportTableDlg::FindBioSource(), CAddFluComments::FindBioSource(), GetBioSourceForBioseq(), CLowerQuals::GetCommand(), CValidErrorFormat::GetFeatureContentLabel(), GetRmCultureNotesCommand(), CSourceFeatureItem::GetSource(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CSrcTableColumnBase::GetVal(), CSrcTableColumnBase::GetVals(), CAutoDefFeatureClause::IsEndogenousVirusSourceFeature(), s_GetContentLabel(), CCleanup::TaxonomyLookup(), CSrcFeatValidator::Validate(), CValidError_imp::Validate(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_imp::ValidateSubSource(), CValidErrorFormat::x_FormatBadInstCodeForSubmitterReport(), CValidErrorFormat::x_FormatBadSpecificHostForSubmitterReport(), CSourceItem::x_GatherInfo(), CAutoDefFeatureClause::x_GetDescription(), x_GetDivisionProc(), x_GetDivisionProcIdx(), x_GetSourceFeatViaCDS(), CBioseqIndex::x_InitFeats(), CBioseqIndex::x_InitSource(), CDeflineGenerator::x_SetBioSrc(), CDeflineGenerator::x_SetBioSrcIdx(), and CBioseqContext::x_SetTaxname().

GetBond()

CSeqFeatData_Base::TBond CSeqFeatData_Base::GetBond ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 972 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Bond, and CSeqFeatData_Base::m_Bond.

Referenced by s_GetContentLabel().

GetCategory() [1/2]

CExperimentSupport_Base::TCategory CExperimentSupport_Base::GetCategory ( void  ) const

inline

Get the Category member data.

Returns

Copy of the member data.

Definition at line 290 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::CanGetCategory(), CExperimentSupport_Base::m_Category, and CSerialObject::ThrowUnassigned().

GetCategory() [2/2]

CInferenceSupport_Base::TCategory CInferenceSupport_Base::GetCategory ( void  ) const

inline

Get the Category member data.

Returns

Copy of the member data.

Definition at line 440 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::CanGetCategory(), CInferenceSupport_Base::m_Category, and CSerialObject::ThrowUnassigned().

GetCdregion()

const CSeqFeatData_Base::TCdregion & CSeqFeatData_Base::GetCdregion

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 310 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Cdregion, and CSeqFeatData_Base::m_object.

Referenced by CReportTrim::AdjustAndTranslate(), AdjustCdregionFrame(), AdjustFrameFor5Extension(), BOOST_AUTO_TEST_CASE(), Check5Extend(), check_end_internal(), CheckAdjustStart(), CheckAdjustStop(), CheckTerminalExceptionResults(), CkEndStop(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CEditSequenceEnds::Extend3(), CEditSequenceEnds::Extend5(), ExtendCDSToStopCodon(), ExtendToGapsOrEnds(), ExtendToStopCodon(), CSeqTranslator::FindBestFrame(), CScore_StartStopCodon::Get(), CCreateFeat::GetCdregionOrder(), CFeatTrim::GetCdsFrame(), CCleanup::GetCodeBreakForLocation(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CRetranslateCDS::GetCommand(), CEditCdsFrame::GetCommand(), CEditSequence::GetFeatures(), CCodonStartColumn::GetFromFeat(), CGeneticCodeColumn::GetFromFeat(), GetInternalStopErrorMessage(), GetLastPartialCodonLength(), CSeqUtils::GetMappingInfo(), CCDSTranslationProblems::GetNonsenseIntrons(), GetStartCodonErrorMessage(), CEditingActionFeatCodonStart::GetValue(), CEditingActionFeatTranslTable::GetValue(), CLocationEditPolicy::Interpret5Policy(), IsLocationInFrame(), CEditingActionFeatTranslTable::IsSetValue(), CEditingActionFeatTranslExcept::Modify(), ProductToSource(), RestoreModelReadingFrame(), CTestSingleAln_All::RunTest(), s_AreFullLengthCodingRegionsWithDifferentFrames(), s_CdsStartCodon(), s_CdsStopCodon(), s_Code_break(), s_CompareFtables(), s_FixIntervalProtToCds(), s_GetCdregionLabel(), s_GetCdregionOrder(), s_GetConcatenatedExon(), s_InframeUpstreamStop(), s_IsSelenocysteine(), s_MapSlaveFeatureToMaster(), s_PrematureStopCodon(), ApplyCDSFrame::s_SetCDSFrame(), CMacroFunction_ApplyCDSFrame::s_SetCDSFrame(), s_UpdateCodeBreaksAndAnticodons(), CCleanup::SetBestFrame(), CReportEntry::SetCds(), CCleanup::SetCDSPartialsByFrameAndTranslation(), CCleanup::SetCodeBreakLocation(), CCleanup::SetGeneticCodes(), SourceToProduct(), TestCds(), TestCdsFromLastBioseq(), TestCdsFromLastBioseqWithCodeBreak(), TestCdsWithCodeBreak(), TestTwoIntCdsFromLastBioseqOutsideAlign(), CSeqTranslator::Translate(), Translate(), TranslateCodingRegionForValidation(), CSeqTranslator::TranslateToProtein(), TruncateCDSAtStop(), CCdregionValidator::Validate(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateSeqFeatContext(), CFastaOstreamEx::WriteFeature(), CFeatureItem::x_AddFTableCdregionQuals(), CFeatureItem::x_AddQualsCdregion(), CFeatureItem::x_AddQualsCdregionIdx(), CFastaOstreamEx::x_AddReadingFrameAttribute(), CFastaOstreamEx::x_AddTranslationExceptionAttribute(), CReportTrim::x_AdjustCdregionFrame(), CFeatGapInfo::x_AdjustCodebreaks(), CFeaturePropagator::x_CdsStopAtStopCodon(), CCDSTranslationProblems::x_CheckCDSFrame(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CCDSTranslationProblems::x_CountNonsenseIntrons(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CSGFeatureJob::x_CreateFeature1(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CCdsGlyph::x_DrawProtSeqWithMapping(), CFeaturePropagator::x_ExtendToStopCodon(), CFastaOstreamEx::x_GetCodeBreak(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt5End(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CCdregionValidator::x_IsProductMisplaced(), CCdregionValidator::x_ReportTranslationMismatches(), CFeatureGenerator::SImplementation::x_SetComment(), CReportEntry::x_SetRnaCds(), CCdregionValidator::x_ValidateCodebreak(), CCdregionValidator::x_ValidateCommonProduct(), CCdregionValidator::x_ValidateExceptText(), CCdregionValidator::x_ValidateFeatComment(), CCdregionValidator::x_ValidateGeneticCode(), CCdregionValidator::x_ValidateQuals(), CFastaOstreamEx::x_WriteTranslatedCds(), CGff2Writer::xAssignFeatureAttributeCodeBreak(), CGff2Writer::xAssignFeatureAttributeTranslationTable(), CGff3AnnotAssembler::xProcessFeatureCds(), and CGff3Writer::xWriteFeatureCds().

GetCit()

const CSeq_feat_Base::TCit & CSeq_feat_Base::GetCit ( void  ) const

inline

Get the Cit member data.

Returns

Reference to the member data.

Definition at line 1240 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetCit(), CSeq_feat_Base::m_Cit, and CSerialObject::ThrowUnassigned().

Referenced by variation::CVariationUtil::AsVariation(), CSeq_feat_Handle::GetCit(), s_GetImpLabel(), and CSingleFeatValidator::x_ValidateFeatCit().

GetClone()

const CSeqFeatData_Base::TClone & CSeqFeatData_Base::GetClone

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 570 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Clone, and CSeqFeatData_Base::m_object.

Referenced by CReportTrim::AdjustAndTranslate(), CSeq_featHandler::GetLabel(), NSearchFeatPanel::s_GetFeatureLabel(), and CModifySeqId::x_UpdateFeat().

GetClone_seq()

const CClone_ref_Base::TClone_seq & CClone_ref_Base::GetClone_seq ( void  ) const

inline

Get the Clone_seq member data.

Returns

Reference to the member data.

Definition at line 646 of file Clone_ref_.hpp.

References CClone_ref_Base::CanGetClone_seq(), CClone_ref_Base::m_Clone_seq, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CClonePlacementGlyph::x_GetCloneEnds(), and CClonePlacementGlyph::x_GetSupportTypeForNonPrototypeEnds().

GetCode()

const CCdregion_Base::TCode & CCdregion_Base::GetCode ( void  ) const

inline

Get the Code member data.

Returns

Reference to the member data.

Definition at line 712 of file Cdregion_.hpp.

References CCdregion_Base::CanGetCode(), CCdregion_Base::m_Code, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCDSProductPanel::CreateControls(), ExtendCDSToStopCodon(), ExtendToStopCodon(), FixGeneticCode(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CEditSequence::GetFeatures(), CGeneticCodeColumn::GetFromFeat(), GetGcodeForInternalStopErrors(), CEditingActionFeatTranslTable::GetValue(), CTestSingleAln_All::RunTest(), s_GetCode(), CCDSProductPanel::SetCdregionFields(), CCleanup::SetGeneticCodes(), CCDSTranslationPanel::SetProduct(), CCDSTranslationPanel::TransferDataToWindow(), CSeqTranslator::Translate(), TranslateCodingRegionForValidation(), CSeqTranslator::TranslateToProtein(), CValidError_bioseq::ValidateSeqFeatContext(), CFeatureItem::x_AddFTableCdregionQuals(), CFeatureItem::x_AddQualTranslationTable(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeaturePropagator::x_ExtendToStopCodon(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CCDSTranslationProblems::x_IsThreeBaseNonsense(), CCdregionValidator::x_ReportTranslationMismatches(), CCdregionValidator::x_ValidateGeneticCode(), and CGff2Writer::xAssignFeatureAttributeTranslationTable().

GetCode_break()

const CCdregion_Base::TCode_break & CCdregion_Base::GetCode_break ( void  ) const

inline

Get the Code_break member data.

Returns

Reference to the member data.

Definition at line 733 of file Cdregion_.hpp.

References CCdregion_Base::m_Code_break.

Referenced by CReportTrim::AdjustAndTranslate(), CdregionAdjustForInsert(), CdregionAdjustForTrim(), CNewCleanup_imp::CdregionFeatBC(), CheckTerminalExceptionResults(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), DoesCodingRegionHaveTerminalCodeBreak(), EndAdded(), CCleanup::GetCodeBreakForLocation(), CEditingActionFeatTranslExcept::Modify(), CTestSingleAln_All::RunTest(), s_Code_break(), s_CompareFtables(), s_IsSelenocysteine(), s_UpdateCodeBreaksAndAnticodons(), TestCdsWithCodeBreak(), TestOneCDS(), CSeqTranslator::Translate(), CSeqTranslator::TranslateToProtein(), CFeatureItem::x_AddFTableCdregionQuals(), CFeatureItem::x_AddQualTranslationException(), CFeatureItem::x_AddQualTranslationExceptionIdx(), CFastaOstreamEx::x_AddTranslationExceptionAttribute(), CFeatGapInfo::x_AdjustCodebreaks(), CFeaturePropagator::x_CdsMapCodeBreaks(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_SetComment(), and CGff2Writer::xAssignFeatureAttributeCodeBreak().

GetComment()

const CSeq_feat_Base::TComment & CSeq_feat_Base::GetComment ( void  ) const

inline

Get the Comment member data.

Returns

Reference to the member data.

Definition at line 1049 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetComment(), CSeq_feat_Base::m_Comment, and CSerialObject::ThrowUnassigned().

Referenced by CExceptionPanel::AddCommand(), AddMiscRNAFeatures(), CCommentColumn::AddToFeature(), CProductColumn::AddToFeature(), AddtRNAAndOther(), AdjustBacterialGeneForCodingRegionWithShortIntron(), CFeatGapInfo::AdjustForRelevantGapIntervals(), CConvertBadInference::apply(), CGffRecord::AssignAttributesExtended(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BioSourceFromImpFeat(), BOOST_AUTO_TEST_CASE(), CAutoDefFeatureClause::CAutoDefFeatureClause(), CAutoDefGeneClusterClause::CAutoDefGeneClusterClause(), CAutoDefIntergenicSpacerClause::CAutoDefIntergenicSpacerClause(), CAutoDefMiscCommentClause::CAutoDefMiscCommentClause(), CheckTerminalExceptionResults(), CConvertMiscFeatToGene::Convert(), CConvertImpToCDS::Convert(), CConvertImpToGene::Convert(), CConvertGeneToImp::Convert(), ConvertToMiscFeature(), FeatureClauseFactory(), fta_get_trna_from_product(), fta_parse_rrna_feat(), CtRNAFromGene::GetCommand(), CBulkCDS::GetCommandFromValuesTable(), CBulkGene::GetCommandFromValuesTable(), CBulkMiscFeat::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), CSeq_feat_Handle::GetComment(), CEditObjectSeq_feat::GetEditCommand(), CCreateFeat::GetFeatLabel(), CCommentColumn::GetFromFeat(), CSeq_featHandler::GetLabel(), CmRNAFromGeneCdsExon::GetNameFromCDS(), CCdsFromGeneMrnaExon::GetNameFromExon(), CmRNAFromGeneCdsExon::GetNameFromExon(), CCdsFromGeneMrnaExon::GetNameFromGene(), CmRNAFromGeneCdsExon::GetNameFromGene(), CtRNAFromGene::GetNameFromGene(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), GetRnaRef(), GetTargetedLocusName(), CEditingActionFeatComment::GetValue(), CBulkGene::GetValuesTableFromSeqEntry(), CBulkMiscFeat::GetValuesTableFromSeqEntry(), CBulkRna::GetValuesTableFromSeqEntry(), HasContainedNote(), CCreateFeat::HasFeatLabel(), HasOverlapNote(), CWrongIllegalQuals::IllegalQualsToNote(), CNewCleanup_imp::ImpFeatBC(), CAnnotMapping_Info::InitializeMappedSeq_feat(), InspectSeqFeat(), CAutoDefFeatureClause::IsControlRegion(), CAutoDefFeatureClause::IsGeneCluster(), CAutoDefPromoterAnd5UTRClause::IsPromoterAnd5UTR(), CFeatComparatorByLabel::Less(), CCleanup::MoveFeatToProtein(), CNewCleanup_imp::MoveStandardName(), SSNP_Info::ParseSeq_feat(), ProcessForDbxref(), CCleanup::RemovePseudoProduct(), CFindASN1Dlg::ReplaceInFeature(), CNewCleanup_imp::RnaFeatBC(), s_AddComment(), s_CleanCDDFeature(), s_CompareFtables(), s_Fingerprint_Seq_feat(), s_GetContentLabel(), NSearchFeatPanel::s_GetCustomLabel(), s_GetFeatureContentLabelExtras(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetImpLabel(), s_GetRnaRefLabelFromComment(), s_UseCommentBeforeSemicolon(), SetOverlapNote(), SetTranslExcept(), CEditingActionFeatProduct::SetValue(), StripCDSComment(), CProtValidator::Validate(), CMiscFeatValidator::Validate(), CImpFeatValidator::Validate(), CWrongIllegalQuals::WrongQualsToNote(), CConvertGeneToRNA::x_AddGeneFieldsToComment(), CFeatureTableReader_Imp::x_AddNoteToFeature(), CFeatureItem::x_AddQualNote(), CConvertFeatureBase::x_AddToComment(), CNewCleanup_imp::x_BondEC(), CCDSTranslationProblems::x_CheckCDSFrame(), CNewCleanup_imp::x_CleanEmptyFeature(), CCommentItem::x_GatherFeatInfo(), CSeq_featHandler::x_GetCustomLabel(), CAutoDefFeatureClause::x_GetDescription(), CAutoDefFeatureClause::x_GetFeatureTypeWord(), CAutoDefFeatureClause::x_GetNoncodingProductFeatProduct(), CAutoDefFeatureClause::x_GetProductName(), CAutoDefNcRNAClause::x_GetProductName(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CNewCleanup_imp::x_HandleTrnaProductGBQual(), CNewCleanup_imp::x_IsCommentRedundantWithEC(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CFeatureGenerator::SImplementation::x_SetComment(), CFeatureGenerator::SImplementation::x_SetCommentForGapFilledModel(), CNewCleanup_imp::x_ShouldRemoveEmptyFeature(), CSingleFeatValidator::x_ValidateExceptText(), CSingleFeatValidator::x_ValidateFeatComment(), CCdregionValidator::x_ValidateFeatComment(), CSingleFeatValidator::x_ValidateImpFeatQuals(), and CProtValidator::x_ValidateProteinName().

GetConcordant()

CClone_ref_Base::TConcordant CClone_ref_Base::GetConcordant ( void  ) const

inline

Get the Concordant member data.

Returns

Copy of the member data.

Definition at line 512 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Concordant.

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), and CClonePlacementGlyph::x_Draw().

GetConfidence()

CClone_seq_Base::TConfidence CClone_seq_Base::GetConfidence ( void  ) const

inline

Get the Confidence member data.

Returns

Copy of the member data.

Definition at line 464 of file Clone_seq_.hpp.

References CClone_seq_Base::CanGetConfidence(), CClone_seq_Base::m_Confidence, and CSerialObject::ThrowUnassigned().

Referenced by CClonePlacementGlyph::x_GetCloneEnds().

GetConflict()

CCdregion_Base::TConflict CCdregion_Base::GetConflict ( void  ) const

inline

Get the Conflict member data.

Returns

Copy of the member data.

Definition at line 578 of file Cdregion_.hpp.

References CCdregion_Base::CanGetConflict(), CCdregion_Base::m_Conflict, and CSerialObject::ThrowUnassigned().

Referenced by CNewCleanup_imp::CdRegionEC(), CkProteinTransl(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCDSProductPanel::CreateControls(), CCDSProductPanel::SetCdregionFields(), CCDSTranslationPanel::SetProduct(), CCDSTranslationPanel::TransferDataToWindow(), CCdregionValidator::Validate(), and CFeatureItem::x_AddQualProteinConflict().

GetData() [1/2]

const CSeq_feat_Base::TData & CSeq_feat_Base::GetData ( void  ) const

inline

Get the Data member data.

Returns

Reference to the member data.

Definition at line 925 of file Seq_feat_.hpp.

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

Referenced by CLinkUtils::AddDbxrefLinksForSNP(), CQualLookupMap::AddFeat(), CDiscrepancyContext::CParseNode::AddFeature(), CAutoDefFeatureClause::AddGene(), AddMiscRNAFeatures(), CAutoDefFeatureClause::AddmRNA(), CFeatureGenePanel::AddReciprocicalXref(), CImportFeatTable::AddSeqAnnotToSeqEntry(), CProductColumn::AddToFeature(), CCodonStartColumn::AddToFeature(), CGeneticCodeColumn::AddToFeature(), CDescriptionColumn::AddToFeature(), CGeneRefColumn::AddToFeature(), CProtRefColumn::AddToFeature(), CNcrnaClassColumn::AddToFeature(), AddtRNAAndOther(), CReportTrim::AdjustAndTranslate(), AdjustCdregionFrame(), CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustFeatureEnd5(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CEditSequence::AdjustFeatureLocations(), CFeatGapInfo::AdjustForRelevantGapIntervals(), AdjustFrameFor5Extension(), AdjustSingleFeature(), CVariationNormalization::AlterToDelIns(), CFeatTrim::Apply(), CClearNomenclature::apply(), CFixProductNames::apply(), CCreateProteinId::apply(), CCreateLocusTagGene::apply(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CMRnaForCDS::apply_to(), CApplyObject::ApplyChange(), ApplyPolicyToFeature(), CRemoveFeaturesDlg::ApplyToCSeq_entry(), variation_ref::CHgvsParser::AsHgvsExpression(), CGffRecord::AssignAttributesCore(), CGffRecord::AssignPhase(), CGffRecord::AssignType(), variation::CVariationUtil::AsVariation(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CSpliceProblems::CalculateSpliceProblems(), CCDSTranslationProblems::CalculateTranslationProblems(), CEditObjectSeq_feat::CanClose(), CTextPanel::CanShowFlatFile(), CAutoDefFeatureClause::CAutoDefFeatureClause(), CAutoDefGeneClause::CAutoDefGeneClause(), CBioseqIndex::CBioseqIndex(), CNewCleanup_imp::CdRegionEC(), CFlatFileTextItem::CFlatFileTextItem(), Check5Extend(), check_end_internal(), variation_ref::CVariationUtil::CheckExonBoundary(), CheckPropagatedCDSLocation(), CheckTerminalExceptionResults(), CkCdRegion(), CkEndStop(), CLDBlockGlyph::CLDBlockGlyph(), CProductColumn::ClearInFeature(), CCodonStartColumn::ClearInFeature(), CGeneticCodeColumn::ClearInFeature(), CDescriptionColumn::ClearInFeature(), CGeneRefColumn::ClearInFeature(), CProtRefColumn::ClearInFeature(), CNcrnaClassColumn::ClearInFeature(), CPubField::ClearVal(), CSrcTableColumnBase::ClearVal(), CDiscrepancyContext::CollectFeature(), CFixForTransSplicing::CollectProteinNames(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CAnnotObject_SplitInfo::Compare(), CSeq_feat::CompareNonLocation(), CmRNACDSLinker::CompleteHalfFormedXrefPairs(), CConvertMiscFeatToGene::Convert(), CConvertCDSToProt::Convert(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CVariationNormalizationDelIns::ConvertExpandedDeletionToDelIns(), CVariationNormalizationDelIns::ConvertExpandedInsertionToDelIns(), CSeq_loc_Conversion::ConvertFeature(), CSeq_loc_Conversion_Set::ConvertFeature(), CCdsToMatPeptide::ConvertInner(), ConvertRegulatoryFeature(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), ConvertToMiscFeature(), CVariationUtilities::CorrectRefAllele(), CGBQualPanel::CreateControls(), CImportFeaturePanel::CreateControls(), CGuiObjectInfoSeq_feat::CreateObject(), CEditObjectSeq_feat::CreateWindowImpl(), CReferenceItem::CReferenceItem(), CSequenceTrack::CSequenceTrack(), CValidError_feat::DoesCDSHaveShortIntrons(), DoesFeatureHaveUnnecessaryException(), CAnnotCompareDS::DumpTextReport(), CEditingBtnsPanel::ECNumberCleanup(), CEditSequenceEnds::Extend3(), CEditSequenceEnds::Extend5(), ExtendCDSToStopCodon(), ExtendToGapsOrEnds(), ExtendToStopCodon(), FeatureAdjustForInsert(), FeatureAdjustForTrim(), FeatureClauseFactory(), FeaturePairIsTwoTypes(), CSoMap::FeatureToSoType(), FeatValidatorFactory(), CCdsToMatPeptide::FindAnnot(), CSeqTranslator::FindBestFrame(), CSeq_feat::FindExt(), TAsyncToken::FindGeneByLocusTag(), TAsyncToken::FindMrnaByQual(), CCleanup::FixECNumbers(), CCleanup::FixRNAEditingCodingRegion(), fta_rnas_cds_feat(), g_ValidateVariationSeqfeat(), GeneXrefConflicts(), get_my_feat_type(), get_trna_string(), IEditingAction::GetActionCommand(), CGeneFinder::GetAssociatedGeneInfo(), GetAuthList(), CConvertBadCdsAndRnaToMiscFeat::getBacterialPartialNonextendable(), GetBestCdsForMrna(), GetBestGeneForCds(), GetBestGeneForMrna(), GetBestMrnaForCds(), GetBestOverlappingFeat(), GetBioSourceForBioseq(), CCreateFeat::GetCdregionOrder(), CFeatTrim::GetCdsFrame(), CConvertBadCdsAndRnaToMiscFeat::getCdsRnaOverlap(), GetCdssForGene(), CCleanup::GetCodeBreakForLocation(), CAddGlobalCodeBreak::GetCommand(), CEditSequenceEnds::GetCommand(), CExtendCDSToStop::GetCommand(), CExtendPartialFeatDlg::GetCommand(), CFixForTransSplicing::GetCommand(), CFuseFeaturesDlg::GetCommand(), CLowerQuals::GetCommand(), CTruncateCDS::GetCommand(), CReplaceEntirePubPanel::GetCommand(), CGeneXrefsFromFeats::GetCommand(), CRetranslateCDS::GetCommand(), CEditCdsFrame::GetCommand(), CBulkCDS::GetCommandFromValuesTable(), CBulkGene::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), CFeatGlyph::GetCustomColorIdx(), CSeq_feat_Handle::GetData(), CEditObjectSeq_feat::GetEditCommand(), GetEditLocationCommand(), CFlatFileViewContext::GetEditObject(), GetFeatNameAndLoc(), CValidErrorFormat::GetFeatureContentLabel(), CAlignmentAssistant::GetFeatures(), CEditSequence::GetFeatures(), CProductColumn::GetFromFeat(), CCodonStartColumn::GetFromFeat(), CGeneticCodeColumn::GetFromFeat(), CDescriptionColumn::GetFromFeat(), CGeneRefColumn::GetFromFeat(), CProtRefColumn::GetFromFeat(), CNcrnaClassColumn::GetFromFeat(), CRegionColumn::GetFromFeat(), CCodonsRecColumn::GetFromFeat(), CAntiCodonColumn::GetFromFeat(), CTagPeptideColumn::GetFromFeat(), CCreateFeat::GetImpKey(), CFeatFindContext::GetIndexRange(), GetInternalStopErrorMessage(), GetIsLength(), CSeq_featHandler::GetLabel(), CUserFeatHandler::GetLabel(), GetLastPartialCodonLength(), CGuiObjectInfoVariation::GetLinks(), GetLocusTagForFeature(), NMacroUtil::GetLocusTagFromProtRef(), CAutoDefFeatureClause::GetMainFeatureSubtype(), CSeqUtils::GetMappingInfo(), GetMrnasForGene(), CCdsFromGeneMrnaExon::GetNameFromGene(), CmRNAFromGeneCdsExon::GetNameFromGene(), CtRNAFromGene::GetNameFromGene(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), CCDSTranslationProblems::GetNonsenseIntrons(), CAutoDef::GetOneFeatureClauseList(), CAnnotObject_SplitInfo::GetPriority(), GetProductForCDS(), GetProductName(), GetProteinWeight(), GetPubTitle(), CmRNACDSLinker::GetReferencedmRNA_CDS(), CMiscSeqTableColumn::GetRelatedApplyObjects(), GetRelatedFeatureApplyObjects(), GetRelatedFeatures(), CPubField::GetRelatedObjects(), GetRetranslateCDSCommand(), GetRNAname(), GetRNAProductString(), GetRnaRef(), CEditPubDlg::GetSelectedPub(), GetSeqFeatLabel(), GetStartCodonErrorMessage(), CPubField::GetStatus(), CmRNAFromGeneCdsExon::GetSuggestedName(), CtRNAFromGene::GetSuggestedName(), CCdsFromGeneMrnaExon::GetSuggestedName(), GetSynchronizeProductMolInfoCommand(), GetSynchronizeProteinPartialsCommand(), GetTargetedLocusName(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CSeq_feat::GetTypeSortingOrder(), IEditingAction::GetUpdateMRNAProductNameCmd(), CPubField::GetVal(), CSrcTableColumnBase::GetVal(), CPubField::GetVals(), CSrcTableColumnBase::GetVals(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatRegion::GetValue(), CEditingActionFeatCodonStart::GetValue(), CEditingActionFeatTranslTable::GetValue(), CEditingActionFeatDesc::GetValue(), CEditingActionFeatNcRnaClass::GetValue(), CEditingActionFeatLocus_tag::GetValue(), CEditingActionFeatMaploc::GetValue(), CEditingActionFeatAllele::GetValue(), CEditingActionFeatProduct::GetValue(), CEditingActionFeatGeneLocus::GetValue(), CEditingActionFeatTranscriptId::GetValue(), CBulkCDS::GetValuesTableFromSeqEntry(), CBulkGene::GetValuesTableFromSeqEntry(), CBulkRna::GetValuesTableFromSeqEntry(), NSnpGui::GetVcfType(), HasBadProteinStart(), HasBadStartCodon(), HasInternalStop(), HasStopInProtein(), IfCDSGeneFeat(), CNewCleanup_imp::ImpFeatBC(), CGff3ImportData::Initialize(), CTextPanel::InitWidget(), InspectSeqFeat(), CLocationEditPolicy::Interpret3Policy(), CLocationEditPolicy::Interpret5Policy(), CAutoDefFeatureClause::IsControlRegion(), CAutoDefFeatureClause::IsEndogenousVirusSourceFeature(), CAutoDefFeatureClause::IsExonWithNumber(), CAutoDefFeatureClause::IsGeneCluster(), IsGeneInXref(), CCleanup::IsGeneXrefUnnecessary(), CAutoDefFeatureClause::IsInsertionSequence(), CValidError_feat::IsIntronShort(), CAutoDefFeatureClause::IsLTR(), IsMicroSatellite(), CAutoDefFeatureClause::IsMobileElement(), CSelectionVisitor::IsObjectSelected(), CAutoDefFeatureClause::IsPromoter(), CAutoDefPromoterAnd5UTRClause::IsPromoterAnd5UTR(), CDiscrepancyContext::IsPseudo(), CGeneCache::IsPseudo(), IsPseudo(), CSeqUtils::IsPseudoFeature(), CAutoDefFeatureClause::IsRecognizedFeature(), CVariationUtilities::IsReferenceCorrect(), CCompareFeats::IsSameSubtype(), CCompareFeats::IsSameType(), CAutoDefFeatureClause::IsSatellite(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CEditingActionFeatRegion::IsSetValue(), CEditingActionFeatCodonStart::IsSetValue(), CEditingActionFeatTranslTable::IsSetValue(), CEditingActionFeatDesc::IsSetValue(), CEditingActionFeatNcRnaClass::IsSetValue(), CEditingActionFeatLocus_tag::IsSetValue(), CEditingActionFeatMaploc::IsSetValue(), CEditingActionFeatAllele::IsSetValue(), CEditingActionFeatProduct::IsSetValue(), CEditingActionFeatGeneLocus::IsSetValue(), CEditingActionFeatTranscriptId::IsSetValue(), IsSiteRef(), NSnp::IsSnp(), CFeatComparatorByLabel::Less(), CmRNACDSLinker::LinkByLabelAndLocation(), CmRNACDSLinker::LinkSelectedFeatures(), LoadFeat(), LookForProductName(), CRna_feat_type::Match(), CEditingActionFeatTranslExcept::Modify(), CEditingActionFeatRnaQual::Modify(), CEditingActionFeatSynonym::Modify(), CEditingActionFeatActivity::Modify(), CEditingActionFeatEcNumber::Modify(), CEditingActionFeatFunction::Modify(), CEditingActionFeatProduct::Modify(), CCleanup::MoveFeatToProtein(), CNewCleanup_imp::MoveStandardName(), NeedFullFeature(), CCleanup::NormalizeGeneQuals(), CAutoDefFeatureClause::OkToGroupUnderByLocation(), CAutoDefFeatureClause::OkToGroupUnderByType(), CRestoreRNAediting::OnApply(), CSuspectProductRulesEditor::OnApplyFixes(), CBioseqEditor::OnCreateFeature(), CDiscrepancyPanel::OnDblClk(), CBioseqEditor::OnDeleteSelection(), CSuspectProductRulesEditor::OnListMatches(), CAnnotObjectType_Less::operator()(), CUpdateECNumbers::operator()(), operator<<(), CReadBlastApp::overlaps_na(), CReadBlastApp::overlaps_prot_na(), CGBQualPanel::PanelNeeded(), CCleanup::ParseCodeBreaks(), SSNP_Info::ParseSeq_feat(), CImportFeaturePanel::PopulateImpFeat(), CValidError_imp::PostErr(), variation_ref::CVariationUtil::PrecursorToProt(), CCdsForMrnaPlugin::processMainLoop(), CGeneFinder::CGeneSearchPlugin::processMainLoop(), C5ColAnnotAssembler::ProcessRecord(), ProductToSource(), CFeaturePropagator::Propagate(), CFeaturePropagator::PropagateFeatureList(), variation_ref::CVariationUtil::ProtToPrecursor(), CGlimmerReader::Read(), CGFFReader::Read(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), CFeature_table_reader::ReadSequinFeatureTables(), CFeatureGenerator::SImplementation::RecomputePartialFlags(), CDiscrepancyPanel::recursiveCdsTrnaOverlap(), variation_ref::CVariationUtil::Remap(), CCdsToMatPeptide::RemoveFeature(), CCleanup::RemovePseudoProduct(), CCleanup::RepairXrefs(), CFindASN1Dlg::ReplaceInFeature(), RescueProtProductQual(), CEditingActionFeatCodonsRecognized::ResetValue(), CEditingActionFeatAnticodon::ResetValue(), CEditingActionFeatRegion::ResetValue(), CEditingActionFeatCodonStart::ResetValue(), CEditingActionFeatTranslTable::ResetValue(), CEditingActionFeatDesc::ResetValue(), CEditingActionFeatNcRnaClass::ResetValue(), CEditingActionFeatLocus_tag::ResetValue(), CEditingActionFeatMaploc::ResetValue(), CEditingActionFeatAllele::ResetValue(), CEditingActionFeatProduct::ResetValue(), CEditingActionFeatGeneLocus::ResetValue(), CEditingActionFeatTranscriptId::ResetValue(), CGeneFinder::ResolveGeneObjectId(), RestoreModelFromPublicMrnaFeature(), CNewCleanup_imp::ResynchProteinPartials(), RetranslateCdregion(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), CAddGlobalCodeBreak::RetranslateCDSCommand(), CExtendCDSToStop::RetranslateCDSCommand(), ReverseComplementFeature(), CWrongIllegalQuals::RmIllegalQuals(), CWrongIllegalQuals::RmWrongOrIllegalQuals(), CWrongIllegalQuals::RmWrongQuals(), CFeatureLoadingJob::Run(), CFeatTreeSampleApp::Run(), CTestSingleAln_All::RunTest(), s_CheckQuals_cdregion(), s_CleanCDDFeature(), s_CompareFtables(), s_FindKeyFromFeatDefType(), ApplyCDSFrame::s_FindMatchingFrame(), CMacroFunction_ApplyCDSFrame::s_FindMatchingFrame(), s_Fingerprint_Seq_feat(), s_FixIntervalProtToCds(), s_FixncRNA(), s_FixRNAOtherByName(), s_FixtmRNA(), s_GetBestGeneForFeat(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), s_GetClipLoc(), s_GetContentLabel(), NSearchFeatPanel::s_GetCustomLabel(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetFeatureLabel(), s_GetFeaturesForRange(), CCompareSeqRegions::s_GetGeneId(), s_GetGeneTextLabel(), s_GetImpLabel(), s_GetMappedFeat(), s_GetmRNAName(), s_GetProductName(), s_GetProteinName(), s_GetRnaRefLabel(), s_GetVariationLabel(), s_IsCCDS(), CSingleFeatValidator::s_IsPseudo(), s_IsRealTrna(), s_IsSelenocysteine(), s_NotPeptideException(), CSequenceUpdater::s_OffsetFeature(), s_PassesFilter(), s_Render_SeqFeat(), s_RnaPosition(), ApplyCDSFrame::s_SetCDSFrame(), CMacroFunction_ApplyCDSFrame::s_SetCDSFrame(), s_SetProtRef(), s_SetUpXrefPairs(), CSequenceUpdater::s_Shift_tRNAAntiCodon(), s_ShouldBeMerged(), s_SortShorttRNAs(), s_TitleFromSegment(), s_UpdateCodeBreaksAndAnticodons(), NSearchFeatPanel::s_UseCustomLabel(), ScannGeneName(), CClippedScorer::ScoreAlignments(), CNewCleanup_imp::SeqfeatBC(), C5ColImportData::Serialize(), CCleanup::SetBestFrame(), CReportEntry::SetCds(), CCleanup::SetCDSPartialsByFrameAndTranslation(), CCleanup::SetCodeBreakLocation(), CFeatureGenerator::SImplementation::SetFeatureExceptions(), CReportEntry::SetGene(), CCleanup::SetGeneticCodes(), CCleanup::SetMrnaName(), SetTranslExcept(), CMiscSeqTableColumn::SetVal(), CEditingActionFeatCodonsRecognized::SetValue(), CEditingActionFeatAnticodon::SetValue(), CEditingActionFeatRnaQual::SetValue(), CEditingActionFeatRegion::SetValue(), CEditingActionFeatCodonStart::SetValue(), CEditingActionFeatTranslTable::SetValue(), CEditingActionFeatDesc::SetValue(), CEditingActionFeatNcRnaClass::SetValue(), CEditingActionFeatLocus_tag::SetValue(), CEditingActionFeatMaploc::SetValue(), CEditingActionFeatSynonym::SetValue(), CEditingActionFeatAllele::SetValue(), CEditingActionFeatActivity::SetValue(), CEditingActionFeatEcNumber::SetValue(), CEditingActionFeatFunction::SetValue(), CEditingActionFeatProduct::SetValue(), CEditingActionFeatGeneLocus::SetValue(), CEditingActionFeatTranscriptId::SetValue(), sGetCdsProductName(), SourceToProduct(), SPFeatGeneral(), CTextSelHandler::STGH_GetSelectedFeatureSubtypes(), TestCds(), TestCdsFromLastBioseq(), TestCdsFromLastBioseqWithCodeBreak(), TestCdsWithCodeBreak(), CGeneOverlapProcess::TestFeatureGeneOverlap(), TestTrnaAnticodon(), TestTrnaAnticodonFromLastBioseq(), TestTwoIntCdsFromLastBioseqOutsideAlign(), CMacroFunction_SwapRelFeatQual::TheFunction(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ConvertRNARelQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_ParseRNARelQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_ParsedTextFrom::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_CopyRNARelQual::TheFunction(), CMacroFunction_RemoveOutside::TheFunction(), CMacroFunction_RmvOutsideRelFeatQual::TheFunction(), CMacroFunction_FixProteinFormat::TheFunction(), CMacroFunction_ApplyCDSFrame::TheFunction(), CMacroFunction_ConvertFeature::TheFunction(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), CCrossRefFeatsDlg::TransferDataToWindow(), CSeqTranslator::Translate(), Translate(), CCdregion_translate::TranslateCdregion(), TranslateCodingRegionForValidation(), CSeqTranslator::TranslateToProtein(), TrimSequenceAndAnnotation(), TrimStopsFromCompleteCDS(), TruncateCDSAtStop(), UpdateFeat(), UpdatemRNAProduct(), USING_SCOPE(), CSingleFeatValidator::Validate(), CCdregionValidator::Validate(), CProtValidator::Validate(), CRNAValidator::Validate(), CPubFeatValidator::Validate(), CSrcFeatValidator::Validate(), CImpFeatValidator::Validate(), CValidError_imp::Validate(), CValidError_bioseq::ValidateCollidingGenes(), CValidError_feat::ValidateOneFeatXrefPair(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_feat::ValidateSeqFeatContext(), CValidError_feat::ValidateSeqFeatXref(), CValidError_imp::ValidateSeqLoc(), CValidError_imp::ValidateSubSource(), CCleanup::WGSCleanup(), CFastaOstreamEx::WriteFeature(), CWrongIllegalQuals::WrongQualsToNote(), CFastaOstreamEx::x_AddDbxrefAttribute(), CLinkUtils::x_AddDbxrefFeatureLinks(), CFastaOstreamEx::x_AddGBkeyAttribute(), CFastaOstreamEx::x_AddGeneAttributes(), CGeneFeatFromOtherFeatDlg::x_AddGeneQuals(), CFastaOstreamEx::x_AddncRNAClassAttribute(), CFastaOstreamEx::x_AddProteinIdAttribute(), CFastaOstreamEx::x_AddProteinNameAttribute(), CFastaOstreamEx::x_AddPseudoGeneAttribute(), CFeatureItem::x_AddQualGeneXref(), CFeatureItem::x_AddQuals(), CFeatureItem::x_AddQualsGene(), CFastaOstreamEx::x_AddReadingFrameAttribute(), CFastaOstreamEx::x_AddRNAProductAttribute(), CFastaOstreamEx::x_AddTranscriptIdAttribute(), CFastaOstreamEx::x_AddTranslationExceptionAttribute(), CFeatGapInfo::x_AdjustAnticodons(), CReportTrim::x_AdjustCdregionFrame(), CFeatGapInfo::x_AdjustCodebreaks(), CSequenceUpdater::x_AdjustProteinFeature(), CSingleFeatValidator::x_AllowFeatureToMatchGapExactly(), CSequenceUpdater::x_AttachFeaturesToNewSeq(), CCleanupApp::x_BatchExtendCDS(), CNewCleanup_imp::x_BondEC(), CFeaturePropagator::x_CdsCleanupPartials(), CFeaturePropagator::x_CdsStopAtStopCodon(), CCDSTranslationProblems::x_CheckCDSFrame(), CProtValidator::x_CheckForEmpty(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CFeatureGenerator::SImplementation::x_CheckInconsistentDbxrefs(), CNewCleanup_imp::x_CleanEmptyFeature(), CFlatGatherer::x_CollectBioSourcesOnBioseq(), CValidError_bioseq::x_CompareStrings(), CEditObjectSeq_feat::x_ConvertCommentToMiscFeat(), CFeatureGenerator::SImplementation::x_CopyAdditionalFeatures(), CCorrectGenesDialog::x_CorrectOnePair(), CCDSTranslationProblems::x_CountNonsenseIntrons(), CCmdFeatIdXrefsFromQualifiers::x_CreateActionCmd(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CImportFeatTable::x_CreateCommand(), CSGFeatureJob::x_CreateFeatHist(), CGFFReader::x_CreateGeneFeatures(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CImportFeatTable::x_DoImportCDS(), CCdsGlyph::x_DrawProtSeqWithMapping(), CValidError_bioseq::x_DupFeatSeverity(), CFeaturePropagator::x_ExtendToStopCodon(), x_FeatIsCDS(), x_FeatIsVDJC(), CTSE_Info::x_FindSeq_feat(), CFeatureTableReader_Imp::x_FinishFeature(), CNewCleanup_imp::x_FixMiscRNA(), CValidErrorFormat::x_FormatBadInstCodeForSubmitterReport(), CValidErrorFormat::x_FormatBadSpecificHostForSubmitterReport(), CValidErrorFormat::x_FormatECNumberForSubmitterReport(), CSequenceUpdater::x_FuseFeatures(), CSequenceUpdater::x_FuseProtFeatsForCDS(), CCommentItem::x_GatherFeatInfo(), CSourceItem::x_GatherInfo(), CFastaOstreamEx::x_GetCodeBreak(), CCreateGeneModelTask::x_GetCommand(), CSeq_featHandler::x_GetCustomLabel(), CAutoDefFeatureClause::x_GetDescription(), x_GetDivisionProc(), CObjectIndex::x_GetFeatureCode(), CSingleFeatValidator::x_GetFeatureProduct(), CAutoDefFeatureClause::x_GetFeatureTypeWord(), CDeflineGenerator::x_GetGeneRefViaCDS(), CGuiObjectInfoSeq_feat::x_GetLocLengthRow(), CValidErrorFormat::x_GetLocusTag(), CDeflineGenerator::x_GetLongestProtein(), CFastaOstreamEx::x_GetOtherIdString(), CPromote::x_GetProductId(), CGuiObjectInfoSeq_feat::x_GetProductLengthRow(), CAutoDefFeatureClause::x_GetProductName(), CAutoDefGeneClause::x_GetProductName(), CAutoDefNcRNAClause::x_GetProductName(), CCompareSeqRegions::x_GetPutativeMatches(), CFastaOstreamEx::x_GetRNAIdString(), CSequenceUpdater::x_GetSeqAnnot_WithoutCDS(), x_GetSourceFeatViaCDS(), CAlignedFeatureGraph::x_GetTooltip(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CCreateGeneModelTask::x_GetUpdatedGeneCommand(), CCreateGeneModelTask::x_Group_By_GeneID(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CEditObjectSeq_feat::x_HandleCdsProduct(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt5End(), CSingleFeatValidator::x_HasSeqLocBond(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CGeneModelFeatJob::x_IsCCDS(), CGenericPropsPanel::x_IsCds(), CIntronValidator::x_IsIntronShort(), CGeneModelFeatJob::x_IsncRNA(), CGeneModelFeatJob::x_IsnpcGene(), CCdregionValidator::x_IsProductMisplaced(), CAutoDefGeneClause::x_IsPseudo(), x_IsPseudo(), CAlignedFeatureGraph::x_LinkedLayout(), CLDBlockJob::x_LoadFtable(), CPromote::x_MakeMolinfoDesc(), CSeq_annot_Info::x_MapFeatIds(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CNewCleanup_imp::x_ModernizeRNAFeat(), CGeneModelTrack::x_NeedHighlight(), CGFFReader::x_ParseFeatRecord(), CXcompareAnnotsApplication::x_ProcessComparison(), CPromote::x_PromoteCdregion(), CPromote::x_PromoteFeatures(), CFeaturePropagator::x_PropagatetRNA(), CSequenceUpdater::x_RemoveNewIDInFeature(), CAlignedFeatureGraph::x_RenderFeature(), CValidError_bioseq::x_ReportDupOverlapFeaturePair(), CValidError_bioseq::x_ReportGeneOverlapError(), CValidError_bioseq::x_ReportImproperPartial(), CValidError_bioseq::x_ReportInternalPartial(), CSingleFeatValidator::x_ReportOrigProteinId(), CValidError_bioseq::x_ReportOverlappingPeptidePair(), CSingleFeatValidator::x_ReportPseudogeneConflict(), CValidError_bioseq::x_ReportStartStopPartialProblem(), CCdregionValidator::x_ReportTranslationMismatches(), CProtValidator::x_ReportUninformativeNames(), CTextPanel::x_SaveViewType(), CDeflineGenerator::x_SetBioSrc(), CDeflineGenerator::x_SetBioSrcIdx(), CFeatureGenerator::SImplementation::x_SetComment(), CFeatureGenerator::SImplementation::x_SetCommentForGapFilledModel(), CFeatureGenerator::SImplementation::x_SetExceptText(), CReportEntry::x_SetFeature(), CDeflineGenerator::x_SetFlags(), CAnnotObject_Info::x_SetObject(), CMacroFunction_SwapRelFeatQual::x_SetOrCreateDestFeatFields(), CGFFReader::x_SetProducts(), CFeatModApply::x_SetProtein(), CReportEntry::x_SetRnaCds(), CBioseqContext::x_SetTaxname(), CDeflineGenerator::x_SetTitleFromProtein(), CEditObjectSeq_feat::x_SetTranslExcept(), variation_ref::CVariationUtil::x_SetVariantProperties(), CVariationNormalization_base< T >::x_Shift(), CSequenceUpdater::x_ShouldImportFeature(), CNewCleanup_imp::x_ShouldRemoveEmptyFeature(), CSplitDataLoader::x_SplitFeats(), CVectorTrimPanel::x_TrimSelected(), CSeq_annot_Info::x_UnmapFeatIds(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), CSeq_featHandler::x_UseCustomLabel(), CSingleFeatValidator::x_ValidateBothStrands(), CCdregionValidator::x_ValidateCDSPeptides(), CCdregionValidator::x_ValidateCodebreak(), CCdregionValidator::x_ValidateCommonProduct(), CProtValidator::x_ValidateECNumbers(), CCdregionValidator::x_ValidateExceptText(), CCdregionValidator::x_ValidateFarProducts(), CCdregionValidator::x_ValidateFeatComment(), CSingleFeatValidator::x_ValidateFeatPartialness(), CSingleFeatValidator::x_ValidateGbquals(), CCdregionValidator::x_ValidateGeneticCode(), CSingleFeatValidator::x_ValidateGeneXRef(), CSingleFeatValidator::x_ValidateImpFeatLoc(), CSingleFeatValidator::x_ValidateImpFeatQuals(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CMRNAValidator::x_ValidateMrna(), CMRNAValidator::x_ValidateMrnaGene(), CSingleFeatValidator::x_ValidateNonGene(), CSingleFeatValidator::x_ValidateNonImpFeat(), CSingleFeatValidator::x_ValidateOldLocusTag(), CCdregionValidator::x_ValidateParentPartialness(), CPeptideValidator::x_ValidatePeptideOnCodonBoundary(), CCdregionValidator::x_ValidateQuals(), CRNAValidator::x_ValidateRnaProductType(), CSingleFeatValidator::x_ValidateSeqFeatDataType(), CSingleFeatValidator::x_ValidateSeqFeatLoc(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaData(), CRNAValidator::x_ValidateTrnaOverlap(), CRNAValidator::x_ValidateTrnaType(), CFastaOstreamEx::x_WriteTranslatedCds(), CGtfAnnotAssembler::xFeatureSetQualifiers(), CGff3Reader::xFindFeatureUnderConstruction(), CFeatTableEdit::xGenerate_mRNA_Product(), CGff3Reader::xJoinLocationIntoRna(), CSoMap::xMapGeneric(), CSoMap::xMapNcRna(), CSoMap::xMapRna(), CGff3Reader::xPostProcessAnnot(), CGtfReader::xPostProcessAnnot(), CGff3AnnotAssembler::xProcessFeatureCds(), CGff3AnnotAssembler::xProcessFeatureDefault(), CFeatureTableReader::xTranslateProtein(), CGff3Reader::xUpdateAnnotExon(), CGff3Reader::xUpdateAnnotGeneric(), CGff3Writer::xWriteFeatureCds(), and CFastaOstreamEx::xWriteFeatureTitle().

GetData() [2/2]

const CSeqFeatXref_Base::TData & CSeqFeatXref_Base::GetData ( void  ) const

inline

Get the Data member data.

Returns

Reference to the member data.

Definition at line 235 of file SeqFeatXref_.hpp.

References CSeqFeatXref_Base::CanGetData(), CSeqFeatXref_Base::m_Data, and CSerialObject::ThrowUnassigned().

Referenced by CNewCleanup_imp::GeneFeatBC(), CGeneFinder::GetSuppressionCheckGeneRef(), CGeneFinder::ResolveGeneObjectId(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), CSeq_feat::SetGeneXref(), CSeq_feat::SetProtXref(), sGetCdsProductName(), sx_GeneIsSuppressed(), CValidError_feat::ValidateSeqFeatXref(), CDeflineGenerator::x_GetGeneRefViaCDS(), CFeatTree::x_LookupParentByRef(), CXcompareAnnotsApplication::x_ProcessComparison(), and CPromote::x_PromoteCdregion().

GetDbxref() [1/2]

const CModelEvidenceSupport_Base::TDbxref & CModelEvidenceSupport_Base::GetDbxref ( void  ) const

inline

Get the Dbxref member data.

Returns

Reference to the member data.

Definition at line 663 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Dbxref.

GetDbxref() [2/2]

const CSeq_feat_Base::TDbxref & CSeq_feat_Base::GetDbxref ( void  ) const

inline

Get the Dbxref member data.

Returns

Reference to the member data.

Definition at line 1333 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Dbxref.

Referenced by CRmvCddFeatDbxref::apply_to(), CGffRecord::AssignAttributesExtended(), Convert_Seq_feat_Seq_loc_dbxref_Loc(), CImpFeatValidator::CSingleFeatValidator(), DbxrefToSeqID(), GetBestGeneForMrna(), CSeq_feat_Handle::GetDbxref(), CDbXrefColumn::GetFromFeat(), GetMrnasForGene(), CSeq_feat::GetNamedDbxref(), CEditingActionFeatDbxref::Modify(), SSNP_Info::ParseSeq_feat(), s_Fingerprint_Seq_feat(), CCompareSeqRegions::s_GetGeneId(), s_GetImpLabel(), CSingleFeatValidator::Validate(), CMiscFeatValidator::Validate(), CImpFeatValidator::Validate(), CFastaOstreamEx::x_AddDbxrefAttribute(), CLinkUtils::x_AddDbxrefFeatureLinks(), CFeatureItem::x_AddQualGeneXref(), CFeatureItem::x_AddQualsGene(), CFeatureGenerator::SImplementation::x_CheckInconsistentDbxrefs(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), CValidError_bioseq::x_DupFeatSeverity(), CGeneModelFeatJob::x_IsDbref(), CDbxrefPanel::x_UpdateXrefs(), and CSingleFeatValidator::x_ValidateGeneId().

GetDescr()

const CImp_feat_Base::TDescr & CImp_feat_Base::GetDescr ( void  ) const

inline

Get the Descr member data.

Returns

Reference to the member data.

Definition at line 353 of file Imp_feat_.hpp.

References CImp_feat_Base::CanGetDescr(), CImp_feat_Base::m_Descr, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_featHandler::GetLabel(), CFindASN1Dlg::ReplaceInFeature(), and NSearchFeatPanel::s_GetFeatureLabel().

GetDois() [1/2]

const CExperimentSupport_Base::TDois & CExperimentSupport_Base::GetDois ( void  ) const

inline

Get the Dois member data.

Returns

Reference to the member data.

Definition at line 402 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_Dois.

GetDois() [2/2]

const CInferenceSupport_Base::TDois & CInferenceSupport_Base::GetDois ( void  ) const

inline

Get the Dois member data.

Returns

Reference to the member data.

Definition at line 682 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Dois.

GetEst()

const CModelEvidenceSupport_Base::TEst & CModelEvidenceSupport_Base::GetEst ( void  ) const

inline

Get the Est member data.

Returns

Reference to the member data.

Definition at line 592 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Est.

GetExcept()

CSeq_feat_Base::TExcept CSeq_feat_Base::GetExcept ( void  ) const

inline

Get the Except member data.

Returns

Copy of the member data.

Definition at line 1009 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetExcept(), CSeq_feat_Base::m_Except, and CSerialObject::ThrowUnassigned().

Referenced by CAdjustForConsensusSpliceSite::AdjustCDSEnds(), CCDSTranslationProblems::CalculateTranslationProblems(), check_end_internal(), CkEndStop(), CkProteinTransl(), CreateSeqLocMapperFromFeat(), ErrByteStorePtr(), CCleanup::FixRNAEditingCodingRegion(), GetBestMrnaForCds(), CSeq_feat_Handle::GetExcept(), CExceptionColumn::GetFromFeat(), GetMRNATranslationProblems(), CSeq_feat::GetTempExceptionTextSet(), HasBadStartCodon(), HasInternalStop(), variation::HasProblematicExceptions(), CAnnotMapping_Info::InitializeMappedSeq_feat(), InternalStopCodon(), CSeqUtils::IsException(), CEditingActionFeatException::IsSetValue(), CCdsForMrnaPlugin::processMainLoop(), CSeq_feat::RemoveExceptText(), s_CompareFtables(), s_NotPeptideException(), SetExceptFromGbqual(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_imp::ValidateSeqLoc(), CCdregionValidator::x_BypassCDSPartialTest(), CDeflineGenerator::x_CDShasLowQualityException(), CCorrectGenesDialog::x_CorrectOnePair(), CRNAValidator::x_ValidateAnticodon(), and CSingleFeatValidator::x_ValidateExcept().

GetExcept_text()

const CSeq_feat_Base::TExcept_text & CSeq_feat_Base::GetExcept_text ( void  ) const

inline

Get the Except_text member data.

Returns

Reference to the member data.

Definition at line 1405 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetExcept_text(), CSeq_feat_Base::m_Except_text, and CSerialObject::ThrowUnassigned().

Referenced by CExceptionPanel::AddCommand(), AddException(), AddExceptionsToShortIntron(), CExceptionColumn::AddToFeature(), CReportTrim::AdjustAndTranslate(), AdjustSingleFeature(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CSpliceProblems::CalculateSpliceProblems(), CCDSTranslationProblems::CalculateTranslationProblems(), CCdsMatchInfo::CCdsMatchInfo(), CGenericPropsPanel::CreateControls(), CreateSeqLocMapperFromFeat(), CCleanup::FixRNAEditingCodingRegion(), IEditingAction::GetActionCommand(), CConvertBadCdsAndRnaToMiscFeat::getBacterialPartialNonextendable(), GetBestMrnaForCds(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CFuseFeaturesDlg::GetCommand(), CTruncateCDS::GetCommand(), CEditCdsFrame::GetCommand(), CEditObjectSeq_feat::GetEditCommand(), CSeq_feat_Handle::GetExcept_text(), CExceptionColumn::GetFromFeat(), CFeatureGenePanel::GetLocationForGene(), GetMRNATranslationProblems(), CSeq_feat::GetTempExceptionTextSet(), CEditingActionFeatException::GetValue(), HasBadStartCodon(), HasInternalStop(), variation::HasProblematicExceptions(), CAnnotMapping_Info::InitializeMappedSeq_feat(), IsTransSpliced(), CWriteUtil::IsTransspliced(), LoadFeat(), CMrnaMatchInfo::Overlaps(), CCdsForMrnaPlugin::processMainLoop(), CSeq_feat::RemoveExceptText(), CFindASN1Dlg::ReplaceInFeature(), s_CompareFtables(), s_NotPeptideException(), s_SetUpXrefPairs(), s_TranslateCds(), SetExceptFromGbqual(), CIntronValidator::Validate(), CValidError_bioseq::ValidateBadGeneOverlap(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_imp::ValidateSeqLoc(), CFastaOstreamEx::x_AddExceptionAttribute(), CCleanup::x_AddLowQualityException(), CCdregionValidator::x_BypassCDSPartialTest(), CDeflineGenerator::x_CDShasLowQualityException(), CValidError_bioseq::x_CompareStrings(), CCorrectGenesDialog::x_CorrectOnePair(), x_LeuCUGstart(), CAnnotObject_Info::x_ProcessFeat(), CValidError_bioseq::x_ReportImproperPartial(), CValidError_bioseq::x_ReportInternalPartial(), CValidError_imp::x_ReportInvalidFuzz(), CCdregionValidator::x_ReportTranslationProblems(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CFeatureGenerator::SImplementation::x_SetExceptText(), CCDSTranslationPanel::x_SetProtein(), CRNAValidator::x_ValidateAnticodon(), CCdregionValidator::x_ValidateBadMRNAOverlap(), CSingleFeatValidator::x_ValidateExcept(), CCdregionValidator::x_ValidateGeneticCode(), CCdregionValidator::x_ValidateProductId(), CRNAValidator::x_ValidateRnaProduct(), CRNAValidator::x_ValidateTrnaCodons(), and CFeatureTableReader::xMoveCdRegions().

GetExon_count() [1/2]

CModelEvidenceItem_Base::TExon_count CModelEvidenceItem_Base::GetExon_count ( void  ) const

inline

Get the Exon_count member data.

Returns

Copy of the member data.

Definition at line 373 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::CanGetExon_count(), CModelEvidenceItem_Base::m_Exon_count, and CSerialObject::ThrowUnassigned().

GetExon_count() [2/2]

CModelEvidenceSupport_Base::TExon_count CModelEvidenceSupport_Base::GetExon_count ( void  ) const

inline

Get the Exon_count member data.

Returns

Copy of the member data.

Definition at line 695 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::CanGetExon_count(), CModelEvidenceSupport_Base::m_Exon_count, and CSerialObject::ThrowUnassigned().

GetExon_length() [1/2]

CModelEvidenceItem_Base::TExon_length CModelEvidenceItem_Base::GetExon_length ( void  ) const

inline

Get the Exon_length member data.

Returns

Copy of the member data.

Definition at line 420 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::CanGetExon_length(), CModelEvidenceItem_Base::m_Exon_length, and CSerialObject::ThrowUnassigned().

GetExon_length() [2/2]

CModelEvidenceSupport_Base::TExon_length CModelEvidenceSupport_Base::GetExon_length ( void  ) const

inline

Get the Exon_length member data.

Returns

Copy of the member data.

Definition at line 742 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::CanGetExon_length(), CModelEvidenceSupport_Base::m_Exon_length, and CSerialObject::ThrowUnassigned().

GetExp_ev()

CSeq_feat_Base::TExp_ev CSeq_feat_Base::GetExp_ev ( void  ) const

inline

Get the Exp_ev member data.

Returns

Copy of the member data.

Definition at line 1268 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetExp_ev(), CSeq_feat_Base::m_Exp_ev, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_feat_Handle::GetExp_ev(), CEvidenceColumn::GetFromFeat(), CEditingActionFeatEvidence::GetValue(), and CAnnotMapping_Info::InitializeMappedSeq_feat().

GetExperiment()

const CSeqFeatSupport_Base::TExperiment & CSeqFeatSupport_Base::GetExperiment ( void  ) const

inline

Get the Experiment member data.

Returns

Reference to the member data.

Definition at line 238 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_Experiment.

GetExplanation()

const CExperimentSupport_Base::TExplanation & CExperimentSupport_Base::GetExplanation ( void  ) const

inline

Get the Explanation member data.

Returns

Reference to the member data.

Definition at line 330 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::CanGetExplanation(), CExperimentSupport_Base::m_Explanation, and CSerialObject::ThrowUnassigned().

GetExt()

const CSeq_feat_Base::TExt & CSeq_feat_Base::GetExt ( void  ) const

inline

Get the Ext member data.

Returns

Reference to the member data.

Definition at line 1219 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetExt(), CSeq_feat_Base::m_Ext, and CSerialObject::ThrowUnassigned().

Referenced by AddGoTermToList(), CRmvCddFeatDbxref::apply_to(), variation::CVariationUtil::AsVariation(), CountGoTerms(), CSnpBitfieldFactory::CreateBitfield(), CSeq_feat::FindExt(), CSeq_feat_Handle::GetExt(), GetGoTermErrors(), NSnp::GetLength(), SSNP_Info::ParseSeq_feat(), CSeq_feat::RemoveExt(), s_GetBoxStyle(), s_GetMrnaProteinLink(), s_IdXrefsNotReciprocal(), s_IsGnomonModel(), s_Render_Feat_Evidence(), and CVcfReader::xProcessDataLine().

GetExts()

const CSeq_feat_Base::TExts & CSeq_feat_Base::GetExts ( void  ) const

inline

Get the Exts member data.

Returns

Reference to the member data.

Definition at line 1477 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Exts.

Referenced by variation::CVariationUtil::AsVariation(), CSeq_feat::FindExt(), CSeq_feat_Handle::GetExts(), GetModelEvidenceUserObject(), CWriteUtil::GetThreeFeatRgb(), CWriteUtil::GetThreeFeatScore(), CWriteUtil::GetThreeFeatType(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CVariationNormalization::isFullyShifted(), CVariationNormalization_base< T >::ResetFullyShifted(), RestoreModelAttributes(), RestoreModelMethod(), s_GetSpliceSite(), s_GetSupportTotal(), s_GetWeight(), s_IsSetWeight(), and s_Render_Feat_Evidence().

GetFrame()

CCdregion_Base::TFrame CCdregion_Base::GetFrame ( void  ) const

inline

Get the Frame member data.

Returns

Copy of the member data.

Definition at line 534 of file Cdregion_.hpp.

References CCdregion_Base::m_Frame.

Referenced by AdjustCDSFrameForStartChange(), CEditSeqEndsWithAlign::AdjustFrame(), AdjustFrameFor5Extension(), CGffRecord::AssignPhase(), BOOST_AUTO_TEST_CASE(), Check5Extend(), check_end_internal(), CheckAdjustStart(), CheckAdjustStop(), CkEndStop(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), EndAdded(), CEditSequenceEnds::Extend3(), CEditSequenceEnds::Extend5(), ExtendCDSToStopCodon(), ExtendToGapsOrEnds(), ExtendToStopCodon(), CSeqTranslator::FindBestFrame(), CScore_StartStopCodon::Get(), CCreateFeat::GetCdregionOrder(), CCleanup::GetCodeBreakForLocation(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CRetranslateCDS::GetCommand(), CEditCdsFrame::GetCommand(), CEditSequence::GetFeatures(), CCodonStartColumn::GetFromFeat(), GetLastPartialCodonLength(), CSeqUtils::GetMappingInfo(), CEditingActionFeatCodonStart::GetValue(), InternalStopCodon(), CLocationEditPolicy::Interpret5Policy(), IsLocationInFrame(), ProductToSource(), RestoreModelReadingFrame(), s_AreFullLengthCodingRegionsWithDifferentFrames(), s_FixIntervalProtToCds(), s_GetCdregionLabel(), s_GetCdregionOrder(), s_GetConcatenatedExon(), s_MapSlaveFeatureToMaster(), s_PrematureStopCodon(), ApplyCDSFrame::s_SetCDSFrame(), CMacroFunction_ApplyCDSFrame::s_SetCDSFrame(), CCleanup::SetBestFrame(), CCDSProductPanel::SetCdregionFields(), CReportEntry::SetCds(), CCleanup::SetCDSPartialsByFrameAndTranslation(), CCleanup::SetCodeBreakLocation(), CCleanup::SetFrameFromLoc(), CCDSTranslationPanel::SetProduct(), SourceToProduct(), CCDSTranslationPanel::TransferDataToWindow(), CSeqTranslator::Translate(), TranslateCodingRegionForValidation(), CSeqTranslator::TranslateToProtein(), TruncateCDSAtStop(), CValidError_bioseq::ValidateRawConst(), CFastaOstreamEx::WriteFeature(), CFeatureItem::x_AddFTableCdregionQuals(), CFeatureItem::x_AddQualCodonStart(), CFeatureItem::x_AddQualCodonStartIdx(), CFastaOstreamEx::x_AddReadingFrameAttribute(), CReportTrim::x_AdjustCdregionFrame(), CFeaturePropagator::x_CdsStopAtStopCodon(), CCDSTranslationProblems::x_CheckCDSFrame(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CSGFeatureJob::x_CreateFeature1(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CCdsGlyph::x_DrawProtSeqWithMapping(), CFeaturePropagator::x_ExtendToStopCodon(), CFastaOstreamEx::x_GetCodeBreak(), CFeatTrim::x_GetFrame(), CFeatTrim::x_GetNewFrame(), CGuiObjectInfoSeq_feat::x_GetProtOffset(), CFeatGlyph::x_GetProtOffset(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt5End(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CReportEntry::x_SetRnaCds(), CCdregionValidator::x_ValidateQuals(), CFastaOstreamEx::x_WriteTranslatedCds(), and CGff3Writer::xWriteFeatureCds().

GetFull_length() [1/2]

CModelEvidenceItem_Base::TFull_length CModelEvidenceItem_Base::GetFull_length ( void  ) const

inline

Get the Full_length member data.

Returns

Copy of the member data.

Definition at line 473 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Full_length.

GetFull_length() [2/2]

CModelEvidenceSupport_Base::TFull_length CModelEvidenceSupport_Base::GetFull_length ( void  ) const

inline

Get the Full_length member data.

Returns

Copy of the member data.

Definition at line 795 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Full_length.

GetGaps()

CCdregion_Base::TGaps CCdregion_Base::GetGaps ( void  ) const

inline

Get the Gaps member data.

Returns

Copy of the member data.

Definition at line 625 of file Cdregion_.hpp.

References CCdregion_Base::CanGetGaps(), CCdregion_Base::m_Gaps, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_loc_Conversion::ConvertCdregion(), and CSeq_loc_Conversion_Set::ConvertCdregion().

GetGene()

const CSeqFeatData_Base::TGene & CSeqFeatData_Base::GetGene

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 266 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Gene, and CSeqFeatData_Base::m_object.

Referenced by CLinkUtils::AddDbxrefLinksForSNP(), CAutoDefFeatureClause::AddGene(), CDescriptionColumn::AddToFeature(), CGeneRefColumn::AddToFeature(), CFeatTableEdit::AnnotHasAllLocusTags(), CClearNomenclature::apply(), CCreateProteinId::apply(), CCreateLocusTagGene::apply(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CAutoDefGeneClause::CAutoDefGeneClause(), CConvertMiscFeatToGene::Convert(), CExploreProcess::DoOneBioseq(), GeneXrefConflicts(), CGeneFinder::GetAssociatedGeneInfo(), GetBestGeneForCds(), GetBestGeneForMrna(), CEditSequenceEnds::GetCommand(), CGeneXrefsFromFeats::GetCommand(), CBulkGene::GetCommandFromValuesTable(), CValidator::CCacheImpl::GetFeatStrKeyToFeats(), CDescriptionColumn::GetFromFeat(), CGeneRefColumn::GetFromFeat(), CScoreLookup::GetGeneId(), GetIsLength(), CGuiObjectInfoVariation::GetLinks(), GetLocusTagForFeature(), NMacroUtil::GetLocusTagFromProtRef(), GetMrnasForGene(), CCdsFromGeneMrnaExon::GetNameFromGene(), CmRNAFromGeneCdsExon::GetNameFromGene(), CtRNAFromGene::GetNameFromGene(), CGeneFinder::GetSuppressionCheckGeneRef(), GetTargetedLocusName(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CEditingActionFeatDesc::GetValue(), CEditingActionFeatLocus_tag::GetValue(), CEditingActionFeatMaploc::GetValue(), CEditingActionFeatAllele::GetValue(), CEditingActionFeatGeneLocus::GetValue(), CBulkGene::GetValuesTableFromSeqEntry(), IsGeneInXref(), CCleanup::IsGeneXrefUnnecessary(), CDiscrepancyContext::IsPseudo(), CGeneCache::IsPseudo(), IsPseudo(), CEditingActionFeatDesc::IsSetValue(), CEditingActionFeatLocus_tag::IsSetValue(), CEditingActionFeatMaploc::IsSetValue(), CEditingActionFeatAllele::IsSetValue(), CEditingActionFeatGeneLocus::IsSetValue(), CFeatComparatorByLabel::Less(), CCleanup::NormalizeGeneQuals(), CAnnotObjectType_Less::operator()(), operator<<(), CReadBlastApp::overlaps_na(), CReadBlastApp::overlaps_prot_na(), CValidError_imp::PostErr(), CTabularFormatter_GeneSymbol::Print(), CGeneFinder::CGeneSearchPlugin::processMainLoop(), CFindASN1Dlg::ReplaceInFeature(), CGeneFinder::ResolveGeneObjectId(), s_CheckQuals_cdregion(), s_CheckQuals_gene(), s_CompareFtables(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), s_GetContentLabel(), NSearchFeatPanel::s_GetFeatureLabel(), variation::CVariationUtil::CVariantPropertiesIndex::s_GetGeneID(), CCompareSeqRegions::s_GetGeneId(), s_GetGeneTextLabel(), s_GetProteinName(), CSingleFeatValidator::s_IsPseudo(), s_TitleFromSegment(), CReportEntry::SetGene(), sGetClosestGeneRef(), CGeneOverlapProcess::TestFeatureGeneOverlap(), CGeneFeatTreeProcess::TestFeatureGeneTree(), CValidError_bioseq::ValidateCollidingGenes(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateSeqFeatContext(), CFastaOstreamEx::x_AddGeneAttributes(), CFeatureItem::x_AddQualGeneXref(), CFeatureItem::x_AddQuals(), CFeatureItem::x_AddQualsGene(), CFeatureItem::x_AddQualsIdx(), CNewCleanup_imp::x_CleanEmptyFeature(), CValidError_bioseq::x_CompareStrings(), CFeatureGenerator::SImplementation::x_ConstructRnaName(), CImportFeatTable::x_CreateCommand(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CValidErrorFormat::x_FormatECNumberForSubmitterReport(), CSequenceUpdater::x_FuseFeatures(), CDeflineGenerator::x_GetGeneRefViaCDS(), CValidErrorFormat::x_GetLocusTag(), CAutoDefGeneClause::x_GetProductName(), CCreateGeneModelTask::x_GetUpdatedGeneCommand(), CAutoDefGeneClause::x_IsPseudo(), x_IsPseudo(), CSeq_annot_Info::x_MapFeatIds(), CFeatureSearchJob::x_SearchFeatures(), CDeflineGenerator::x_SetTitleFromProteinIdx(), CNewCleanup_imp::x_ShouldRemoveEmptyFeature(), CSeq_annot_Info::x_UnmapFeatIds(), CCdregionValidator::x_ValidateCDSPeptides(), CSingleFeatValidator::x_ValidateGeneXRef(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CMRNAValidator::x_ValidateMrnaGene(), CSingleFeatValidator::x_ValidateOldLocusTag(), CCdregionValidator::x_ValidateParentPartialness(), CRNAValidator::x_ValidateTrnaType(), CGtfWriter::xAssignFeatureAttributeGeneId(), CGff2Writer::xAssignFeatureAttributeMapLoc(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatTableEdit::xGenerateLocusIdsUseExisting(), CFeatTableEdit::xGetCurrentLocusTagPrefix(), CFeatTableEdit::xNextProteinId(), CFeatTableEdit::xNextTranscriptId(), and CFeatureTableReader::xTranslateProtein().

GetGeneral()

const CFeat_id_Base::TGeneral & CFeat_id_Base::GetGeneral

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 156 of file Feat_id_.cpp.

References CFeat_id_Base::CheckSelected(), CFeat_id_Base::e_General, and CFeat_id_Base::m_object.

Referenced by CValidErrorFormat::GetFeatureIdLabel(), SChildLess::operator()(), s_Fingerprint_Feat_id(), and CFeatGlyph::x_GetFeatureId().

GetGibb()

CFeat_id_Base::TGibb CFeat_id_Base::GetGibb ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 326 of file Feat_id_.hpp.

References CFeat_id_Base::CheckSelected(), CFeat_id_Base::e_Gibb, and CFeat_id_Base::m_Gibb.

Referenced by SChildLess::operator()(), s_Fingerprint_Feat_id(), and CFeatGlyph::x_GetFeatureId().

GetGiim()

const CFeat_id_Base::TGiim & CFeat_id_Base::GetGiim

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 112 of file Feat_id_.cpp.

References CFeat_id_Base::CheckSelected(), CFeat_id_Base::e_Giim, and CFeat_id_Base::m_object.

Referenced by SChildLess::operator()(), s_Fingerprint_Feat_id(), and CFeatGlyph::x_GetFeatureId().

GetHet()

const CSeqFeatData_Base::THet & CSeqFeatData_Base::GetHet ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 1097 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Het, and CSeqFeatData_Base::m_Het.

Referenced by s_GetContentLabel().

GetId() [1/4]

CGenetic_code_Base::C_E::TId CGenetic_code_Base::C_E::GetId ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 524 of file Genetic_code_.hpp.

Referenced by CpGeneticCodePtr(), and InternalStopCodon().

GetId() [2/4]

const CModelEvidenceItem_Base::TId & CModelEvidenceItem_Base::GetId ( void  ) const

inline

Get the Id member data.

Returns

Reference to the member data.

Definition at line 336 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Id, and CModelEvidenceItem_Base::ResetId().

GetId() [3/4]

const CSeq_feat_Base::TId & CSeq_feat_Base::GetId ( void  ) const

inline

Get the Id member data.

Returns

Reference to the member data.

Definition at line 904 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetId(), CSeq_feat_Base::m_Id, and CSerialObject::ThrowUnassigned().

Referenced by CThreeFeatRecord::AddFeature(), CFeatureGenePanel::AddReciprocicalXref(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustSingleFeature(), CGffRecord::AssignAttributesCore(), BOOST_AUTO_TEST_CASE(), CSeq_annot_Info::ClearFeatIds(), CmRNACDSLinker::CompleteHalfFormedXrefPairs(), CreateReciprocalLinks(), FixFeatureIdsForUpdates(), CValidErrorFormat::GetFeatureIdLabel(), CSeq_feat_Handle::GetId(), IsGeneInXref(), CFeatComparatorByLabel::Less(), CmRNACDSLinker::LinkSelectedFeatures(), SFeats_OpLess::operator()(), CBedAnnotAssembler::ProcessRecord(), CFeaturePropagator::Propagate(), RemapOtherProtFeats(), CSeq_annot_Info::RemoveFeatId(), CCleanup::RepairXrefs(), CmRNACDSLinker::ReplaceExistingXrefs(), CCreateGeneModelTask::s_AssignFeatureIds(), s_CreateXRefLink(), CmRNACDSLinker::s_CreateXRefLink(), CCreateGeneModelTask::s_FeaturesHaveIDs(), s_Fingerprint_Seq_feat(), s_HasId(), s_IdXrefsAreReciprocal(), s_IdXrefsNotReciprocal(), s_IsDirectXrefBetween(), CmRNACDSLinker::s_IsDirectXrefBetween(), s_IsRelated(), CFixFeatureId::s_ReassignFeatureIds(), CFixFeatureId::s_UpdateFeatureIds(), CValidError_imp::Validate(), CValidError_feat::ValidateOneFeatXrefPair(), CCreateGeneModelTask::x_AssignIDsAndUpdateGenes(), CFeatGlyph::x_GetFeatureId(), CValidError_bioseq::x_IdXrefsNotReciprocal(), CIdentifiersPanel::x_IsReciprocalXref(), CSeq_annot_Info::x_MapFeatIds(), CXcompareAnnotsApplication::x_ProcessComparison(), CmRNACDSLinker::x_ReplaceExistingFeatIdXrefs(), CSeq_annot_Info::x_UnmapFeatIds(), CIdentifiersPanel::x_UpdateXrefDescriptions(), CGff3Reader::xFeatureSetXrefGrandParent(), CGff3Reader::xFeatureSetXrefParent(), CThreeFeatManager::xFindExistingRecord(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatTableEdit::xGenerateMissingMrnaForCds(), CGff2Reader::xSetXrefFromTo(), and CFeatureTableReader::xTranslateProtein().

GetId() [4/4]

const CSeqFeatXref_Base::TId & CSeqFeatXref_Base::GetId ( void  ) const

inline

Get the Id member data.

Returns

Reference to the member data.

Definition at line 214 of file SeqFeatXref_.hpp.

References CSeqFeatXref_Base::CanGetId(), CSeqFeatXref_Base::m_Id, and CSerialObject::ThrowUnassigned().

Referenced by BOOST_AUTO_TEST_CASE(), CSeq_annot_Info::ClearFeatIds(), CSeq_annot_Info::RemoveFeatId(), CGeneFinder::ResolveGeneObjectId(), sFeatureHasXref(), CValidError_feat::ValidateSeqFeatXref(), CFeatTree::x_LookupParentByRef(), CSeq_annot_Info::x_MapFeatIds(), CXcompareAnnotsApplication::x_ProcessComparison(), and CSeq_annot_Info::x_UnmapFeatIds().

GetIdentification()

const CModelEvidenceSupport_Base::TIdentification & CModelEvidenceSupport_Base::GetIdentification ( void  ) const

inline

Get the Identification member data.

Returns

Reference to the member data.

Definition at line 642 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::CanGetIdentification(), CModelEvidenceSupport_Base::m_Identification, and CSerialObject::ThrowUnassigned().

GetIds()

const CSeq_feat_Base::TIds & CSeq_feat_Base::GetIds ( void  ) const

inline

Get the Ids member data.

Returns

Reference to the member data.

Definition at line 1452 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Ids.

Referenced by CAnnotationASN1::ExtractModels(), CValidErrorFormat::GetFeatureIdLabel(), CSeq_feat_Handle::GetIds(), CAnnotMapping_Info::InitializeMappedSeq_feat(), RestoreModelFromInternalGnomonFeature(), s_Fingerprint_Seq_feat(), CFeatGlyph::x_GetFeatureId(), CSeq_annot_Info::x_MapFeatIds(), and CSeq_annot_Info::x_UnmapFeatIds().

GetImp()

const CSeqFeatData_Base::TImp & CSeqFeatData_Base::GetImp

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 420 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Imp, and CSeqFeatData_Base::m_object.

Referenced by CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), BOOST_AUTO_TEST_CASE(), CkCdRegion(), CSeq_feat::CompareNonLocation(), CImportFeaturePanel::CreateControls(), CEditObjectSeq_feat::CreateWindowImpl(), fta_rnas_cds_feat(), GetFeatNameAndLoc(), CValidErrorFormat::GetFeatureContentLabel(), CCreateFeat::GetImpKey(), CFeatureItem::GetKey(), CSeq_featHandler::GetLabel(), GetRnaRef(), CmRNAFromGeneCdsExon::GetSuggestedName(), CCdsFromGeneMrnaExon::GetSuggestedName(), IfCDSGeneFeat(), IsSiteRef(), LoadFeat(), CCleanup::MoveFeatToProtein(), CImportFeaturePanel::PopulateImpFeat(), CFindASN1Dlg::ReplaceInFeature(), s_FindKeyFromFeatDefType(), NSearchFeatPanel::s_GetFeatureLabel(), s_IsPreprotein(), s_LocIsFuzz(), CImpFeatValidator::Validate(), CValidError_bioseq::ValidateSeqFeatContext(), CNewCleanup_imp::x_BondEC(), CSeqFeatData::x_InitFeatDataInfo(), CSingleFeatValidator::x_ValidateGbquals(), CSingleFeatValidator::x_ValidateImpFeatLoc(), CSingleFeatValidator::x_ValidateImpFeatQuals(), CPeptideValidator::x_ValidatePeptideOnCodonBoundary(), and CSingleFeatValidator::x_ValidateSeqFeatLoc().

GetInference()

const CSeqFeatSupport_Base::TInference & CSeqFeatSupport_Base::GetInference ( void  ) const

inline

Get the Inference member data.

Returns

Reference to the member data.

Definition at line 263 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_Inference.

GetKey()

const CImp_feat_Base::TKey & CImp_feat_Base::GetKey ( void  ) const

inline

Get the Key member data.

Returns

Reference to the member data.

Definition at line 259 of file Imp_feat_.hpp.

References CImp_feat_Base::CanGetKey(), CImp_feat_Base::m_Key, and CSerialObject::ThrowUnassigned().

Referenced by CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), BOOST_AUTO_TEST_CASE(), CSeq_feat::CompareNonLocation(), CImportFeaturePanel::CreateControls(), CEditObjectSeq_feat::CreateWindowImpl(), FixAnnot(), fta_perform_operon_checks(), fta_rnas_cds_feat(), GetFeatNameAndLoc(), CValidErrorFormat::GetFeatureContentLabel(), CCreateFeat::GetImpKey(), CFeatureItem::GetKey(), GetRnaRef(), CmRNAFromGeneCdsExon::GetSuggestedName(), CCdsFromGeneMrnaExon::GetSuggestedName(), IfCDSGeneFeat(), IsSiteRef(), LoadFeat(), CCleanup::MoveFeatToProtein(), no_reference(), SSNP_Info::ParseSeq_feat(), CImportFeaturePanel::PopulateImpFeat(), s_IsPreprotein(), SrchCdRegion(), StripSerialNumbers(), CImpFeatValidator::Validate(), CValidError_bioseq::ValidateSeqFeatContext(), CSeqFeatData::x_InitFeatDataInfo(), CSingleFeatValidator::x_ValidateGbquals(), CSingleFeatValidator::x_ValidateImpFeatLoc(), CSingleFeatValidator::x_ValidateImpFeatQuals(), CPeptideValidator::x_ValidatePeptideOnCodonBoundary(), and CSingleFeatValidator::x_ValidateSeqFeatLoc().

GetLibrary()

const CClone_ref_Base::TLibrary & CClone_ref_Base::GetLibrary ( void  ) const

inline

Get the Library member data.

Returns

Reference to the member data.

Definition at line 452 of file Clone_ref_.hpp.

References CClone_ref_Base::CanGetLibrary(), CClone_ref_Base::m_Library, and CSerialObject::ThrowUnassigned().

GetLoc() [1/2]

const CCode_break_Base::TLoc & CCode_break_Base::GetLoc ( void  ) const

inline

Get the Loc member data.

Returns

Reference to the member data.

Definition at line 508 of file Code_break_.hpp.

References CCode_break_Base::m_Loc, and CCode_break_Base::ResetLoc().

Referenced by CFeatTrim::Apply(), BOOST_AUTO_TEST_CASE(), CodeBreakPosInCds(), GetCdRegionCB(), CWriteUtil::GetCodeBreak(), CEditingActionFeatTranslExcept::GetValue(), SOutsideRange::operator()(), CTestSingleAln_All::RunTest(), s_IsEmpty(), CSeqTranslator::Translate(), CSeqTranslator::TranslateToProtein(), CPromote::x_CopyCdregionToRNA(), CFastaOstreamEx::x_GetCodeBreak(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatTrim::x_TrimCodeBreak(), and CCdregionValidator::x_ValidateCodebreak().

GetLoc() [2/2]

const CImp_feat_Base::TLoc & CImp_feat_Base::GetLoc ( void  ) const

inline

Get the Loc member data.

Returns

Reference to the member data.

Definition at line 306 of file Imp_feat_.hpp.

References CImp_feat_Base::CanGetLoc(), CImp_feat_Base::m_Loc, and CSerialObject::ThrowUnassigned().

Referenced by CNewCleanup_imp::ImpFeatBC(), CFindASN1Dlg::ReplaceInFeature(), s_LocIsFuzz(), and CSingleFeatValidator::x_ValidateImpFeatLoc().

GetLocal()

const CFeat_id_Base::TLocal & CFeat_id_Base::GetLocal

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 134 of file Feat_id_.cpp.

References CFeat_id_Base::CheckSelected(), CFeat_id_Base::e_Local, and CFeat_id_Base::m_object.

Referenced by CThreeFeatRecord::AddFeature(), AddToFeatureIdColumn(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustSingleFeature(), BOOST_AUTO_TEST_CASE(), CSeq_annot_Info::ClearFeatIds(), FindHighestFeatureId(), FixFeatureIdsForUpdates(), CValidErrorFormat::GetFeatureIdLabel(), CFeatComparatorByLabel::Less(), SFeats_OpLess::operator()(), SChildLess::operator()(), CFeaturePropagator::Propagate(), CFeaturePropagator::PropagateFeatureList(), RemapOtherProtFeats(), CSeq_annot_Info::RemoveFeatId(), CGeneFinder::ResolveGeneObjectId(), s_FeatureIdsMatch(), s_FindHighestFeatId(), CCreateGeneModelTask::s_FindHighestFeatId(), CFixFeatureId::s_FindHighestFeatureId(), s_Fingerprint_Feat_id(), s_HasId(), s_IsRelated(), CFixFeatureId::s_ReassignFeatureIds(), s_SetFeatureId(), s_UpdateFeatureId(), CFixFeatureId::s_UpdateFeatureIds(), CIdentifiersPanel::SetIdXrefs(), sFeatureHasXref(), CValidError_imp::Validate(), CValidError_feat::ValidateSeqFeatXref(), CFeatGlyph::x_GetFeatureId(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CXcompareAnnotsApplication::x_ProcessComparison(), CCleanupHugeAsnReader::x_RecordFeatureId(), CmRNACDSLinker::x_ReplaceExistingFeatIdXrefs(), CThreeFeatManager::xFindExistingRecord(), and CFeatTableEdit::xGenerateTranscriptOrProteinId().

GetLocation() [1/2]

const CClone_seq_Base::TLocation & CClone_seq_Base::GetLocation ( void  ) const

inline

Get the Location member data.

Returns

Reference to the member data.

Definition at line 504 of file Clone_seq_.hpp.

References CClone_seq_Base::m_Location, and CClone_seq_Base::ResetLocation().

Referenced by CClonePlacementGlyph::x_GetCloneEnds().

GetLocation() [2/2]

const CSeq_feat_Base::TLocation & CSeq_feat_Base::GetLocation ( void  ) const

inline

Get the Location member data.

Returns

Reference to the member data.

Definition at line 1117 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Location, and CSeq_feat_Base::ResetLocation().

Referenced by CSeqsRange::Add(), AddCodeBreak(), CRevIntPanel::AddCommand(), CLinkUtils::AddDbxrefLinksForSNP(), AddExceptionsToShortIntron(), CBestFeatFinder::AddFeat(), AddFeat(), CExonFromCds::AddIntron(), CBulkCDSAddPanel::AddOneCommand(), CCleanup::AddProtein(), CFeatureGenePanel::AddReciprocicalXref(), CImportFeatTable::AddSeqAnnotToSeqEntry(), CPartialStartColumn::AddToFeature(), CPartialStopColumn::AddToFeature(), AdjustCdregionFrame(), CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustFeatureEnd3(), AdjustFeatureEnd5(), AdjustFeaturePartialFlagForLocation(), CFeatGapInfo::AdjustForRelevantGapIntervals(), AdjustGene(), CAdjustForConsensusSpliceSite::AdjustmRNAToMatchCDS(), CAdjustForConsensusSpliceSite::AdjustmRNAToMatchCDSEnds(), AdjustProteinFeaturePartialsToMatchCDS(), AdjustProteinMolInfoToMatchCDS(), CFeatGapInfo::AdjustProteinSeq(), AdjustSingleFeature(), CFeatTrim::Apply(), CRecomputeIntervals::apply(), CAdjustFeatsForIntrons::apply(), CConvertRptUnitRangeToLoc::apply(), CGroupExplode::apply(), CExplodeRNAFeats::apply(), CConvertBadCdsAndRnaToMiscFeat::apply(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), ApplyFeatureSeqTableToSeqEntry(), ApplyPolicyToFeature(), CLocationEditPolicy::ApplyPolicyToFeature(), CRemoveFeaturesDlg::ApplyToCSeq_entry(), variation_ref::CHgvsParser::AsHgvsExpression(), CCdsMatchInfo::AssignOverlapMatch(), CGffRecord::AssignSeqId(), CGffRecord::AssignStart(), CGffRecord::AssignStop(), CGffRecord::AssignStrand(), variation::CVariationUtil::AsVariation(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CSpliceProblems::CalculateSpliceProblems(), CCDSTranslationProblems::CalculateTranslationProblems(), CNewCleanup_imp::CdRegionEC(), CNewCleanup_imp::CdregionFeatBC(), CdsTrnaOverlapStr(), ChangeNucProtSetNucId(), Check3Extend(), Check5Extend(), check_end_internal(), check_short_CDS(), variation_ref::CVariationUtil::CheckExonBoundary(), CheckPropagatedCDSLocation(), CheckTerminalExceptionResults(), CkCdRegion(), CkEndStop(), CkProteinTransl(), CPartialStartColumn::ClearInFeature(), CPartialStopColumn::ClearInFeature(), CMatchFeat::CMatchFeat(), CodeBreakPosInCds(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CSeq_feat::Compare(), CAnnotCompare::CompareFeats(), CFeaturePropagator::ConstructProteinFeatureForPropagatedCodingRegion(), CSeq_loc_Conversion_Set::Convert(), CSeq_loc_Conversion::Convert(), CConvertProtToImp::Convert(), CConvertCDSToPseudoGene::Convert(), Convert_Seq_feat_Seq_loc_Gen_Loc(), Convert_Seq_feat_Seq_loc_Gen_Loc_TotalRange(), CVariationNormalizationDelIns::ConvertExpandedDeletionToDelIns(), CVariationNormalizationDelIns::ConvertExpandedInsertionToDelIns(), NSNPVariationHelper::ConvertFeat(), CCdsToMatPeptide::ConvertInner(), CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CopyFeaturePartials(), CPeptideValidator::CPeptideValidator(), CFeatureGenePanel::CreateControls(), CGenericPropsPanel::CreateControls(), CFeatureGenerator::CreateMicroIntrons(), CGuiObjectInfoSeq_feat::CreateObject(), CreateSeqLocMapperFromFeat(), variation::CreateSplicedSeqAlignFromFeat(), CEditObjectSeq_feat::CreateWindowImpl(), CReferenceItem::CReferenceItem(), CSequenceTrack::CSequenceTrack(), CWGSDb_Impl::DetermineFeatLocIdType(), Does3primerAbutGap(), Does5primerAbutGap(), CValidError_feat::DoesCDSHaveShortIntrons(), DoesFeatureHaveUnnecessaryException(), CExploreProcess::DoOneBioseq(), EndAdded(), ErrByteStorePtr(), CCleanup::ExpandGeneToIncludeChildren(), CLocationEditPolicy::Extend3(), CEditSequenceEnds::Extend3(), CLocationEditPolicy::Extend5(), CEditSequenceEnds::Extend5(), ExtendCDSToStopCodon(), CCleanup::ExtendStopPosition(), ExtendToGapsOrEnds(), ExtendToStopCodon(), CCleanup::ExtendToStopIfShortAndNotPartial(), FeatureHasEnds(), CEditingActionFeatGeneLocusPlain::Find(), CEditingActionFeatGeneLocusRna::Find(), CEditingActionFeatGeneLocusCdsGeneProt::Find(), CSeqTranslator::FindBestFrame(), IEditingActionFeat::FindOrCreateProtFeat(), IEditingActionFeat::FindRelated(), CEditingActionFeatGeneLocus::FindRelated(), IEditingActionFeat::FindRelatedOrCreateProtFeat(), FixMixLoc(), CCleanup::FixRNAEditingCodingRegion(), fta_check_artificial_location(), fta_check_codon_quals(), fta_check_exception(), fta_check_mobile_element(), fta_check_ncrna(), g_ValidateVariationSeqfeat(), CScore_CdsInternalStops::Get(), CDiscrepancyPanel::GetAccessionForObject(), NSnp::GetAlleles(), CGnomonEngine::GetAnnot(), CCodonStartColumn::GetApplyObjects(), CFieldHandler::GetApplyObjectsFromRelatedObjects(), CGeneFinder::GetAssociatedGeneInfo(), CConvertBadCdsAndRnaToMiscFeat::getBacterialPartialNonextendable(), GetBestCdsForMrna(), CMacroBioData_FeatIterBase::GetBestDescr(), CMacroBioData_FeatIntervalIter::GetBestDescr(), GetBestGeneForCds(), GetBestGeneForMrna(), GetBestMrnaForCds(), GetBestOverlappingFeat(), GetCdRegionCB(), CSeqUtils::GetCdsMappingInfoFromRna(), CConvertBadCdsAndRnaToMiscFeat::getCdsOverlap(), GetCdssForGene(), CCleanup::GetCodeBreakForLocation(), CCdsFromGeneMrnaExon::GetCommand(), CExonFromCds::GetCommand(), CExtendCDSToStop::GetCommand(), CGeneFeatFromOtherFeatDlg::GetCommand(), CmRNAFromGeneCdsExon::GetCommand(), CRmDupFeaturesDlg::GetCommand(), CResolveIntersectingFeats::GetCommand(), CtRNAFromGene::GetCommand(), CTruncateCDS::GetCommand(), CBulkGene::GetCommandFromValuesTable(), CBulkMiscFeat::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), CEditObjectSeq_feat::GetEditCommand(), GetEditLocationCommand(), CSeqUtils::GetFeatLocation(), GetFeatNameAndLoc(), CGeneCache::GetFeatTreeFromCache(), CValidErrorFormat::GetFeatureBioseqLabel(), CValidErrorFormat::GetFeatureLocationLabel(), CPartialStartColumn::GetFromFeat(), CPartialStopColumn::GetFromFeat(), GetGeneForFeature(), GetInternalStopErrorMessage(), CSeq_featHandler::GetLabel(), GetLastCodonLoc(), GetLastPartialCodonLength(), NSnp::GetLength(), CCreateFeat::GetLoc(), CMappedFeat::GetLocation(), CSeq_feat_Handle::GetLocation(), CFeatureGenePanel::GetLocationForGene(), CAnnotMapping_Info::GetLocationId(), NMacroUtil::GetLocusTagFromProtRef(), CAnnotMapping_Info::GetMappedSeq_loc(), GetmRNAforCDS(), GetMrnasForGene(), GetMRNATranslationProblems(), CFeatureGenePanel::GetNewGene(), CCDSTranslationProblems::GetNonsenseIntrons(), GetNucleotideParent(), GetOverlappingFeatures(), GetOverlappingGene(), CCleanup::GetProteinLocationFromNucleotideLocation(), GetProteinWeight(), GetProtRefAnnot(), GetProtRefDescr(), GetProtRefSeqId(), CSeq_feat_Handle::GetRange(), CmRNACDSLinker::GetReferencedmRNA_CDS(), GetRelatedFeatureApplyObjects(), GetRelatedFeatures(), CDBLinkField::GetRelatedObjects(), CPubField::GetRelatedObjects(), CStructuredCommentField::GetRelatedObjects(), CTextDescriptorField::GetRelatedObjects(), GetRetranslateCDSCommand(), CObjFingerprint::GetRsiteSignature(), CScope_Impl::GetSeq_featHandle(), GetSeqLocation(), GetSequenceFromFeature(), GetSourceFeatForProduct(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), GetTrnaAnticodon(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CSeqIdField::GetVal(), CBulkGene::GetValuesTableFromSeqEntry(), CBulkMiscFeat::GetValuesTableFromSeqEntry(), CBulkRna::GetValuesTableFromSeqEntry(), CVcfTableView::GetVisibleRanges(), GetXrpForOverlap(), CAsn2FastaApp::HandleSeqEntry(), HasBadStartCodon(), HasNoStop(), IfOnlyStopCodon(), CNewCleanup_imp::ImpFeatBC(), C5ColImportData::Initialize(), InspectSeqFeat(), InternalStopCodon(), CLocationEditPolicy::Interpret3Policy(), CLocationEditPolicy::Interpret5Policy(), IsExtendable(), CCleanup::IsGeneXrefUnnecessary(), CValidError_feat::IsIntronShort(), CMRnaForCDS::IsOrganelle(), CSeqUtils::IsPartialFeature(), IsPartialStartConflict(), IsPartialStopConflict(), CVariationUtilities::IsReferenceCorrect(), IsTransSpliced(), less(), CmRNACDSLinker::LinkByLabelAndLocation(), LoadFeat(), CFeatureTableReader::MakeGap(), MakeGeneForFeature(), MakemRNAforCDS(), MakemRNAForCDS(), MakeTrnaWithAnticodon(), CSeq_loc_Mapper_Base::Map(), MapSeq_feat(), CLocation_constraint::Match(), CReadBlastApp::match_na(), CMatchmRNA::MatchAnyUnderlyingCDS(), CMatchmRNA::MatchesUnderlyingCDS(), CSelectionEvent::MatchFeatWithLoc(), CCdsToMatPeptide::MergeConvert(), CCleanup::MoveFeatToProtein(), CCompareSeqRegions::NextComparisonGroup(), CMrnaMatchInfo::OkWithoutCds(), CFeatureGenePanel::OnEditGene(), CDiscrepancyPanel::OnListClk(), CValidatePanel::OnListItemSelected(), CBioseqEditor::OnPropagateAllFeatures(), LessThan::operator()(), operator<<(), CMrnaMatchInfo::Overlaps(), CCdsMatchInfo::Overlaps(), CReadBlastApp::overlaps_na(), CReadBlastApp::overlaps_prot_na(), CCleanup::ParseCodeBreak(), SSNP_Info::ParseSeq_feat(), CValidError_imp::PostErr(), variation_ref::CVariationUtil::PrecursorToProt(), CTabularFormatter_StopCodonChanges::Print(), printed_range(), CHugeFileDemoApp::ProcessHugeSeqEntry(), ProcFeatBlk(), ProductToSource(), CFeaturePropagator::Propagate(), variation_ref::CVariationUtil::ProtToPrecursor(), CGlimmerReader::Read(), CGFFReader::Read(), CHgvsReader::ReadSeqAnnot(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), CFeature_table_reader::ReadSequinFeatureTables(), CFeatureGenerator::SImplementation::RecomputePartialFlags(), variation_ref::CVariationUtil::Remap(), RemapOtherProtFeats(), CCdregionValidator::ReportShortIntrons(), CNewCleanup_imp::ResynchProteinPartials(), RetranslateCdregion(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), CExtendCDSToStop::RetranslateCDSCommand(), CNewCleanup_imp::RnaFeatBC(), CFeatureLoadingJob::Run(), CDemoApp::Run(), s_AddSitesToAnnot(), s_CheckLocationPolicyResults(), s_CompareFtables(), CMacroFunction_ConvertLocStrand::s_ConvertLocationStrand(), s_Fingerprint_Seq_feat(), s_FixIntervalProtToCds(), s_FixPartial(), s_GetBestGeneForFeat(), s_GetCdregionLabel(), s_GetCDSformRNA(), s_GetClipLoc(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetGeneTextLabel(), s_GetMappedFeat(), s_GetmRNAForCDS(), s_GetProteinName(), s_GetSeq_featAcc(), s_MoveProteinSpecificFeats(), CSequenceUpdater::s_OffsetFeature(), s_ParseTRnaFromAnticodonString(), CMacroFunction_RemoveBothPartials::s_RemoveBothPartials(), s_Render_SeqFeat(), CMacroFunction_SetBothPartials::s_SetBothEndsPartial(), s_SetUpXrefPairs(), s_ShouldBeMerged(), s_SortShorttRNAs(), s_SubsequentIntron(), s_UpdateCodeBreaksAndAnticodons(), CClippedScorer::ScoreAlignments(), SeqFeatPub(), C5ColImportData::Serialize(), CReportEntry::SetAlignment(), CReportEntry::SetCds(), CCleanup::SetCDSPartialsByFrameAndTranslation(), CCleanup::SetCodeBreakLocation(), CCleanup::SetGenePartialByLongestContainedFeature(), CReportEntry::SetMrna(), CFeatureGenerator::SImplementation::SetPartialFlags(), SetProteinFeature(), SetTranslExcept(), CEditingActionFeatTranslExcept::SetValue(), variation_ref::CVariationUtil::SetVariantProperties(), CLDS2_AnnotType_Hook::SkipObject(), SourceToProduct(), SpProcFeatBlk(), CTextSelHandler::STGH_GetSelectedFeatureSubtypes(), TestCds(), TestCdsFromLastBioseq(), TestCircularTopology(), TestDoNotExtendOverGap(), TestDoNotFuseAbuttingIntervals(), TestExtendOverGap(), CMytestApplication::TestFeatureGeneOverlap(), TestFuseAbuttingIntervals(), TestOneCDS(), TestOrderedLoc(), TestPartialWhenCutLastInterval(), TestPartialWhenCutLastIntervalDoNotExtend(), TestPartialWhenCutStart(), TestPartialWhenCutStartDoNotExtend(), TestPartialWhenCutStop(), TestPartialWhenCutStopDoNotExtend(), TestPointLocInside(), TestTwoIntCdsFromLastBioseqOutsideAlign(), TestTwoIntCdsOnMinusStrand(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ConvertRNARelQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_ParseRNARelQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_CopyRNARelQual::TheFunction(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), CMacroFunction_ApplyCDS::TheFunction(), CMacroFunction_LocPartialTest::TheFunction(), CMacroFunction_LocEnd::TheFunction(), CMacroFunction_LocationType::TheFunction(), CMacroFunction_LocationSeqType::TheFunction(), CMacroFunction_LocationDistConstraint::TheFunction(), CCrossRefFeatsDlg::TransferDataToWindow(), ProjectCDS::transform_align(), CSeqTranslator::Translate(), Translate(), CCdregion_translate::TranslateCdregion(), TranslateCDSCommand(), TranslateCodingRegionForValidation(), variation::CVariationUtil::TranslateNAtoAA(), CSeqTranslator::TranslateToProtein(), TrimSeqFeat(), TrimStopsFromCompleteCDS(), TruncateCDSAtStop(), CTruncateCDS::TruncateProteinFeat(), TryOneCaseMixLoc(), UpdateFeat(), CAnnotMapping_Info::UpdateMappedSeq_loc(), UpdatemRNAProduct(), CSingleFeatValidator::Validate(), CIntronValidator::Validate(), CMiscFeatValidator::Validate(), CAssemblyGapValidator::Validate(), CGapFeatValidator::Validate(), CImpFeatValidator::Validate(), CValidError_bioseq::ValidateBadGeneOverlap(), CValidError_bioseq::ValidateBioseqContext(), CValidError_bioseq::ValidateDupOrOverlapFeats(), CValidError_bioseq::ValidateFeatPartialInContext(), CValidError_feat::ValidateOneFeatXrefPair(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_bioseq::ValidateSeqFeatContext(), CSpliceProblems::ValidateSpliceCdregion(), CSpliceProblems::ValidateSpliceExon(), CSpliceProblems::ValidateSpliceMrna(), CValidError_bioseq::ValidateTwintrons(), CCleanup::WGSCleanup(), CUCSCRegionWriter::WriteAnnot(), CFastaOstreamEx::WriteFeature(), CFeatureSearchJob::x_AddFeatToResults(), CFastaOstreamEx::x_AddLocationAttribute(), CFastaOstreamEx::x_AddPartialAttribute(), CFeatureItem::x_AddQualsCdregionIdx(), CFeatGapInfo::x_AdjustAnticodons(), CAdjustForConsensusSpliceSite::x_AdjustCDS3End(), CAdjustForConsensusSpliceSite::x_AdjustCDS5End(), CFeatGapInfo::x_AdjustCodebreaks(), CEditObjectSeq_feat::x_AdjustGene(), CAdjustForConsensusSpliceSite::x_AlsoAdjustmRNA(), CSequenceEditingEventHandler::x_CacheSelectedLocations(), CCdregionValidator::x_CDS3primePartialTest(), CCdregionValidator::x_CDS5primePartialTest(), CFeaturePropagator::x_CdsCleanupPartials(), CFeaturePropagator::x_CdsStopAtStopCodon(), CCDSTranslationProblems::x_CheckCDSFrame(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CFeatureGenerator::SImplementation::x_CheckInconsistentDbxrefs(), CMRnaForCDS::x_ChkAndMakeMRna(), CValidError_bioseq::x_CompareStrings(), CNaSeqlocHelper::x_ComputeSiteIndex(), CConvertFeatureBase::x_ConvertToCDS(), CPromote::x_CopyCdregionToRNA(), CCorrectGenesDialog::x_CorrectOnePair(), CCorrectGenesDialog::x_CorrectPairInterval(), CCDSTranslationProblems::x_CountNonsenseIntrons(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CImportFeatTable::x_CreateCommand(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), CGFFReader::x_CreateGeneFeatures(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CAdjustForConsensusSpliceSite::x_CreateNewLocation(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CImportFeatTable::x_DoImportCDS(), CCpgSearchJob::x_DoSearch(), CCdsGlyph::x_DrawProjectedProtSeq(), CCdsGlyph::x_DrawProtSeqWithMapping(), CNewCleanup_imp::x_ExtendSingleGeneOnMrna(), CFeaturePropagator::x_ExtendToStopCodon(), CImportFeatTable::x_FindLocalBioseq_Handle(), CFeatureTableReader_Imp::x_FinishFeature(), CCleanupApp::x_FixCDS(), CNewCleanup_imp::x_FixParentPartials(), CFlatGatherer::x_GatherCDSReferences(), CDBSourceItem::x_GatherInfo(), CProjectFileWriter::x_GetAnnotId(), x_GetBestOverlapForSNP(), CReportEntry::x_GetCCoordinate(), CFastaOstreamEx::x_GetCDSIdString(), CFastaOstreamEx::x_GetCodeBreak(), CCreateGeneModelTask::x_GetCommand(), x_GetDivisionProc(), x_GetDivisionProcIdx(), CAnnotObject_Less::x_GetExtremes(), CGuiObjectInfoSeq_feat::x_GetFeatLocation(), CAutoDef::x_GetFeatureClauses(), CObjectIndex::x_GetFeatureCode(), CFastaOstreamEx::x_GetGeneIdString(), CDeflineGenerator::x_GetLongestProtein(), CFastaOstreamEx::x_GetOtherIdString(), CFeatureTableReader_Imp::x_GetPointStrand(), CCompareSeqRegions::x_GetPutativeMatches(), CFastaOstreamEx::x_GetRNAIdString(), x_GetSegSeqInfoViaCDS(), x_GetSourceFeatViaCDS(), CMacroFunction_ParsedText::x_GetSpecialField(), CFeatTrim::x_GetStartOffset(), CAlignedFeatureGraph::x_GetTooltip(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CCreateGeneModelTask::x_Group_By_GeneID(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CEditObjectSeq_feat::x_HandleCdsProduct(), CIdMapperTestApp::x_HandleFeatures(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CBioseqEditor::x_HasAlignment(), CCdregionValidator::x_HasGoodParent(), CSingleFeatValidator::x_HasSeqLocBond(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CAdjustForConsensusSpliceSite::x_InitRanges(), CIntronValidator::x_IsIntronShort(), CCdregionValidator::x_IsProductMisplaced(), CValidError_bioseq::x_IsSameAsCDS(), CPromote::x_MakeMolinfoDesc(), CValidError_bioseq::x_MatchesOverlappingFeaturePartial(), CGFFReader::x_PlaceFeature(), CAnnotObject_Info::x_ProcessFeat(), CHugeFileDemoApp::x_ProcessFileTraditionally(), CPromote::x_PromoteCdregion(), CPromote::x_PromoteRna(), CTextSelHandler::x_RenderSelectedFeatures(), CValidError_bioseq::x_ReportDupOverlapFeaturePair(), CValidError_bioseq::x_ReportGeneOverlapError(), CValidError_bioseq::x_ReportImproperPartial(), CValidError_bioseq::x_ReportInternalPartial(), CValidError_bioseq::x_ReportOverlappingPeptidePair(), CRNAValidator::x_ReportRNATranslationProblems(), CCdregionValidator::x_ReportTranslationProblems(), CVectorTrimPanel::x_RetranslateCDS(), CReportTrim::x_RetranslateCDS(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CCorrectRNAStrandDlg::x_ReverseFeatures(), CFeatureGenerator::SImplementation::x_SetComment(), CCDSTranslationPanel::x_SetLocationForProtein(), CReportEntry::x_SetMrnaMapper(), CBioseqContext::x_SetOpticalMapPoints(), CCDSTranslationPanel::x_SetProtein(), CReportEntry::x_SetRnaCds(), CVariationNormalization_base< T >::x_Shift(), CSequenceUpdater::x_ShouldImportFeature(), CConvertFeatureBase::x_SimpleConversion(), CSplitDataLoader::x_SplitFeats(), CVectorTrimPanel::x_TrimFeatureLocations(), CNewCleanup_imp::x_tRNACodonEC(), CAdjustForConsensusSpliceSite::x_UpdateExonFeatures(), CCreateGeneModelTask::x_UpdateGeneOnSequence(), CAdjustForConsensusSpliceSite::x_UpdateLocation(), CEditObjectSeq_feat::x_UpdatemRNA(), CFeatureTableReader_Imp::x_UpdatePointStrand(), CRNAValidator::x_ValidateAnticodon(), CCdregionValidator::x_ValidateBadMRNAOverlap(), CSingleFeatValidator::x_ValidateBothStrands(), CValidError_bioseq::x_ValidateCDSagainstVDJC(), CCdregionValidator::x_ValidateCDSPartial(), CCdregionValidator::x_ValidateCDSPeptides(), CCdregionValidator::x_ValidateCodebreak(), CCdregionValidator::x_ValidateCommonProduct(), CSingleFeatValidator::x_ValidateExceptText(), CSingleFeatValidator::x_ValidateFeatPartialness(), CSingleFeatValidator::x_ValidateGeneFeaturePair(), CSingleFeatValidator::x_ValidateGeneXRef(), CSingleFeatValidator::x_ValidateImpFeatLoc(), CCdregionValidator::x_ValidateParentPartialness(), CPeptideValidator::x_ValidatePeptideOnCodonBoundary(), CCdregionValidator::x_ValidateProductId(), CCdregionValidator::x_ValidateProductPartials(), CSingleFeatValidator::x_ValidateReplaceQual(), CSingleFeatValidator::x_ValidateRptUnitRangeVal(), CSingleFeatValidator::x_ValidateRptUnitVal(), CSingleFeatValidator::x_ValidateSeqFeatLoc(), CCdregionValidator::x_ValidateSeqFeatLoc(), CPolyASiteValidator::x_ValidateSeqFeatLoc(), CPolyASignalValidator::x_ValidateSeqFeatLoc(), CRNAValidator::x_ValidateTrnaData(), CRNAValidator::x_ValidateTrnaOverlap(), CRNAValidator::x_ValidateTrnaType(), CFastaOstreamEx::x_WriteTranslatedCds(), CGtfAnnotAssembler::xFeatureUpdateLocation(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatTableEdit::xGenerateMissingMrnaForCds(), CGff3ImportData::xInitializeDataCds(), CBedReader::xParseFeatureGeneModelFormat(), CGff3AnnotAssembler::xProcessFeatureCds(), CGff3AnnotAssembler::xProcessFeatureExon(), CGff3AnnotAssembler::xProcessFeatureRna(), CFeatureTableReader::xTranslateProtein(), CGff3Reader::xUpdateAnnotGeneric(), CGff3Reader::xUpdateAnnotRna(), CGtfAnnotAssembler::xUpdateCds(), CGtfAnnotAssembler::xUpdateGene(), and CBedGraphWriter::xWriteSingleFeature().

GetMethod()

const CModelEvidenceSupport_Base::TMethod & CModelEvidenceSupport_Base::GetMethod ( void  ) const

inline

Get the Method member data.

Returns

Reference to the member data.

Definition at line 520 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::CanGetMethod(), CModelEvidenceSupport_Base::m_Method, and CSerialObject::ThrowUnassigned().

GetMismatch()

CCdregion_Base::TMismatch CCdregion_Base::GetMismatch ( void  ) const

inline

Get the Mismatch member data.

Returns

Copy of the member data.

Definition at line 672 of file Cdregion_.hpp.

References CCdregion_Base::CanGetMismatch(), CCdregion_Base::m_Mismatch, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_loc_Conversion::ConvertCdregion(), and CSeq_loc_Conversion_Set::ConvertCdregion().

GetModel_evidence()

const CSeqFeatSupport_Base::TModel_evidence & CSeqFeatSupport_Base::GetModel_evidence ( void  ) const

inline

Get the Model_evidence member data.

Returns

Reference to the member data.

Definition at line 288 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_Model_evidence.

GetMrna()

const CModelEvidenceSupport_Base::TMrna & CModelEvidenceSupport_Base::GetMrna ( void  ) const

inline

Get the Mrna member data.

Returns

Reference to the member data.

Definition at line 567 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Mrna.

GetName() [1/3]

const CClone_ref_Base::TName & CClone_ref_Base::GetName ( void  ) const

inline

Get the Name member data.

Returns

Reference to the member data.

Definition at line 405 of file Clone_ref_.hpp.

References CClone_ref_Base::CanGetName(), CClone_ref_Base::m_Name, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_featHandler::GetLabel(), and NSearchFeatPanel::s_GetFeatureLabel().

GetName() [2/3]

const CGenetic_code_Base::C_E::TName & CGenetic_code_Base::C_E::GetName ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 504 of file Genetic_code_.hpp.

GetName() [3/3]

const CProgram_id_Base::TName & CProgram_id_Base::GetName ( void  ) const

inline

Get the Name member data.

Returns

Reference to the member data.

Definition at line 212 of file Program_id_.hpp.

References CProgram_id_Base::CanGetName(), CProgram_id_Base::m_Name, and CSerialObject::ThrowUnassigned().

GetNcbi8aa() [1/2]

CCode_break_Base::C_Aa::TNcbi8aa CCode_break_Base::C_Aa::GetNcbi8aa ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 448 of file Code_break_.hpp.

Referenced by CWriteUtil::GetAaName(), CEditingActionFeatTranslExcept::GetValue(), CCleanup::IsMethionine(), IsStopCodon(), and s_IsSelenocysteine().

GetNcbi8aa() [2/2]

const CGenetic_code_Base::C_E::TNcbi8aa & CGenetic_code_Base::C_E::GetNcbi8aa ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 571 of file Genetic_code_.hpp.

GetNcbieaa() [1/2]

CCode_break_Base::C_Aa::TNcbieaa CCode_break_Base::C_Aa::GetNcbieaa ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 421 of file Code_break_.hpp.

Referenced by CkCdRegion(), CWriteUtil::GetAaName(), CEditingActionFeatTranslExcept::GetValue(), CCleanup::IsMethionine(), IsStopCodon(), s_IsSelenocysteine(), CSeqTranslator::Translate(), and CSeqTranslator::TranslateToProtein().

GetNcbieaa() [2/2]

const CGenetic_code_Base::C_E::TNcbieaa & CGenetic_code_Base::C_E::GetNcbieaa ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 551 of file Genetic_code_.hpp.

GetNcbistdaa() [1/2]

CCode_break_Base::C_Aa::TNcbistdaa CCode_break_Base::C_Aa::GetNcbistdaa ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 475 of file Code_break_.hpp.

Referenced by CWriteUtil::GetAaName(), CCleanup::IsMethionine(), IsStopCodon(), and s_IsSelenocysteine().

GetNcbistdaa() [2/2]

const CGenetic_code_Base::C_E::TNcbistdaa & CGenetic_code_Base::C_E::GetNcbistdaa ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 591 of file Genetic_code_.hpp.

GetNon_std_residue()

const CSeqFeatData_Base::TNon_std_residue & CSeqFeatData_Base::GetNon_std_residue ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 1077 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Non_std_residue, and CSeqFeatData_Base::m_string.

Referenced by s_GetContentLabel().

GetNum()

const CSeqFeatData_Base::TNum & CSeqFeatData_Base::GetNum

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 514 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Num, and CSeqFeatData_Base::m_object.

GetOrf()

CCdregion_Base::TOrf CCdregion_Base::GetOrf ( void  ) const

inline

Get the Orf member data.

Returns

Copy of the member data.

Definition at line 481 of file Cdregion_.hpp.

References CCdregion_Base::CanGetOrf(), CCdregion_Base::m_Orf, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), s_GetCdregionLabel(), and CCdregionValidator::Validate().

GetOrg()

const CSeqFeatData_Base::TOrg & CSeqFeatData_Base::GetOrg

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 288 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Org, and CSeqFeatData_Base::m_object.

Referenced by s_GetContentLabel().

GetOther_type()

const CInferenceSupport_Base::TOther_type & CInferenceSupport_Base::GetOther_type ( void  ) const

inline

Get the Other_type member data.

Returns

Reference to the member data.

Definition at line 530 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::CanGetOther_type(), CInferenceSupport_Base::m_Other_type, and CSerialObject::ThrowUnassigned().

GetPartial()

CSeq_feat_Base::TPartial CSeq_feat_Base::GetPartial ( void  ) const

inline

Get the Partial member data.

Returns

Copy of the member data.

Definition at line 962 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetPartial(), CSeq_feat_Base::m_Partial, and CSerialObject::ThrowUnassigned().

Referenced by AdjustFeaturePartialFlagForLocation(), BOOST_AUTO_TEST_CASE(), CCDSTranslationProblems::CalculateTranslationProblems(), CAnnotObject_Ref::CAnnotObject_Ref(), CNewCleanup_imp::CdRegionEC(), CGenericPropsPanel::CreateControls(), GetMismatches(), CSeq_feat_Handle::GetPartial(), GetProtRefAnnot(), GetProtRefDescr(), CEditingActionFeatPartial::GetValue(), HasNoStop(), InternalStopCodon(), CSeqUtils::IsPartialFeature(), MakeGeneForFeature(), CMrnaMatchInfo::OkWithoutCds(), ProcFeatBlk(), CAnnotObject_Ref::ResetLocation(), CNewCleanup_imp::ResynchProteinPartials(), CDemoApp::Run(), s_CompareFtables(), CReportEntry::SetCds(), CValidError_bioseq::x_DupFeatSeverity(), CAutoDefFeatureClause::x_GetProductName(), CCDSTranslationProblems::x_GetTranslationMismatches(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CReportEntry::x_SetRnaCds(), CSingleFeatValidator::x_ValidateFeatPartialness(), and CGff2Writer::xAssignFeatureAttributePartial().

GetPlacement_method()

CClone_ref_Base::TPlacement_method CClone_ref_Base::GetPlacement_method ( void  ) const

inline

Get the Placement_method member data.

Returns

Copy of the member data.

Definition at line 606 of file Clone_ref_.hpp.

References CClone_ref_Base::CanGetPlacement_method(), CClone_ref_Base::m_Placement_method, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), and CClonePlacementGlyph::x_Draw().

GetPmids() [1/2]

const CExperimentSupport_Base::TPmids & CExperimentSupport_Base::GetPmids ( void  ) const

inline

Get the Pmids member data.

Returns

Reference to the member data.

Definition at line 377 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_Pmids.

GetPmids() [2/2]

const CInferenceSupport_Base::TPmids & CInferenceSupport_Base::GetPmids ( void  ) const

inline

Get the Pmids member data.

Returns

Reference to the member data.

Definition at line 657 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Pmids.

GetProduct()

const CSeq_feat_Base::TProduct & CSeq_feat_Base::GetProduct ( void  ) const

inline

Get the Product member data.

Returns

Reference to the member data.

Definition at line 1096 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetProduct(), CSeq_feat_Base::m_Product, and CSerialObject::ThrowUnassigned().

Referenced by CSeqsRange::Add(), CLinkUtils::AddBlastProductLink(), AddExceptionsToShortIntron(), CCleanup::AddProtein(), AddProteinFeature(), CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustForCDSPartials(), CFeatGapInfo::AdjustForRelevantGapIntervals(), CFeatGapInfo::AdjustProteinSeq(), CEditSequence::AdjustProtFeatureLocations(), AdjustSingleFeature(), CRecomputeIntervals::apply(), CApplyObject::ApplyChange(), BOOST_AUTO_TEST_CASE(), CCDSTranslationProblems::CalculateTranslationProblems(), CNewCleanup_imp::CdRegionEC(), CAnnotCompare::CompareFeats(), CFeaturePropagator::ConstructProteinFeatureForPropagatedCodingRegion(), CSeq_loc_Conversion_Set::Convert(), CSeq_loc_Conversion::Convert(), Convert_Seq_feat_Seq_loc_Prod_Loc(), CCdsToMatPeptide::ConvertInner(), variation::CreateSplicedSeqAlignFromFeat(), variation::CreateUnknownProtConsequenceVariation(), CRemoveName::CRemoveName(), DoesCodingRegionHaveUnnecessaryException(), DoesmRNAHaveUnnecessaryException(), FeatureHasEnds(), GetBestCdsForMrna(), GetBestMrnaForCds(), CSeqUtils::GetCdsMappingInfoFromRna(), GetCDSProductSeq(), GetCDSProductSequence(), CAdjustForConsensusSpliceSite::GetCommandToAdjustCDSEnds(), CValidErrorFormat::GetFeatureProductLocLabel(), GetFeatureProtein(), CSeq_featHandler::GetLabel(), CCreateFeat::GetLoc(), CAnnotMapping_Info::GetMappedSeq_loc(), CSeqUtils::GetMappingInfo(), GetMRNATranslationProblems(), CMappedFeat::GetProduct(), CSeq_feat_Handle::GetProduct(), GetProductForCDS(), CAnnotMapping_Info::GetProductId(), GetProductLabel(), GetProductName(), GetProtAndRnaForCDS(), CCleanup::GetProteinName(), GetRelatedFeatureApplyObjects(), GetRelatedFeatures(), GetRetranslateCDSCommand(), GetSequenceFromFeature(), GetSynchronizeProductMolInfoCommand(), GetSynchronizeProteinPartialsCommand(), GetTargetedLocusName(), CEditingActionFeatTranslation::GetValue(), CEditingActionFeatTranscriptId::GetValue(), CAsn2FastaApp::HandleSeqEntry(), HasBadProteinStart(), HasStopInProtein(), CEditingActionFeatTranslation::IsSetValue(), CEditingActionFeatTranscriptId::IsSetValue(), CSeq_loc_Mapper_Base::Map(), CCdregionValidator::MapToNTCoords(), CSelectionEvent::MatchFeatWithId(), CSelectionEvent::MatchFeatWithLoc(), CCdsToMatPeptide::MergeConvert(), SFeats_OpLess::operator()(), ProductToSource(), CCdsToMatPeptide::RemoveProteins(), CCleanup::RemovePseudoProduct(), RenameGeneratedBioseqs(), CCleanup::RepackageProteins(), RetranslateCdregion(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), CAddGlobalCodeBreak::RetranslateCDSCommand(), CExtendCDSToStop::RetranslateCDSCommand(), s_CompareFtables(), s_CompareProtProdToTrans(), ApplyCDSFrame::s_FindMatchingFrame(), CMacroFunction_ApplyCDSFrame::s_FindMatchingFrame(), s_Fingerprint_Seq_feat(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), NSearchFeatPanel::s_GetFeatureLabel(), CCompareSeqRegions::s_GetGeneId(), s_GetMrnaProductString(), s_GetProductIdOrLocusTag(), s_GetProductName(), s_IdXrefsNotReciprocal(), s_RemapFeatureSeqIds(), s_Render_SeqFeat(), CReportEntry::SetCds(), CReportEntry::SetMrna(), CCleanup::SetProteinName(), sGetCdsProductName(), CLDS2_AnnotType_Hook::SkipObject(), SourceToProduct(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), TranslateCDSCommand(), TrimSeqFeat(), TrimStopsFromCompleteCDS(), CAnnotMapping_Info::UpdateMappedSeq_loc(), CValidError_bioseq::ValidateBioseqContext(), CValidError_bioseq::ValidateSeqFeatContext(), CCleanup::WGSCleanup(), CFastaOstreamEx::x_AddProteinIdAttribute(), CFastaOstreamEx::x_AddProteinNameAttribute(), CFastaOstreamEx::x_AddTranscriptIdAttribute(), CSequenceUpdater::x_AdjustOldCDSProduct(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CFeatureGenerator::SImplementation::x_CheckInconsistentDbxrefs(), CFlatGatherer::x_CopyCDSFromCDNA(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CImportFeatTable::x_DoImportCDS(), CAdjustFeaturesForGaps::x_DoOne(), CSequenceUpdater::x_FuseProtFeatsForCDS(), CFlatGatherer::x_GatherCDSReferences(), CCreateGeneModelTask::x_GetCommand(), CSingleFeatValidator::x_GetFeatureProduct(), CGuiObjectInfoSeq_feat::x_GetProductLengthRow(), CAutoDefFeatureClause::x_GetProductName(), CConvertCDSToMiscFeat::x_GetProteinDesc(), CAlignedFeatureGraph::x_GetTooltip(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CValidError_bioseq::x_IdXrefsNotReciprocal(), CSequenceUpdater::x_ImportCDSProduct(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CNewCleanup_imp::x_IsCommentRedundantWithEC(), CCdregionValidator::x_IsProductMisplaced(), CNewCleanup_imp::x_MoveCdregionXrefsToProt(), CConvertFeatureBase::x_MoveFeatureToProtein(), CRNAPanel::x_PopulateTranscriptID(), CAnnotObject_Info::x_ProcessFeat(), CPromote::x_PromoteFeatures(), CRNAValidator::x_ReportRNATranslationProblems(), CCdregionValidator::x_ReportTranslationProblems(), CVectorTrimPanel::x_RetranslateCDS(), CReportTrim::x_RetranslateCDS(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CFeatureGenerator::SImplementation::x_SetComment(), CFeatureGenerator::SImplementation::x_SetExceptText(), CReportEntry::x_SetRnaCds(), CSplitDataLoader::x_SplitFeats(), CValidError_bioseq::x_TranscriptIDsMatch(), CVectorTrimPanel::x_TrimFeatureLocations(), CCdregionValidator::x_ValidateCDSPeptides(), CCdregionValidator::x_ValidateCommonProduct(), CCdregionValidator::x_ValidateFarProducts(), CSingleFeatValidator::x_ValidateFeatPartialness(), CSingleFeatValidator::x_ValidateSeqFeatProduct(), CCdregionValidator::x_ValidateTrans(), CFeatureTableReader::xMoveCdRegions(), and CFeatureTableReader::xTranslateProtein().

GetPrograms()

const CEvidenceBasis_Base::TPrograms & CEvidenceBasis_Base::GetPrograms ( void  ) const

inline

Get the Programs member data.

Returns

Reference to the member data.

Definition at line 203 of file EvidenceBasis_.hpp.

References CEvidenceBasis_Base::m_Programs.

GetProt()

const CSeqFeatData_Base::TProt & CSeqFeatData_Base::GetProt

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 332 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Prot, and CSeqFeatData_Base::m_object.

Referenced by CProductColumn::AddToFeature(), CDescriptionColumn::AddToFeature(), CProtRefColumn::AddToFeature(), CFixProductNames::apply(), BOOST_AUTO_TEST_CASE(), CProductColumn::ClearInFeature(), CFixForTransSplicing::CollectProteinNames(), CConvertCDSToProt::Convert(), CCdsToMatPeptide::ConvertInner(), ConvertProteinToImp(), CCleanup::FixECNumbers(), CFixForTransSplicing::GetCommand(), CTruncateCDS::GetCommand(), CBulkCDS::GetCommandFromValuesTable(), CValidErrorFormat::GetFeatureContentLabel(), CEditSequence::GetFeatures(), CProductColumn::GetFromFeat(), CDescriptionColumn::GetFromFeat(), CProtRefColumn::GetFromFeat(), GetProductForCDS(), GetProductName(), GetProteinWeight(), GetTargetedLocusName(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), IEditingAction::GetUpdateMRNAProductNameCmd(), CEditingActionFeatDesc::GetValue(), CBulkCDS::GetValuesTableFromSeqEntry(), CEditingActionFeatDesc::IsSetValue(), CCleanup::MoveFeatToProtein(), CRestoreRNAediting::OnApply(), CSuspectProductRulesEditor::OnApplyFixes(), CSuspectProductRulesEditor::OnListMatches(), CUpdateECNumbers::operator()(), CTabularFormatter_ProtRef::Print(), CFindASN1Dlg::ReplaceInFeature(), RescueProtProductQual(), CNewCleanup_imp::ResynchPeptidePartials(), CNewCleanup_imp::ResynchProteinPartials(), s_FindKeyFromFeatDefType(), s_GetBestProtFeature(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), s_GetContentLabel(), s_GetProductName(), s_GetProteinName(), CDesktopFeatItem::s_GetProteinName(), s_IsPreprotein(), s_NotPeptideException(), s_TitleFromSegment(), sGetCdsProductName(), CMacroFunction_SwapRelFeatQual::TheFunction(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_RemoveOutside::TheFunction(), CMacroFunction_RmvOutsideRelFeatQual::TheFunction(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), UpdatemRNAProduct(), CProtValidator::Validate(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_feat::ValidateSeqFeatContext(), CGeneFeatFromOtherFeatDlg::x_AddGeneQuals(), CFastaOstreamEx::x_AddProteinNameAttribute(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CSequenceUpdater::x_AdjustProteinFeature(), CProtValidator::x_CheckForEmpty(), CNewCleanup_imp::x_CleanEmptyFeature(), CCmdFeatIdXrefsFromQualifiers::x_CreateActionCmd(), CValidErrorFormat::x_FormatECNumberForSubmitterReport(), CSortedProteins::x_GatherProteinNames(), CFeatureItem::x_GetAssociatedProtInfo(), CFeatureItem::x_GetAssociatedProtInfoIdx(), CDeflineGenerator::x_GetLongestProtein(), CAutoDefFeatureClause::x_GetProductName(), CEditObjectSeq_feat::x_HandleCdsProduct(), CSeqFeatData::x_InitFeatDataInfo(), CBioseqIndex::x_InitFeats(), CProtValidator::x_ReportUninformativeNames(), CDeflineGenerator::x_SetTitleFromProtein(), CDeflineGenerator::x_SetTitleFromProteinIdx(), CNewCleanup_imp::x_ShouldRemoveEmptyFeature(), CEditObjectSeq_feat::x_UpdatemRNA(), CProtValidator::x_ValidateECNumbers(), CCdregionValidator::x_ValidateFeatComment(), CGff2Writer::xAssignFeatureAttributeEcNumbers(), CGff2Writer::xAssignFeatureAttributeFunction(), CGff2Writer::xAssignFeatureAttributeProduct(), CGff3Writer::xWriteFeatureProtein(), and CGff3Writer::xWriteProteinFeature().

GetProtein()

const CModelEvidenceSupport_Base::TProtein & CModelEvidenceSupport_Base::GetProtein ( void  ) const

inline

Get the Protein member data.

Returns

Reference to the member data.

Definition at line 617 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Protein.

GetPsec_str()

CSeqFeatData_Base::TPsec_str CSeqFeatData_Base::GetPsec_str ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 1050 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Psec_str, and CSeqFeatData_Base::m_Psec_str.

Referenced by CEditObjectSeq_feat::CreateWindowImpl(), and s_GetContentLabel().

GetPseudo()

CSeq_feat_Base::TPseudo CSeq_feat_Base::GetPseudo ( void  ) const

inline

Get the Pseudo member data.

Returns

Copy of the member data.

Definition at line 1365 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetPseudo(), CSeq_feat_Base::m_Pseudo, and CSerialObject::ThrowUnassigned().

Referenced by CNewCleanup_imp::CdRegionEC(), CkCdRegion(), GetMRNATranslationProblems(), CSeq_feat_Handle::GetPseudo(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CDiscrepancyContext::IsPseudo(), CGeneCache::IsPseudo(), IsPseudo(), CSeqUtils::IsPseudoFeature(), s_CheckQuals_cdregion(), s_CompareFtables(), CSingleFeatValidator::s_IsPseudo(), s_IsPseudo(), CValidError_bioseq::ValidateSeqFeatContext(), CFastaOstreamEx::x_AddPseudoAttribute(), CValidError_bioseq::x_DupFeatSeverity(), x_IsPseudo(), CGeneModelFeatJob::x_IsPseudoGene(), CPromote::x_PromoteCdregion(), CPromote::x_PromoteRna(), CValidError_bioseq::x_ValidateCDSmRNAmatch(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaType(), CSoMap::xMapCds(), CSoMap::xMapGene(), and CSoMap::xMapRna().

GetPub()

const CSeqFeatData_Base::TPub & CSeqFeatData_Base::GetPub

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 376 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Pub, and CSeqFeatData_Base::m_object.

Referenced by CDiscrepancyContext::CParseNode::AddFeature(), CReferenceItem::CReferenceItem(), GetAuthList(), CReplaceEntirePubPanel::GetCommand(), CValidErrorFormat::GetFeatureContentLabel(), GetPubTitle(), CPubField::GetStatus(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CPubField::GetVal(), CPubField::GetVals(), s_GetContentLabel(), CPubFeatValidator::Validate(), CValidError_imp::ValidateCitations(), and CNewCleanup_imp::x_ShouldRemoveEmptyFeature().

GetQual() [1/2]

const CGb_qual_Base::TQual & CGb_qual_Base::GetQual ( void  ) const

inline

Get the Qual member data.

Returns

Reference to the member data.

Definition at line 212 of file Gb_qual_.hpp.

References CGb_qual_Base::CanGetQual(), CGb_qual_Base::m_Qual, and CSerialObject::ThrowUnassigned().

Referenced by CkQualEcnum(), CkQualMatchToken(), CkQualPosaa(), CkQualPosSeqaa(), CkQualSeqaa(), CkQualSite(), CkQualTokenType(), CGb_qual::Compare(), DbxrefQualToDbtag(), CFlatIllegalQVal::Format(), CNewCleanup_imp::GBQualBC(), NSnp::GetAlleles(), CSeq_featHandler::GetLabel(), GetSourceDbtag(), NSnp::IsSnpKnown(), PredIsGivenQual::operator()(), SSNP_Info::ParseSeq_feat(), CTable2AsnContext::RenameProteinIdsQuals(), s_CleanupIsShortrRNA(), s_ExpandThisQual(), s_Fingerprint_Gb_qual(), SetExceptFromGbqual(), CSeqFeatData::ShouldRepresentAsGbqual(), SplitMultiValQual(), CGBQualPanel::TransferDataFromWindow(), CtRNAProductPanel::TransferDataToWindow(), CGBQualPanel::Update_tRNA_ProductQual(), CFeatureItem::x_AddFTableQuals(), CFeatureItem::x_AddQualOldLocusTag(), CBulkOtherAddPanel::x_AddQuals(), CAlignOtherAddPanel::x_AddQuals(), CFeatureItem::x_AddQualsExt(), CCmdFeatIdXrefsFromQualifiers::x_CreateActionCmd(), CPromote::x_GetProductId(), CSatelliteTypeNameColumn::x_IsQualAMatch(), x_LeuCUGstart(), CNewCleanup_imp::x_ProtGBQualBC(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CNewCleanup_imp::x_SeqFeatRnaGBQualBC(), CSingleFeatValidator::x_ValidateGbQual(), CSingleFeatValidator::x_ValidateGeneXRef(), CMRNAValidator::x_ValidateMrna(), CGeneValidator::x_ValidateOperon(), CCdregionValidator::x_ValidateQuals(), CGff2Writer::xAssignFeatureAttributeExonNumber(), XMLGetQuals(), and XMLGetXrefs().

GetQual() [2/2]

const CSeq_feat_Base::TQual & CSeq_feat_Base::GetQual ( void  ) const

inline

Get the Qual member data.

Returns

Reference to the member data.

Definition at line 1147 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Qual.

Referenced by CConvertBadInference::apply(), CGffRecord::AssignAttributesCore(), CGffRecord::AssignScore(), CGffRecord::AssignSource(), CGffRecord::AssignType(), BioSourceFromImpFeat(), BOOST_AUTO_TEST_CASE(), CCDSTranslationProblems::CalculateTranslationProblems(), CheckExpectedQuals(), CheckQual(), CkCdRegion(), CConvertCDSToMiscFeat::Convert(), CGenericPropsPanel::CreateControls(), EndAdded(), ErrByteStorePtr(), FilterDb_xref(), FindTheQual(), fta_check_codon_quals(), fta_check_exception(), fta_check_mobile_element(), fta_check_ncrna(), fta_parse_rrna_feat(), NSnp::GetAlleles(), CEditObjectSeq_feat::GetEditCommand(), CCreateFeat::GetFeatLabel(), CGbQualColumn::GetFromFeat(), CSatelliteTypeNameColumn::GetFromFeat(), CSeq_featHandler::GetLabel(), CSeq_feat::GetNamedQual(), GetProtRefAnnot(), GetProtRefDescr(), CSeq_feat_Handle::GetQual(), GetRNAProductString(), GetRnaRef(), GetTargetedLocusName(), GetUnambiguousNamedQual(), CCreateFeat::HasFeatLabel(), CAnnotMapping_Info::InitializeMappedSeq_feat(), InternalStopCodon(), CAutoDefFeatureClause::IsExonWithNumber(), CAutoDefFeatureClause::IsLTR(), IsMicroSatellite(), CDiscrepancyContext::IsPseudo(), IsPseudo(), NSnp::IsSnpKnown(), LookForProductName(), CFeatureTableReader::MakeGap(), CEditingActionFeatGbQual::Modify(), CEditingActionFeatGbQualTwoNames::Modify(), CEditingActionFeatRnaQual::Modify(), CEditingActionFeatSynonym::Modify(), CEditingActionFeatActivity::Modify(), CEditingActionFeatEcNumber::Modify(), CEditingActionFeatFunction::Modify(), CEditingActionFeatProduct::Modify(), CNewCleanup_imp::MoveCitationQuals(), CNewCleanup_imp::MoveDbxrefs(), CNewCleanup_imp::MoveStandardName(), CGBQualPanel::PanelNeeded(), CCleanup::ParseCodeBreaks(), SSNP_Info::ParseSeq_feat(), QualsToSeqID(), CSatelliteTypeNameColumn::RelaxedMatch(), CSeq_feat::RemoveQualifier(), s_FeatureHasEvidenceOrInferenceQuals(), s_Fingerprint_Seq_feat(), s_GetContentLabel(), s_GetFeatureContentLabelExtras(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetImpLabel(), s_GetProteinNameFromXrefOrQual(), s_GetRnaRefLabel(), s_HasNamedQual(), s_HasTag(), CCleanup::s_IsProductOnFeat(), C5ColImportData::Serialize(), CFeatureGenerator::SImplementation::SetFeatureExceptions(), SortGBQuals(), CGBQualStringListValidator::TransferToWindow(), CMiscFeatValidator::Validate(), CImpFeatValidator::Validate(), CCleanup::WGSCleanup(), CFeatureItem::x_AddQualOldLocusTag(), CSeqTextDataSourceInterval::x_AddVariationsFromFeature(), CNewCleanup_imp::x_ConvertGoQualifiers(), CConvertFeatureBase::x_ExtractQuals(), CValidErrorFormat::x_FormatECNumberForSubmitterReport(), CAutoDefFeatureClause::x_GetExonDescription(), CAutoDefFeatureClause::x_GetFeatureTypeWord(), CFeat_qual_choice::x_GetFirstGBQualMatchConstraintName(), CPromote::x_GetProductId(), CAutoDefFeatureClause::x_GetProductName(), CGeneCache::x_HasNamedQual(), x_HasNamedQual(), CSingleFeatValidator::x_HasNamedQual(), x_LeuCUGstart(), CSingleFeatValidator::x_ReportPseudogeneConflict(), CSingleFeatValidator::x_ValidateGbquals(), CSingleFeatValidator::x_ValidateImpFeatQuals(), CMRNAValidator::x_ValidateMrna(), CSingleFeatValidator::x_ValidateNonGene(), CSingleFeatValidator::x_ValidateNonImpFeat(), CGeneValidator::x_ValidateOperon(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaType(), CGtfReader::xFeatureAddQualifiers(), CGtfAnnotAssembler::xFeatureSetQualifiers(), CGff3AnnotAssembler::xIsLocationPending(), CSoMap::xMapCds(), CSoMap::xMapGene(), and CSoMap::xMapRna().

GetRegion()

const CSeqFeatData_Base::TRegion & CSeqFeatData_Base::GetRegion ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 940 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Region, and CSeqFeatData_Base::m_string.

Referenced by CBedFeatureRecord::AssignName(), BOOST_AUTO_TEST_CASE(), CWriteUtil::CompareFeatures(), CRegionColumn::GetFromFeat(), CEditingActionFeatRegion::GetValue(), CFindASN1Dlg::ReplaceInFeature(), s_CleanCDDFeature(), s_GetClipLoc(), s_GetContentLabel(), NSearchFeatPanel::s_GetCustomLabel(), CClippedScorer::ScoreAlignments(), SPFeatGeneral(), CSequenceUpdater::x_FuseFeatures(), CSeq_featHandler::x_GetCustomLabel(), x_ToBlastVec(), and CGff3Writer::xAssignFeatureAttributeName().

GetRna()

const CSeqFeatData_Base::TRna & CSeqFeatData_Base::GetRna

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 354 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Rna, and CSeqFeatData_Base::m_object.

Referenced by AddMiscRNAFeatures(), CReportTrim::AdjustAndTranslate(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CFixProductNames::apply(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CEditObjectSeq_feat::CanClose(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), ConvertToMiscFeature(), IEditingActionFeat::Find(), CEditingActionFeatGeneLocusPlain::Find(), CEditingActionFeatGeneLocusRna::Find(), IEditingActionFeat::FindFeatForAnotherFeat(), IEditingActionFeat::FindOrCreateProtFeat(), fta_rnas_cds_feat(), get_my_feat_type(), get_trna_string(), CBulkRna::GetCommandFromValuesTable(), GetFeatNameAndLoc(), CProductColumn::GetFromFeat(), CNcrnaClassColumn::GetFromFeat(), CCodonsRecColumn::GetFromFeat(), CAntiCodonColumn::GetFromFeat(), CTagPeptideColumn::GetFromFeat(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), GetRNAname(), GetRNAProductString(), CCdsFromGeneMrnaExon::GetSuggestedName(), GetTargetedLocusName(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatNcRnaClass::GetValue(), CEditingActionFeatProduct::GetValue(), CBulkRna::GetValuesTableFromSeqEntry(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CEditingActionFeatNcRnaClass::IsSetValue(), CEditingActionFeatProduct::IsSetValue(), CRna_feat_type::Match(), CEditingActionFeatRnaQual::Modify(), CNewCleanup_imp::MoveStandardName(), CSuspectProductRulesEditor::OnApplyFixes(), CSuspectProductRulesEditor::OnListMatches(), CFindASN1Dlg::ReplaceInFeature(), CEditingActionFeatCodonsRecognized::ResetValue(), CEditingActionFeatAnticodon::ResetValue(), CEditingActionFeatNcRnaClass::ResetValue(), s_CheckQuals_ncRNA(), s_FindKeyFromFeatDefType(), s_GetFeatureLabel(), s_GetmRNAName(), s_GetRnaRefLabel(), s_RnaPosition(), s_SetProtRef(), CSequenceUpdater::s_Shift_tRNAAntiCodon(), s_ShouldBeMerged(), s_SortShorttRNAs(), s_UpdateCodeBreaksAndAnticodons(), CCleanup::SetMrnaName(), CEditingActionFeatCodonsRecognized::SetValue(), CEditingActionFeatAnticodon::SetValue(), CEditingActionFeatRnaQual::SetValue(), CEditingActionFeatNcRnaClass::SetValue(), CEditingActionFeatProduct::SetValue(), sGetFeatureGeneBiotypeWrapper(), TestTrnaAnticodon(), TestTrnaAnticodonFromLastBioseq(), CMacroFunction_SwapRelFeatQual::TheFunction(), UpdatemRNAProduct(), CRNAValidator::Validate(), CValidError_bioseq::ValidateSeqFeatContext(), CCleanup::WGSCleanup(), CFeatureItem::x_AddFTableRnaQuals(), CFastaOstreamEx::x_AddncRNAClassAttribute(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureItem::x_AddQualsRna(), CFastaOstreamEx::x_AddRNAProductAttribute(), CFeatGapInfo::x_AdjustAnticodons(), CCmdFeatIdXrefsFromQualifiers::x_CreateActionCmd(), CSequenceUpdater::x_FuseFeatures(), CAutoDefFeatureClause::x_GetProductName(), CAutoDefNcRNAClause::x_GetProductName(), CFastaOstreamEx::x_GetRNAIdString(), CSeqFeatData::x_InitFeatDataInfo(), CAutoDef::x_Is5SList(), CFeaturePropagator::x_PropagatetRNA(), CFeatureGenerator::SImplementation::x_SetExceptText(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), CMRNAValidator::x_ValidateMrna(), CSingleFeatValidator::x_ValidateNonImpFeat(), CRNAValidator::x_ValidateRnaProductType(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaData(), CRNAValidator::x_ValidateTrnaOverlap(), CRNAValidator::x_ValidateTrnaType(), CGff3Writer::xAssignFeatureAttributeNcrnaClass(), CGff3Writer::xAssignFeatureAttributeNote(), CGff2Writer::xAssignFeatureAttributeProduct(), and CSoMap::xMapNcRna().

GetRsite()

const CSeqFeatData_Base::TRsite & CSeqFeatData_Base::GetRsite

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 448 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Rsite, and CSeqFeatData_Base::m_object.

Referenced by s_GetContentLabel().

GetSame_species()

CInferenceSupport_Base::TSame_species CInferenceSupport_Base::GetSame_species ( void  ) const

inline

Get the Same_species member data.

Returns

Copy of the member data.

Definition at line 590 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Same_species.

GetSeq() [1/2]

const CClone_seq_Base::TSeq & CClone_seq_Base::GetSeq ( void  ) const

inline

Get the Seq member data.

Returns

Reference to the member data.

Definition at line 534 of file Clone_seq_.hpp.

References CClone_seq_Base::CanGetSeq(), CClone_seq_Base::m_Seq, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CClonePlacementGlyph::x_GetCloneEnds(), and CClonePlacementGlyph::x_GetSupportTypeForNonPrototypeEnds().

GetSeq() [2/2]

const CSeqFeatData_Base::TSeq & CSeqFeatData_Base::GetSeq

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 398 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Seq, and CSeqFeatData_Base::m_object.

Referenced by CSeq_featHandler::GetLabel(), and NSearchFeatPanel::s_GetFeatureLabel().

GetSite()

CSeqFeatData_Base::TSite CSeqFeatData_Base::GetSite ( void  ) const

inline

Get the variant data.

Returns

Copy of the variant data.

Definition at line 999 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Site, and CSeqFeatData_Base::m_Site.

Referenced by CSeq_featHandler::GetLabel(), s_CleanCDDFeature(), s_GetContentLabel(), NSearchFeatPanel::s_GetFeatureLabel(), and CSeqFeatData::x_InitFeatDataInfo().

GetSncbi8aa()

const CGenetic_code_Base::C_E::TSncbi8aa & CGenetic_code_Base::C_E::GetSncbi8aa ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 631 of file Genetic_code_.hpp.

GetSncbieaa()

const CGenetic_code_Base::C_E::TSncbieaa & CGenetic_code_Base::C_E::GetSncbieaa ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 611 of file Genetic_code_.hpp.

GetSncbistdaa()

const CGenetic_code_Base::C_E::TSncbistdaa & CGenetic_code_Base::C_E::GetSncbistdaa ( void  ) const

inline

Get the variant data.

Returns

Reference to the data.

Definition at line 651 of file Genetic_code_.hpp.

GetStops()

CCdregion_Base::TStops CCdregion_Base::GetStops ( void  ) const

inline

Get the Stops member data.

Returns

Copy of the member data.

Definition at line 765 of file Cdregion_.hpp.

References CCdregion_Base::CanGetStops(), CCdregion_Base::m_Stops, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_loc_Conversion::ConvertCdregion(), and CSeq_loc_Conversion_Set::ConvertCdregion().

GetSupport() [1/2]

CClone_seq_Base::TSupport CClone_seq_Base::GetSupport ( void  ) const

inline

Get the Support member data.

Returns

Copy of the member data.

Definition at line 583 of file Clone_seq_.hpp.

References CClone_seq_Base::CanGetSupport(), CClone_seq_Base::m_Support, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CClonePlacementGlyph::x_GetCloneEnds(), and CClonePlacementGlyph::x_GetSupportTypeForNonPrototypeEnds().

GetSupport() [2/2]

const CSeq_feat_Base::TSupport & CSeq_feat_Base::GetSupport ( void  ) const

inline

Get the Support member data.

Returns

Reference to the member data.

Definition at line 1502 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetSupport(), CSeq_feat_Base::m_Support, and CSerialObject::ThrowUnassigned().

Referenced by CModifySeqId::x_UpdateFeat().

GetSupports_all_exon_combo() [1/2]

CModelEvidenceItem_Base::TSupports_all_exon_combo CModelEvidenceItem_Base::GetSupports_all_exon_combo ( void  ) const

inline

Get the Supports_all_exon_combo member data.

Returns

Copy of the member data.

Definition at line 523 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Supports_all_exon_combo.

GetSupports_all_exon_combo() [2/2]

CModelEvidenceSupport_Base::TSupports_all_exon_combo CModelEvidenceSupport_Base::GetSupports_all_exon_combo ( void  ) const

inline

Get the Supports_all_exon_combo member data.

Returns

Copy of the member data.

Definition at line 845 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Supports_all_exon_combo.

GetTitle()

const CSeq_feat_Base::TTitle & CSeq_feat_Base::GetTitle ( void  ) const

inline

Get the Title member data.

Returns

Reference to the member data.

Definition at line 1172 of file Seq_feat_.hpp.

References CSeq_feat_Base::CanGetTitle(), CSeq_feat_Base::m_Title, and CSerialObject::ThrowUnassigned().

Referenced by CSeq_featHandler::GetLabel(), CSeq_feat_Handle::GetTitle(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CFindASN1Dlg::ReplaceInFeature(), and NSearchFeatPanel::s_GetFeatureLabel().

GetTxinit()

const CSeqFeatData_Base::TTxinit & CSeqFeatData_Base::GetTxinit

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 492 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Txinit, and CSeqFeatData_Base::m_object.

GetType() [1/2]

CClone_seq_Base::TType CClone_seq_Base::GetType ( void  ) const

inline

Get the Type member data.

Returns

Copy of the member data.

Definition at line 417 of file Clone_seq_.hpp.

References CClone_seq_Base::CanGetType(), CClone_seq_Base::m_Type, and CSerialObject::ThrowUnassigned().

GetType() [2/2]

CInferenceSupport_Base::TType CInferenceSupport_Base::GetType ( void  ) const

inline

Get the Type member data.

Returns

Copy of the member data.

Definition at line 493 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Type.

GetUnique()

CClone_ref_Base::TUnique CClone_ref_Base::GetUnique ( void  ) const

inline

Get the Unique member data.

Returns

Copy of the member data.

Definition at line 562 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Unique.

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), and CClonePlacementGlyph::x_Draw().

GetUser()

const CSeqFeatData_Base::TUser & CSeqFeatData_Base::GetUser

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 470 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_User, and CSeqFeatData_Base::m_object.

Referenced by CRemoveGenomeProjectsDB::apply_to_seq_and_feat(), CRemoveStructuredComment::apply_to_seq_and_feat(), CBedFeatureRecord::AssignDisplayData(), CLDBlockGlyph::CLDBlockGlyph(), CUserFeatHandler::GetLabel(), s_GetContentLabel(), s_PassesFilter(), and CLDBlockJob::x_LoadFtable().

GetVal()

const CGb_qual_Base::TVal & CGb_qual_Base::GetVal ( void  ) const

inline

Get the Val member data.

Returns

Reference to the member data.

Definition at line 259 of file Gb_qual_.hpp.

References CGb_qual_Base::CanGetVal(), CGb_qual_Base::m_Val, and CSerialObject::ThrowUnassigned().

Referenced by CkQualEcnum(), CkQualMatchToken(), CkQualNote(), CkQualPosaa(), CkQualPosSeqaa(), CkQualSeqaa(), CkQualSite(), CkQualText(), CkQualTokenType(), CGb_qual::Compare(), ConvertQualifierValue(), DbxrefQualToDbtag(), CFlatIllegalQVal::Format(), CNewCleanup_imp::GBQualBC(), NSnp::GetAlleles(), GetCitSerialFromQual(), CSeq_featHandler::GetLabel(), GetSourceDbtag(), CEditingActionFeatGbQual::GetValue(), CEditingActionFeatDualVal1::GetValue(), CEditingActionFeatDualVal2::GetValue(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatTranslExcept::GetValue(), CEditingActionFeatRnaQual::GetValue(), CEditingActionFeatRegion::GetValue(), CEditingActionFeatCodonStart::GetValue(), CEditingActionFeatTranslTable::GetValue(), CEditingActionFeatDesc::GetValue(), CEditingActionFeatLocus_tag::GetValue(), CEditingActionFeatMaploc::GetValue(), CEditingActionFeatSynonym::GetValue(), CEditingActionFeatAllele::GetValue(), CEditingActionFeatActivity::GetValue(), CEditingActionFeatTranslation::GetValue(), CEditingActionFeatEcNumber::GetValue(), CEditingActionFeatFunction::GetValue(), CEditingActionFeatProduct::GetValue(), CEditingActionFeatGeneLocus::GetValue(), CEditingActionFeatTranscriptId::GetValue(), CEditingActionFeatDualVal1::IsSetValue(), CEditingActionFeatDualVal2::IsSetValue(), NSnp::IsSnpKnown(), SSNP_Info::ParseSeq_feat(), CEditingActionFeatDualVal1::ResetValue(), CEditingActionFeatDualVal2::ResetValue(), s_CleanupIsShortrRNA(), s_Fingerprint_Gb_qual(), s_ParseParentQual(), SetExceptFromGbqual(), CEditingActionFeatDualVal1::SetValue(), CEditingActionFeatDualVal2::SetValue(), CGBQualPanel::TransferDataFromWindow(), CtRNAProductPanel::TransferDataToWindow(), CGBQualPanel::Update_tRNA_ProductQual(), CFeatureItem::x_AddFTableQuals(), CFeatureItem::x_AddQualOldLocusTag(), CNewCleanup_imp::x_CleanupRptUnit(), CCmdFeatIdXrefsFromQualifiers::x_CreateActionCmd(), CPromote::x_GetProductId(), CSatelliteTypeNameColumn::x_IsQualAMatch(), CNewCleanup_imp::x_ProtGBQualBC(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CNewCleanup_imp::x_SeqFeatRnaGBQualBC(), CSingleFeatValidator::x_ValidateGbQual(), CSingleFeatValidator::x_ValidateGeneXRef(), CGeneValidator::x_ValidateOperon(), and CGff2Writer::xAssignFeatureAttributeExonNumber().

GetVariation()

const CSeqFeatData_Base::TVariation & CSeqFeatData_Base::GetVariation

(

void

)

const

Get the variant data.

Returns

Reference to the data.

Definition at line 592 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::e_Variation, and CSeqFeatData_Base::m_object.

Referenced by CVariationNormalization::AlterToDelIns(), variation_ref::CHgvsParser::AsHgvsExpression(), CGvfWriteRecord::AssignSource(), CGvfWriteRecord::AssignType(), variation::CVariationUtil::AsVariation(), variation_ref::CVariationUtil::CheckExonBoundary(), CVariationNormalizationDelIns::ConvertExpandedDeletionToDelIns(), CVariationNormalizationDelIns::ConvertExpandedInsertionToDelIns(), CVariationUtilities::CorrectRefAllele(), g_ValidateVariationSeqfeat(), CFeatGlyph::GetCustomColorIdx(), CSeq_featHandler::GetLabel(), NSnpGui::GetVcfType(), CVariationUtilities::IsReferenceCorrect(), variation_ref::CVariationUtil::PrecursorToProt(), variation_ref::CVariationUtil::ProtToPrecursor(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetVariationLabel(), CGvfWriteRecord::x_AssignAttributeID(), CGvfWriteRecord::x_AssignAttributeName(), CGvfWriteRecord::x_AssignAttributeParent(), variation_ref::CVariationUtil::x_SetVariantProperties(), CVariationNormalization_base< T >::x_Shift(), CVcfWriter::x_WriteFeature(), CVcfWriter::x_WriteFeatureId(), and CVcfWriter::x_WriteFeatureInfo().

GetVersion()

const CProgram_id_Base::TVersion & CProgram_id_Base::GetVersion ( void  ) const

inline

Get the Version member data.

Returns

Reference to the member data.

Definition at line 259 of file Program_id_.hpp.

References CProgram_id_Base::CanGetVersion(), CProgram_id_Base::m_Version, and CSerialObject::ThrowUnassigned().

GetXref()

const CSeq_feat_Base::TXref & CSeq_feat_Base::GetXref ( void  ) const

inline

Get the Xref member data.

Returns

Reference to the member data.

Definition at line 1308 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Xref.

Referenced by CThreeFeatRecord::AddFeature(), AdjustProteinFeature(), CGffRecord::AssignAttributesCore(), BOOST_AUTO_TEST_CASE(), CSequenceEditingEventHandler::CDSGeneRangeErrorRestore(), CmRNACDSLinker::CompleteHalfFormedXrefPairs(), CCleanup::ExpandGeneToIncludeChildren(), CCrossRefFeatsDlg::GetCommand(), CGeneFeatFromXrefs::GetCommand(), CGeneRefColumn::GetFromFeat(), GetGeneForFeature(), CSeq_feat::GetGeneXref(), GetmRNAforCDS(), GetProductName(), CSeq_feat::GetProtXref(), CSeq_feat_Handle::GetXref(), CSeq_feat::HasSeqFeatXref(), IsGeneInXref(), CDiscrepancyContext::IsPseudo(), IsPseudo(), TAsyncToken::ParentGene(), TAsyncToken::ParentMrna(), CRemoveGeneXrefs::RemoveAll(), NMacroUtil::RemoveGeneXref(), IEditingActionFeat::RemoveGeneXref(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), s_GetProductName(), s_GetProteinNameFromXrefOrQual(), s_HasFeatXref(), CCleanup::s_IsProductOnFeat(), s_IsRelated(), CIdentifiersPanel::SetIdXrefs(), sFeatureHasXref(), sGetCdsProductName(), sx_GeneIsSuppressed(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_RemoveGeneXref::TheFunction(), TranslateCDSCommand(), CValidError_feat::ValidateSeqFeatXref(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CEditObjectSeq_feat::x_HandleCdsProduct(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CValidError_feat::x_HasNonReciprocalXref(), CIdentifiersPanel::x_IsReciprocalXref(), CSeq_annot_Info::x_MapFeatIds(), CXcompareAnnotsApplication::x_ProcessComparison(), CPromote::x_PromoteCdregion(), CMacroFunction_SwapRelFeatQual::x_SetOrCreateDestFeatFields(), CSeq_annot_Info::x_UnmapFeatIds(), and CSingleFeatValidator::x_ValidateGeneXRef().

IsBiosrc()

bool CSeqFeatData_Base::IsBiosrc ( void  ) const

inline

Check if variant Biosrc is selected.

Biosrc type is defined as 'typedef CBioSource TBiosrc'.

Returns

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

Definition at line 1111 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Biosrc, and CSeqFeatData_Base::m_choice.

Referenced by CQualLookupMap::AddFeat(), CDiscrepancyContext::CParseNode::AddFeature(), CFlatFileTextItem::CFlatFileTextItem(), CSrcTableColumnBase::ClearVal(), CEditObjectSeq_feat::CreateWindowImpl(), FeatValidatorFactory(), CLowerQuals::GetCommand(), GetFeatNameAndLoc(), CMiscSeqTableColumn::GetRelatedApplyObjects(), CFlatFileGenerator::GetSeqFeatText(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CSrcTableColumnBase::GetVal(), CSrcTableColumnBase::GetVals(), CFindASN1Dlg::ReplaceInFeature(), CMiscSeqTableColumn::SetVal(), USING_SCOPE(), CValidError_imp::Validate(), CValidError_bioseq::ValidateSeqDescContext(), CValidErrorFormat::x_FormatBadInstCodeForSubmitterReport(), CValidErrorFormat::x_FormatBadSpecificHostForSubmitterReport(), x_GetSourceFeatViaCDS(), and CBioseqContext::x_SetTaxname().

IsBond()

bool CSeqFeatData_Base::IsBond ( void  ) const

inline

Check if variant Bond is selected.

Bond type is defined as 'typedef EBond TBond'.

Returns

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

Definition at line 966 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Bond, and CSeqFeatData_Base::m_choice.

Referenced by CEditObjectSeq_feat::CreateWindowImpl(), CFeatureItem::x_AddQualsBond(), and CSingleFeatValidator::x_HasSeqLocBond().

IsCdregion()

bool CSeqFeatData_Base::IsCdregion ( void  ) const

inline

Check if variant Cdregion is selected.

Cdregion type is defined as 'typedef CCdregion TCdregion'.

Returns

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

Definition at line 898 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Cdregion, and CSeqFeatData_Base::m_choice.

Referenced by AddColumnsToFeatureTable(), CImportFeatTable::AddSeqAnnotToSeqEntry(), CCodonStartColumn::AddToFeature(), CGeneticCodeColumn::AddToFeature(), CReportTrim::AdjustAndTranslate(), AdjustCdregionFrame(), CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustFeatureEnd5(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CFeatGapInfo::AdjustForRelevantGapIntervals(), AdjustFrameFor5Extension(), AdjustSingleFeature(), CFeatTrim::Apply(), CMRnaForCDS::apply_to(), CApplyObject::ApplyChange(), ApplyFeatureSeqTableToSeqEntry(), ApplyPolicyToFeature(), BOOST_AUTO_TEST_CASE(), CCDSTranslationProblems::CalculateTranslationProblems(), CNewCleanup_imp::CdRegionEC(), CCodonStartColumn::ClearInFeature(), CGeneticCodeColumn::ClearInFeature(), CmRNACDSLinker::CompleteHalfFormedXrefPairs(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), ConvertToMiscFeature(), CEditObjectSeq_feat::CreateWindowImpl(), CValidError_feat::DoesCDSHaveShortIntrons(), DoesFeatureHaveUnnecessaryException(), CEditSequenceEnds::Extend3(), CEditSequenceEnds::Extend5(), ExtendCDSToStopCodon(), ExtendToStopCodon(), FeatValidatorFactory(), CSeqTranslator::FindBestFrame(), TAsyncToken::FindGeneByLocusTag(), TAsyncToken::FindMrnaByQual(), CCleanup::FixRNAEditingCodingRegion(), fta_rnas_cds_feat(), IEditingAction::GetActionCommand(), CGeneFinder::GetAssociatedGeneInfo(), CConvertBadCdsAndRnaToMiscFeat::getBacterialPartialNonextendable(), CConvertBadCdsAndRnaToMiscFeat::getCdsRnaOverlap(), CCleanup::GetCodeBreakForLocation(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CExtendPartialFeatDlg::GetCommand(), CFuseFeaturesDlg::GetCommand(), CEditCdsFrame::GetCommand(), CEditObjectSeq_feat::GetEditCommand(), GetEditLocationCommand(), GetFeatNameAndLoc(), CEditSequence::GetFeatures(), CCodonStartColumn::GetFromFeat(), CGeneticCodeColumn::GetFromFeat(), GetLastPartialCodonLength(), CCDSTranslationProblems::GetNonsenseIntrons(), CmRNACDSLinker::GetReferencedmRNA_CDS(), GetRetranslateCDSCommand(), CmRNAFromGeneCdsExon::GetSuggestedName(), GetSynchronizeProductMolInfoCommand(), GetSynchronizeProteinPartialsCommand(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CEditingActionFeatCodonStart::GetValue(), CEditingActionFeatTranslTable::GetValue(), CAsn2FastaApp::HandleSeqEntry(), HasBadProteinStart(), HasBadStartCodon(), HasInternalStop(), HasStopInProtein(), CLocationEditPolicy::Interpret3Policy(), CLocationEditPolicy::Interpret5Policy(), IsLocationInFrame(), CEditingActionFeatCodonStart::IsSetValue(), CEditingActionFeatTranslTable::IsSetValue(), CFeatComparatorByLabel::Less(), CmRNACDSLinker::LinkByLabelAndLocation(), CmRNACDSLinker::LinkSelectedFeatures(), CEditingActionFeatTranslExcept::Modify(), CDesktopViewContext::OnCutSelection(), CCleanup::ParseCodeBreaks(), ProductToSource(), CFeaturePropagator::PropagateFeatureList(), CFeatureGenerator::SImplementation::RecomputePartialFlags(), CDiscrepancyPanel::recursiveCdsTrnaOverlap(), CCleanup::RemovePseudoProduct(), CEditingActionFeatCodonStart::ResetValue(), CEditingActionFeatTranslTable::ResetValue(), RestoreModelFromPublicMrnaFeature(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), CAddGlobalCodeBreak::RetranslateCDSCommand(), CExtendCDSToStop::RetranslateCDSCommand(), s_CompareFtables(), ApplyCDSFrame::s_FindMatchingFrame(), CMacroFunction_ApplyCDSFrame::s_FindMatchingFrame(), s_FixIntervalProtToCds(), s_GetBestGeneForFeat(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), s_GetFeatureLabel(), s_IsCCDS(), CSequenceUpdater::s_OffsetFeature(), ApplyCDSFrame::s_SetCDSFrame(), CMacroFunction_ApplyCDSFrame::s_SetCDSFrame(), s_SetUpXrefPairs(), s_UpdateCodeBreaksAndAnticodons(), ScannGeneName(), CCleanup::SetCodeBreakLocation(), variation::CHgvsParser::CContext::SetId(), variation_ref::CHgvsParser::CContext::SetId(), SetTranslExcept(), CEditingActionFeatCodonStart::SetValue(), CEditingActionFeatTranslTable::SetValue(), CEditingActionFeatFunction::SetValue(), SourceToProduct(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_ApplyCDSFrame::TheFunction(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), CSeqTranslator::Translate(), CCdregion_translate::TranslateCdregion(), CSeqTranslator::TranslateToProtein(), TrimStopsFromCompleteCDS(), UpdateFeat(), CValidError_bioseq::ValidateFeatPartialInContext(), CValidError_feat::ValidateOneFeatXrefPair(), CValidError_bioseq::ValidateSeqFeatContext(), CFastaOstreamEx::WriteFeature(), CFeatureItem::x_AddProductIdQuals(), CFastaOstreamEx::x_AddProteinIdAttribute(), CFastaOstreamEx::x_AddProteinNameAttribute(), CFeatureItem::x_AddQualDbXref(), CFastaOstreamEx::x_AddReadingFrameAttribute(), CFastaOstreamEx::x_AddTranslationExceptionAttribute(), CReportTrim::x_AdjustCdregionFrame(), CFeatGapInfo::x_AdjustCodebreaks(), CSequenceUpdater::x_AttachFeaturesToNewSeq(), CCleanupApp::x_BatchExtendCDS(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CFeatureGenerator::SImplementation::x_CheckInconsistentDbxrefs(), CCorrectGenesDialog::x_CorrectOnePair(), CCDSTranslationProblems::x_CountNonsenseIntrons(), CSGAlignmentJob::x_CreateFeatGlyph(), CGeneModelFeatJob::x_CreateFeature2(), CImportFeatTable::x_DoImportCDS(), CAdjustFeaturesForGaps::x_DoOne(), CFeaturePropagator::x_ExtendToStopCodon(), CSequenceUpdater::x_FuseProtFeatsForCDS(), CFlatGatherer::x_GatherFeaturesOnRange(), CFlatGatherer::x_GatherFeaturesOnRangeIdx(), CFlatGatherer::x_GatherFeaturesOnWholeLocation(), CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(), CFastaOstreamEx::x_GetCodeBreak(), CCreateGeneModelTask::x_GetCommand(), CSingleFeatValidator::x_GetFeatureProduct(), CGuiObjectInfoSeq_feat::x_GetLocLengthRow(), CSequenceUpdater::x_GetSeqAnnot_WithoutCDS(), CCDSTranslationProblems::x_GetTranslExceptProblems(), variation::CVariationUtil::CVariantPropertiesIndex::x_Index(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CGeneModelFeatJob::x_IsCCDS(), CGenericPropsPanel::x_IsCds(), CGeneModelFeatJob::x_IsnpcGene(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CValidError_bioseq::x_MatchesOverlappingFeaturePartial(), CGFFReader::x_ParseFeatRecord(), variation::CHgvsParser::x_PlacementCoordsToStr(), CPromote::x_PromoteCdregion(), CPromote::x_PromoteFeatures(), CSequenceUpdater::x_RemoveNewIDInFeature(), CValidError_bioseq::x_ReportGeneOverlapError(), CSingleFeatValidator::x_ReportPseudogeneConflict(), CValidError_bioseq::x_ReportStartStopPartialProblem(), CCdregionValidator::x_ReportTranslationMismatches(), variation_ref::CHgvsParser::x_SeqLocToStr(), CFeatureGenerator::SImplementation::x_SetCommentForGapFilledModel(), CFeatureGenerator::SImplementation::x_SetExceptText(), CMacroFunction_SwapRelFeatQual::x_SetOrCreateDestFeatFields(), CEditObjectSeq_feat::x_SetTranslExcept(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), CCdregionValidator::x_ValidateCDSPeptides(), CCdregionValidator::x_ValidateFarProducts(), CSingleFeatValidator::x_ValidateSeqFeatLoc(), CGff2Writer::xAssignFeatureAttributeCodeBreak(), CGff2Writer::xAssignFeatureAttributeTranslationTable(), CGff3Reader::xPostProcessAnnot(), and CFastaOstreamEx::xWriteFeatureTitle().

IsClone()

bool CSeqFeatData_Base::IsClone ( void  ) const

inline

Check if variant Clone is selected.

Clone type is defined as 'typedef CClone_ref TClone'.

Returns

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

Definition at line 1117 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Clone, and CSeqFeatData_Base::m_choice.

Referenced by CReportTrim::AdjustAndTranslate(), and CModifySeqId::x_UpdateFeat().

IsComment()

bool CSeqFeatData_Base::IsComment ( void  ) const

inline

Check if variant Comment is selected.

Returns

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

Definition at line 954 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Comment, and CSeqFeatData_Base::m_choice.

Referenced by CEditObjectSeq_feat::CreateWindowImpl(), CEditObjectSeq_feat::x_ConvertCommentToMiscFeat(), and CCommentItem::x_GatherFeatInfo().

IsGene()

bool CSeqFeatData_Base::IsGene ( void  ) const

inline

Check if variant Gene is selected.

Gene type is defined as 'typedef CGene_ref TGene'.

Returns

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

Definition at line 886 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Gene, and CSeqFeatData_Base::m_choice.

Referenced by AddColumnsToFeatureTable(), CDescriptionColumn::AddToFeature(), CGeneRefColumn::AddToFeature(), CClearNomenclature::apply(), ApplyFeatureSeqTableToSeqEntry(), CBedFeatureRecord::AssignName(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CDescriptionColumn::ClearInFeature(), CGeneRefColumn::ClearInFeature(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CEditObjectSeq_feat::CreateWindowImpl(), FeatValidatorFactory(), CNewCleanup_imp::GeneFeatBC(), CEditSequenceEnds::GetCommand(), CGeneXrefsFromFeats::GetCommand(), GetFeatNameAndLoc(), CDescriptionColumn::GetFromFeat(), CGeneRefColumn::GetFromFeat(), GetIsLength(), GetLocusTagForFeature(), NMacroUtil::GetLocusTagFromProtRef(), CmRNAFromGeneCdsExon::GetSuggestedName(), CtRNAFromGene::GetSuggestedName(), CCdsFromGeneMrnaExon::GetSuggestedName(), CGeneFinder::GetSuppressionCheckGeneRef(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CEditingActionFeatDesc::GetValue(), CEditingActionFeatLocus_tag::GetValue(), CEditingActionFeatMaploc::GetValue(), CEditingActionFeatAllele::GetValue(), CEditingActionFeatGeneLocus::GetValue(), CAsn2FastaApp::HandleSeqEntry(), CCleanup::IsGeneXrefUnnecessary(), CDiscrepancyContext::IsPseudo(), CGeneCache::IsPseudo(), IsPseudo(), CEditingActionFeatDesc::IsSetValue(), CEditingActionFeatLocus_tag::IsSetValue(), CEditingActionFeatMaploc::IsSetValue(), CEditingActionFeatAllele::IsSetValue(), CEditingActionFeatGeneLocus::IsSetValue(), CFeatComparatorByLabel::Less(), CEditingActionFeatSynonym::Modify(), CCleanup::NormalizeGeneQuals(), CReadBlastApp::overlaps_prot_na(), CValidError_imp::PostErr(), CGeneFinder::CGeneSearchPlugin::processMainLoop(), CFeatureGenerator::SImplementation::RecomputePartialFlags(), CCleanup::RepairXrefs(), CFindASN1Dlg::ReplaceInFeature(), CEditingActionFeatDesc::ResetValue(), CEditingActionFeatLocus_tag::ResetValue(), CEditingActionFeatMaploc::ResetValue(), CEditingActionFeatAllele::ResetValue(), CEditingActionFeatGeneLocus::ResetValue(), CGeneFinder::ResolveGeneObjectId(), s_CompareFtables(), variation::CVariationUtil::CVariantPropertiesIndex::s_GetGeneID(), CCompareSeqRegions::s_GetGeneId(), s_GetGeneTextLabel(), CSingleFeatValidator::s_IsPseudo(), CCleanup::SetGenePartialByLongestContainedFeature(), CSeq_feat::SetGeneXref(), CEditingActionFeatDesc::SetValue(), CEditingActionFeatLocus_tag::SetValue(), CEditingActionFeatMaploc::SetValue(), CEditingActionFeatSynonym::SetValue(), CEditingActionFeatAllele::SetValue(), CEditingActionFeatGeneLocus::SetValue(), sGetClosestGeneRef(), CSingleFeatValidator::Validate(), CValidError_feat::ValidateOneFeatXrefPair(), CValidError_bioseq::ValidateRawConst(), CValidError_feat::ValidateSeqFeatXref(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFastaOstreamEx::x_AddGeneAttributes(), CImportFeatTable::x_CreateCommand(), CDeflineGenerator::x_GetGeneRefViaCDS(), CAdjustFeaturesForGaps::x_GetGenesForFeatures(), CValidErrorFormat::x_GetLocusTag(), CCreateGeneModelTask::x_GetUpdatedGeneCommand(), CCreateGeneModelTask::x_Group_By_GeneID(), variation::CVariationUtil::CVariantPropertiesIndex::x_Index(), CGeneModelFeatJob::x_IsCCDS(), CGeneModelFeatJob::x_IsncRNA(), CGeneModelFeatJob::x_IsnpcGene(), x_IsPseudo(), CValidError_bioseq::x_IsSameAsCDS(), CValidError_bioseq::x_MatchesOverlappingFeaturePartial(), CXcompareAnnotsApplication::x_ProcessComparison(), CCdregionValidator::x_ValidateCDSPeptides(), CSingleFeatValidator::x_ValidateFeatPartialness(), CSingleFeatValidator::x_ValidateGeneXRef(), CSingleFeatValidator::x_ValidateNonGene(), CGff2Writer::xAssignFeatureAttributeDbxref(), CGff2Writer::xAssignFeatureAttributeGeneBiotype(), CGff2Writer::xAssignFeatureAttributeMapLoc(), CGff2Writer::xAssignFeatureAttributeOldLocusTag(), CGff2Writer::xAssignFeatureAttributesGene(), CGtfAnnotAssembler::xFeatureSetQualifiers(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatureTableReader::xTranslateProtein(), CGff3Reader::xUpdateAnnotExon(), and CFastaOstreamEx::xWriteFeatureTitle().

IsGeneral()

bool CFeat_id_Base::IsGeneral ( void  ) const

inline

Check if variant General is selected.

General type is defined as 'typedef CDbtag TGeneral'.

Returns

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

Definition at line 359 of file Feat_id_.hpp.

References CFeat_id_Base::e_General, and CFeat_id_Base::m_choice.

Referenced by CValidErrorFormat::GetFeatureIdLabel().

IsGibb()

bool CFeat_id_Base::IsGibb ( void  ) const

inline

Check if variant Gibb is selected.

Gibb type is defined as 'typedef int TGibb'.

Returns

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

Definition at line 320 of file Feat_id_.hpp.

References CFeat_id_Base::e_Gibb, and CFeat_id_Base::m_choice.

IsGiim()

bool CFeat_id_Base::IsGiim ( void  ) const

inline

Check if variant Giim is selected.

Giim type is defined as 'typedef CGiimport_id TGiim'.

Returns

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

Definition at line 347 of file Feat_id_.hpp.

References CFeat_id_Base::e_Giim, and CFeat_id_Base::m_choice.

IsHet()

bool CSeqFeatData_Base::IsHet ( void  ) const

inline

Check if variant Het is selected.

Het type is defined as 'typedef CHeterogen THet'.

Returns

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

Definition at line 1091 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Het, and CSeqFeatData_Base::m_choice.

Referenced by CFeatureItem::x_AddQualsHet(), and CSingleFeatValidator::x_HasSeqLocBond().

IsId()

bool CGenetic_code_Base::C_E::IsId ( void  ) const

inline

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 518 of file Genetic_code_.hpp.

Referenced by CpGeneticCodePtr().

IsImp()

bool CSeqFeatData_Base::IsImp ( void  ) const

inline

Check if variant Imp is selected.

Imp type is defined as 'typedef CImp_feat TImp'.

Returns

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

Definition at line 928 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Imp, and CSeqFeatData_Base::m_choice.

Referenced by CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), BOOST_AUTO_TEST_CASE(), CkCdRegion(), CEditObjectSeq_feat::CreateWindowImpl(), FeatValidatorFactory(), fta_rnas_cds_feat(), GetFeatNameAndLoc(), GetRnaRef(), CmRNAFromGeneCdsExon::GetSuggestedName(), CCdsFromGeneMrnaExon::GetSuggestedName(), IfCDSGeneFeat(), IsSiteRef(), LoadFeat(), CCleanup::MoveFeatToProtein(), CGBQualPanel::PanelNeeded(), CFindASN1Dlg::ReplaceInFeature(), s_GetImpLabel(), s_IsPreprotein(), s_LocIsFuzz(), CFeatureItem::x_AddQualsRegulatoryClass(), CValidError_bioseq::x_ReportDupOverlapFeaturePair(), CSingleFeatValidator::x_ValidateGbquals(), CSingleFeatValidator::x_ValidateImpFeatLoc(), CSingleFeatValidator::x_ValidateImpFeatQuals(), CSingleFeatValidator::x_ValidateNonImpFeat(), and CSingleFeatValidator::x_ValidateSeqFeatLoc().

IsLocal()

bool CFeat_id_Base::IsLocal ( void  ) const

inline

Check if variant Local is selected.

Local type is defined as 'typedef CObject_id TLocal'.

Returns

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

Definition at line 353 of file Feat_id_.hpp.

References CFeat_id_Base::e_Local, and CFeat_id_Base::m_choice.

Referenced by CThreeFeatRecord::AddFeature(), CFeatureGenePanel::AddReciprocicalXref(), AddToFeatureIdColumn(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustSingleFeature(), CmRNACDSLinker::AssignFeatureIds(), CAssignFeatureId::AssignHighestFeatureId(), CSeq_annot_Info::ClearFeatIds(), FixFeatureIdsForUpdates(), CValidErrorFormat::GetFeatureIdLabel(), CFeatComparatorByLabel::Less(), CmRNACDSLinker::LinkSelectedFeatures(), SFeats_OpLess::operator()(), CFeaturePropagator::PropagateFeatureList(), RemapOtherProtFeats(), CSeq_annot_Info::RemoveFeatId(), CCleanup::RepairXrefs(), CmRNACDSLinker::ReplaceExistingXrefs(), CGeneFinder::ResolveGeneObjectId(), CCreateGeneModelTask::s_AssignFeatureIds(), s_FeatureIdsMatch(), CCreateGeneModelTask::s_FeaturesHaveIDs(), s_FindHighestFeatId(), CCreateGeneModelTask::s_FindHighestFeatId(), s_HasId(), s_IdXrefsAreReciprocal(), s_IdXrefsNotReciprocal(), s_IsRelated(), CFixFeatureId::s_ReassignFeatureIds(), s_UpdateFeatureId(), sFeatureHasXref(), CValidError_imp::Validate(), CValidError_feat::ValidateSeqFeatXref(), CCmdAssignFeatLocalIds::x_CreateActionCmd(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CValidError_bioseq::x_IdXrefsNotReciprocal(), CXcompareAnnotsApplication::x_ProcessComparison(), CCleanupHugeAsnReader::x_RecordFeatureId(), CThreeFeatManager::xFindExistingRecord(), and CFeatTableEdit::xGenerateTranscriptOrProteinId().

IsName()

bool CGenetic_code_Base::C_E::IsName ( void  ) const

inline

Check if variant Name is selected.

Name type is defined as 'typedef string TName'.

Returns

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

Definition at line 498 of file Genetic_code_.hpp.

IsNcbi8aa() [1/2]

bool CCode_break_Base::C_Aa::IsNcbi8aa ( void  ) const

inline

Check if variant Ncbi8aa is selected.

Ncbi8aa type is defined as 'typedef int TNcbi8aa'.

Returns

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

Definition at line 442 of file Code_break_.hpp.

IsNcbi8aa() [2/2]

bool CGenetic_code_Base::C_E::IsNcbi8aa ( void  ) const

inline

Check if variant Ncbi8aa is selected.

Ncbi8aa type is defined as 'typedef vector< char > TNcbi8aa'.

Returns

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

Definition at line 565 of file Genetic_code_.hpp.

IsNcbieaa() [1/2]

bool CCode_break_Base::C_Aa::IsNcbieaa ( void  ) const

inline

Check if variant Ncbieaa is selected.

Ncbieaa type is defined as 'typedef int TNcbieaa'.

Returns

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

Definition at line 415 of file Code_break_.hpp.

Referenced by CSeqTranslator::Translate(), and CSeqTranslator::TranslateToProtein().

IsNcbieaa() [2/2]

bool CGenetic_code_Base::C_E::IsNcbieaa ( void  ) const

inline

Check if variant Ncbieaa is selected.

Ncbieaa type is defined as 'typedef string TNcbieaa'.

Returns

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

Definition at line 545 of file Genetic_code_.hpp.

IsNcbistdaa() [1/2]

bool CCode_break_Base::C_Aa::IsNcbistdaa ( void  ) const

inline

Check if variant Ncbistdaa is selected.

Ncbistdaa type is defined as 'typedef int TNcbistdaa'.

Returns

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

Definition at line 469 of file Code_break_.hpp.

IsNcbistdaa() [2/2]

bool CGenetic_code_Base::C_E::IsNcbistdaa ( void  ) const

inline

Check if variant Ncbistdaa is selected.

Ncbistdaa type is defined as 'typedef vector< char > TNcbistdaa'.

Returns

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

Definition at line 585 of file Genetic_code_.hpp.

IsNon_std_residue()

bool CSeqFeatData_Base::IsNon_std_residue ( void  ) const

inline

Check if variant Non_std_residue is selected.

Non_std_residue type is defined as 'typedef string TNon_std_residue'.

Returns

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

Definition at line 1071 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Non_std_residue, and CSeqFeatData_Base::m_choice.

Referenced by CFeatureItem::x_AddQualsNonStd().

IsNum()

bool CSeqFeatData_Base::IsNum ( void  ) const

inline

Check if variant Num is selected.

Num type is defined as 'typedef CNumbering TNum'.

Returns

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

Definition at line 1038 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Num, and CSeqFeatData_Base::m_choice.

IsOrg()

bool CSeqFeatData_Base::IsOrg ( void  ) const

inline

Check if variant Org is selected.

Org type is defined as 'typedef COrg_ref TOrg'.

Returns

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

Definition at line 892 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Org, and CSeqFeatData_Base::m_choice.

Referenced by CFindASN1Dlg::ReplaceInFeature().

IsProt()

bool CSeqFeatData_Base::IsProt ( void  ) const

inline

Check if variant Prot is selected.

Prot type is defined as 'typedef CProt_ref TProt'.

Returns

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

Definition at line 904 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Prot, and CSeqFeatData_Base::m_choice.

Referenced by AddColumnsToFeatureTable(), CDescriptionColumn::AddToFeature(), CProtRefColumn::AddToFeature(), CFixProductNames::apply(), CDescriptionColumn::ClearInFeature(), CProtRefColumn::ClearInFeature(), CConvertCDSToProt::Convert(), CCdsToMatPeptide::ConvertInner(), ConvertProteinToImp(), CEditObjectSeq_feat::CreateWindowImpl(), CEditingBtnsPanel::ECNumberCleanup(), FeatValidatorFactory(), CTruncateCDS::GetCommand(), CProductColumn::GetFromFeat(), CDescriptionColumn::GetFromFeat(), CProtRefColumn::GetFromFeat(), NMacroUtil::GetLocusTagFromProtRef(), GetProductForCDS(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CEditingActionFeatDesc::GetValue(), CEditingActionFeatDesc::IsSetValue(), ListGappedFeatures(), LookForProductName(), CEditingActionFeatActivity::Modify(), CEditingActionFeatEcNumber::Modify(), CEditingActionFeatFunction::Modify(), CEditingActionFeatProduct::Modify(), CCleanup::MoveFeatToProtein(), CRestoreRNAediting::OnApply(), CSuspectProductRulesEditor::OnApplyFixes(), CSuspectProductRulesEditor::OnListMatches(), CUpdateECNumbers::operator()(), CFindASN1Dlg::ReplaceInFeature(), RescueProtProductQual(), CEditingActionFeatDesc::ResetValue(), s_IsPreprotein(), CSeq_feat::SetProtXref(), CEditingActionFeatDesc::SetValue(), CEditingActionFeatActivity::SetValue(), CEditingActionFeatEcNumber::SetValue(), CEditingActionFeatFunction::SetValue(), CEditingActionFeatProduct::SetValue(), sGetCdsProductName(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_FixProteinFormat::TheFunction(), CValidError_feat::ValidateSeqFeatContext(), CFastaOstreamEx::x_AddProteinNameAttribute(), CFeatureItem::x_AddQualsProt(), CSequenceUpdater::x_AdjustProteinFeature(), CValidErrorFormat::x_FormatECNumberForSubmitterReport(), CPromote::x_PromoteCdregion(), CFeatModApply::x_SetProtein(), CGff3Writer::xWriteFeatureCds(), and CGff3Writer::xWriteProteinFeature().

IsPsec_str()

bool CSeqFeatData_Base::IsPsec_str ( void  ) const

inline

Check if variant Psec_str is selected.

Psec_str type is defined as 'typedef EPsec_str TPsec_str'.

Returns

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

Definition at line 1044 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Psec_str, and CSeqFeatData_Base::m_choice.

Referenced by CEditObjectSeq_feat::CreateWindowImpl(), and CFeatureItem::x_AddQualsPsecStr().

IsPub()

bool CSeqFeatData_Base::IsPub ( void  ) const

inline

Check if variant Pub is selected.

Pub type is defined as 'typedef CPubdesc TPub'.

Returns

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

Definition at line 916 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Pub, and CSeqFeatData_Base::m_choice.

Referenced by CDiscrepancyContext::CParseNode::AddFeature(), CPubField::ClearVal(), CEditObjectSeq_feat::CreateWindowImpl(), CReferenceItem::CReferenceItem(), FeatValidatorFactory(), GetAuthList(), GetPubTitle(), CPubField::GetRelatedObjects(), CEditPubDlg::GetSelectedPub(), CPubField::GetStatus(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CPubField::GetVal(), CPubField::GetVals(), CFindASN1Dlg::ReplaceInFeature(), and CPromote::x_PromoteFeatures().

IsRegion()

bool CSeqFeatData_Base::IsRegion ( void  ) const

inline

Check if variant Region is selected.

Region type is defined as 'typedef string TRegion'.

Returns

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

Definition at line 934 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Region, and CSeqFeatData_Base::m_choice.

Referenced by CBedFeatureRecord::AssignName(), CEditObjectSeq_feat::CreateWindowImpl(), CRegionColumn::GetFromFeat(), CEditingActionFeatRegion::GetValue(), CEditingActionFeatRegion::IsSetValue(), CFindASN1Dlg::ReplaceInFeature(), CEditingActionFeatRegion::ResetValue(), s_CleanCDDFeature(), s_GetClipLoc(), NSearchFeatPanel::s_GetCustomLabel(), s_IsCDDFeat(), CClippedScorer::ScoreAlignments(), CEditingActionFeatRegion::SetValue(), CFeatureItem::x_AddQualsRegion(), and CSeq_featHandler::x_GetCustomLabel().

IsRna()

bool CSeqFeatData_Base::IsRna ( void  ) const

inline

Check if variant Rna is selected.

Rna type is defined as 'typedef CRNA_ref TRna'.

Returns

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

Definition at line 910 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Rna, and CSeqFeatData_Base::m_choice.

Referenced by AddMiscRNAFeatures(), CProductColumn::AddToFeature(), CReportTrim::AdjustAndTranslate(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CFixProductNames::apply(), BOOST_AUTO_TEST_CASE(), CEditObjectSeq_feat::CanClose(), CProductColumn::ClearInFeature(), CDiscrepancyContext::CollectFeature(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), ConvertToMiscFeature(), CEditObjectSeq_feat::CreateWindowImpl(), FeatValidatorFactory(), fta_rnas_cds_feat(), get_my_feat_type(), get_trna_string(), CConvertBadCdsAndRnaToMiscFeat::getCdsRnaOverlap(), GetFeatNameAndLoc(), CProductColumn::GetFromFeat(), CCodonsRecColumn::GetFromFeat(), CAntiCodonColumn::GetFromFeat(), CTagPeptideColumn::GetFromFeat(), CSeq_featHandler::GetLabel(), CSeqUtils::GetMappingInfo(), GetRNAname(), GetSeqFeatLabel(), CCdsFromGeneMrnaExon::GetSuggestedName(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatProduct::GetValue(), CEditingActionFeatTranscriptId::GetValue(), CAsn2FastaApp::HandleSeqEntry(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CEditingActionFeatNcRnaClass::IsSetValue(), CEditingActionFeatProduct::IsSetValue(), CEditingActionFeatTranscriptId::IsSetValue(), CRna_feat_type::Match(), CEditingActionFeatRnaQual::Modify(), CEditingActionFeatProduct::Modify(), CSuspectProductRulesEditor::OnApplyFixes(), CSuspectProductRulesEditor::OnListMatches(), CFeatureGenerator::SImplementation::RecomputePartialFlags(), CFindASN1Dlg::ReplaceInFeature(), CEditingActionFeatCodonsRecognized::ResetValue(), CEditingActionFeatAnticodon::ResetValue(), CEditingActionFeatNcRnaClass::ResetValue(), CEditingActionFeatProduct::ResetValue(), CEditingActionFeatTranscriptId::ResetValue(), s_FixncRNA(), s_FixRNAOtherByName(), s_FixtmRNA(), s_GetBestGeneForFeat(), CCompareSeqRegions::s_GetGeneId(), s_GetmRNAName(), s_GetRnaRefLabel(), s_RnaPosition(), s_SetUpXrefPairs(), s_UpdateCodeBreaksAndAnticodons(), CCleanup::SetMrnaName(), CEditingActionFeatCodonsRecognized::SetValue(), CEditingActionFeatAnticodon::SetValue(), CEditingActionFeatRnaQual::SetValue(), CEditingActionFeatNcRnaClass::SetValue(), CEditingActionFeatProduct::SetValue(), CEditingActionFeatTranscriptId::SetValue(), CMacroFunction_ConvertRNARelQual::TheFunction(), CMacroFunction_ParseRNARelQual::TheFunction(), CMacroFunction_ParsedTextFrom::TheFunction(), CMacroFunction_CopyRNARelQual::TheFunction(), UpdatemRNAProduct(), CFeatureItem::x_AddFTableRnaQuals(), CFastaOstreamEx::x_AddncRNAClassAttribute(), CFastaOstreamEx::x_AddRNAProductAttribute(), CFastaOstreamEx::x_AddTranscriptIdAttribute(), CFeatGapInfo::x_AdjustAnticodons(), CSGFeatureJob::x_CreateFeature1(), CNewCleanup_imp::x_FixMiscRNA(), CFlatGatherer::x_GatherFeaturesOnRange(), CFlatGatherer::x_GatherFeaturesOnRangeIdx(), CFlatGatherer::x_GatherFeaturesOnWholeLocation(), CSingleFeatValidator::x_GetFeatureProduct(), CPromote::x_GetProductId(), CGuiObjectInfoSeq_feat::x_GetProductLengthRow(), CAutoDefNcRNAClause::x_GetProductName(), CFastaOstreamEx::x_GetRNAIdString(), variation::CVariationUtil::CCdregionIndex::x_Index(), variation::CVariationUtil::CVariantPropertiesIndex::x_Index(), CGeneModelFeatJob::x_IsCCDS(), CGeneModelFeatJob::x_IsncRNA(), CGeneModelFeatJob::x_IsnpcGene(), CNewCleanup_imp::x_ModernizeRNAFeat(), CPromote::x_PromoteFeatures(), CValidError_bioseq::x_ReportGeneOverlapError(), CSingleFeatValidator::x_ReportOrigProteinId(), CFeatureGenerator::SImplementation::x_SetCommentForGapFilledModel(), CFeatureGenerator::SImplementation::x_SetExceptText(), CModifySeqId::x_UpdateFeat(), CSingleFeatValidator::x_ValidateNonImpFeat(), CSingleFeatValidator::x_ValidateSeqFeatLoc(), CRNAValidator::x_ValidateTrnaCodons(), CGff3Writer::xAssignFeatureAttributeNote(), CGtfWriter::xAssignFeatureAttributeTranscriptBiotype(), CGtfWriter::xAssignFeatureAttributeTranscriptId(), CGff3Reader::xJoinLocationIntoRna(), CSoMap::xMapNcRna(), CGff3Reader::xUpdateAnnotExon(), CGff3Reader::xUpdateAnnotGeneric(), and CFastaOstreamEx::xWriteFeatureTitle().

IsRsite()

bool CSeqFeatData_Base::IsRsite ( void  ) const

inline

Check if variant Rsite is selected.

Rsite type is defined as 'typedef CRsite_ref TRsite'.

Returns

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

Definition at line 1020 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Rsite, and CSeqFeatData_Base::m_choice.

Referenced by CSequenceTrack::CSequenceTrack().

IsSeq()

bool CSeqFeatData_Base::IsSeq ( void  ) const

inline

Check if variant Seq is selected.

Seq type is defined as 'typedef CSeq_loc TSeq'.

Returns

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

Definition at line 922 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Seq, and CSeqFeatData_Base::m_choice.

IsSet() [1/3]

bool CClone_seq_set_Base::IsSet ( void  ) const

inline

Check if a value has been assigned to data member.

Data member is mandatory; its type is defined as 'typedef list< CRef< CClone_seq > > Tdata'

Returns

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

Definition at line 152 of file Clone_seq_set_.hpp.

References CClone_seq_set_Base::m_set_State.

Referenced by CReportTrim::AdjustAndTranslate(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_clone_seq_ETC(), and CModifySeqId::x_UpdateFeat().

IsSet() [2/3]

bool CGenetic_code_Base::IsSet ( void  ) const

inline

Check if a value has been assigned to data member.

Data member is mandatory; its type is defined as 'typedef list< CRef< C_E > > Tdata'

Returns

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

Definition at line 665 of file Genetic_code_.hpp.

References CGenetic_code_Base::m_set_State.

IsSet() [3/3]

bool CGenetic_code_table_Base::IsSet ( void  ) const

inline

Check if a value has been assigned to data member.

Data member is mandatory; its type is defined as 'typedef list< CRef< CGenetic_code > > Tdata'

Returns

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

Definition at line 153 of file Genetic_code_table_.hpp.

References CGenetic_code_table_Base::m_set_State.

IsSetAa()

bool CCode_break_Base::IsSetAa ( void  ) const

inline

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

Data member Aa is mandatory; its type is defined as 'typedef C_Aa TAa'

Returns

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

Definition at line 526 of file Code_break_.hpp.

References CCode_break_Base::m_Aa.

Referenced by CEditingActionFeatTranslExcept::GetValue(), CCleanup::IsMethionine(), and s_IsEmpty().

IsSetAccessions()

bool CEvidenceBasis_Base::IsSetAccessions ( void  ) const

inline

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

Data member Accessions is optional; its type is defined as 'typedef list< CRef< CSeq_id > > TAccessions'

Returns

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

Definition at line 216 of file EvidenceBasis_.hpp.

References CEvidenceBasis_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_support_support_inference_E_E_basis_basis_ETC().

IsSetAlign_id()

bool CClone_seq_Base::IsSetAlign_id ( void  ) const

inline

internal alignment identifier Check if a value has been assigned to Align_id data member.

Data member Align_id is optional; its type is defined as 'typedef CDbtag TAlign_id'

Returns

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

Definition at line 543 of file Clone_seq_.hpp.

References CClone_seq_Base::m_Align_id.

Referenced by CClone_seq_Base::CanGetAlign_id().

IsSetBasis()

bool CInferenceSupport_Base::IsSetBasis ( void  ) const

inline

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

Data member Basis is mandatory; its type is defined as 'typedef CEvidenceBasis TBasis'

Returns

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

Definition at line 615 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Basis.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_support_support_inference_E_E_ETC().

IsSetCategory() [1/2]

bool CExperimentSupport_Base::IsSetCategory ( void  ) const

inline

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

Data member Category is optional; its type is defined as 'typedef int TCategory'

Returns

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

Definition at line 271 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_set_State.

Referenced by CExperimentSupport_Base::CanGetCategory(), and CExperimentSupport_Base::SetCategory().

IsSetCategory() [2/2]

bool CInferenceSupport_Base::IsSetCategory ( void  ) const

inline

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

Data member Category is optional; its type is defined as 'typedef int TCategory'

Returns

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

Definition at line 421 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::CanGetCategory(), and CInferenceSupport_Base::SetCategory().

IsSetCit()

bool CSeq_feat_Base::IsSetCit ( void  ) const

inline

citations for this feature Check if a value has been assigned to Cit data member.

Data member Cit is optional; its type is defined as 'typedef CPub_set TCit'

Returns

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

Definition at line 1228 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Cit.

Referenced by variation::CVariationUtil::AsVariation(), variation::CVariationUtil::AsVariation_feats(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), CSeq_feat_Base::CanGetCit(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetCit(), SSNP_Info::ParseSeq_feat(), s_GetImpLabel(), CSingleFeatValidator::x_ValidateExceptText(), CSingleFeatValidator::x_ValidateFeatCit(), CSingleFeatValidator::x_ValidateImpFeatQuals(), and CSingleFeatValidator::x_ValidateNonImpFeat().

IsSetClone_seq()

bool CClone_ref_Base::IsSetClone_seq ( void  ) const

inline

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

Data member Clone_seq is optional; its type is defined as 'typedef CClone_seq_set TClone_seq'

Returns

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

Definition at line 634 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Clone_seq.

Referenced by CReportTrim::AdjustAndTranslate(), CClone_ref_Base::CanGetClone_seq(), CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_ETC(), CClonePlacementGlyph::x_GetCloneEnds(), and CModifySeqId::x_UpdateFeat().

IsSetCode()

bool CCdregion_Base::IsSetCode ( void  ) const

inline

genetic code used Check if a value has been assigned to Code data member.

Data member Code is optional; its type is defined as 'typedef CGenetic_code TCode'

Returns

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

Definition at line 700 of file Cdregion_.hpp.

References CCdregion_Base::m_Code.

Referenced by CCdregion_Base::CanGetCode(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCDSProductPanel::CreateControls(), ExtendCDSToStopCodon(), ExtendToStopCodon(), FixGeneticCode(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CEditSequence::GetFeatures(), CGeneticCodeColumn::GetFromFeat(), GetGcodeForInternalStopErrors(), CEditingActionFeatTranslTable::GetValue(), InternalStopCodon(), CEditingActionFeatTranslTable::IsSetValue(), CCDSProductPanel::SetCdregionFields(), CCleanup::SetGeneticCodes(), CCDSTranslationPanel::SetProduct(), CCDSTranslationPanel::TransferDataToWindow(), CSeqTranslator::Translate(), TranslateCodingRegionForValidation(), CSeqTranslator::TranslateToProtein(), CValidError_bioseq::ValidateSeqFeatContext(), CFeatureItem::x_AddFTableCdregionQuals(), CFeatureItem::x_AddQualTranslationTable(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CImportFeatTable::x_DoImportCDS(), CFeaturePropagator::x_ExtendToStopCodon(), CCreateGeneModelTask::x_GetCommand(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CCDSTranslationProblems::x_IsThreeBaseNonsense(), CCdregionValidator::x_ReportTranslationMismatches(), and CGff2Writer::xAssignFeatureAttributeTranslationTable().

IsSetCode_break()

bool CCdregion_Base::IsSetCode_break ( void  ) const

inline

individual exceptions Check if a value has been assigned to Code_break data member.

Data member Code_break is optional; its type is defined as 'typedef list< CRef< CCode_break > > TCode_break'

Returns

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

Definition at line 721 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State.

Referenced by CReportTrim::AdjustAndTranslate(), CNewCleanup_imp::CdregionFeatBC(), CheckTerminalExceptionResults(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), DoesCodingRegionHaveTerminalCodeBreak(), EndAdded(), CCleanup::GetCodeBreakForLocation(), CCDSTranslationProblems::GetNonsenseIntrons(), CEditingActionFeatTranslExcept::Modify(), CCDSExceptionPanel::OnDelete(), ReverseComplementCDRegion(), CTestSingleAln_All::RunTest(), s_Code_break(), s_CompareFtables(), s_IsSelenocysteine(), CSequenceUpdater::s_Shift_CDSCodeBreaks(), s_UpdateCodeBreaksAndAnticodons(), CCDSExceptionPanel::SetExceptions(), TestCds(), TestCdsFromLastBioseq(), TestCdsFromLastBioseqWithCodeBreak(), TestCdsWithCodeBreak(), TestTwoIntCdsFromLastBioseqOutsideAlign(), CCDSExceptionPanel::TransferDataToWindow(), CSeqTranslator::Translate(), Translate(), CSeqTranslator::TranslateToProtein(), CFeatureItem::x_AddQualTranslationException(), CFeatureItem::x_AddQualTranslationExceptionIdx(), CFastaOstreamEx::x_AddTranslationExceptionAttribute(), CFeatGapInfo::x_AdjustCodebreaks(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_data_data_cdregion_cdregion(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_cdregion_ETC(), CFeaturePropagator::x_CdsMapCodeBreaks(), CSequenceUpdater::x_ChangeIDInFeature(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CCDSTranslationProblems::x_CountNonsenseIntrons(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CSequenceUpdater::x_RemoveNewIDInFeature(), CFeatureGenerator::SImplementation::x_SetComment(), CCdregionValidator::x_ValidateExceptText(), and CGff2Writer::xAssignFeatureAttributeCodeBreak().

IsSetComment()

bool CSeq_feat_Base::IsSetComment ( void  ) const

inline

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

Data member Comment is optional; its type is defined as 'typedef string TComment'

Returns

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

Definition at line 1037 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CExceptionPanel::AddCommand(), CCommentColumn::AddToFeature(), CProductColumn::AddToFeature(), AddtRNAAndOther(), AdjustBacterialGeneForCodingRegionWithShortIntron(), CFeatGapInfo::AdjustForRelevantGapIntervals(), CConvertBadInference::apply(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BioSourceFromImpFeat(), CSeq_feat_Base::CanGetComment(), CAutoDefIntergenicSpacerClause::CAutoDefIntergenicSpacerClause(), CheckTerminalExceptionResults(), CConvertImpToCDS::Convert(), CConvertImpToGene::Convert(), CConvertGeneToImp::Convert(), ConvertToMiscFeature(), CTable2AsnContext::CopyFeatureIdsToComments(), fta_get_trna_from_product(), fta_parse_rrna_feat(), CNewCleanup_imp::GBQualSeqFeatBC(), CtRNAFromGene::GetCommand(), CBulkCDS::GetCommandFromValuesTable(), CBulkGene::GetCommandFromValuesTable(), CBulkMiscFeat::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), CEditObjectSeq_feat::GetEditCommand(), CCreateFeat::GetFeatLabel(), CCommentColumn::GetFromFeat(), CSeq_featHandler::GetLabel(), CmRNAFromGeneCdsExon::GetNameFromCDS(), CCdsFromGeneMrnaExon::GetNameFromExon(), CmRNAFromGeneCdsExon::GetNameFromExon(), CCdsFromGeneMrnaExon::GetNameFromGene(), CmRNAFromGeneCdsExon::GetNameFromGene(), CtRNAFromGene::GetNameFromGene(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), GetRnaRef(), GetTargetedLocusName(), CBulkGene::GetValuesTableFromSeqEntry(), CBulkMiscFeat::GetValuesTableFromSeqEntry(), CBulkRna::GetValuesTableFromSeqEntry(), HasContainedNote(), CCreateFeat::HasFeatLabel(), HasOverlapNote(), CWrongIllegalQuals::IllegalQualsToNote(), CNewCleanup_imp::ImpFeatBC(), CAnnotMapping_Info::InitializeMappedSeq_feat(), InspectSeqFeat(), CAutoDefPromoterAnd5UTRClause::IsPromoterAnd5UTR(), CSeq_feat_Handle::IsSetComment(), CEditingActionFeatComment::IsSetValue(), CFeatComparatorByLabel::Less(), CCleanup::MoveFeatToProtein(), CNewCleanup_imp::MoveStandardName(), SSNP_Info::ParseSeq_feat(), ProcessForDbxref(), CCleanup::RemovePseudoProduct(), CFindASN1Dlg::ReplaceInFeature(), CNewCleanup_imp::RnaFeatBC(), s_AddComment(), s_CleanCDDFeature(), s_CompareFtables(), s_Fingerprint_Seq_feat(), s_GetContentLabel(), NSearchFeatPanel::s_GetCustomLabel(), s_GetFeatureContentLabelExtras(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetImpLabel(), s_GetRnaRefLabelFromComment(), s_UseCommentBeforeSemicolon(), CSeq_feat_Base::SetComment(), SetOverlapNote(), SetTranslExcept(), CEditingActionFeatProduct::SetValue(), StripCDSComment(), CProtValidator::Validate(), CMiscFeatValidator::Validate(), CImpFeatValidator::Validate(), CWrongIllegalQuals::WrongQualsToNote(), CConvertGeneToRNA::x_AddGeneFieldsToComment(), CFeatureItem::x_AddQualNote(), CNewCleanup_imp::x_AddToComment(), CConvertFeatureBase::x_AddToComment(), CNewCleanup_imp::x_BondEC(), CCDSTranslationProblems::x_CheckCDSFrame(), CNewCleanup_imp::x_CleanEmptyFeature(), CSeq_featHandler::x_GetCustomLabel(), CAutoDefFeatureClause::x_GetDescription(), CAutoDefFeatureClause::x_GetProductName(), CAutoDefNcRNAClause::x_GetProductName(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CNewCleanup_imp::x_HandleTrnaProductGBQual(), CNewCleanup_imp::x_IsCommentRedundantWithEC(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CFeatureGenerator::SImplementation::x_SetComment(), CFeatureGenerator::SImplementation::x_SetCommentForGapFilledModel(), CNewCleanup_imp::x_ShouldRemoveEmptyFeature(), CSingleFeatValidator::x_ValidateExceptText(), CSingleFeatValidator::x_ValidateFeatComment(), CCdregionValidator::x_ValidateFeatComment(), CSingleFeatValidator::x_ValidateImpFeatQuals(), CSingleFeatValidator::x_ValidateNonImpFeat(), and CProtValidator::x_ValidateProteinName().

IsSetConcordant()

bool CClone_ref_Base::IsSetConcordant ( void  ) const

inline

OPTIONAL? Check if a value has been assigned to Concordant data member.

Data member Concordant is optional with default false; its type is defined as 'typedef bool TConcordant'

Returns

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

Definition at line 487 of file Clone_ref_.hpp.

References CClone_ref_Base::m_set_State.

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CClone_ref_Base::SetConcordant(), and CClonePlacementGlyph::x_Draw().

IsSetConfidence()

bool CClone_seq_Base::IsSetConfidence ( void  ) const

inline

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

Data member Confidence is optional; its type is defined as 'typedef int TConfidence'

Returns

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

Definition at line 445 of file Clone_seq_.hpp.

References CClone_seq_Base::m_set_State.

Referenced by CClone_seq_Base::CanGetConfidence(), CClone_seq_Base::SetConfidence(), and CClonePlacementGlyph::x_GetCloneEnds().

IsSetConflict()

bool CCdregion_Base::IsSetConflict ( void  ) const

inline

conflict Check if a value has been assigned to Conflict data member.

Data member Conflict is optional; its type is defined as 'typedef bool TConflict'

Returns

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

Definition at line 559 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State.

Referenced by CCdregion_Base::CanGetConflict(), CNewCleanup_imp::CdRegionEC(), CkProteinTransl(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCDSProductPanel::CreateControls(), CCDSProductPanel::SetCdregionFields(), CCdregion_Base::SetConflict(), CCDSTranslationPanel::SetProduct(), CCDSTranslationPanel::TransferDataToWindow(), CCdregionValidator::Validate(), and CFeatureItem::x_AddQualProteinConflict().

IsSetData() [1/2]

bool CSeq_feat_Base::IsSetData ( void  ) const

inline

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

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

Returns

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

Definition at line 913 of file Seq_feat_.hpp.

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

Referenced by AddCodeBreak(), CQualLookupMap::AddFeat(), CDiscrepancyContext::CParseNode::AddFeature(), CValidErrorFormat::AddLocusTags(), AddMiscRNAFeatures(), CImportFeatTable::AddSeqAnnotToSeqEntry(), CReportTrim::AdjustAndTranslate(), AdjustFeatureEnd5(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CEditSequence::AdjustFeatureLocations(), AdjustSingleFeature(), CClearNomenclature::apply(), CFixProductNames::apply(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CApplyObject::ApplyChange(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CNewCleanup_imp::CdRegionEC(), CkCdRegion(), CPubField::ClearVal(), CSrcTableColumnBase::ClearVal(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CConvertCDSToProt::Convert(), CCdsToMatPeptide::ConvertInner(), ConvertToMiscFeature(), CVariationUtilities::CorrectRefAllele(), CValidError_feat::DoesCDSHaveShortIntrons(), DoesFeatureHaveUnnecessaryException(), CEditingBtnsPanel::ECNumberCleanup(), ExtendCDSToStopCodon(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), ExtendToStopCodon(), FeatureAdjustForInsert(), FeatureAdjustForTrim(), FeaturePairIsTwoTypes(), FeatValidatorFactory(), CSeqTranslator::FindBestFrame(), CCleanup::FixRNAEditingCodingRegion(), fta_rnas_cds_feat(), g_ValidateVariationSeqfeat(), IEditingAction::GetActionCommand(), GetAuthList(), CConvertBadCdsAndRnaToMiscFeat::getBacterialPartialNonextendable(), CConvertBadCdsAndRnaToMiscFeat::getCdsRnaOverlap(), CCleanup::GetCodeBreakForLocation(), CAddGlobalCodeBreak::GetCommand(), CEditSequenceEnds::GetCommand(), CExtendCDSToStop::GetCommand(), CFuseFeaturesDlg::GetCommand(), CLowerQuals::GetCommand(), CTruncateCDS::GetCommand(), CGeneXrefsFromFeats::GetCommand(), CEditCdsFrame::GetCommand(), CEditObjectSeq_feat::GetEditCommand(), GetFeatNameAndLoc(), CAlignmentAssistant::GetFeatures(), CEditSequence::GetFeatures(), GetIsLength(), GetLastPartialCodonLength(), CCDSTranslationProblems::GetNonsenseIntrons(), GetPubTitle(), CmRNACDSLinker::GetReferencedmRNA_CDS(), CMiscSeqTableColumn::GetRelatedApplyObjects(), CPubField::GetRelatedObjects(), GetRetranslateCDSCommand(), CEditPubDlg::GetSelectedPub(), GetSourceFeatForProduct(), CPubField::GetStatus(), CmRNAFromGeneCdsExon::GetSuggestedName(), CtRNAFromGene::GetSuggestedName(), CCdsFromGeneMrnaExon::GetSuggestedName(), GetSynchronizeProductMolInfoCommand(), GetSynchronizeProteinPartialsCommand(), GetTargetedLocusName(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CPubField::GetVal(), CSrcTableColumnBase::GetVal(), CPubField::GetVals(), CSrcTableColumnBase::GetVals(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatRegion::GetValue(), CEditingActionFeatCodonStart::GetValue(), CEditingActionFeatTranslTable::GetValue(), CEditingActionFeatDesc::GetValue(), CEditingActionFeatLocus_tag::GetValue(), CEditingActionFeatMaploc::GetValue(), CEditingActionFeatAllele::GetValue(), CEditingActionFeatProduct::GetValue(), CEditingActionFeatGeneLocus::GetValue(), CEditingActionFeatTranscriptId::GetValue(), HasBadProteinStart(), HasBadStartCodon(), HasInternalStop(), HasStopInProtein(), IfCDSGeneFeat(), InspectSeqFeat(), CAutoDefFeatureClause::IsExonWithNumber(), CCleanup::IsGeneXrefUnnecessary(), CValidError_feat::IsIntronShort(), IsMicroSatellite(), CAutoDefPromoterAnd5UTRClause::IsPromoterAnd5UTR(), CVariationUtilities::IsReferenceCorrect(), CSeq_feat_Handle::IsSetData(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CEditingActionFeatRegion::IsSetValue(), CEditingActionFeatCodonStart::IsSetValue(), CEditingActionFeatTranslTable::IsSetValue(), CEditingActionFeatDesc::IsSetValue(), CEditingActionFeatNcRnaClass::IsSetValue(), CEditingActionFeatLocus_tag::IsSetValue(), CEditingActionFeatMaploc::IsSetValue(), CEditingActionFeatAllele::IsSetValue(), CEditingActionFeatProduct::IsSetValue(), CEditingActionFeatGeneLocus::IsSetValue(), CEditingActionFeatTranscriptId::IsSetValue(), NSnp::IsSnp(), CFeatComparatorByLabel::Less(), CmRNACDSLinker::LinkSelectedFeatures(), LookForProductName(), CEditingActionFeatTranslExcept::Modify(), CEditingActionFeatRnaQual::Modify(), CEditingActionFeatSynonym::Modify(), CEditingActionFeatActivity::Modify(), CEditingActionFeatEcNumber::Modify(), CEditingActionFeatFunction::Modify(), CEditingActionFeatProduct::Modify(), CNewCleanup_imp::MoveStandardName(), CRestoreRNAediting::OnApply(), CSuspectProductRulesEditor::OnApplyFixes(), CBioseqEditor::OnDeleteSelection(), CSuspectProductRulesEditor::OnListMatches(), CUpdateECNumbers::operator()(), CGBQualPanel::PanelNeeded(), CCleanup::ParseCodeBreaks(), CValidError_imp::PostErr(), CGeneFinder::CGeneSearchPlugin::processMainLoop(), CFeaturePropagator::PropagateFeatureList(), CCleanup::RemovePseudoProduct(), CFindASN1Dlg::ReplaceInFeature(), RescueProtProductQual(), CEditingActionFeatCodonsRecognized::ResetValue(), CEditingActionFeatAnticodon::ResetValue(), CEditingActionFeatRegion::ResetValue(), CEditingActionFeatCodonStart::ResetValue(), CEditingActionFeatTranslTable::ResetValue(), CEditingActionFeatDesc::ResetValue(), CEditingActionFeatNcRnaClass::ResetValue(), CEditingActionFeatLocus_tag::ResetValue(), CEditingActionFeatMaploc::ResetValue(), CEditingActionFeatAllele::ResetValue(), CEditingActionFeatProduct::ResetValue(), CEditingActionFeatGeneLocus::ResetValue(), CEditingActionFeatTranscriptId::ResetValue(), CGeneFinder::ResolveGeneObjectId(), CNewCleanup_imp::ResynchProteinPartials(), RetranslateCdregion(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), CAddGlobalCodeBreak::RetranslateCDSCommand(), CExtendCDSToStop::RetranslateCDSCommand(), ReverseComplementFeature(), ApplyCDSFrame::s_FindMatchingFrame(), CMacroFunction_ApplyCDSFrame::s_FindMatchingFrame(), s_FixncRNA(), s_FixRNAOtherByName(), s_FixtmRNA(), s_GetBestGeneForFeat(), s_GetGeneTextLabel(), s_GetmRNAName(), CSingleFeatValidator::s_IsPseudo(), s_IsRealTrna(), s_RnaPosition(), ApplyCDSFrame::s_SetCDSFrame(), CMacroFunction_ApplyCDSFrame::s_SetCDSFrame(), s_SetUpXrefPairs(), s_UpdateCodeBreaksAndAnticodons(), ScannGeneName(), CCleanup::SetCodeBreakLocation(), CCleanup::SetMrnaName(), SetTranslExcept(), CMiscSeqTableColumn::SetVal(), CEditingActionFeatCodonsRecognized::SetValue(), CEditingActionFeatAnticodon::SetValue(), CEditingActionFeatRnaQual::SetValue(), CEditingActionFeatRegion::SetValue(), CEditingActionFeatCodonStart::SetValue(), CEditingActionFeatTranslTable::SetValue(), CEditingActionFeatDesc::SetValue(), CEditingActionFeatNcRnaClass::SetValue(), CEditingActionFeatLocus_tag::SetValue(), CEditingActionFeatMaploc::SetValue(), CEditingActionFeatSynonym::SetValue(), CEditingActionFeatAllele::SetValue(), CEditingActionFeatActivity::SetValue(), CEditingActionFeatEcNumber::SetValue(), CEditingActionFeatFunction::SetValue(), CEditingActionFeatProduct::SetValue(), CEditingActionFeatGeneLocus::SetValue(), CEditingActionFeatTranscriptId::SetValue(), CMacroFunction_ConvertRNARelQual::TheFunction(), CMacroFunction_ParseRNARelQual::TheFunction(), CMacroFunction_ParsedTextFrom::TheFunction(), CMacroFunction_CopyRNARelQual::TheFunction(), TrimSequenceAndAnnotation(), UpdatemRNAProduct(), USING_SCOPE(), CValidError_imp::Validate(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_feat::ValidateSeqFeatContext(), CValidError_imp::ValidateSubSource(), CCleanup::WGSCleanup(), CFastaOstreamEx::WriteFeature(), CFastaOstreamEx::x_AddDbxrefAttribute(), CFastaOstreamEx::x_AddGBkeyAttribute(), CFastaOstreamEx::x_AddGeneAttributes(), CFastaOstreamEx::x_AddMiscQualifierAttributes(), CFastaOstreamEx::x_AddncRNAClassAttribute(), CFastaOstreamEx::x_AddPseudoAttribute(), CFastaOstreamEx::x_AddPseudoGeneAttribute(), CFastaOstreamEx::x_AddReadingFrameAttribute(), CFastaOstreamEx::x_AddRNAProductAttribute(), CFastaOstreamEx::x_AddTranslationExceptionAttribute(), CFeatGapInfo::x_AdjustAnticodons(), CFeatGapInfo::x_AdjustCodebreaks(), CSequenceUpdater::x_AdjustProteinFeature(), CSequenceUpdater::x_AttachFeaturesToNewSeq(), CNewCleanup_imp::x_BondEC(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CNewCleanup_imp::x_CleanEmptyFeature(), CEditObjectSeq_feat::x_ConvertCommentToMiscFeat(), CCDSTranslationProblems::x_CountNonsenseIntrons(), CImportFeatTable::x_CreateCommand(), CFeaturePropagator::x_ExtendToStopCodon(), x_FeatIsCDS(), x_FeatIsVDJC(), CFeatureTableReader_Imp::x_FinishFeature(), CNewCleanup_imp::x_FixMiscRNA(), CValidErrorFormat::x_FormatBadInstCodeForSubmitterReport(), CValidErrorFormat::x_FormatBadSpecificHostForSubmitterReport(), CValidErrorFormat::x_FormatECNumberForSubmitterReport(), CSingleFeatValidator::x_GetFeatureProduct(), CDeflineGenerator::x_GetLongestProtein(), CAutoDefNcRNAClause::x_GetProductName(), CFastaOstreamEx::x_GetRNAIdString(), CSequenceUpdater::x_GetSeqAnnot_WithoutCDS(), x_GetSourceFeatViaCDS(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CSingleFeatValidator::x_HasSeqLocBond(), CGenericPropsPanel::x_IsCds(), CIntronValidator::x_IsIntronShort(), x_IsPseudo(), CNewCleanup_imp::x_ModernizeRNAFeat(), CSingleFeatValidator::x_ReportPseudogeneConflict(), CDeflineGenerator::x_SetBioSrc(), CDeflineGenerator::x_SetBioSrcIdx(), CFeatModApply::x_SetProtein(), CBioseqContext::x_SetTaxname(), CEditObjectSeq_feat::x_SetTranslExcept(), CVariationNormalization_base< T >::x_Shift(), CNewCleanup_imp::x_ShouldRemoveEmptyFeature(), CVectorTrimPanel::x_TrimSelected(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), CSingleFeatValidator::x_ValidateGbquals(), CSingleFeatValidator::x_ValidateGeneXRef(), CSingleFeatValidator::x_ValidateSeqFeatLoc(), CRNAValidator::x_ValidateTrnaCodons(), CFastaOstreamEx::x_WriteFeatureAttributes(), CFeatTableEdit::xGenerate_mRNA_Product(), CSoMap::xMapNcRna(), CFeatureTableReader::xMoveCdRegions(), CFeatureTableReader::xTranslateProtein(), and CFastaOstreamEx::xWriteFeatureTitle().

IsSetData() [2/2]

bool CSeqFeatXref_Base::IsSetData ( void  ) const

inline

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

Data member Data is optional; its type is defined as 'typedef CSeqFeatData TData'

Returns

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

Definition at line 223 of file SeqFeatXref_.hpp.

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

Referenced by CSeqFeatXref_Base::CanGetData(), CNewCleanup_imp::GeneFeatBC(), CGeneFinder::GetSuppressionCheckGeneRef(), CGeneFinder::ResolveGeneObjectId(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), CSeq_feat::SetGeneXref(), CSeq_feat::SetProtXref(), sGetCdsProductName(), sx_GeneIsSuppressed(), CValidError_feat::ValidateSeqFeatXref(), CAutogeneratedCleanup::x_BasicCleanupSeqFeatXref(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqFeatXref(), CDeflineGenerator::x_GetGeneRefViaCDS(), CFeatTree::x_LookupParentByRef(), CXcompareAnnotsApplication::x_ProcessComparison(), and CPromote::x_PromoteCdregion().

IsSetDbxref() [1/2]

bool CModelEvidenceSupport_Base::IsSetDbxref ( void  ) const

inline

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

Data member Dbxref is optional; its type is defined as 'typedef list< CRef< CDbtag > > TDbxref'

Returns

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

Definition at line 651 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

IsSetDbxref() [2/2]

bool CSeq_feat_Base::IsSetDbxref ( void  ) const

inline

support for xref to other databases Check if a value has been assigned to Dbxref data member.

Data member Dbxref is optional; its type is defined as 'typedef vector< CRef< CDbtag > > TDbxref'

Returns

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

Definition at line 1321 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CAutogeneratedCleanup::BasicCleanupSeqFeat(), CDbXrefColumn::ClearInFeature(), Convert_Seq_feat_Seq_loc_dbxref_Loc(), DbxrefToSeqID(), fta_collect_wormbases(), GetBestGeneForMrna(), GetMrnasForGene(), CSeq_feat::GetNamedDbxref(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetDbxref(), CEditingActionFeatDbxref::Modify(), CRemoveTaxonFeats::ModifyFeature(), CNewCleanup_imp::MoveDbxrefs(), SSNP_Info::ParseSeq_feat(), RemoveDbxref(), s_CompareFtables(), SGeneCdsmRnaFeats::s_CreateDBXref(), s_Fingerprint_Seq_feat(), CCompareSeqRegions::s_GetGeneId(), s_GetImpLabel(), CSingleFeatValidator::Validate(), CMiscFeatValidator::Validate(), CImpFeatValidator::Validate(), CFastaOstreamEx::x_AddDbxrefAttribute(), CLinkUtils::x_AddDbxrefFeatureLinks(), CFeatureItem::x_AddQualGeneXref(), CFeatureItem::x_AddQualsGene(), CFeatureGenerator::SImplementation::x_CheckInconsistentDbxrefs(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), CValidError_bioseq::x_DupFeatSeverity(), CGeneModelFeatJob::x_IsDbref(), CDbxrefPanel::x_UpdateXrefs(), and CSingleFeatValidator::x_ValidateGeneId().

IsSetDescr()

bool CImp_feat_Base::IsSetDescr ( void  ) const

inline

text description Check if a value has been assigned to Descr data member.

Data member Descr is optional; its type is defined as 'typedef string TDescr'

Returns

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

Definition at line 341 of file Imp_feat_.hpp.

References CImp_feat_Base::m_set_State.

Referenced by CImp_feat_Base::CanGetDescr(), CSeq_featHandler::GetLabel(), SSNP_Info::ParseSeq_feat(), CFindASN1Dlg::ReplaceInFeature(), NSearchFeatPanel::s_GetFeatureLabel(), and CImp_feat_Base::SetDescr().

IsSetDois() [1/2]

bool CExperimentSupport_Base::IsSetDois ( void  ) const

inline

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

Data member Dois is optional; its type is defined as 'typedef list< CDOI > TDois'

Returns

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

Definition at line 390 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_set_State.

IsSetDois() [2/2]

bool CInferenceSupport_Base::IsSetDois ( void  ) const

inline

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

Data member Dois is optional; its type is defined as 'typedef list< CDOI > TDois'

Returns

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

Definition at line 670 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_set_State.

IsSetEst()

bool CModelEvidenceSupport_Base::IsSetEst ( void  ) const

inline

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

Data member Est is optional; its type is defined as 'typedef list< CRef< CModelEvidenceItem > > TEst'

Returns

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

Definition at line 580 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

IsSetExcept()

bool CSeq_feat_Base::IsSetExcept ( void  ) const

inline

something funny about this? Check if a value has been assigned to Except data member.

Data member Except is optional; its type is defined as 'typedef bool TExcept'

Returns

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

Definition at line 990 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CAdjustForConsensusSpliceSite::AdjustCDSEnds(), CSpliceProblems::CalculateSpliceProblems(), CCDSTranslationProblems::CalculateTranslationProblems(), CSeq_feat_Base::CanGetExcept(), check_end_internal(), CkEndStop(), CkProteinTransl(), CreateSeqLocMapperFromFeat(), ErrByteStorePtr(), CCleanup::FixRNAEditingCodingRegion(), GetBestMrnaForCds(), CSeqUtils::GetCdsMappingInfoFromRna(), CExceptionColumn::GetFromFeat(), CCDSTranslationProblems::GetNonsenseIntrons(), CSeq_feat::GetTempExceptionTextSet(), variation::HasProblematicExceptions(), CAnnotMapping_Info::InitializeMappedSeq_feat(), InternalStopCodon(), CSeqUtils::IsException(), CSeq_feat_Handle::IsSetExcept(), CEditingActionFeatException::IsSetValue(), SSNP_Info::ParseSeq_feat(), CCdsForMrnaPlugin::processMainLoop(), CSeq_feat::RemoveExceptText(), CCdregionValidator::ReportShortIntrons(), s_CompareFtables(), s_NotPeptideException(), CSeq_feat_Base::SetExcept(), SetExceptFromGbqual(), CIntronValidator::Validate(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_imp::ValidateSeqLoc(), CCleanup::x_AddLowQualityException(), CDeflineGenerator::x_CDShasLowQualityException(), CValidError_bioseq::x_CompareStrings(), CCorrectGenesDialog::x_CorrectOnePair(), CCDSTranslationProblems::x_CountNonsenseIntrons(), x_LeuCUGstart(), CValidError_bioseq::x_ReportImproperPartial(), CValidError_bioseq::x_ReportInternalPartial(), CValidError_imp::x_ReportInvalidFuzz(), CCdregionValidator::x_ReportTranslationProblems(), CSingleFeatValidator::x_ValidateExcept(), CCdregionValidator::x_ValidateGeneticCode(), CCdregionValidator::x_ValidateProductId(), and CCdregionValidator::x_ValidateQuals().

IsSetExcept_text()

bool CSeq_feat_Base::IsSetExcept_text ( void  ) const

inline

explain if except=TRUE Check if a value has been assigned to Except_text data member.

Data member Except_text is optional; its type is defined as 'typedef string TExcept_text'

Returns

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

Definition at line 1393 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CExceptionPanel::AddCommand(), AddException(), AddExceptionsToShortIntron(), CSeq_feat::AddExceptText(), CExceptionColumn::AddToFeature(), CReportTrim::AdjustAndTranslate(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustSingleFeature(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CSpliceProblems::CalculateSpliceProblems(), CCDSTranslationProblems::CalculateTranslationProblems(), CSeq_feat_Base::CanGetExcept_text(), CCdsMatchInfo::CCdsMatchInfo(), CkCdRegion(), CGenericPropsPanel::CreateControls(), CreateSeqLocMapperFromFeat(), DoesFeatureHaveUnnecessaryException(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), CCleanup::FixRNAEditingCodingRegion(), fta_check_artificial_location(), fta_concat_except_text(), CNewCleanup_imp::GBQualSeqFeatBC(), IEditingAction::GetActionCommand(), CConvertBadCdsAndRnaToMiscFeat::getBacterialPartialNonextendable(), GetBestMrnaForCds(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CFuseFeaturesDlg::GetCommand(), CTruncateCDS::GetCommand(), CEditCdsFrame::GetCommand(), CEditObjectSeq_feat::GetEditCommand(), CExceptionColumn::GetFromFeat(), CFeatureGenePanel::GetLocationForGene(), CCDSTranslationProblems::GetNonsenseIntrons(), CSeq_feat::GetTempExceptionTextSet(), variation::HasProblematicExceptions(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetExcept_text(), CEditingActionFeatException::IsSetValue(), IsTransSpliced(), CWriteUtil::IsTransspliced(), LoadFeat(), CMrnaMatchInfo::Overlaps(), SSNP_Info::ParseSeq_feat(), CCdsForMrnaPlugin::processMainLoop(), ProcFeatBlk(), CSeq_feat::RemoveExceptText(), CFindASN1Dlg::ReplaceInFeature(), s_CompareFtables(), s_NotPeptideException(), s_SetUpXrefPairs(), s_TranslateCds(), CSeq_feat_Base::SetExcept_text(), SetExceptFromGbqual(), CIntronValidator::Validate(), CValidError_bioseq::ValidateBadGeneOverlap(), CValidError_bioseq::ValidateSeqFeatContext(), CFastaOstreamEx::x_AddExceptionAttribute(), CCleanup::x_AddLowQualityException(), CDeflineGenerator::x_CDShasLowQualityException(), CValidError_bioseq::x_CompareStrings(), CCorrectGenesDialog::x_CorrectOnePair(), CCDSTranslationProblems::x_CountNonsenseIntrons(), x_LeuCUGstart(), CAnnotObject_Info::x_ProcessFeat(), CCdregionValidator::x_ReportTranslationProblems(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CFeatureGenerator::SImplementation::x_SetExceptText(), CCDSTranslationPanel::x_SetProtein(), CSingleFeatValidator::x_ValidateExcept(), CCdregionValidator::x_ValidateGeneticCode(), CCdregionValidator::x_ValidateProductId(), CRNAValidator::x_ValidateRnaProduct(), CRNAValidator::x_ValidateTrnaCodons(), and CFeatureTableReader::xMoveCdRegions().

IsSetExon_count() [1/2]

bool CModelEvidenceItem_Base::IsSetExon_count ( void  ) const

inline

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

Data member Exon_count is optional; its type is defined as 'typedef int TExon_count'

Returns

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

Definition at line 354 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_set_State.

Referenced by CModelEvidenceItem_Base::CanGetExon_count(), and CModelEvidenceItem_Base::SetExon_count().

IsSetExon_count() [2/2]

bool CModelEvidenceSupport_Base::IsSetExon_count ( void  ) const

inline

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

Data member Exon_count is optional; its type is defined as 'typedef int TExon_count'

Returns

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

Definition at line 676 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::CanGetExon_count(), and CModelEvidenceSupport_Base::SetExon_count().

IsSetExon_length() [1/2]

bool CModelEvidenceItem_Base::IsSetExon_length ( void  ) const

inline

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

Data member Exon_length is optional; its type is defined as 'typedef int TExon_length'

Returns

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

Definition at line 401 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_set_State.

Referenced by CModelEvidenceItem_Base::CanGetExon_length(), and CModelEvidenceItem_Base::SetExon_length().

IsSetExon_length() [2/2]

bool CModelEvidenceSupport_Base::IsSetExon_length ( void  ) const

inline

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

Data member Exon_length is optional; its type is defined as 'typedef int TExon_length'

Returns

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

Definition at line 723 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::CanGetExon_length(), and CModelEvidenceSupport_Base::SetExon_length().

IsSetExp_ev()

bool CSeq_feat_Base::IsSetExp_ev ( void  ) const

inline

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

Data member Exp_ev is optional; its type is defined as 'typedef EExp_ev TExp_ev'

Returns

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

Definition at line 1249 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CSeq_feat_Base::CanGetExp_ev(), CGenericPropsPanel::CreateControls(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetExp_ev(), CEditingActionFeatEvidence::IsSetValue(), SSNP_Info::ParseSeq_feat(), CSeq_feat_Base::SetExp_ev(), and CNewCleanup_imp::x_ShouldRemoveEmptyGene().

IsSetExperiment()

bool CSeqFeatSupport_Base::IsSetExperiment ( void  ) const

inline

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

Data member Experiment is optional; its type is defined as 'typedef list< CRef< CExperimentSupport > > TExperiment'

Returns

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

Definition at line 226 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_set_State.

IsSetExplanation()

bool CExperimentSupport_Base::IsSetExplanation ( void  ) const

inline

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

Data member Explanation is mandatory; its type is defined as 'typedef string TExplanation'

Returns

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

Definition at line 318 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_set_State.

Referenced by CExperimentSupport_Base::CanGetExplanation(), and CExperimentSupport_Base::SetExplanation().

IsSetExt()

bool CSeq_feat_Base::IsSetExt ( void  ) const

inline

user defined structure extension Check if a value has been assigned to Ext data member.

Data member Ext is optional; its type is defined as 'typedef CUser_object TExt'

Returns

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

Definition at line 1207 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Ext.

Referenced by AddGoTermToList(), variation::CVariationUtil::AsVariation(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), CSeq_feat_Base::CanGetExt(), CountGoTerms(), CSnpBitfieldFactory::CreateBitfield(), CSeq_feat::FindExt(), GetBestCdsForMrna(), GetBestMrnaForCds(), GetGoTermErrors(), NSnp::GetLength(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetExt(), SSNP_Info::ParseSeq_feat(), RemoveDuplicateGoTerms(), CSeq_feat::RemoveExt(), s_GetBoxStyle(), s_GetMrnaProteinLink(), s_IdXrefsNotReciprocal(), s_IsGnomonModel(), s_Render_Feat_Evidence(), and CValidError_bioseq::x_IdXrefsNotReciprocal().

IsSetExts()

bool CSeq_feat_Base::IsSetExts ( void  ) const

inline

set of extensions; will replace 'ext' field Check if a value has been assigned to Exts data member.

Data member Exts is optional; its type is defined as 'typedef list< CRef< CUser_object > > TExts'

Returns

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

Definition at line 1465 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by variation::CVariationUtil::AsVariation(), CSeq_feat::FindExt(), CWriteUtil::GetThreeFeatRgb(), CWriteUtil::GetThreeFeatScore(), CWriteUtil::GetThreeFeatType(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CVariationNormalization::isFullyShifted(), CSeq_feat_Handle::IsSetExts(), CSeq_feat::RemoveExt(), s_GetSpliceSite(), s_GetSupportTotal(), s_GetWeight(), s_IsSetWeight(), and s_Render_Feat_Evidence().

IsSetFrame()

bool CCdregion_Base::IsSetFrame ( void  ) const

inline

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

Data member Frame is optional with default eFrame_not_set; its type is defined as 'typedef EFrame TFrame'

Returns

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

Definition at line 509 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State.

Referenced by AdjustCDSFrameForStartChange(), CEditSeqEndsWithAlign::AdjustFrame(), AdjustFrameFor5Extension(), check_end_internal(), CheckAdjustStart(), CheckAdjustStop(), CkEndStop(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), EndAdded(), CEditSequenceEnds::Extend3(), CEditSequenceEnds::Extend5(), ExtendCDSToStopCodon(), ExtendToStopCodon(), CSeqTranslator::FindBestFrame(), CScore_StartStopCodon::Get(), CCleanup::GetCodeBreakForLocation(), CAddGlobalCodeBreak::GetCommand(), CExtendCDSToStop::GetCommand(), CRetranslateCDS::GetCommand(), CEditCdsFrame::GetCommand(), CEditSequence::GetFeatures(), CCodonStartColumn::GetFromFeat(), GetLastPartialCodonLength(), CSeqUtils::GetMappingInfo(), CEditingActionFeatCodonStart::GetValue(), CLocationEditPolicy::Interpret5Policy(), s_GetConcatenatedExon(), s_MapSlaveFeatureToMaster(), ApplyCDSFrame::s_SetCDSFrame(), CMacroFunction_ApplyCDSFrame::s_SetCDSFrame(), CCleanup::SetBestFrame(), CCDSProductPanel::SetCdregionFields(), CReportEntry::SetCds(), CCleanup::SetCDSPartialsByFrameAndTranslation(), CCleanup::SetCodeBreakLocation(), CCdregion_Base::SetFrame(), CCleanup::SetFrameFromLoc(), CCDSTranslationPanel::SetProduct(), CCDSTranslationPanel::TransferDataToWindow(), CSeqTranslator::Translate(), TranslateCodingRegionForValidation(), CSeqTranslator::TranslateToProtein(), TruncateCDSAtStop(), CValidError_bioseq::ValidateRawConst(), CFeatureItem::x_AddFTableCdregionQuals(), CFastaOstreamEx::x_AddReadingFrameAttribute(), CReportTrim::x_AdjustCdregionFrame(), CFeaturePropagator::x_CdsStopAtStopCodon(), CCDSTranslationProblems::x_CheckCDSFrame(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CSGFeatureJob::x_CreateFeature1(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CImportFeatTable::x_DoImportCDS(), CCdsGlyph::x_DrawProtSeqWithMapping(), CFeaturePropagator::x_ExtendToStopCodon(), CFastaOstreamEx::x_GetCodeBreak(), CCreateGeneModelTask::x_GetCommand(), CGuiObjectInfoSeq_feat::x_GetProtOffset(), CFeatGlyph::x_GetProtOffset(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt5End(), CReportEntry::x_SetRnaCds(), CCdregionValidator::x_ValidateQuals(), CFastaOstreamEx::x_WriteTranslatedCds(), and CGff3Writer::xWriteFeatureCds().

IsSetFull_length() [1/2]

bool CModelEvidenceItem_Base::IsSetFull_length ( void  ) const

inline

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

Data member Full_length is optional with default false; its type is defined as 'typedef bool TFull_length'

Returns

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

Definition at line 448 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_set_State.

Referenced by CModelEvidenceItem_Base::SetFull_length().

IsSetFull_length() [2/2]

bool CModelEvidenceSupport_Base::IsSetFull_length ( void  ) const

inline

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

Data member Full_length is optional with default false; its type is defined as 'typedef bool TFull_length'

Returns

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

Definition at line 770 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::SetFull_length().

IsSetGaps()

bool CCdregion_Base::IsSetGaps ( void  ) const

inline

number of gaps on conflict/except Check if a value has been assigned to Gaps data member.

Data member Gaps is optional; its type is defined as 'typedef TSeqPos TGaps'

Returns

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

Definition at line 606 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State.

Referenced by CCdregion_Base::CanGetGaps(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and CCdregion_Base::SetGaps().

IsSetId() [1/3]

bool CModelEvidenceItem_Base::IsSetId ( void  ) const

inline

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

Data member Id is mandatory; its type is defined as 'typedef CSeq_id TId'

Returns

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

Definition at line 324 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Id.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_support_support_model_evidence_E_E_protein_E_ETC().

IsSetId() [2/3]

bool CSeq_feat_Base::IsSetId ( void  ) const

inline

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

Data member Id is optional; its type is defined as 'typedef CFeat_id TId'

Returns

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

Definition at line 892 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Id.

Referenced by CSeq_annot_Info::AddFeatId(), CThreeFeatRecord::AddFeature(), CFeatureGenePanel::AddReciprocicalXref(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustSingleFeature(), AssignLocalIdIfEmpty(), BOOST_AUTO_TEST_CASE(), CSeq_feat_Base::CanGetId(), CSeq_annot_Info::ClearFeatIds(), CClearFeatureId::ClearFeatureIds(), CmRNACDSLinker::CompleteHalfFormedXrefPairs(), CFeaturePropagator::ConstructProteinFeatureForPropagatedCodingRegion(), FixFeatureIdsForUpdates(), CValidErrorFormat::GetFeatureIdLabel(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetId(), CFeatComparatorByLabel::Less(), CmRNACDSLinker::LinkSelectedFeatures(), SSNP_Info::ParseSeq_feat(), CFeaturePropagator::Propagate(), CFeatIdRemapper::RemapIds(), RemapOtherProtFeats(), CSeq_annot_Info::RemoveFeatId(), CCleanup::RepairXrefs(), CmRNACDSLinker::ReplaceExistingXrefs(), CCreateGeneModelTask::s_AssignFeatureIds(), CCreateGeneModelTask::s_FeaturesHaveIDs(), s_Fingerprint_Seq_feat(), s_HasId(), s_IdXrefsAreReciprocal(), s_IdXrefsNotReciprocal(), s_IsDirectXrefBetween(), CmRNACDSLinker::s_IsDirectXrefBetween(), s_IsRelated(), CFixFeatureId::s_ReassignFeatureIds(), s_UpdateFeatureIds(), CValidError_imp::Validate(), CValidError_feat::ValidateOneFeatXrefPair(), CCreateGeneModelTask::x_AssignIDsAndUpdateGenes(), CFeatGlyph::x_GetFeatureId(), CValidError_bioseq::x_IdXrefsNotReciprocal(), CIdentifiersPanel::x_IsReciprocalXref(), CSeq_annot_Info::x_MapFeatIds(), CSeq_annot_Info::x_UnmapFeatIds(), CIdentifiersPanel::x_UpdateXrefDescriptions(), and CThreeFeatManager::xFindExistingRecord().

IsSetId() [3/3]

bool CSeqFeatXref_Base::IsSetId ( void  ) const

inline

the feature copied Check if a value has been assigned to Id data member.

Data member Id is optional; its type is defined as 'typedef CFeat_id TId'

Returns

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

Definition at line 202 of file SeqFeatXref_.hpp.

References CSeqFeatXref_Base::m_Id.

Referenced by CSeqFeatXref_Base::CanGetId(), CSeq_annot_Info::ClearFeatIds(), CFeatIdRemapper::RemapIds(), CSeq_annot_Info::RemoveFeatId(), CGeneFinder::ResolveGeneObjectId(), CValidError_feat::ValidateSeqFeatXref(), CFeatTree::x_LookupParentByRef(), CSeq_annot_Info::x_MapFeatIds(), and CSeq_annot_Info::x_UnmapFeatIds().

IsSetIdentification()

bool CModelEvidenceSupport_Base::IsSetIdentification ( void  ) const

inline

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

Data member Identification is optional; its type is defined as 'typedef CSeq_id TIdentification'

Returns

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

Definition at line 630 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Identification.

Referenced by CModelEvidenceSupport_Base::CanGetIdentification(), and CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

IsSetIds()

bool CSeq_feat_Base::IsSetIds ( void  ) const

inline

set of Ids; will replace 'id' field Check if a value has been assigned to Ids data member.

Data member Ids is optional; its type is defined as 'typedef list< CRef< CFeat_id > > TIds'

Returns

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

Definition at line 1440 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CSeq_annot_Info::ClearFeatIds(), CValidErrorFormat::GetFeatureIdLabel(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetIds(), CSeq_annot_Info::RemoveFeatId(), s_Fingerprint_Seq_feat(), s_UpdateFeatureIds(), CFeatGlyph::x_GetFeatureId(), CSeq_annot_Info::x_MapFeatIds(), and CSeq_annot_Info::x_UnmapFeatIds().

IsSetInference()

bool CSeqFeatSupport_Base::IsSetInference ( void  ) const

inline

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

Data member Inference is optional; its type is defined as 'typedef list< CRef< CInferenceSupport > > TInference'

Returns

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

Definition at line 251 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeatSupport(), and CModifySeqId::x_UpdateFeat().

IsSetKey()

bool CImp_feat_Base::IsSetKey ( void  ) const

inline

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

Data member Key is mandatory; its type is defined as 'typedef string TKey'

Returns

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

Definition at line 247 of file Imp_feat_.hpp.

References CImp_feat_Base::m_set_State.

Referenced by CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CImp_feat_Base::CanGetKey(), CImportFeaturePanel::CreateControls(), CEditObjectSeq_feat::CreateWindowImpl(), fta_perform_operon_checks(), fta_rnas_cds_feat(), GetFeatNameAndLoc(), CValidErrorFormat::GetFeatureContentLabel(), CFeatureItem::GetKey(), CmRNAFromGeneCdsExon::GetSuggestedName(), CCdsFromGeneMrnaExon::GetSuggestedName(), IfCDSGeneFeat(), CNewCleanup_imp::ImpFeatBC(), IsSiteRef(), LoadFeat(), CCleanup::MoveFeatToProtein(), s_IsPreprotein(), CImp_feat_Base::SetKey(), SrchCdRegion(), StripSerialNumbers(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupImpFeat(), and CSingleFeatValidator::x_ValidateSeqFeatLoc().

IsSetLibrary()

bool CClone_ref_Base::IsSetLibrary ( void  ) const

inline

Library name Check if a value has been assigned to Library data member.

Data member Library is optional; its type is defined as 'typedef string TLibrary'

Returns

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

Definition at line 440 of file Clone_ref_.hpp.

References CClone_ref_Base::m_set_State.

Referenced by CClone_ref_Base::CanGetLibrary(), and CClone_ref_Base::SetLibrary().

IsSetLoc() [1/2]

bool CCode_break_Base::IsSetLoc ( void  ) const

inline

location of exception Check if a value has been assigned to Loc data member.

Data member Loc is mandatory; its type is defined as 'typedef CSeq_loc TLoc'

Returns

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

Definition at line 496 of file Code_break_.hpp.

References CCode_break_Base::m_Loc.

Referenced by GetCdRegionCB(), CWriteUtil::GetCodeBreak(), CEditingActionFeatTranslExcept::GetValue(), s_IsEmpty(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_cdregion_cdregion_code_break_E_E_ETC(), and CFastaOstreamEx::x_GetCodeBreak().

IsSetLoc() [2/2]

bool CImp_feat_Base::IsSetLoc ( void  ) const

inline

original location string Check if a value has been assigned to Loc data member.

Data member Loc is optional; its type is defined as 'typedef string TLoc'

Returns

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

Definition at line 294 of file Imp_feat_.hpp.

References CImp_feat_Base::m_set_State.

Referenced by CImp_feat_Base::CanGetLoc(), SSNP_Info::ParseSeq_feat(), CFindASN1Dlg::ReplaceInFeature(), s_LocIsFuzz(), CImp_feat_Base::SetLoc(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupImpFeat(), and CSingleFeatValidator::x_ValidateImpFeatLoc().

IsSetLocation() [1/2]

bool CClone_seq_Base::IsSetLocation ( void  ) const

inline

location on sequence Check if a value has been assigned to Location data member.

Data member Location is mandatory; its type is defined as 'typedef CSeq_loc TLocation'

Returns

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

Definition at line 492 of file Clone_seq_.hpp.

References CClone_seq_Base::m_Location.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_clone_seq_clone_seq_E_E_ETC().

IsSetLocation() [2/2]

bool CSeq_feat_Base::IsSetLocation ( void  ) const

inline

feature made from Check if a value has been assigned to Location data member.

Data member Location is mandatory; its type is defined as 'typedef CSeq_loc TLocation'

Returns

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

Definition at line 1105 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Location.

Referenced by AddExceptionsToShortIntron(), AddFeat(), CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CRemoveFeaturesDlg::ApplyToCSeq_entry(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CVariationUtilities::CorrectRefAllele(), CEditObjectSeq_feat::CreateWindowImpl(), CValidError_feat::DoesCDSHaveShortIntrons(), DoesFeatureHaveUnnecessaryException(), CCleanup::ExpandGeneToIncludeChildren(), ExtendCDSToStopCodon(), ExtendToStopCodon(), FinalCleanup(), CSeqTranslator::FindBestFrame(), FixMixLoc(), CCleanup::FixRNAEditingCodingRegion(), GetCdRegionCB(), CCleanup::GetCodeBreakForLocation(), CResolveIntersectingFeats::GetCommand(), CBulkGene::GetCommandFromValuesTable(), CBulkMiscFeat::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), GetFeatNameAndLoc(), CValidErrorFormat::GetFeatureLocationLabel(), CFeatureGenePanel::GetLocationForGene(), GetRetranslateCDSCommand(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CSeqIdField::GetVal(), CBulkGene::GetValuesTableFromSeqEntry(), CBulkMiscFeat::GetValuesTableFromSeqEntry(), CBulkRna::GetValuesTableFromSeqEntry(), CAsn2FastaApp::HandleSeqEntry(), IfOnlyStopCodon(), CNewCleanup_imp::ImpFeatBC(), InspectSeqFeat(), CValidError_feat::IsIntronShort(), CMRnaForCDS::IsOrganelle(), CVariationUtilities::IsReferenceCorrect(), CFeatureTableReader::MakeGap(), MakemRNAforCDS(), CDiscrepancyPanel::OnListClk(), CValidatePanel::OnListItemSelected(), CCleanup::ParseCodeBreak(), CCleanup::ParseCodeBreaks(), CValidError_imp::PostErr(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), ReverseComplementFeature(), CNewCleanup_imp::RnaFeatBC(), CMacroFunction_ConvertLocStrand::s_ConvertLocationStrand(), ApplyCDSFrame::s_FindMatchingFrame(), CMacroFunction_ApplyCDSFrame::s_FindMatchingFrame(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetGeneTextLabel(), Translate(), CSeqTableInfo::UpdateSeq_feat(), CSingleFeatValidator::Validate(), CValidError_bioseq::ValidateRawConst(), CUCSCRegionWriter::WriteAnnot(), CSequenceEditingEventHandler::x_CacheSelectedLocations(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CFeaturePropagator::x_ExtendToStopCodon(), CFeatureTableReader_Imp::x_FinishFeature(), CNewCleanup_imp::x_FixParentPartials(), CDeflineGenerator::x_GetLongestProtein(), CFeatureTableReader_Imp::x_GetPointStrand(), x_GetSegSeqInfoViaCDS(), CIntronValidator::x_IsIntronShort(), CBioseqContext::x_SetOpticalMapPoints(), CVariationNormalization_base< T >::x_Shift(), CAdjustForConsensusSpliceSite::x_UpdateExonFeatures(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), CFeatureTableReader_Imp::x_UpdatePointStrand(), CSingleFeatValidator::x_ValidateBothStrands(), CSingleFeatValidator::x_ValidateFeatPartialness(), CSingleFeatValidator::x_ValidateGeneXRef(), CCdregionValidator::x_ValidateProductId(), CFeatTableEdit::xGenerate_mRNA_Product(), and CFeatureTableReader::xTranslateProtein().

IsSetMethod()

bool CModelEvidenceSupport_Base::IsSetMethod ( void  ) const

inline

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

Data member Method is optional; its type is defined as 'typedef string TMethod'

Returns

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

Definition at line 508 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::CanGetMethod(), and CModelEvidenceSupport_Base::SetMethod().

IsSetMismatch()

bool CCdregion_Base::IsSetMismatch ( void  ) const

inline

number of mismatches on above Check if a value has been assigned to Mismatch data member.

Data member Mismatch is optional; its type is defined as 'typedef TSeqPos TMismatch'

Returns

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

Definition at line 653 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State.

Referenced by CCdregion_Base::CanGetMismatch(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and CCdregion_Base::SetMismatch().

IsSetModel_evidence()

bool CSeqFeatSupport_Base::IsSetModel_evidence ( void  ) const

inline

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

Data member Model_evidence is optional; its type is defined as 'typedef list< CRef< CModelEvidenceSupport > > TModel_evidence'

Returns

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

Definition at line 276 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeatSupport(), and CModifySeqId::x_UpdateFeat().

IsSetMrna()

bool CModelEvidenceSupport_Base::IsSetMrna ( void  ) const

inline

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

Data member Mrna is optional; its type is defined as 'typedef list< CRef< CModelEvidenceItem > > TMrna'

Returns

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

Definition at line 555 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

IsSetName() [1/2]

bool CClone_ref_Base::IsSetName ( void  ) const

inline

Official clone symbol Check if a value has been assigned to Name data member.

Data member Name is mandatory; its type is defined as 'typedef string TName'

Returns

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

Definition at line 393 of file Clone_ref_.hpp.

References CClone_ref_Base::m_set_State.

Referenced by CClone_ref_Base::CanGetName(), CSeq_featHandler::GetLabel(), NSearchFeatPanel::s_GetFeatureLabel(), and CClone_ref_Base::SetName().

IsSetName() [2/2]

bool CProgram_id_Base::IsSetName ( void  ) const

inline

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

Data member Name is mandatory; its type is defined as 'typedef string TName'

Returns

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

Definition at line 200 of file Program_id_.hpp.

References CProgram_id_Base::m_set_State.

Referenced by CProgram_id_Base::CanGetName(), and CProgram_id_Base::SetName().

IsSetOrf()

bool CCdregion_Base::IsSetOrf ( void  ) const

inline

just an ORF ? Check if a value has been assigned to Orf data member.

Data member Orf is optional; its type is defined as 'typedef bool TOrf'

Returns

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

Definition at line 462 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State.

Referenced by CCdregion_Base::CanGetOrf(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), s_GetCdregionLabel(), CCdregion_Base::SetOrf(), CCdregionValidator::Validate(), and CCdregionValidator::x_IsProductMisplaced().

IsSetOther_type()

bool CInferenceSupport_Base::IsSetOther_type ( void  ) const

inline

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

Data member Other_type is optional; its type is defined as 'typedef string TOther_type'

Returns

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

Definition at line 518 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::CanGetOther_type(), and CInferenceSupport_Base::SetOther_type().

IsSetPartial()

bool CSeq_feat_Base::IsSetPartial ( void  ) const

inline

incomplete in some way? Check if a value has been assigned to Partial data member.

Data member Partial is optional; its type is defined as 'typedef bool TPartial'

Returns

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

Definition at line 943 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by AdjustFeaturePartialFlagForLocation(), BOOST_AUTO_TEST_CASE(), CCDSTranslationProblems::CalculateTranslationProblems(), CSeq_feat_Base::CanGetPartial(), CAnnotObject_Ref::CAnnotObject_Ref(), CNewCleanup_imp::CdRegionEC(), CGenericPropsPanel::CreateControls(), GetMismatches(), GetProtRefAnnot(), GetProtRefDescr(), CConvertBadCdsAndRnaToMiscFeat::getShortRRNA(), HasNoStop(), InternalStopCodon(), CSeqUtils::IsPartialFeature(), CSeq_feat_Handle::IsSetPartial(), CEditingActionFeatPartial::IsSetValue(), MakeGeneForFeature(), CMrnaMatchInfo::OkWithoutCds(), SSNP_Info::ParseSeq_feat(), ProcFeatBlk(), CAnnotObject_Ref::ResetLocation(), CNewCleanup_imp::ResynchProteinPartials(), CDemoApp::Run(), s_CheckLocationPolicyResults(), s_CompareFtables(), CReportEntry::SetCds(), CSeq_feat_Base::SetPartial(), CValidError_bioseq::x_DupFeatSeverity(), CAutoDefFeatureClause::x_GetProductName(), x_GetSegSeqInfoViaCDS(), CCDSTranslationProblems::x_GetTranslationMismatches(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CRNAValidator::x_ReportRNATranslationProblems(), CReportEntry::x_SetRnaCds(), CSingleFeatValidator::x_ValidateFeatPartialness(), and CGff2Writer::xAssignFeatureAttributePartial().

IsSetPlacement_method()

bool CClone_ref_Base::IsSetPlacement_method ( void  ) const

inline

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

Data member Placement_method is optional; its type is defined as 'typedef int TPlacement_method'

Returns

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

Definition at line 587 of file Clone_ref_.hpp.

References CClone_ref_Base::m_set_State.

Referenced by CClone_ref_Base::CanGetPlacement_method(), CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CClone_ref_Base::SetPlacement_method(), and CClonePlacementGlyph::x_Draw().

IsSetPmids() [1/2]

bool CExperimentSupport_Base::IsSetPmids ( void  ) const

inline

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

Data member Pmids is optional; its type is defined as 'typedef list< CPubMedId > TPmids'

Returns

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

Definition at line 365 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_set_State.

IsSetPmids() [2/2]

bool CInferenceSupport_Base::IsSetPmids ( void  ) const

inline

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

Data member Pmids is optional; its type is defined as 'typedef list< CPubMedId > TPmids'

Returns

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

Definition at line 645 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_set_State.

IsSetProduct()

bool CSeq_feat_Base::IsSetProduct ( void  ) const

inline

product of process Check if a value has been assigned to Product data member.

Data member Product is optional; its type is defined as 'typedef CSeq_loc TProduct'

Returns

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

Definition at line 1084 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Product.

Referenced by CSeqsRange::Add(), CLinkUtils::AddBlastProductLink(), CExceptionPanel::AddCommand(), AddExceptionsToShortIntron(), CCleanup::AddProtein(), CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustForCDSPartials(), CFeatGapInfo::AdjustForRelevantGapIntervals(), CFeatGapInfo::AdjustProteinSeq(), AdjustSingleFeature(), CApplyObject::ApplyChange(), ApplyPolicyToFeature(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CCDSTranslationProblems::CalculateTranslationProblems(), CSeq_feat_Base::CanGetProduct(), CNewCleanup_imp::CdRegionEC(), CFixForTransSplicing::CombineFeatures(), CAnnotCompare::CompareFeats(), CFeaturePropagator::ConstructProteinFeatureForPropagatedCodingRegion(), Convert_Seq_feat_Seq_loc_Prod_Loc(), CreateSeqLocMapperFromFeat(), CRemoveName::CRemoveName(), DoesCodingRegionHaveUnnecessaryException(), DoesmRNAHaveUnnecessaryException(), FeatureHasEnds(), GetBestCdsForMrna(), GetBestMrnaForCds(), GetCDSProductSeq(), GetCDSProductSequence(), CExtendPartialFeatDlg::GetCommand(), CFuseFeaturesDlg::GetCommand(), GetEditLocationCommand(), CValidErrorFormat::GetFeatureProductLocLabel(), GetFeatureProtein(), CSeq_featHandler::GetLabel(), CCreatedFeat_Ref::GetMappedFeature(), CSeqUtils::GetMappingInfo(), GetProductForCDS(), GetProductName(), CCleanup::GetProteinLocationFromNucleotideLocation(), CCleanup::GetProteinName(), GetRelatedFeatures(), GetRetranslateCDSCommand(), GetSynchronizeProductMolInfoCommand(), GetSynchronizeProteinPartialsCommand(), GetTargetedLocusName(), CEditingActionFeatTranslation::GetValue(), CEditingActionFeatTranscriptId::GetValue(), CAsn2FastaApp::HandleSeqEntry(), HasBadProteinStart(), HasStopInProtein(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CCreateFeat::IsSetProduct(), CSeq_feat_Handle::IsSetProduct(), CEditingActionFeatTranslation::IsSetValue(), CEditingActionFeatTranscriptId::IsSetValue(), CSeq_loc_Mapper_Base::Map(), CSelectionEvent::MatchFeatWithId(), CCleanup::MoveFeatToProtein(), SSNP_Info::ParseSeq_feat(), CCdsToMatPeptide::RemoveProteins(), CCleanup::RemovePseudoProduct(), CCleanup::RepackageProteins(), CEditingActionFeatTranscriptId::ResetValue(), RetranslateCdregion(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), s_CompareFtables(), ApplyCDSFrame::s_FindMatchingFrame(), CMacroFunction_ApplyCDSFrame::s_FindMatchingFrame(), s_Fingerprint_Seq_feat(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetFeatureLabel(), s_GetMrnaProductString(), s_GetProductIdOrLocusTag(), s_GetProductName(), s_IdXrefsNotReciprocal(), s_MoveProteinSpecificFeats(), s_RemapFeatureSeqIds(), s_Render_SeqFeat(), CReportEntry::SetMrna(), CCleanup::SetProteinName(), CEditingActionFeatTranslation::SetValue(), sGetCdsProductName(), CLDS2_AnnotType_Hook::SkipObject(), CMacroFunction_ApplyCDSFrame::TheFunction(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), TranslateCDSCommand(), TrimSequenceAndAnnotation(), TrimStopsFromCompleteCDS(), CSeqTableInfo::UpdateSeq_feat(), CSingleFeatValidator::Validate(), CCdregionValidator::Validate(), CValidError_bioseq::ValidateBioseqContext(), CValidError_bioseq::ValidateSeqFeatContext(), CCleanup::WGSCleanup(), CFastaOstreamEx::x_AddProteinIdAttribute(), CFastaOstreamEx::x_AddProteinNameAttribute(), CFastaOstreamEx::x_AddTranscriptIdAttribute(), CSequenceUpdater::x_AdjustOldCDSProduct(), CCDSTranslationProblems::x_CheckForRaggedEnd(), CSGAlignmentJob::x_CreateFeatGlyph(), CImportFeatTable::x_DoImportCDS(), CSequenceUpdater::x_FuseProtFeatsForCDS(), CSingleFeatValidator::x_GetFeatureProduct(), CGuiObjectInfoSeq_feat::x_GetProductLengthRow(), CAutoDefFeatureClause::x_GetProductName(), CConvertCDSToMiscFeat::x_GetProteinDesc(), CAlignedFeatureGraph::x_GetTooltip(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CValidError_bioseq::x_IdXrefsNotReciprocal(), CSequenceUpdater::x_ImportCDSProduct(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CNewCleanup_imp::x_IsCommentRedundantWithEC(), CCdregionValidator::x_IsProductMisplaced(), CNewCleanup_imp::x_MoveCdregionXrefsToProt(), CConvertFeatureBase::x_MoveFeatureToProtein(), CGFFReader::x_PlaceFeature(), CRNAPanel::x_PopulateTranscriptID(), CAnnotObject_Info::x_ProcessFeat(), CPromote::x_PromoteRna(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CReportEntry::x_SetMrnaMapper(), CConvertFeatureBase::x_SimpleConversion(), CSplitDataLoader::x_SplitFeats(), CValidError_bioseq::x_TranscriptIDsMatch(), CVectorTrimPanel::x_TrimSelected(), CModifySeqId::x_UpdateFeat(), CCdregionValidator::x_ValidateCodebreak(), CMRNAValidator::x_ValidateCommonMRNAProduct(), CCdregionValidator::x_ValidateCommonProduct(), CCdregionValidator::x_ValidateFarProducts(), CSingleFeatValidator::x_ValidateFeatPartialness(), CSingleFeatValidator::x_ValidateLocusTagGeneralMatch(), CCdregionValidator::x_ValidateProductId(), CRNAValidator::x_ValidateRnaProduct(), CSingleFeatValidator::x_ValidateSeqFeatProduct(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatureTableReader::xMoveCdRegions(), and CFeatureTableReader::xTranslateProtein().

IsSetPrograms()

bool CEvidenceBasis_Base::IsSetPrograms ( void  ) const

inline

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

Data member Programs is optional; its type is defined as 'typedef list< CRef< CProgram_id > > TPrograms'

Returns

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

Definition at line 191 of file EvidenceBasis_.hpp.

References CEvidenceBasis_Base::m_set_State.

IsSetProtein()

bool CModelEvidenceSupport_Base::IsSetProtein ( void  ) const

inline

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

Data member Protein is optional; its type is defined as 'typedef list< CRef< CModelEvidenceItem > > TProtein'

Returns

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

Definition at line 605 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

IsSetPseudo()

bool CSeq_feat_Base::IsSetPseudo ( void  ) const

inline

annotated on pseudogene? Check if a value has been assigned to Pseudo data member.

Data member Pseudo is optional; its type is defined as 'typedef bool TPseudo'

Returns

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

Definition at line 1346 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CSeq_feat_Base::CanGetPseudo(), CNewCleanup_imp::CdRegionEC(), CkCdRegion(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CValidError_feat::IsIntronShort(), CDiscrepancyContext::IsPseudo(), CGeneCache::IsPseudo(), IsPseudo(), CSeqUtils::IsPseudoFeature(), CSeq_feat_Handle::IsSetPseudo(), CEditingActionFeatPseudo::IsSetValue(), SSNP_Info::ParseSeq_feat(), s_CheckQuals_cdregion(), s_CompareFtables(), CSingleFeatValidator::s_IsPseudo(), s_IsPseudo(), CSeq_feat_Base::SetPseudo(), CValidError_bioseq::ValidateSeqFeatContext(), CFastaOstreamEx::x_AddPseudoAttribute(), CValidError_bioseq::x_DupFeatSeverity(), CAutoDefFeatureClause::x_GetProductName(), x_IsPseudo(), CGeneModelFeatJob::x_IsPseudoGene(), CPromote::x_PromoteCdregion(), CPromote::x_PromoteRna(), CNewCleanup_imp::x_ShouldRemoveEmptyGene(), CValidError_bioseq::x_ValidateCDSmRNAmatch(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaType(), CSoMap::xMapCds(), CSoMap::xMapGene(), and CSoMap::xMapRna().

IsSetQual() [1/2]

bool CGb_qual_Base::IsSetQual ( void  ) const

inline

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

Data member Qual is mandatory; its type is defined as 'typedef string TQual'

Returns

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

Definition at line 200 of file Gb_qual_.hpp.

References CGb_qual_Base::m_set_State.

Referenced by CGb_qual_Base::CanGetQual(), DbxrefQualToDbtag(), s_CleanupIsShortrRNA(), SetExceptFromGbqual(), CGb_qual_Base::SetQual(), CSeqFeatData::ShouldRepresentAsGbqual(), SplitMultiValQual(), CGBQualPanel::Update_tRNA_ProductQual(), CFeatureItem::x_AddFTableQuals(), CFeatureItem::x_AddQualOldLocusTag(), CFeatureItem::x_AddQualsExt(), CPromote::x_GetProductId(), CSatelliteTypeNameColumn::x_IsQualAMatch(), x_LeuCUGstart(), CSingleFeatValidator::x_ValidateGbQual(), CSingleFeatValidator::x_ValidateGeneXRef(), CGff2Writer::xAssignFeatureAttributeExonNumber(), XMLGetQuals(), and XMLGetXrefs().

IsSetQual() [2/2]

bool CSeq_feat_Base::IsSetQual ( void  ) const

inline

qualifiers Check if a value has been assigned to Qual data member.

Data member Qual is optional; its type is defined as 'typedef vector< CRef< CGb_qual > > TQual'

Returns

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

Definition at line 1135 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CPseudoPanel::AddCommand(), CSeq_feat::AddOrReplaceQualifier(), CConvertBadInference::apply(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BioSourceFromImpFeat(), CCDSTranslationProblems::CalculateTranslationProblems(), CEditObjectSeq_feat::CanClose(), CheckQual(), CGbQualColumn::ClearInFeature(), CSatelliteColumn::ClearInFeature(), CSatelliteTypeNameColumn::ClearInFeature(), CConvertCDSToMiscFeat::Convert(), CConvertImpToProt::Convert(), CGBQualPanel::CreateControls(), CGenericPropsPanel::CreateControls(), FilterDb_xref(), TAsyncToken::FindGeneByLocusTag(), TAsyncToken::FindMrnaByQual(), fta_check_codon_quals(), fta_check_exception(), fta_collect_olts(), GetCdRegionCB(), CEditObjectSeq_feat::GetEditCommand(), CCreateFeat::GetFeatLabel(), CGbQualColumn::GetFromFeat(), CSatelliteTypeNameColumn::GetFromFeat(), CSeq_featHandler::GetLabel(), CSeq_feat::GetNamedQual(), GetTargetedLocusName(), CCreateFeat::HasFeatLabel(), CWrongIllegalQuals::IllegalQualsToNote(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CAutoDefFeatureClause::IsExonWithNumber(), CAutoDefFeatureClause::IsLTR(), IsMicroSatellite(), CDiscrepancyContext::IsPseudo(), IsPseudo(), CSeq_feat_Handle::IsSetQual(), LookForProductName(), CEditingActionFeatGbQual::Modify(), CEditingActionFeatGbQualTwoNames::Modify(), CEditingActionFeatRnaQual::Modify(), CEditingActionFeatSynonym::Modify(), CEditingActionFeatActivity::Modify(), CEditingActionFeatEcNumber::Modify(), CEditingActionFeatFunction::Modify(), CEditingActionFeatProduct::Modify(), CGenericPropsPanel::ModifyPseudo(), CNewCleanup_imp::MoveDbxrefs(), CNewCleanup_imp::MoveStandardName(), CGBQualPanel::PanelNeeded(), CCleanup::ParseCodeBreaks(), SSNP_Info::ParseSeq_feat(), QualsToSeqID(), CSatelliteTypeNameColumn::RelaxedMatch(), CTable2AsnContext::RemoveProteinIdsQuals(), CSeq_feat::RemoveQualifier(), CTable2AsnContext::RenameProteinIdsQuals(), RescueProtProductQual(), CWrongIllegalQuals::RmIllegalQuals(), CWrongIllegalQuals::RmWrongOrIllegalQuals(), CWrongIllegalQuals::RmWrongQuals(), s_FeatureHasEvidenceOrInferenceQuals(), s_Fingerprint_Seq_feat(), s_FixncRNA(), s_FixtmRNA(), s_GetContentLabel(), s_GetFeatureContentLabelExtras(), NSearchFeatPanel::s_GetFeatureLabel(), s_GetImpLabel(), s_GetProteinNameFromXrefOrQual(), s_HasNamedQual(), s_HasTag(), CCleanup::s_IsProductOnFeat(), CCleanup::s_SetProductOnFeat(), CFeatureGenerator::SImplementation::SetFeatureExceptions(), CCleanup::SetMrnaName(), SortGBQuals(), CMacroFunction_SatelliteFields::TheFunction(), CMacroFunction_MobileElementTypeFields::TheFunction(), CGBQualStringListValidator::TransferFromWindow(), CGBQualStringListValidator::TransferToWindow(), CMiscFeatValidator::Validate(), CImpFeatValidator::Validate(), CCleanup::WGSCleanup(), CWrongIllegalQuals::WrongQualsToNote(), CFeatGapInfo::x_AdjustOrigLabel(), x_AdjustOrigLabel(), CNewCleanup_imp::x_CleanSeqFeatQuals(), CConvertFeatureBase::x_ExtractQuals(), CNewCleanup_imp::x_FixMiscRNA(), CValidErrorFormat::x_FormatECNumberForSubmitterReport(), CAutoDefFeatureClause::x_GetExonDescription(), CAutoDefFeatureClause::x_GetFeatureTypeWord(), CAutoDefFeatureClause::x_GetProductName(), CGeneCache::x_HasNamedQual(), x_HasNamedQual(), CSingleFeatValidator::x_HasNamedQual(), x_LeuCUGstart(), CSingleFeatValidator::x_ReportPseudogeneConflict(), CExperimentListPanel::x_SetExperiments(), CInferenceListPanel::x_SetInferences(), CSingleFeatValidator::x_ValidateGbquals(), CSingleFeatValidator::x_ValidateImpFeatQuals(), CMRNAValidator::x_ValidateMrna(), CSingleFeatValidator::x_ValidateNonGene(), CSingleFeatValidator::x_ValidateNonImpFeat(), CGeneValidator::x_ValidateOperon(), and CGff3AnnotAssembler::xIsLocationPending().

IsSetSame_species()

bool CInferenceSupport_Base::IsSetSame_species ( void  ) const

inline

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

Data member Same_species is optional with default false; its type is defined as 'typedef bool TSame_species'

Returns

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

Definition at line 565 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::SetSame_species().

IsSetSeq()

bool CClone_seq_Base::IsSetSeq ( void  ) const

inline

clone sequence location Check if a value has been assigned to Seq data member.

Data member Seq is optional; its type is defined as 'typedef CSeq_loc TSeq'

Returns

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

Definition at line 522 of file Clone_seq_.hpp.

References CClone_seq_Base::m_Seq.

Referenced by CClone_seq_Base::CanGetSeq(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_clone_seq_clone_seq_E_E_ETC().

IsSetStops()

bool CCdregion_Base::IsSetStops ( void  ) const

inline

number of stop codons on above Check if a value has been assigned to Stops data member.

Data member Stops is optional; its type is defined as 'typedef TSeqPos TStops'

Returns

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

Definition at line 746 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State.

Referenced by CCdregion_Base::CanGetStops(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and CCdregion_Base::SetStops().

IsSetSupport() [1/2]

bool CClone_seq_Base::IsSetSupport ( void  ) const

inline

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

Data member Support is optional; its type is defined as 'typedef int TSupport'

Returns

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

Definition at line 564 of file Clone_seq_.hpp.

References CClone_seq_Base::m_set_State.

Referenced by CClone_seq_Base::CanGetSupport(), and CClone_seq_Base::SetSupport().

IsSetSupport() [2/2]

bool CSeq_feat_Base::IsSetSupport ( void  ) const

inline

will replace /experiment, /inference, model-evidence Check if a value has been assigned to Support data member.

Data member Support is optional; its type is defined as 'typedef CSeqFeatSupport TSupport'

Returns

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

Definition at line 1490 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Support.

Referenced by CAutogeneratedCleanup::BasicCleanupSeqFeat(), CSeq_feat_Base::CanGetSupport(), and CModifySeqId::x_UpdateFeat().

IsSetSupports_all_exon_combo() [1/2]

bool CModelEvidenceItem_Base::IsSetSupports_all_exon_combo ( void  ) const

inline

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

Data member Supports_all_exon_combo is optional with default false; its type is defined as 'typedef bool TSupports_all_exon_combo'

Returns

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

Definition at line 498 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_set_State.

Referenced by CModelEvidenceItem_Base::SetSupports_all_exon_combo().

IsSetSupports_all_exon_combo() [2/2]

bool CModelEvidenceSupport_Base::IsSetSupports_all_exon_combo ( void  ) const

inline

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

Data member Supports_all_exon_combo is optional with default false; its type is defined as 'typedef bool TSupports_all_exon_combo'

Returns

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

Definition at line 820 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::SetSupports_all_exon_combo().

IsSetTitle()

bool CSeq_feat_Base::IsSetTitle ( void  ) const

inline

for user defined label Check if a value has been assigned to Title data member.

Data member Title is optional; its type is defined as 'typedef string TTitle'

Returns

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

Definition at line 1160 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CAutogeneratedCleanup::BasicCleanupSeqFeat(), CSeq_feat_Base::CanGetTitle(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Handle::IsSetTitle(), SSNP_Info::ParseSeq_feat(), CFindASN1Dlg::ReplaceInFeature(), NSearchFeatPanel::s_GetFeatureLabel(), and CSeq_feat_Base::SetTitle().

IsSetType() [1/2]

bool CClone_seq_Base::IsSetType ( void  ) const

inline

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

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

Returns

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

Definition at line 398 of file Clone_seq_.hpp.

References CClone_seq_Base::m_set_State.

Referenced by CClone_seq_Base::CanGetType(), and CClone_seq_Base::SetType().

IsSetType() [2/2]

bool CInferenceSupport_Base::IsSetType ( void  ) const

inline

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

Data member Type is optional with default eType_not_set; its type is defined as 'typedef int TType'

Returns

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

Definition at line 468 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::SetType().

IsSetUnique()

bool CClone_ref_Base::IsSetUnique ( void  ) const

inline

OPTIONAL? Check if a value has been assigned to Unique data member.

Data member Unique is optional with default false; its type is defined as 'typedef bool TUnique'

Returns

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

Definition at line 537 of file Clone_ref_.hpp.

References CClone_ref_Base::m_set_State.

Referenced by CSeq_featHandler::GetLabel(), CGuiObjectInfoClone::GetToolTip(), CClone_ref_Base::SetUnique(), and CClonePlacementGlyph::x_Draw().

IsSetVal()

bool CGb_qual_Base::IsSetVal ( void  ) const

inline

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

Data member Val is mandatory; its type is defined as 'typedef string TVal'

Returns

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

Definition at line 247 of file Gb_qual_.hpp.

References CGb_qual_Base::m_set_State.

Referenced by CGb_qual_Base::CanGetVal(), CkQualMatchToken(), CkQualText(), CkQualTokenType(), DbxrefQualToDbtag(), CNewCleanup_imp::GBQualBC(), CEditingActionFeatGbQual::IsSetValue(), CEditingActionFeatDualVal1::IsSetValue(), CEditingActionFeatDualVal2::IsSetValue(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CEditingActionFeatTranslExcept::IsSetValue(), CEditingActionFeatRnaQual::IsSetValue(), CEditingActionFeatRegion::IsSetValue(), CEditingActionFeatCodonStart::IsSetValue(), CEditingActionFeatTranslTable::IsSetValue(), CEditingActionFeatDesc::IsSetValue(), CEditingActionFeatLocus_tag::IsSetValue(), CEditingActionFeatMaploc::IsSetValue(), CEditingActionFeatSynonym::IsSetValue(), CEditingActionFeatAllele::IsSetValue(), CEditingActionFeatActivity::IsSetValue(), CEditingActionFeatTranslation::IsSetValue(), CEditingActionFeatEcNumber::IsSetValue(), CEditingActionFeatFunction::IsSetValue(), CEditingActionFeatProduct::IsSetValue(), CEditingActionFeatGeneLocus::IsSetValue(), CEditingActionFeatTranscriptId::IsSetValue(), CEditingActionFeatDualVal1::ResetValue(), CEditingActionFeatDualVal2::ResetValue(), s_ParseParentQual(), SetExceptFromGbqual(), CGb_qual_Base::SetVal(), CEditingActionFeatDualVal1::SetValue(), CEditingActionFeatDualVal2::SetValue(), CGBQualPanel::TransferDataFromWindow(), CtRNAProductPanel::TransferDataToWindow(), CFeatureItem::x_AddFTableQuals(), CFeatureItem::x_AddQualOldLocusTag(), CCmdFeatIdXrefsFromQualifiers::x_CreateActionCmd(), CPromote::x_GetProductId(), CSatelliteTypeNameColumn::x_IsQualAMatch(), CNewCleanup_imp::x_SeqFeatRnaGBQualBC(), CSingleFeatValidator::x_ValidateGbQual(), and XMLGetQuals().

IsSetVersion()

bool CProgram_id_Base::IsSetVersion ( void  ) const

inline

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

Data member Version is optional; its type is defined as 'typedef string TVersion'

Returns

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

Definition at line 247 of file Program_id_.hpp.

References CProgram_id_Base::m_set_State.

Referenced by CProgram_id_Base::CanGetVersion(), and CProgram_id_Base::SetVersion().

IsSetXref()

bool CSeq_feat_Base::IsSetXref ( void  ) const

inline

cite other relevant features Check if a value has been assigned to Xref data member.

Data member Xref is optional; its type is defined as 'typedef vector< CRef< CSeqFeatXref > > TXref'

Returns

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

Definition at line 1296 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State.

Referenced by CThreeFeatRecord::AddFeature(), CFeatureGenePanel::AddReciprocicalXref(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustProteinFeature(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), CSeq_annot_Info::ClearFeatIds(), ClearGeneXref(), CGeneRefColumn::ClearInFeature(), CmRNACDSLinker::CompleteHalfFormedXrefPairs(), CEditObjectSeq_feat::CreateWindowImpl(), CCleanup::ExpandGeneToIncludeChildren(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), CNewCleanup_imp::GeneFeatBC(), CCrossRefFeatsDlg::GetCommand(), CGeneFeatFromXrefs::GetCommand(), CGeneRefColumn::GetFromFeat(), GetGeneForFeature(), GetmRNAforCDS(), GetProductName(), CmRNACDSLinker::GetReferencedmRNA_CDS(), CSeq_feat::HasSeqFeatXref(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CDiscrepancyContext::IsPseudo(), IsPseudo(), CSeq_feat_Handle::IsSetXref(), CCleanup::NormalizeGeneQuals(), TAsyncToken::ParentGene(), TAsyncToken::ParentMrna(), SSNP_Info::ParseSeq_feat(), CFeatIdRemapper::RemapIds(), CRemoveGeneXrefs::RemoveAll(), CSeq_annot_Info::RemoveFeatId(), CCreateGeneModelTask::s_FeaturesHaveXrefs(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), s_GetCDSformRNA(), s_GetmRNAForCDS(), s_GetProductName(), s_GetProteinNameFromXrefOrQual(), s_IsDirectXrefBetween(), CmRNACDSLinker::s_IsDirectXrefBetween(), CCleanup::s_IsProductOnFeat(), s_IsRelated(), CFixFeatureId::s_ReassignFeatureIds(), CMacroFunction_RemoveQual::s_RemoveFields(), CCleanup::s_SetProductOnFeat(), CFixFeatureId::s_UpdateFeatureIds(), s_UpdateFeatureIds(), CIdentifiersPanel::SetIdXrefs(), CCleanup::SetProteinName(), sFeatureHasXref(), sGetCdsProductName(), sx_GeneIsSuppressed(), CMacroFunction_SwapQual::TheFunction(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_RemoveGeneXref::TheFunction(), TranslateCDSCommand(), CValidError_feat::ValidateOneFeatXrefPair(), CValidError_feat::ValidateSeqFeatXref(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CEditObjectSeq_feat::x_HandleCdsProduct(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CValidError_feat::x_HasNonReciprocalXref(), CIdentifiersPanel::x_IsReciprocalXref(), CSeq_annot_Info::x_MapFeatIds(), CNewCleanup_imp::x_MoveCdregionXrefsToProt(), CmRNACDSLinker::x_ReplaceExistingFeatIdXrefs(), CMacroFunction_SwapRelFeatQual::x_SetOrCreateDestFeatFields(), CSeq_annot_Info::x_UnmapFeatIds(), and CSingleFeatValidator::x_ValidateGeneXRef().

IsSite()

bool CSeqFeatData_Base::IsSite ( void  ) const

inline

Check if variant Site is selected.

Site type is defined as 'typedef ESite TSite'.

Returns

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

Definition at line 993 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Site, and CSeqFeatData_Base::m_choice.

Referenced by CEditObjectSeq_feat::CreateWindowImpl(), s_CleanCDDFeature(), and CFeatureItem::x_AddQualsSite().

IsSncbi8aa()

bool CGenetic_code_Base::C_E::IsSncbi8aa ( void  ) const

inline

Check if variant Sncbi8aa is selected.

Sncbi8aa type is defined as 'typedef vector< char > TSncbi8aa'.

Returns

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

Definition at line 625 of file Genetic_code_.hpp.

IsSncbieaa()

bool CGenetic_code_Base::C_E::IsSncbieaa ( void  ) const

inline

Check if variant Sncbieaa is selected.

Sncbieaa type is defined as 'typedef string TSncbieaa'.

Returns

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

Definition at line 605 of file Genetic_code_.hpp.

IsSncbistdaa()

bool CGenetic_code_Base::C_E::IsSncbistdaa ( void  ) const

inline

Check if variant Sncbistdaa is selected.

Sncbistdaa type is defined as 'typedef vector< char > TSncbistdaa'.

Returns

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

Definition at line 645 of file Genetic_code_.hpp.

IsTxinit()

bool CSeqFeatData_Base::IsTxinit ( void  ) const

inline

Check if variant Txinit is selected.

Txinit type is defined as 'typedef CTxinit TTxinit'.

Returns

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

Definition at line 1032 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Txinit, and CSeqFeatData_Base::m_choice.

IsUser()

bool CSeqFeatData_Base::IsUser ( void  ) const

inline

Check if variant User is selected.

User type is defined as 'typedef CUser_object TUser'.

Returns

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

Definition at line 1026 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_User, and CSeqFeatData_Base::m_choice.

Referenced by CBedFeatureRecord::AssignDisplayData(), CSeq_featHandler::GetLabel(), and CUserFeatHandler::GetLabel().

IsVariation()

bool CSeqFeatData_Base::IsVariation ( void  ) const

inline

Check if variant Variation is selected.

Variation type is defined as 'typedef CVariation_ref TVariation'.

Returns

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

Definition at line 1123 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Variation, and CSeqFeatData_Base::m_choice.

Referenced by CReportTrim::AdjustAndTranslate(), variation::CVariationUtil::AsVariation(), variation_ref::CVariationUtil::CheckExonBoundary(), CVariationUtilities::CorrectRefAllele(), g_ValidateVariationSeqfeat(), NSnpGui::GetVcfType(), CVariationUtilities::IsReferenceCorrect(), variation_ref::CVariationUtil::PrecursorToProt(), variation_ref::CVariationUtil::ProtToPrecursor(), variation_ref::CVariationUtil::Remap(), s_GetVariationLabel(), CFeatureItem::x_AddQualsVariation(), CVariationNormalization_base< T >::x_Shift(), and CModifySeqId::x_UpdateFeat().

operator const Tdata &() [1/3]

CClone_seq_set_Base::operator const CClone_seq_set_Base::Tdata & ( void  ) const

inline

Conversion operator to 'const Tdata' type.

Definition at line 177 of file Clone_seq_set_.hpp.

operator const Tdata &() [2/3]

CGenetic_code_Base::operator const CGenetic_code_Base::Tdata & ( void  ) const

inline

Conversion operator to 'const Tdata' type.

Definition at line 690 of file Genetic_code_.hpp.

References CGenetic_code_Base::m_data.

operator const Tdata &() [3/3]

CGenetic_code_table_Base::operator const CGenetic_code_table_Base::Tdata & ( void  ) const

inline

Conversion operator to 'const Tdata' type.

Definition at line 178 of file Genetic_code_table_.hpp.

operator Tdata &() [1/3]

CClone_seq_set_Base::operator CClone_seq_set_Base::Tdata & ( void  )

inline

Conversion operator to 'Tdata' type.

Definition at line 183 of file Clone_seq_set_.hpp.

operator Tdata &() [2/3]

CGenetic_code_Base::operator CGenetic_code_Base::Tdata & ( void  )

inline

Conversion operator to 'Tdata' type.

Definition at line 696 of file Genetic_code_.hpp.

References CGenetic_code_Base::m_data, and CGenetic_code_Base::m_set_State.

operator Tdata &() [3/3]

CGenetic_code_table_Base::operator CGenetic_code_table_Base::Tdata & ( void  )

inline

Conversion operator to 'Tdata' type.

Definition at line 184 of file Genetic_code_table_.hpp.

operator=() [1/36]

C_Aa& CCode_break_Base::C_Aa::operator= ( const C_Aa &  )

private

operator=() [2/36]

C_E& CGenetic_code_Base::C_E::operator= ( const C_E &  )

private

operator=() [3/36]

CCdregion& CCdregion::operator= ( const CCdregion &  value )

private

operator=() [4/36]

CCdregion_Base& CCdregion_Base::operator= ( const CCdregion_Base &  )

private

operator=() [5/36]

CClone_ref& CClone_ref::operator= ( const CClone_ref &  value )

private

operator=() [6/36]

CClone_ref_Base& CClone_ref_Base::operator= ( const CClone_ref_Base &  )

private

operator=() [7/36]

CClone_seq& CClone_seq::operator= ( const CClone_seq &  value )

private

operator=() [8/36]

CClone_seq_Base& CClone_seq_Base::operator= ( const CClone_seq_Base &  )

private

operator=() [9/36]

CClone_seq_set& CClone_seq_set::operator= ( const CClone_seq_set &  value )

private

operator=() [10/36]

CClone_seq_set_Base& CClone_seq_set_Base::operator= ( const CClone_seq_set_Base &  )

private

operator=() [11/36]

CCode_break& CCode_break::operator= ( const CCode_break &  value )

private

operator=() [12/36]

CCode_break_Base& CCode_break_Base::operator= ( const CCode_break_Base &  )

private

operator=() [13/36]

CEvidenceBasis& CEvidenceBasis::operator= ( const CEvidenceBasis &  value )

private

operator=() [14/36]

CEvidenceBasis_Base& CEvidenceBasis_Base::operator= ( const CEvidenceBasis_Base &  )

private

operator=() [15/36]

CExperimentSupport& CExperimentSupport::operator= ( const CExperimentSupport &  value )

private

operator=() [16/36]

CExperimentSupport_Base& CExperimentSupport_Base::operator= ( const CExperimentSupport_Base &  )

private

operator=() [17/36]

CFeat_id& CFeat_id::operator= ( const CFeat_id &  value )

private

operator=() [18/36]

CFeat_id_Base& CFeat_id_Base::operator= ( const CFeat_id_Base &  )

private

operator=() [19/36]

CGb_qual_Base& CGb_qual_Base::operator= ( const CGb_qual_Base &  )

private

operator=() [20/36]

CGenetic_code_Base& CGenetic_code_Base::operator= ( const CGenetic_code_Base &  )

private

operator=() [21/36]

CGenetic_code_table_Base& CGenetic_code_table_Base::operator= ( const CGenetic_code_table_Base &  )

private

operator=() [22/36]

CImp_feat_Base& CImp_feat_Base::operator= ( const CImp_feat_Base &  )

private

operator=() [23/36]

CInferenceSupport& CInferenceSupport::operator= ( const CInferenceSupport &  value )

private

operator=() [24/36]

CInferenceSupport_Base& CInferenceSupport_Base::operator= ( const CInferenceSupport_Base &  )

private

operator=() [25/36]

CModelEvidenceItem& CModelEvidenceItem::operator= ( const CModelEvidenceItem &  value )

private

operator=() [26/36]

CModelEvidenceItem_Base& CModelEvidenceItem_Base::operator= ( const CModelEvidenceItem_Base &  )

private

operator=() [27/36]

CModelEvidenceSupport& CModelEvidenceSupport::operator= ( const CModelEvidenceSupport &  value )

private

operator=() [28/36]

CModelEvidenceSupport_Base& CModelEvidenceSupport_Base::operator= ( const CModelEvidenceSupport_Base &  )

private

operator=() [29/36]

CProgram_id& CProgram_id::operator= ( const CProgram_id &  value )

private

operator=() [30/36]

CProgram_id_Base& CProgram_id_Base::operator= ( const CProgram_id_Base &  )

private

operator=() [31/36]

CSeq_feat_Base& CSeq_feat_Base::operator= ( const CSeq_feat_Base &  )

private

operator=() [32/36]

CSeqFeatData_Base& CSeqFeatData_Base::operator= ( const CSeqFeatData_Base &  )

private

operator=() [33/36]

CSeqFeatSupport& CSeqFeatSupport::operator= ( const CSeqFeatSupport &  value )

private

operator=() [34/36]

CSeqFeatSupport_Base& CSeqFeatSupport_Base::operator= ( const CSeqFeatSupport_Base &  )

private

operator=() [35/36]

CSeqFeatXref& CSeqFeatXref::operator= ( const CSeqFeatXref &  value )

private

operator=() [36/36]

CSeqFeatXref_Base& CSeqFeatXref_Base::operator= ( const CSeqFeatXref_Base &  )

private

Reset() [1/22]

void CCdregion_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 86 of file Cdregion_.cpp.

References CCdregion_Base::ResetCode(), CCdregion_Base::ResetCode_break(), CCdregion_Base::ResetConflict(), CCdregion_Base::ResetFrame(), CCdregion_Base::ResetGaps(), CCdregion_Base::ResetMismatch(), CCdregion_Base::ResetOrf(), and CCdregion_Base::ResetStops().

Reset() [2/22]

void CClone_ref_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 96 of file Clone_ref_.cpp.

References CClone_ref_Base::ResetClone_seq(), CClone_ref_Base::ResetConcordant(), CClone_ref_Base::ResetLibrary(), CClone_ref_Base::ResetName(), CClone_ref_Base::ResetPlacement_method(), and CClone_ref_Base::ResetUnique().

Reset() [3/22]

void CClone_seq_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 139 of file Clone_seq_.cpp.

References CClone_seq_Base::ResetAlign_id(), CClone_seq_Base::ResetConfidence(), CClone_seq_Base::ResetLocation(), CClone_seq_Base::ResetSeq(), CClone_seq_Base::ResetSupport(), and CClone_seq_Base::ResetType().

Reset() [4/22]

void CClone_seq_set_Base::Reset

(

void

)

Reset data member.

Definition at line 51 of file Clone_seq_set_.cpp.

References CClone_seq_set_Base::m_data, and CClone_seq_set_Base::m_set_State.

Reset() [5/22]

void CCode_break_Base::C_Aa::Reset

(

void

)

Reset the whole object.

Definition at line 51 of file Code_break_.cpp.

References CCode_break_Base::C_Aa::e_not_set, CCode_break_Base::C_Aa::m_choice, and CCode_break_Base::C_Aa::ResetSelection().

Reset() [6/22]

void CCode_break_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 153 of file Code_break_.cpp.

References CCode_break_Base::ResetAa(), and CCode_break_Base::ResetLoc().

Referenced by CCode_break_Base::C_Aa::~C_Aa().

Reset() [7/22]

void CEvidenceBasis_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 64 of file EvidenceBasis_.cpp.

References CEvidenceBasis_Base::ResetAccessions(), and CEvidenceBasis_Base::ResetPrograms().

Reset() [8/22]

void CExperimentSupport_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 68 of file ExperimentSupport_.cpp.

References CExperimentSupport_Base::ResetCategory(), CExperimentSupport_Base::ResetDois(), CExperimentSupport_Base::ResetExplanation(), and CExperimentSupport_Base::ResetPmids().

Reset() [9/22]

void CFeat_id_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 53 of file Feat_id_.cpp.

References CFeat_id_Base::e_not_set, CFeat_id_Base::m_choice, and CFeat_id_Base::ResetSelection().

Referenced by CFeat_id_Base::~CFeat_id_Base().

Reset() [10/22]

void CGb_qual_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 62 of file Gb_qual_.cpp.

References CGb_qual_Base::ResetQual(), and CGb_qual_Base::ResetVal().

Reset() [11/22]

void CGenetic_code_Base::C_E::Reset

(

void

)

Reset the whole object.

Definition at line 50 of file Genetic_code_.cpp.

References CGenetic_code_Base::C_E::e_not_set, CGenetic_code_Base::C_E::m_choice, and CGenetic_code_Base::C_E::ResetSelection().

Reset() [12/22]

void CGenetic_code_Base::Reset

(

void

)

Reset data member.

Definition at line 184 of file Genetic_code_.cpp.

References CGenetic_code_Base::m_data, and CGenetic_code_Base::m_set_State.

Referenced by CGenetic_code_Base::C_E::~C_E().

Reset() [13/22]

void CGenetic_code_table_Base::Reset

(

void

)

Reset data member.

Definition at line 51 of file Genetic_code_table_.cpp.

References CGenetic_code_table_Base::m_data, and CGenetic_code_table_Base::m_set_State.

Reset() [14/22]

void CImp_feat_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 68 of file Imp_feat_.cpp.

References CImp_feat_Base::ResetDescr(), CImp_feat_Base::ResetKey(), and CImp_feat_Base::ResetLoc().

Reset() [15/22]

void CInferenceSupport_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 104 of file InferenceSupport_.cpp.

References CInferenceSupport_Base::ResetBasis(), CInferenceSupport_Base::ResetCategory(), CInferenceSupport_Base::ResetDois(), CInferenceSupport_Base::ResetOther_type(), CInferenceSupport_Base::ResetPmids(), CInferenceSupport_Base::ResetSame_species(), and CInferenceSupport_Base::ResetType().

Reset() [16/22]

void CModelEvidenceItem_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 65 of file ModelEvidenceItem_.cpp.

References CModelEvidenceItem_Base::ResetExon_count(), CModelEvidenceItem_Base::ResetExon_length(), CModelEvidenceItem_Base::ResetFull_length(), CModelEvidenceItem_Base::ResetId(), and CModelEvidenceItem_Base::ResetSupports_all_exon_combo().

Reset() [17/22]

void CModelEvidenceSupport_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 100 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::ResetDbxref(), CModelEvidenceSupport_Base::ResetEst(), CModelEvidenceSupport_Base::ResetExon_count(), CModelEvidenceSupport_Base::ResetExon_length(), CModelEvidenceSupport_Base::ResetFull_length(), CModelEvidenceSupport_Base::ResetIdentification(), CModelEvidenceSupport_Base::ResetMethod(), CModelEvidenceSupport_Base::ResetMrna(), CModelEvidenceSupport_Base::ResetProtein(), and CModelEvidenceSupport_Base::ResetSupports_all_exon_combo().

Reset() [18/22]

void CProgram_id_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 62 of file Program_id_.cpp.

References CProgram_id_Base::ResetName(), and CProgram_id_Base::ResetVersion().

Reset() [19/22]

void CSeq_feat_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 229 of file Seq_feat_.cpp.

References CSeq_feat_Base::ResetCit(), CSeq_feat_Base::ResetComment(), CSeq_feat_Base::ResetData(), CSeq_feat_Base::ResetDbxref(), CSeq_feat_Base::ResetExcept(), CSeq_feat_Base::ResetExcept_text(), CSeq_feat_Base::ResetExp_ev(), CSeq_feat_Base::ResetExt(), CSeq_feat_Base::ResetExts(), CSeq_feat_Base::ResetId(), CSeq_feat_Base::ResetIds(), CSeq_feat_Base::ResetLocation(), CSeq_feat_Base::ResetPartial(), CSeq_feat_Base::ResetProduct(), CSeq_feat_Base::ResetPseudo(), CSeq_feat_Base::ResetQual(), CSeq_feat_Base::ResetSupport(), CSeq_feat_Base::ResetTitle(), and CSeq_feat_Base::ResetXref().

Referenced by CSeqEdit_Cmd_ReplaceAnnot_Base::C_Data::C_Feat::SetNvalue(), CSeqEdit_Cmd_ReplaceAnnot_Base::C_Data::C_Feat::SetOvalue(), SpProcFeatBlk(), and CSeqTableInfo::UpdateSeq_feat().

Reset() [20/22]

END_ENUM_INFO void CSeqFeatData_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 121 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_not_set, CSeqFeatData_Base::m_choice, and CSeqFeatData_Base::ResetSelection().

Referenced by CSeqFeatData_Base::~CSeqFeatData_Base().

Reset() [21/22]

void CSeqFeatSupport_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 71 of file SeqFeatSupport_.cpp.

References CSeqFeatSupport_Base::ResetExperiment(), CSeqFeatSupport_Base::ResetInference(), and CSeqFeatSupport_Base::ResetModel_evidence().

Reset() [22/22]

void CSeqFeatXref_Base::Reset ( void  )

virtual

Reset the whole object.

Definition at line 86 of file SeqFeatXref_.cpp.

References CSeqFeatXref_Base::ResetData(), and CSeqFeatXref_Base::ResetId().

ResetAa()

void CCode_break_Base::ResetAa

(

void

)

Reset Aa data member.

Definition at line 139 of file Code_break_.cpp.

References CCode_break_Base::m_Aa.

Referenced by CCode_break_Base::CCode_break_Base(), CCode_break_Base::GetAa(), CCode_break_Base::Reset(), and CCode_break_Base::SetAa().

ResetAccessions()

void CEvidenceBasis_Base::ResetAccessions

(

void

)

Reset Accessions data member.

Definition at line 58 of file EvidenceBasis_.cpp.

References CEvidenceBasis_Base::m_Accessions, and CEvidenceBasis_Base::m_set_State.

Referenced by CEvidenceBasis_Base::Reset().

ResetAlign_id()

void CClone_seq_Base::ResetAlign_id

(

void

)

Reset Align_id data member.

Definition at line 122 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Align_id.

Referenced by CClone_seq_Base::Reset().

ResetBasis()

void CInferenceSupport_Base::ResetBasis

(

void

)

Reset Basis data member.

Definition at line 78 of file InferenceSupport_.cpp.

References CInferenceSupport_Base::m_Basis.

Referenced by CInferenceSupport_Base::CInferenceSupport_Base(), CInferenceSupport_Base::GetBasis(), CInferenceSupport_Base::Reset(), and CInferenceSupport_Base::SetBasis().

ResetCategory() [1/2]

void CExperimentSupport_Base::ResetCategory ( void  )

inline

Reset Category data member.

Definition at line 283 of file ExperimentSupport_.hpp.

References int, CExperimentSupport_Base::m_Category, and CExperimentSupport_Base::m_set_State.

Referenced by CExperimentSupport_Base::Reset().

ResetCategory() [2/2]

void CInferenceSupport_Base::ResetCategory ( void  )

inline

Reset Category data member.

Definition at line 433 of file InferenceSupport_.hpp.

References int, CInferenceSupport_Base::m_Category, and CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::Reset().

ResetCit()

void CSeq_feat_Base::ResetCit

(

void

)

Reset Cit data member.

Definition at line 165 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Cit.

Referenced by CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Base::Reset(), CCitationsPanel::SetCitations(), and CConvertFeatureBase::x_ClearGenericFields().

ResetClone_seq()

void CClone_ref_Base::ResetClone_seq

(

void

)

Reset Clone_seq data member.

Definition at line 79 of file Clone_ref_.cpp.

References CClone_ref_Base::m_Clone_seq.

Referenced by CClone_ref_Base::Reset().

ResetCode()

END_ENUM_INFO void CCdregion_Base::ResetCode

(

void

)

Reset Code data member.

Definition at line 63 of file Cdregion_.cpp.

References CCdregion_Base::m_Code.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), FixGeneticCode(), CCdregion_Base::Reset(), CCDSProductPanel::SetCdregionFields(), CCleanup::SetGeneticCodes(), and CCDSTranslationPanel::SetProduct().

ResetCode_break()

void CCdregion_Base::ResetCode_break

(

void

)

Reset Code_break data member.

Definition at line 80 of file Cdregion_.cpp.

References CCdregion_Base::m_Code_break, and CCdregion_Base::m_set_State.

Referenced by CdregionAdjustForInsert(), CdregionAdjustForTrim(), CNewCleanup_imp::CdregionFeatBC(), OneTerminalTranslationExceptionTest(), CCdregion_Base::Reset(), s_UpdateCodeBreaksAndAnticodons(), CCDSExceptionPanel::TransferDataFromWindow(), CFeatGapInfo::x_AdjustCodebreaks(), CFeaturePropagator::x_CdsMapCodeBreaks(), and CFeatureGenerator::SImplementation::x_CreateCdsFeature().

ResetComment()

void CSeq_feat_Base::ResetComment

(

void

)

Reset Comment data member.

Definition at line 99 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Comment, and CSeq_feat_Base::m_set_State.

Referenced by AddExon(), AddProtFeat(), AdjustBacterialGeneForCodingRegionWithShortIntron(), BOOST_AUTO_TEST_CASE(), CNewCleanup_imp::CdregionFeatBC(), CheckRegulatoryFeatures(), CCommentColumn::ClearInFeature(), CConvertMiscFeatToGene::Convert(), CConvertImpToCDS::Convert(), CConvertImpToGene::Convert(), CConvertGeneToImp::Convert(), CCdsToMatPeptide::ConvertInner(), fta_parse_rrna_feat(), CBulkCDS::GetCommandFromValuesTable(), CBulkGene::GetCommandFromValuesTable(), CBulkMiscFeat::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), CmRNAFromGeneCdsExon::GetNameFromCDS(), CCdsFromGeneMrnaExon::GetNameFromExon(), CmRNAFromGeneCdsExon::GetNameFromExon(), CCdsFromGeneMrnaExon::GetNameFromGene(), CmRNAFromGeneCdsExon::GetNameFromGene(), CtRNAFromGene::GetNameFromGene(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), GetRnaRef(), CNewCleanup_imp::ImpFeatBC(), ImpFeatPub(), CAnnotMapping_Info::InitializeMappedSeq_feat(), MakeRptRegion(), CCleanup::MoveFeatToProtein(), ProcessForDbxref(), CSeq_feat_Base::Reset(), CEditingActionFeatComment::ResetValue(), CNewCleanup_imp::RnaFeatBC(), CNewCleanup_imp::SiteFeatBC(), StripCDSComment(), TestUTRPair(), CNewCleanup_imp::x_CleanEmptyFeature(), CConvertFeatureBase::x_ClearGenericFields(), CNewCleanup_imp::x_RemoveRedundantComment(), and SSNP_Info::x_UpdateSeq_featData().

ResetConcordant()

void CClone_ref_Base::ResetConcordant ( void  )

inline

Reset Concordant data member.

Definition at line 499 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Concordant, and CClone_ref_Base::m_set_State.

Referenced by CClone_ref_Base::Reset(), and CClone_ref_Base::SetDefaultConcordant().

ResetConfidence()

void CClone_seq_Base::ResetConfidence ( void  )

inline

Reset Confidence data member.

Definition at line 457 of file Clone_seq_.hpp.

References CClone_seq_Base::m_Confidence, and CClone_seq_Base::m_set_State.

Referenced by CClone_seq_Base::Reset().

ResetConflict()

void CCdregion_Base::ResetConflict ( void  )

inline

Reset Conflict data member.

Definition at line 571 of file Cdregion_.hpp.

References CCdregion_Base::m_Conflict, and CCdregion_Base::m_set_State.

Referenced by CNewCleanup_imp::CdRegionEC(), CkProteinTransl(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCdregion_Base::Reset(), CCDSProductPanel::SetCdregionFields(), CCDSTranslationPanel::SetProduct(), CCDSProductPanel::TransferDataFromWindow(), and CCDSTranslationPanel::x_CollectData().

ResetData() [1/2]

void CSeq_feat_Base::ResetData

(

void

)

Reset Data data member.

Definition at line 85 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Data, and CRef< C, Locker >::Reset().

Referenced by CkCdRegion(), ConvertToMiscFeature(), CSeq_feat_Base::CSeq_feat_Base(), CSeq_feat_Base::GetData(), CEditObjectSeq_feat::GetEditCommand(), CSeq_feat_Base::Reset(), CEditingActionFeatRegion::ResetValue(), CSeq_feat_Base::SetData(), and CEditObjectSeq_feat::x_ConvertCommentToMiscFeat().

ResetData() [2/2]

void CSeqFeatXref_Base::ResetData

(

void

)

Reset Data data member.

Definition at line 69 of file SeqFeatXref_.cpp.

References CSeqFeatXref_Base::m_Data, and CRef< C, Locker >::Reset().

Referenced by CSeqFeatXref_Base::Reset().

ResetDbxref() [1/2]

void CModelEvidenceSupport_Base::ResetDbxref

(

void

)

Reset Dbxref data member.

Definition at line 94 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Dbxref, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetDbxref() [2/2]

void CSeq_feat_Base::ResetDbxref

(

void

)

Reset Dbxref data member.

Definition at line 188 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Dbxref, and CSeq_feat_Base::m_set_State.

Referenced by CRmvCddFeatDbxref::apply_to(), CDbXrefColumn::ClearInFeature(), DbxrefToSeqID(), FilterDb_xref(), fta_collect_wormbases(), CSNPDbFeatIterator::GetSeq_feat(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CEditingActionFeatDbxref::Modify(), CRemoveDbXrefsFeats::ModifyFeature(), CRemoveTaxonFeats::ModifyFeature(), CSeq_feat_Base::Reset(), and CConvertFeatureBase::x_ClearGenericFields().

ResetDescr()

void CImp_feat_Base::ResetDescr

(

void

)

Reset Descr data member.

Definition at line 62 of file Imp_feat_.cpp.

References CImp_feat_Base::m_Descr, and CImp_feat_Base::m_set_State.

Referenced by CSNPDbFeatIterator::GetSeq_feat(), and CImp_feat_Base::Reset().

ResetDois() [1/2]

void CExperimentSupport_Base::ResetDois

(

void

)

Reset Dois data member.

Definition at line 62 of file ExperimentSupport_.cpp.

References CExperimentSupport_Base::m_Dois, and CExperimentSupport_Base::m_set_State.

Referenced by CExperimentSupport_Base::Reset().

ResetDois() [2/2]

void CInferenceSupport_Base::ResetDois

(

void

)

Reset Dois data member.

Definition at line 98 of file InferenceSupport_.cpp.

References CInferenceSupport_Base::m_Dois, and CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::Reset().

ResetEst()

void CModelEvidenceSupport_Base::ResetEst

(

void

)

Reset Est data member.

Definition at line 65 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Est, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetExcept()

void CSeq_feat_Base::ResetExcept ( void  )

inline

Reset Except data member.

Definition at line 1002 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Except, and CSeq_feat_Base::m_set_State.

Referenced by CRemoveUnnecessaryExceptions::apply(), BOOST_AUTO_TEST_CASE(), CExceptionColumn::ClearInFeature(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat::RemoveExceptText(), CSeq_feat_Base::Reset(), CEditingActionFeatException::ResetValue(), CGenericPropsPanel::TransferDataFromWindow(), CConvertFeatureBase::x_ClearGenericFields(), and CFeatureGenerator::SImplementation::x_SetExceptText().

ResetExcept_text()

void CSeq_feat_Base::ResetExcept_text

(

void

)

Reset Except_text data member.

Definition at line 194 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Except_text, and CSeq_feat_Base::m_set_State.

Referenced by CExceptionPanel::AddCommand(), CRemoveUnnecessaryExceptions::apply(), BOOST_AUTO_TEST_CASE(), CkCdRegion(), CExceptionColumn::ClearInFeature(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Base::Reset(), CEditingActionFeatException::ResetValue(), CGenericPropsPanel::TransferDataFromWindow(), CConvertFeatureBase::x_ClearGenericFields(), and CFeatureGenerator::SImplementation::x_SetExceptText().

ResetExon_count() [1/2]

void CModelEvidenceItem_Base::ResetExon_count ( void  )

inline

Reset Exon_count data member.

Definition at line 366 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Exon_count, and CModelEvidenceItem_Base::m_set_State.

Referenced by CModelEvidenceItem_Base::Reset().

ResetExon_count() [2/2]

void CModelEvidenceSupport_Base::ResetExon_count ( void  )

inline

Reset Exon_count data member.

Definition at line 688 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Exon_count, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetExon_length() [1/2]

void CModelEvidenceItem_Base::ResetExon_length ( void  )

inline

Reset Exon_length data member.

Definition at line 413 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Exon_length, and CModelEvidenceItem_Base::m_set_State.

Referenced by CModelEvidenceItem_Base::Reset().

ResetExon_length() [2/2]

void CModelEvidenceSupport_Base::ResetExon_length ( void  )

inline

Reset Exon_length data member.

Definition at line 735 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Exon_length, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetExp_ev()

void CSeq_feat_Base::ResetExp_ev ( void  )

inline

Reset Exp_ev data member.

Definition at line 1261 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Exp_ev, and CSeq_feat_Base::m_set_State.

Referenced by CEvidencePanel::AddCommand(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Base::Reset(), and CEditingActionFeatEvidence::ResetValue().

ResetExperiment()

void CSeqFeatSupport_Base::ResetExperiment

(

void

)

Reset Experiment data member.

Definition at line 53 of file SeqFeatSupport_.cpp.

References CSeqFeatSupport_Base::m_Experiment, and CSeqFeatSupport_Base::m_set_State.

Referenced by CSeqFeatSupport_Base::Reset().

ResetExplanation()

void CExperimentSupport_Base::ResetExplanation

(

void

)

Reset Explanation data member.

Definition at line 50 of file ExperimentSupport_.cpp.

References CExperimentSupport_Base::m_Explanation, and CExperimentSupport_Base::m_set_State.

Referenced by CExperimentSupport_Base::Reset().

ResetExt()

void CSeq_feat_Base::ResetExt

(

void

)

Reset Ext data member.

Definition at line 148 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Ext.

Referenced by CSNPDbFeatIterator::GetSeq_feat(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat::RemoveExt(), CSeq_feat_Base::Reset(), SSNP_Info::x_UpdateSeq_featData(), and CVcfReader::xProcessDataLine().

ResetExts()

void CSeq_feat_Base::ResetExts

(

void

)

Reset Exts data member.

Definition at line 206 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Exts, and CSeq_feat_Base::m_set_State.

Referenced by CAnnotMapping_Info::InitializeMappedSeq_feat(), CRepeatToFeat::operator()(), CSeq_feat::RemoveExt(), CSeq_feat_Base::Reset(), and CVariationNormalization_base< T >::ResetFullyShifted().

ResetFrame()

void CCdregion_Base::ResetFrame ( void  )

inline

Reset Frame data member.

Definition at line 521 of file Cdregion_.hpp.

References CCdregion_Base::eFrame_not_set, CCdregion_Base::m_Frame, and CCdregion_Base::m_set_State.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCdregion_Base::Reset(), CCDSProductPanel::SetCdregionFields(), CCdregion_Base::SetDefaultFrame(), CCDSTranslationPanel::SetProduct(), CCDSTranslationPanel::x_CollectData(), and CFeatTrim::x_UpdateFrame().

ResetFull_length() [1/2]

void CModelEvidenceItem_Base::ResetFull_length ( void  )

inline

Reset Full_length data member.

Definition at line 460 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Full_length, and CModelEvidenceItem_Base::m_set_State.

Referenced by CModelEvidenceItem_Base::Reset(), and CModelEvidenceItem_Base::SetDefaultFull_length().

ResetFull_length() [2/2]

void CModelEvidenceSupport_Base::ResetFull_length ( void  )

inline

Reset Full_length data member.

Definition at line 782 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Full_length, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset(), and CModelEvidenceSupport_Base::SetDefaultFull_length().

ResetGaps()

void CCdregion_Base::ResetGaps ( void  )

inline

Reset Gaps data member.

Definition at line 618 of file Cdregion_.hpp.

References CCdregion_Base::m_Gaps, and CCdregion_Base::m_set_State.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and CCdregion_Base::Reset().

ResetId() [1/3]

void CModelEvidenceItem_Base::ResetId

(

void

)

Reset Id data member.

Definition at line 51 of file ModelEvidenceItem_.cpp.

References CModelEvidenceItem_Base::m_Id.

Referenced by CModelEvidenceItem_Base::CModelEvidenceItem_Base(), CModelEvidenceItem_Base::GetId(), CModelEvidenceItem_Base::Reset(), and CModelEvidenceItem_Base::SetId().

ResetId() [2/3]

END_ENUM_INFO void CSeq_feat_Base::ResetId

(

void

)

Reset Id data member.

Definition at line 68 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Id.

Referenced by CSeq_annot_Info::ClearFeatIds(), CClearFeatureId::ClearFeatureIds(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CIdentifiersPanel::PopulateIdentifiers(), CSeq_annot_Info::RemoveFeatId(), CSeq_feat_Base::Reset(), CCreateGeneModelTask::s_AssignFeatureIds(), CConvertFeatureBase::x_ClearGenericFields(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), and CFeatureGenerator::SImplementation::x_MapFeature().

ResetId() [3/3]

void CSeqFeatXref_Base::ResetId

(

void

)

Reset Id data member.

Definition at line 52 of file SeqFeatXref_.cpp.

References CSeqFeatXref_Base::m_Id.

Referenced by CSeqFeatXref_Base::Reset().

ResetIdentification()

void CModelEvidenceSupport_Base::ResetIdentification

(

void

)

Reset Identification data member.

Definition at line 77 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Identification.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetIds()

void CSeq_feat_Base::ResetIds

(

void

)

Reset Ids data member.

Definition at line 200 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Ids, and CSeq_feat_Base::m_set_State.

Referenced by CSeq_annot_Info::ClearFeatIds(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_annot_Info::RemoveFeatId(), and CSeq_feat_Base::Reset().

ResetInference()

void CSeqFeatSupport_Base::ResetInference

(

void

)

Reset Inference data member.

Definition at line 59 of file SeqFeatSupport_.cpp.

References CSeqFeatSupport_Base::m_Inference, and CSeqFeatSupport_Base::m_set_State.

Referenced by CSeqFeatSupport_Base::Reset().

ResetKey()

void CImp_feat_Base::ResetKey

(

void

)

Reset Key data member.

Definition at line 50 of file Imp_feat_.cpp.

References CImp_feat_Base::m_Key, and CImp_feat_Base::m_set_State.

Referenced by CImp_feat_Base::Reset().

ResetLibrary()

void CClone_ref_Base::ResetLibrary

(

void

)

Reset Library data member.

Definition at line 73 of file Clone_ref_.cpp.

References CClone_ref_Base::m_Library, and CClone_ref_Base::m_set_State.

Referenced by CClone_ref_Base::Reset().

ResetLoc() [1/2]

void CCode_break_Base::ResetLoc

(

void

)

Reset Loc data member.

Definition at line 125 of file Code_break_.cpp.

References CCode_break_Base::m_Loc.

Referenced by CCode_break_Base::CCode_break_Base(), CCode_break_Base::GetLoc(), CCode_break_Base::Reset(), CCleanup::SetCodeBreakLocation(), CCode_break_Base::SetLoc(), and CFeatTrim::x_TrimCodeBreak().

ResetLoc() [2/2]

void CImp_feat_Base::ResetLoc

(

void

)

Reset Loc data member.

Definition at line 56 of file Imp_feat_.cpp.

References CImp_feat_Base::m_Loc, and CImp_feat_Base::m_set_State.

Referenced by CSNPDbFeatIterator::GetSeq_feat(), and CImp_feat_Base::Reset().

ResetLocation() [1/2]

END_ENUM_INFO void CClone_seq_Base::ResetLocation

(

void

)

Reset Location data member.

Definition at line 91 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Location.

Referenced by CClone_seq_Base::CClone_seq_Base(), CClone_seq_Base::GetLocation(), CClone_seq_Base::Reset(), and CClone_seq_Base::SetLocation().

ResetLocation() [2/2]

void CSeq_feat_Base::ResetLocation

(

void

)

Reset Location data member.

Definition at line 122 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Location.

Referenced by CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustSingleFeature(), CFeatureTableReader_Imp::CreateSeqFeat(), CSeq_feat_Base::CSeq_feat_Base(), CSeq_feat_Base::GetLocation(), GetSeqLocation(), CCleanup::MoveFeatToProtein(), CSeq_feat_Base::Reset(), s_MoveProteinSpecificFeats(), CSeq_feat_Base::SetLocation(), SetLocationSkipGap(), CAdjustForConsensusSpliceSite::x_AlsoAdjustmRNA(), CFlatGatherer::x_GetFeatsOnCdsProduct(), CFlatGatherer::x_GetFeatsOnCdsProductIdx(), CAdjustForConsensusSpliceSite::x_HasProteinChanged(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt3End(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt5End(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), and CMicroArrayReader::xSetFeatureLocation().

ResetMethod()

void CModelEvidenceSupport_Base::ResetMethod

(

void

)

Reset Method data member.

Definition at line 53 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Method, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetMismatch()

void CCdregion_Base::ResetMismatch ( void  )

inline

Reset Mismatch data member.

Definition at line 665 of file Cdregion_.hpp.

References CCdregion_Base::m_Mismatch, and CCdregion_Base::m_set_State.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and CCdregion_Base::Reset().

ResetModel_evidence()

void CSeqFeatSupport_Base::ResetModel_evidence

(

void

)

Reset Model_evidence data member.

Definition at line 65 of file SeqFeatSupport_.cpp.

References CSeqFeatSupport_Base::m_Model_evidence, and CSeqFeatSupport_Base::m_set_State.

Referenced by CSeqFeatSupport_Base::Reset().

ResetMrna()

void CModelEvidenceSupport_Base::ResetMrna

(

void

)

Reset Mrna data member.

Definition at line 59 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Mrna, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetName() [1/2]

END_ENUM_INFO void CClone_ref_Base::ResetName

(

void

)

Reset Name data member.

Definition at line 67 of file Clone_ref_.cpp.

References CClone_ref_Base::m_Name, and CClone_ref_Base::m_set_State.

Referenced by CClone_ref_Base::Reset().

ResetName() [2/2]

void CProgram_id_Base::ResetName

(

void

)

Reset Name data member.

Definition at line 50 of file Program_id_.cpp.

References CProgram_id_Base::m_Name, and CProgram_id_Base::m_set_State.

Referenced by CProgram_id_Base::Reset().

ResetOrf()

void CCdregion_Base::ResetOrf ( void  )

inline

Reset Orf data member.

Definition at line 474 of file Cdregion_.hpp.

References CCdregion_Base::m_Orf, and CCdregion_Base::m_set_State.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and CCdregion_Base::Reset().

ResetOther_type()

END_ENUM_INFO void CInferenceSupport_Base::ResetOther_type

(

void

)

Reset Other_type data member.

Definition at line 72 of file InferenceSupport_.cpp.

References CInferenceSupport_Base::m_Other_type, and CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::Reset().

ResetPartial()

void CSeq_feat_Base::ResetPartial ( void  )

inline

Reset Partial data member.

Definition at line 955 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Partial, and CSeq_feat_Base::m_set_State.

Referenced by CPartialStartColumn::AddToFeature(), CPartialStopColumn::AddToFeature(), AdjustFeaturePartialFlagForLocation(), CPartialStartColumn::ClearInFeature(), CPartialStopColumn::ClearInFeature(), CCreatedFeat_Ref::GetMappedFeature(), CFeaturePropagator::Propagate(), CFeatureGenerator::SImplementation::RecomputePartialFlags(), CSeq_feat_Base::Reset(), CEditingActionFeatPartial::ResetValue(), CNewCleanup_imp::ResynchProteinPartials(), CAnnotMapping_Info::SetMappedSeq_feat(), CGenericPropsPanel::TransferDataFromWindow(), TruncateCDSAtStop(), CTruncateCDS::TruncateProteinFeat(), CCorrectGenesDialog::x_CorrectPairInterval(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CCreateGeneModelTask::x_UpdateGeneOnSequence(), CEditObjectSeq_feat::x_UpdatemRNA(), CFeatTableEdit::xGenerateMissingMrnaForCds(), and CGff2Writer::xGenerateMissingTranscript().

ResetPlacement_method()

void CClone_ref_Base::ResetPlacement_method ( void  )

inline

Reset Placement_method data member.

Definition at line 599 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Placement_method, and CClone_ref_Base::m_set_State.

Referenced by CClone_ref_Base::Reset().

ResetPmids() [1/2]

void CExperimentSupport_Base::ResetPmids

(

void

)

Reset Pmids data member.

Definition at line 56 of file ExperimentSupport_.cpp.

References CExperimentSupport_Base::m_Pmids, and CExperimentSupport_Base::m_set_State.

Referenced by CExperimentSupport_Base::Reset().

ResetPmids() [2/2]

void CInferenceSupport_Base::ResetPmids

(

void

)

Reset Pmids data member.

Definition at line 92 of file InferenceSupport_.cpp.

References CInferenceSupport_Base::m_Pmids, and CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::Reset().

ResetProduct()

void CSeq_feat_Base::ResetProduct

(

void

)

Reset Product data member.

Definition at line 105 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Product.

Referenced by BOOST_AUTO_TEST_CASE(), CConvertCDSToMiscFeat::Convert(), CConvertCDSToProt::Convert(), CConvertCDSToGene::Convert(), CConvertCDSToPseudoGene::Convert(), CCdsToMatPeptide::ConvertInner(), ConvertToMiscFeature(), CCreatedFeat_Ref::GetMappedFeature(), CCreatedFeat_Ref::GetMappedLocation(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CCdsToMatPeptide::MergeConvert(), CCleanup::MoveFeatToProtein(), CFeaturePropagator::Propagate(), CCleanup::RemovePseudoProduct(), CSeq_feat_Base::Reset(), CEditingActionFeatTranscriptId::ResetValue(), s_MoveProteinSpecificFeats(), CCDSTranslationPanel::SetProduct(), CFeatTableEdit::SubmitFixProducts(), CRNAPanel::TransferDataFromWindow(), CConvertFeatureBase::x_ClearGenericFields(), CEditObjectSeq_feat::x_HandleCdsProduct(), and CConvertFeatureBase::x_SimpleConversion().

ResetPrograms()

void CEvidenceBasis_Base::ResetPrograms

(

void

)

Reset Programs data member.

Definition at line 52 of file EvidenceBasis_.cpp.

References CEvidenceBasis_Base::m_Programs, and CEvidenceBasis_Base::m_set_State.

Referenced by CEvidenceBasis_Base::Reset().

ResetProtein()

void CModelEvidenceSupport_Base::ResetProtein

(

void

)

Reset Protein data member.

Definition at line 71 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Protein, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CModelEvidenceSupport_Base::Reset().

ResetPseudo()

void CSeq_feat_Base::ResetPseudo ( void  )

inline

Reset Pseudo data member.

Definition at line 1358 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Pseudo, and CSeq_feat_Base::m_set_State.

Referenced by CPseudoPanel::AddCommand(), BOOST_AUTO_TEST_CASE(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CGenericPropsPanel::ModifyPseudo(), CSeq_feat_Base::Reset(), CEditingActionFeatPseudo::ResetValue(), SetUpMiscForPartialTest(), and CConvertFeatureBase::x_ClearGenericFields().

ResetQual() [1/2]

void CGb_qual_Base::ResetQual

(

void

)

Reset Qual data member.

Definition at line 50 of file Gb_qual_.cpp.

References CGb_qual_Base::m_Qual, and CGb_qual_Base::m_set_State.

Referenced by CGb_qual_Base::Reset().

ResetQual() [2/2]

void CSeq_feat_Base::ResetQual

(

void

)

Reset Qual data member.

Definition at line 136 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Qual, and CSeq_feat_Base::m_set_State.

Referenced by CPseudoPanel::AddCommand(), CConvertBadInference::apply(), BOOST_AUTO_TEST_CASE(), CkCdRegion(), CConvertCDSToMiscFeat::Convert(), FilterDb_xref(), fta_check_codon_quals(), fta_check_exception(), fta_collect_olts(), fta_parse_rrna_feat(), CEditObjectSeq_feat::GetEditCommand(), GetProtRefAnnot(), GetRnaRef(), CSNPDbFeatIterator::GetSeq_feat(), CWrongIllegalQuals::IllegalQualsToNote(), CAnnotMapping_Info::InitializeMappedSeq_feat(), LookForProductName(), CEditingActionFeatGbQual::Modify(), CEditingActionFeatGbQualTwoNames::Modify(), CGenericPropsPanel::ModifyPseudo(), CNewCleanup_imp::MoveCitationQuals(), CNewCleanup_imp::MoveDbxrefs(), CNewCleanup_imp::MoveStandardName(), CRepeatToFeat::operator()(), CCleanup::ParseCodeBreaks(), CGBQualPanel::PopulateGBQuals(), QualsToSeqID(), CTable2AsnContext::RemoveProteinIdsQuals(), CSeq_feat::RemoveQualifier(), CTable2AsnContext::RenameProteinIdsQuals(), RescueProtProductQual(), CSeq_feat_Base::Reset(), CWrongIllegalQuals::RmIllegalQuals(), CWrongIllegalQuals::RmWrongOrIllegalQuals(), CWrongIllegalQuals::RmWrongQuals(), s_FixncRNA(), s_FixtmRNA(), CFeatureGenerator::SImplementation::SetFeatureExceptions(), SortGBQuals(), CGBQualPanel::TransferDataFromWindow(), CWrongIllegalQuals::WrongQualsToNote(), CConvertFeatureBase::x_ClearGenericFields(), CConvertFeatureBase::x_ExtractQuals(), CExperimentListPanel::x_GetExperiments(), CInferenceListPanel::x_GetInferences(), and CPromote::x_GetProductId().

ResetSame_species()

void CInferenceSupport_Base::ResetSame_species ( void  )

inline

Reset Same_species data member.

Definition at line 577 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Same_species, and CInferenceSupport_Base::m_set_State.

Referenced by CInferenceSupport_Base::Reset(), and CInferenceSupport_Base::SetDefaultSame_species().

ResetSelection() [1/4]

void CCode_break_Base::C_Aa::ResetSelection

(

void

)

Reset the selection (set it to e_not_set).

Definition at line 57 of file Code_break_.cpp.

References e_not_set.

Referenced by CCode_break_Base::C_Aa::Reset().

ResetSelection() [2/4]

void CFeat_id_Base::ResetSelection ( void  )

virtual

Reset the selection (set it to e_not_set).

Definition at line 59 of file Feat_id_.cpp.

References CFeat_id_Base::e_General, CFeat_id_Base::e_Giim, CFeat_id_Base::e_Local, CFeat_id_Base::e_not_set, CFeat_id_Base::m_choice, and CFeat_id_Base::m_object.

Referenced by CFeat_id_Base::Reset(), CFeat_id_Base::SetGeneral(), CFeat_id_Base::SetGiim(), and CFeat_id_Base::SetLocal().

ResetSelection() [3/4]

void CGenetic_code_Base::C_E::ResetSelection

(

void

)

Reset the selection (set it to e_not_set).

Definition at line 56 of file Genetic_code_.cpp.

References e_not_set.

Referenced by CGenetic_code_Base::C_E::Reset().

ResetSelection() [4/4]

void CSeqFeatData_Base::ResetSelection ( void  )

virtual

Reset the selection (set it to e_not_set).

Definition at line 127 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Biosrc, CSeqFeatData_Base::e_Cdregion, CSeqFeatData_Base::e_Clone, CSeqFeatData_Base::e_Gene, CSeqFeatData_Base::e_Het, CSeqFeatData_Base::e_Imp, CSeqFeatData_Base::e_Non_std_residue, CSeqFeatData_Base::e_not_set, CSeqFeatData_Base::e_Num, CSeqFeatData_Base::e_Org, CSeqFeatData_Base::e_Prot, CSeqFeatData_Base::e_Pub, CSeqFeatData_Base::e_Region, CSeqFeatData_Base::e_Rna, CSeqFeatData_Base::e_Rsite, CSeqFeatData_Base::e_Seq, CSeqFeatData_Base::e_Txinit, CSeqFeatData_Base::e_User, CSeqFeatData_Base::e_Variation, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_Het, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::m_string.

Referenced by CSeqFeatData_Base::Reset(), CSeqFeatData_Base::SetBiosrc(), CSeqFeatData_Base::SetCdregion(), CSeqFeatData_Base::SetClone(), CSeqFeatData_Base::SetGene(), CSeqFeatData_Base::SetImp(), CSeqFeatData_Base::SetNum(), CSeqFeatData_Base::SetOrg(), CSeqFeatData_Base::SetProt(), CSeqFeatData_Base::SetPub(), CSeqFeatData_Base::SetRna(), CSeqFeatData_Base::SetRsite(), CSeqFeatData_Base::SetSeq(), CSeqFeatData_Base::SetTxinit(), CSeqFeatData_Base::SetUser(), and CSeqFeatData_Base::SetVariation().

ResetSeq()

void CClone_seq_Base::ResetSeq

(

void

)

Reset Seq data member.

Definition at line 105 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Seq.

Referenced by CClone_seq_Base::Reset().

ResetStops()

void CCdregion_Base::ResetStops ( void  )

inline

Reset Stops data member.

Definition at line 758 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State, and CCdregion_Base::m_Stops.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and CCdregion_Base::Reset().

ResetSupport() [1/2]

void CClone_seq_Base::ResetSupport ( void  )

inline

Reset Support data member.

Definition at line 576 of file Clone_seq_.hpp.

References CClone_seq_Base::m_set_State, and CClone_seq_Base::m_Support.

Referenced by CClone_seq_Base::Reset().

ResetSupport() [2/2]

void CSeq_feat_Base::ResetSupport

(

void

)

Reset Support data member.

Definition at line 212 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Support.

Referenced by CSeq_feat_Base::Reset().

ResetSupports_all_exon_combo() [1/2]

void CModelEvidenceItem_Base::ResetSupports_all_exon_combo ( void  )

inline

Reset Supports_all_exon_combo data member.

Definition at line 510 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_set_State, and CModelEvidenceItem_Base::m_Supports_all_exon_combo.

Referenced by CModelEvidenceItem_Base::Reset(), and CModelEvidenceItem_Base::SetDefaultSupports_all_exon_combo().

ResetSupports_all_exon_combo() [2/2]

void CModelEvidenceSupport_Base::ResetSupports_all_exon_combo ( void  )

inline

Reset Supports_all_exon_combo data member.

Definition at line 832 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State, and CModelEvidenceSupport_Base::m_Supports_all_exon_combo.

Referenced by CModelEvidenceSupport_Base::Reset(), and CModelEvidenceSupport_Base::SetDefaultSupports_all_exon_combo().

ResetTitle()

void CSeq_feat_Base::ResetTitle

(

void

)

Reset Title data member.

Definition at line 142 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_set_State, and CSeq_feat_Base::m_Title.

Referenced by BOOST_AUTO_TEST_CASE(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_feat_Base::Reset(), and CConvertFeatureBase::x_ClearGenericFields().

ResetType() [1/2]

void CClone_seq_Base::ResetType ( void  )

inline

Reset Type data member.

Definition at line 410 of file Clone_seq_.hpp.

References CClone_seq_Base::m_set_State, and CClone_seq_Base::m_Type.

Referenced by CClone_seq_Base::Reset().

ResetType() [2/2]

void CInferenceSupport_Base::ResetType ( void  )

inline

Reset Type data member.

Definition at line 480 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::eType_not_set, CInferenceSupport_Base::m_set_State, and CInferenceSupport_Base::m_Type.

Referenced by CInferenceSupport_Base::Reset(), and CInferenceSupport_Base::SetDefaultType().

ResetUnique()

void CClone_ref_Base::ResetUnique ( void  )

inline

Reset Unique data member.

Definition at line 549 of file Clone_ref_.hpp.

References CClone_ref_Base::m_set_State, and CClone_ref_Base::m_Unique.

Referenced by CClone_ref_Base::Reset(), and CClone_ref_Base::SetDefaultUnique().

ResetVal()

void CGb_qual_Base::ResetVal

(

void

)

Reset Val data member.

Definition at line 56 of file Gb_qual_.cpp.

References CGb_qual_Base::m_set_State, and CGb_qual_Base::m_Val.

Referenced by CGb_qual_Base::Reset().

ResetVersion()

void CProgram_id_Base::ResetVersion

(

void

)

Reset Version data member.

Definition at line 56 of file Program_id_.cpp.

References CProgram_id_Base::m_set_State, and CProgram_id_Base::m_Version.

Referenced by CProgram_id_Base::Reset().

ResetXref()

void CSeq_feat_Base::ResetXref

(

void

)

Reset Xref data member.

Definition at line 182 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_set_State, and CSeq_feat_Base::m_Xref.

Referenced by AdjustProteinFeature(), BOOST_AUTO_TEST_CASE(), CSequenceEditingEventHandler::CDSGeneRangeErrorRestore(), CSeq_annot_Info::ClearFeatIds(), CClearFeatureId::ClearFeatureIds(), ClearGeneXref(), CCrossRefFeatsDlg::GetCommand(), CGeneFeatFromXrefs::GetCommand(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CRemoveGeneXrefs::RemoveAll(), CSeq_annot_Info::RemoveFeatId(), NMacroUtil::RemoveGeneXref(), IEditingActionFeat::RemoveGeneXref(), CSeq_feat_Base::Reset(), CFixFeatureId::s_ReassignFeatureIds(), CIdentifiersPanel::SetIdXrefs(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_RemoveGeneXref::TheFunction(), TranslateCDSCommand(), CEditObjectSeq_feat::x_HandleCdsProduct(), CPromote::x_PromoteCdregion(), and CMacroFunction_SwapRelFeatQual::x_SetOrCreateDestFeatFields().

Select() [1/8]

void CCode_break_Base::C_Aa::Select	(	E_Choice	index,
		EResetVariant	reset,
		CObjectMemoryPool *	pool
	)

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

Select() [2/8]

void CFeat_id_Base::Select	(	E_Choice	index,
		EResetVariant	reset,
		CObjectMemoryPool *	pool
	)

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

Select() [3/8]

void CGenetic_code_Base::C_E::Select	(	E_Choice	index,
		EResetVariant	reset,
		CObjectMemoryPool *	pool
	)

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

Select() [4/8]

void CSeqFeatData_Base::Select	(	E_Choice	index,
		EResetVariant	reset,
		CObjectMemoryPool *	pool
	)

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

Select() [5/8]

void CCode_break_Base::C_Aa::Select	(	E_Choice	index,
		EResetVariant	reset = eDoResetVariant
	)

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.

Select() [6/8]

void CFeat_id_Base::Select	(	E_Choice	index,
		EResetVariant	reset = eDoResetVariant
	)

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 CFeat_id_Base::SetGeneral(), CFeat_id_Base::SetGibb(), CFeat_id_Base::SetGiim(), and CFeat_id_Base::SetLocal().

Select() [7/8]

void CGenetic_code_Base::C_E::Select	(	E_Choice	index,
		EResetVariant	reset = eDoResetVariant
	)

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.

Select() [8/8]

void CSeqFeatData_Base::Select	(	E_Choice	index,
		EResetVariant	reset = eDoResetVariant
	)

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 s_MakeNewMasterSeq(), CSeqFeatData_Base::SetBiosrc(), CSeqFeatData_Base::SetBond(), CSeqFeatData_Base::SetCdregion(), CSeqFeatData_Base::SetClone(), CSeqFeatData_Base::SetComment(), CSeqFeatData_Base::SetGene(), CSeqFeatData_Base::SetHet(), CSeqFeatData_Base::SetImp(), CSeqFeatData_Base::SetNon_std_residue(), CSeqFeatData_Base::SetNum(), CSeqFeatData_Base::SetOrg(), CSeqFeatData_Base::SetProt(), CSeqFeatData_Base::SetPsec_str(), CSeqFeatData_Base::SetPub(), CSeqFeatData_Base::SetRegion(), CSeqFeatData_Base::SetRna(), CSeqFeatData_Base::SetRsite(), CSeqFeatData_Base::SetSeq(), CSeqFeatData_Base::SetSite(), CSeqFeatData_Base::SetTxinit(), CSeqFeatData_Base::SetUser(), and CSeqFeatData_Base::SetVariation().

SelectionName() [1/4]

NCBI_NS_STD::string CCode_break_Base::C_Aa::SelectionName ( E_Choice  index )

static

Retrieve selection name (for diagnostic purposes).

Parameters

index

One of possible selection states.

Returns

Name string.

Definition at line 87 of file Code_break_.cpp.

SelectionName() [2/4]

NCBI_NS_STD::string CFeat_id_Base::SelectionName ( E_Choice  index )

static

Retrieve selection name (for diagnostic purposes).

Parameters

index

One of possible selection states.

Returns

Name string.

Definition at line 102 of file Feat_id_.cpp.

References CFeat_id_Base::sm_SelectionNames.

SelectionName() [3/4]

NCBI_NS_STD::string CGenetic_code_Base::C_E::SelectionName ( E_Choice  index )

static

Retrieve selection name (for diagnostic purposes).

Parameters

index

One of possible selection states.

Returns

Name string.

Definition at line 123 of file Genetic_code_.cpp.

SelectionName() [4/4]

NCBI_NS_STD::string CSeqFeatData_Base::SelectionName ( E_Choice  index )

static

Retrieve selection name (for diagnostic purposes).

Parameters

index

One of possible selection states.

Returns

Name string.

Definition at line 256 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::sm_SelectionNames.

Referenced by operator<<(), CDemoApp::Run(), CSeqFeatData::s_InitSubtypesTable(), and NMItemData::UpdateConstraintsForFeatures().

Set() [1/3]

CClone_seq_set_Base::Tdata & CClone_seq_set_Base::Set ( void  )

inline

Assign a value to data member.

Returns

Reference to the data value.

Definition at line 170 of file Clone_seq_set_.hpp.

References CClone_seq_set_Base::m_data, and CClone_seq_set_Base::m_set_State.

Referenced by CReportTrim::AdjustAndTranslate(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_clone_seq_ETC(), and CModifySeqId::x_UpdateFeat().

Set() [2/3]

CGenetic_code_Base::Tdata & CGenetic_code_Base::Set ( void  )

inline

Assign a value to data member.

Returns

Reference to the data value.

Definition at line 683 of file Genetic_code_.hpp.

References CGenetic_code_Base::m_data, and CGenetic_code_Base::m_set_State.

Referenced by InternalStopCodon(), s_GetCdsSequence(), s_GetCode(), and CGenetic_code::SetId().

Set() [3/3]

CGenetic_code_table_Base::Tdata & CGenetic_code_table_Base::Set ( void  )

inline

Assign a value to data member.

Returns

Reference to the data value.

Definition at line 171 of file Genetic_code_table_.hpp.

References CGenetic_code_table_Base::m_data, and CGenetic_code_table_Base::m_set_State.

SetAa() [1/2]

void CCode_break_Base::SetAa

(

CCode_break_Base::TAa &

value

)

Assign a value to Aa data member.

Parameters

value

Reference to value.

Definition at line 148 of file Code_break_.cpp.

References CCode_break_Base::m_Aa, and rapidjson::value.

Referenced by AddCodeBreak(), AddTerminalCodeBreak(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CAnnotationASN1::CImplementationData::create_cdregion_feature(), GetCdRegionCB(), CAddGlobalCodeBreak::GetCommand(), FeatUtil::MakeCodeBreak(), CCleanup::ParseCodeBreak(), s_StringToCodeBreak(), CEditingActionFeatTranslExcept::SetValue(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), and CGff3Reader::xUpdateAnnotGeneric().

SetAa() [2/2]

CCode_break_Base::TAa & CCode_break_Base::SetAa ( void  )

inline

Assign a value to Aa data member.

Returns

Reference to the data value.

Definition at line 547 of file Code_break_.hpp.

References CCode_break_Base::m_Aa, and CCode_break_Base::ResetAa().

SetAccessions()

CEvidenceBasis_Base::TAccessions & CEvidenceBasis_Base::SetAccessions ( void  )

inline

Assign a value to Accessions data member.

Returns

Reference to the data value.

Definition at line 234 of file EvidenceBasis_.hpp.

References CEvidenceBasis_Base::m_Accessions, and CEvidenceBasis_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_support_support_inference_E_E_basis_basis_ETC().

SetAlign_id() [1/2]

void CClone_seq_Base::SetAlign_id

(

CClone_seq_Base::TAlign_id &

value

)

Assign a value to Align_id data member.

Parameters

value

Reference to value.

Definition at line 127 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Align_id, and rapidjson::value.

SetAlign_id() [2/2]

CClone_seq_Base::TAlign_id & CClone_seq_Base::SetAlign_id

(

void

)

Assign a value to Align_id data member.

Returns

Reference to the data value.

Definition at line 132 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Align_id.

SetBasis() [1/2]

void CInferenceSupport_Base::SetBasis

(

CInferenceSupport_Base::TBasis &

value

)

Assign a value to Basis data member.

Parameters

value

Reference to value.

Definition at line 87 of file InferenceSupport_.cpp.

References CInferenceSupport_Base::m_Basis, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_support_support_inference_E_E_ETC().

SetBasis() [2/2]

CInferenceSupport_Base::TBasis & CInferenceSupport_Base::SetBasis ( void  )

inline

Assign a value to Basis data member.

Returns

Reference to the data value.

Definition at line 636 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Basis, and CInferenceSupport_Base::ResetBasis().

SetBiosrc() [1/2]

void CSeqFeatData_Base::SetBiosrc

(

CSeqFeatData_Base::TBiosrc &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 560 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Biosrc, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetBiosrc() [2/2]

CSeqFeatData_Base::TBiosrc & CSeqFeatData_Base::SetBiosrc

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 554 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Biosrc, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetBond() [1/2]

void CSeqFeatData_Base::SetBond ( CSeqFeatData_Base::TBond  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 986 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Bond, eDoNotResetVariant, CSeqFeatData_Base::m_Bond, CSeqFeatData_Base::Select(), and rapidjson::value.

SetBond() [2/2]

CSeqFeatData_Base::TBond & CSeqFeatData_Base::SetBond ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 979 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Bond, eDoNotResetVariant, CSeqFeatData_Base::m_Bond, and CSeqFeatData_Base::Select().

SetCategory() [1/4]

void CExperimentSupport_Base::SetCategory ( CExperimentSupport_Base::TCategory  value )

inline

Assign a value to Category data member.

Parameters

value

Value to assign

Definition at line 299 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_Category, CExperimentSupport_Base::m_set_State, and rapidjson::value.

SetCategory() [2/4]

void CInferenceSupport_Base::SetCategory ( CInferenceSupport_Base::TCategory  value )

inline

Assign a value to Category data member.

Parameters

value

Value to assign

Definition at line 449 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Category, CInferenceSupport_Base::m_set_State, and rapidjson::value.

SetCategory() [3/4]

CExperimentSupport_Base::TCategory & CExperimentSupport_Base::SetCategory ( void  )

inline

Assign a value to Category data member.

Returns

Reference to the data value.

Definition at line 306 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::IsSetCategory(), CExperimentSupport_Base::m_Category, CExperimentSupport_Base::m_set_State, and CSerialObject::UnassignedByte().

SetCategory() [4/4]

CInferenceSupport_Base::TCategory & CInferenceSupport_Base::SetCategory ( void  )

inline

Assign a value to Category data member.

Returns

Reference to the data value.

Definition at line 456 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::IsSetCategory(), CInferenceSupport_Base::m_Category, CInferenceSupport_Base::m_set_State, and CSerialObject::UnassignedByte().

SetCdregion() [1/2]

void CSeqFeatData_Base::SetCdregion

(

CSeqFeatData_Base::TCdregion &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 322 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Cdregion, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetCdregion() [2/2]

CSeqFeatData_Base::TCdregion & CSeqFeatData_Base::SetCdregion

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 316 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Cdregion, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetCit() [1/2]

void CSeq_feat_Base::SetCit

(

CSeq_feat_Base::TCit &

value

)

Assign a value to Cit data member.

Parameters

value

Reference to value.

Definition at line 170 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Cit, and rapidjson::value.

Referenced by variation::CVariationUtil::AsVariation_feats(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), ImpFeatPub(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CNewCleanup_imp::MoveCitationQuals(), CCmdFactory::RemoveCitations(), and CCitationsPanel::SetCitations().

SetCit() [2/2]

CSeq_feat_Base::TCit & CSeq_feat_Base::SetCit

(

void

)

Assign a value to Cit data member.

Returns

Reference to the data value.

Definition at line 175 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Cit.

SetClone() [1/2]

void CSeqFeatData_Base::SetClone

(

CSeqFeatData_Base::TClone &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 582 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Clone, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetClone() [2/2]

CSeqFeatData_Base::TClone & CSeqFeatData_Base::SetClone

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 576 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Clone, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetClone_seq() [1/2]

void CClone_ref_Base::SetClone_seq

(

CClone_ref_Base::TClone_seq &

value

)

Assign a value to Clone_seq data member.

Parameters

value

Reference to value.

Definition at line 84 of file Clone_ref_.cpp.

References CClone_ref_Base::m_Clone_seq, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_ETC().

SetClone_seq() [2/2]

CClone_ref_Base::TClone_seq & CClone_ref_Base::SetClone_seq

(

void

)

Assign a value to Clone_seq data member.

Returns

Reference to the data value.

Definition at line 89 of file Clone_ref_.cpp.

References CClone_ref_Base::m_Clone_seq.

SetCode() [1/2]

void CCdregion_Base::SetCode

(

CCdregion_Base::TCode &

value

)

Assign a value to Code data member.

Parameters

value

Reference to value.

Definition at line 68 of file Cdregion_.cpp.

References CCdregion_Base::m_Code, and rapidjson::value.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), FixGeneticCode(), InternalStopCodon(), CGlimmerReader::Read(), CCDSProductPanel::SetCdregionFields(), CCleanup::SetGeneticCodes(), CCDSTranslationPanel::SetProduct(), CCDSProductPanel::TransferDataFromWindow(), CFeatureTableReader_Imp::x_AddQualifierToCdregion(), CCDSTranslationPanel::x_CollectData(), CImportFeatTable::x_DoImportCDS(), CCreateGeneModelTask::x_GetCommand(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), and CGtfReader::xFeatureSetDataCds().

SetCode() [2/2]

CCdregion_Base::TCode & CCdregion_Base::SetCode

(

void

)

Assign a value to Code data member.

Returns

Reference to the data value.

Definition at line 73 of file Cdregion_.cpp.

References CCdregion_Base::m_Code.

SetCode_break()

CCdregion_Base::TCode_break & CCdregion_Base::SetCode_break ( void  )

inline

Assign a value to Code_break data member.

Returns

Reference to the data value.

Definition at line 739 of file Cdregion_.hpp.

References CCdregion_Base::m_Code_break, and CCdregion_Base::m_set_State.

Referenced by BOOST_AUTO_TEST_CASE(), CdregionAdjustForInsert(), CdregionAdjustForTrim(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCDSExceptionPanel::OnDelete(), CCleanup::ParseCodeBreak(), ReverseComplementCDRegion(), CSequenceUpdater::s_Shift_CDSCodeBreaks(), s_UpdateCodeBreaksAndAnticodons(), CCDSExceptionPanel::SetExceptions(), CCDSExceptionPanel::TransferDataFromWindow(), CCDSExceptionPanel::TransferDataToWindow(), CFeatGapInfo::x_AdjustCodebreaks(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_data_data_cdregion_cdregion(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_cdregion_ETC(), CFeaturePropagator::x_CdsMapCodeBreaks(), CSequenceUpdater::x_ChangeIDInFeature(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CSequenceUpdater::x_RemoveNewIDInFeature(), and CGff3Reader::xUpdateAnnotGeneric().

SetComment() [1/4]

void CSeq_feat_Base::SetComment ( const TComment &  value )

inline

Assign a value to Comment data member.

Parameters

value

Value to assign

Definition at line 1058 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Comment, CSeq_feat_Base::m_set_State, and rapidjson::value.

Referenced by CExceptionPanel::AddCommand(), CReadBlastApp::addLocation(), AddMiscFeature(), CCommentColumn::AddToFeature(), CProductColumn::AddToFeature(), AdjustBacterialGeneForCodingRegionWithShortIntron(), CFeatGapInfo::AdjustForRelevantGapIntervals(), CForeignContaminationScreenReportReader::AnnotateOrRemove(), CReadBlastApp::append_misc_feature(), CConvertBadInference::apply(), CConvertDescToFeatComment::apply(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CConvertMiscFeatToGene::Convert(), CConvertBioSrcToRptRegion::Convert(), CConvertToBond::Convert(), CConvertToSite::Convert(), ConvertToMiscFeature(), CTable2AsnContext::CopyFeatureIdsToComments(), CreateControlRegion(), CPhrap_Seq::CreatePadsFeat(), fta_get_trna_from_product(), CNewCleanup_imp::GBQualSeqFeatBC(), CtRNAFromGene::GetCommand(), CBulkCDS::GetCommandFromValuesTable(), CBulkGene::GetCommandFromValuesTable(), CBulkMiscFeat::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), CEditObjectSeq_feat::GetEditCommand(), GetGoodSeqEntryWithFeatureIds(), GetRnaRef(), CWrongIllegalQuals::IllegalQualsToNote(), ImpFeatPub(), CAnnotMapping_Info::InitializeMappedSeq_feat(), MakeGeneOntologyFeat(), MakeRegulatoryFeature(), CNewCleanup_imp::MoveStandardName(), CRepeatToFeat::operator()(), CHugeFileDemoApp::ProcessHugeSeqEntry(), ProcFeatBlk(), CCleanup::RemovePseudoProduct(), CFindASN1Dlg::ReplaceInFeature(), CNewCleanup_imp::RnaFeatBC(), s_AddComment(), s_AddSitesToAnnot(), s_MakeNewMasterSeq(), CSeqTableSetComment::SetString(), SetTranslExcept(), CEditingActionFeatComment::SetValue(), CEditingActionFeatProduct::SetValue(), SPFeatGeneral(), SpProcFeatBlk(), StripCDSComment(), CWrongIllegalQuals::WrongQualsToNote(), CConvertGeneToRNA::x_AddGeneFieldsToComment(), CFeatureTableReader_Imp::x_AddNoteToFeature(), CPhrap_Contig::x_AddTagFeats(), CNewCleanup_imp::x_AddToComment(), CConvertFeatureBase::x_AddToComment(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFindITSParser::x_CreateMiscRna(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CHugeFileDemoApp::x_ProcessFileTraditionally(), CFeatureGenerator::SImplementation::x_SetComment(), CFeatureGenerator::SImplementation::x_SetCommentForGapFilledModel(), SSNP_Info::x_UpdateSeq_featData(), CGff3ImportData::xInitializeComment(), and CGtfReader::xProcessQualifierSpecialCase().

SetComment() [2/4]

void CSeq_feat_Base::SetComment ( CSeq_feat_Base::TComment &&  value )

inline

Definition at line 1065 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Comment, CSeq_feat_Base::m_set_State, and rapidjson::value.

SetComment() [3/4]

CSeq_feat_Base::TComment & CSeq_feat_Base::SetComment ( void  )

inline

Assign a value to Comment data member.

Returns

Reference to the data value.

Definition at line 1072 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetComment(), CSeq_feat_Base::m_Comment, CSeq_feat_Base::m_set_State, and CSerialObject::UnassignedString().

SetComment() [4/4]

void CSeqFeatData_Base::SetComment ( void  )

inline

Select the variant.

Definition at line 960 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Comment, eDoNotResetVariant, and CSeqFeatData_Base::Select().

Referenced by CSeqFeatData::SetComment().

SetConcordant() [1/2]

void CClone_ref_Base::SetConcordant ( CClone_ref_Base::TConcordant  value )

inline

Assign a value to Concordant data member.

Parameters

value

Value to assign

Definition at line 518 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Concordant, CClone_ref_Base::m_set_State, and rapidjson::value.

SetConcordant() [2/2]

CClone_ref_Base::TConcordant & CClone_ref_Base::SetConcordant ( void  )

inline

Assign a value to Concordant data member.

Returns

Reference to the data value.

Definition at line 525 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetConcordant(), CClone_ref_Base::m_Concordant, CClone_ref_Base::m_set_State, and CSerialObject::UnassignedByte().

SetConfidence() [1/2]

void CClone_seq_Base::SetConfidence ( CClone_seq_Base::TConfidence  value )

inline

Assign a value to Confidence data member.

Parameters

value

Value to assign

Definition at line 473 of file Clone_seq_.hpp.

References CClone_seq_Base::m_Confidence, CClone_seq_Base::m_set_State, and rapidjson::value.

SetConfidence() [2/2]

CClone_seq_Base::TConfidence & CClone_seq_Base::SetConfidence ( void  )

inline

Assign a value to Confidence data member.

Returns

Reference to the data value.

Definition at line 480 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetConfidence(), CClone_seq_Base::m_Confidence, CClone_seq_Base::m_set_State, and CSerialObject::UnassignedByte().

SetConflict() [1/2]

void CCdregion_Base::SetConflict ( CCdregion_Base::TConflict  value )

inline

Assign a value to Conflict data member.

Parameters

value

Value to assign

Definition at line 587 of file Cdregion_.hpp.

References CCdregion_Base::m_Conflict, CCdregion_Base::m_set_State, and rapidjson::value.

Referenced by CkProteinTransl(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCDSProductPanel::SetCdregionFields(), CCDSTranslationPanel::SetProduct(), CCDSProductPanel::TransferDataFromWindow(), and CCDSTranslationPanel::x_CollectData().

SetConflict() [2/2]

CCdregion_Base::TConflict & CCdregion_Base::SetConflict ( void  )

inline

Assign a value to Conflict data member.

Returns

Reference to the data value.

Definition at line 594 of file Cdregion_.hpp.

References CCdregion_Base::IsSetConflict(), CCdregion_Base::m_Conflict, CCdregion_Base::m_set_State, and CSerialObject::UnassignedByte().

SetData() [1/4]

void CSeq_feat_Base::SetData

(

CSeq_feat_Base::TData &

value

)

Assign a value to Data data member.

Parameters

value

Reference to value.

Definition at line 94 of file Seq_feat_.cpp.

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

Referenced by AddAnticodon(), AddCDSAndProtForBigGoodNucProtSet(), AddCodeBreak(), AddGeneFeat(), AddGeneticCode(), AddGoodImpFeat(), AddGoodSourceFeature(), CExonFromCds::AddIntron(), CReadBlastApp::addLocation(), CBulkCDSAddPanel::AddOneCommand(), AddOrgmodFeat(), AddProteinFeature(), AddProtFeat(), AddSpanningSentinelFeat(), AddTerminalCodeBreak(), CProductColumn::AddToFeature(), CGeneticCodeColumn::AddToFeature(), CDescriptionColumn::AddToFeature(), CGeneRefColumn::AddToFeature(), CProtRefColumn::AddToFeature(), CNcrnaClassColumn::AddToFeature(), CReportTrim::AdjustAndTranslate(), AdjustCdregionFrame(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CEditSequence::AdjustFeatureLocations(), CFeatGapInfo::AdjustForRelevantGapIntervals(), AdjustFrameFor5Extension(), CForeignContaminationScreenReportReader::AnnotateOrRemove(), CReadBlastApp::append_misc_feature(), CFeatTrim::Apply(), CClearNomenclature::apply(), CConvertDescToFeatComment::apply(), CConvertDescToFeatSource::apply(), CConvertDescToFeatPub::apply(), CConvertDescToFeatPubConstraint::apply(), CConvertSecondProtNameToDesc::apply(), CConvertDescToSecondProtName::apply(), CFixProductNames::apply(), CUpdateReplacedECNumbers::apply(), CCreateLocusTagGene::apply(), CGroupExplode::apply(), CExplodeRNAFeats::apply(), CMergeBiosources::apply(), CAppendModToOrg::apply_to_seq_and_feat(), CModifyStructuredComment::apply_to_seq_and_feat(), CSourceModParser::ApplyAllMods(), ApplyFeatureSeqTableToSeqEntry(), CReverseAuthorNames::ApplyToPubdesc(), variation::CVariationUtil::AsVariation_feats(), variation_ref::CHgvsParser::AsVariationFeat(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildGoodFeat(), BuildGoodtRNA(), BuildtRNA(), CachedTaxonomyLookupCommand(), CNewCleanup_imp::CdRegionEC(), Check3Policy(), Check5Policy(), CheckAdjustStart(), CheckAdjustStop(), CheckRegulatoryFeatures(), CkCdRegion(), CkProteinTransl(), CCleanup::CleanupCollectionDates(), CProductColumn::ClearInFeature(), CCodonStartColumn::ClearInFeature(), CGeneticCodeColumn::ClearInFeature(), CDescriptionColumn::ClearInFeature(), CGeneRefColumn::ClearInFeature(), CProtRefColumn::ClearInFeature(), CNcrnaClassColumn::ClearInFeature(), CPubField::ClearVal(), CSrcTableColumnBase::ClearVal(), CConvertMiscFeatToGene::Convert(), CConvertCDSToRNA::Convert(), CConvertGeneToRNA::Convert(), CConvertBioSrcToRptRegion::Convert(), CConvertCDSToMiscFeat::Convert(), CConvertImpToProt::Convert(), CConvertProtToImp::Convert(), CConvertImpToRNA::Convert(), CConvertImpToCDS::Convert(), CConvertImpToGene::Convert(), CConvertRegionToImp::Convert(), CConvertRegionToRna::Convert(), CConvertCommentToImp::Convert(), CConvertGeneToImp::Convert(), CConvertRnaToImp::Convert(), CConvertmRNAToCDS::Convert(), CConverttRNAToGene::Convert(), CConvertSiteToImp::Convert(), CConvertRegionToProt::Convert(), CConvertRNAToRNA::Convert(), CConvertToRegion::Convert(), CConvertCDSToProt::Convert(), CConvertCDSToGene::Convert(), CConvertCDSToPseudoGene::Convert(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CVariationNormalizationDelIns::ConvertExpandedDeletionToDelIns(), CVariationNormalizationDelIns::ConvertExpandedInsertionToDelIns(), CCdsToMatPeptide::ConvertInner(), CFeatureGenerator::ConvertLocToAnnot(), ConvertProteinToImp(), ConvertRegulatoryFeature(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), ConvertToMiscFeature(), CVariationUtilities::CorrectRefAllele(), CAnnotationASN1::CImplementationData::create_cdregion_feature(), CAnnotationASN1::CImplementationData::create_internal_feature(), CreateCds(), CreateControlRegion(), CRNAPanel::CreateControls(), CreateMicrosatellite(), CPhrap_Seq::CreatePadsFeat(), CFeatureTableReader_Imp::CreateSeqFeat(), CreateTrna(), CEditObjectSeq_feat::CreateWindowImpl(), CSourceFeatureItem::CSourceFeatureItem(), CAddFeatChecker::Do(), CTaxValidationAndCleanup::DoTaxonomyUpdate(), CEditingBtnsPanel::ECNumberCleanup(), EndAdded(), CEditSequenceEnds::Extend3(), CEditSequenceEnds::Extend5(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), ExtendToGapsOrEnds(), FeatureAdjustForInsert(), FeatureAdjustForTrim(), IEditingActionBiosource::Find(), CEditingActionFeatGeneLocusPlain::Find(), CEditingActionFeatGeneLocusRna::Find(), CEditingActionFeatGeneLocusCdsGeneProt::Find(), CSeqTranslator::FindBestFrame(), IEditingActionFeat::FindOrCreateProtFeat(), CEditingActionFeatGeneLocus::FindRelated(), IEditingActionFeat::FindRelatedOrCreateProtFeat(), CCleanup::FixECNumbers(), fta_create_imgt_misc_feat(), CFeatTableEdit::GenerateLocusTags(), CScore_CdsInternalStops::Get(), CGnomonEngine::GetAnnot(), CProductColumn::GetApplyObjects(), GetChangeStrainForwardingCommand(), CAddGlobalCodeBreak::GetCommand(), CCdsFromGeneMrnaExon::GetCommand(), CExonFromCds::GetCommand(), CGeneFeatFromOtherFeatDlg::GetCommand(), CmRNAFromGeneCdsExon::GetCommand(), CtRNAFromGene::GetCommand(), CTruncateCDS::GetCommand(), CGeneFeatFromXrefs::GetCommand(), CRetranslateCDS::GetCommand(), CEditCdsFrame::GetCommand(), CBulkCDS::GetCommandFromValuesTable(), CBulkGene::GetCommandFromValuesTable(), CBulkRna::GetCommandFromValuesTable(), CEditObjectSeq_feat::GetEditCommand(), GetGoodSeqEntryWithFeatureIds(), GetImpFeat(), CmRNAFromGeneCdsExon::GetNameFromCDS(), CCdsFromGeneMrnaExon::GetNameFromGene(), CmRNAFromGeneCdsExon::GetNameFromGene(), CtRNAFromGene::GetNameFromGene(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), CFeatureGenePanel::GetNewGene(), GetProtRefAnnot(), GetRelatedFeatureApplyObjects(), CFeatureSeqTableColumnBase::GetRelatedGeneApplyObjects(), GetRmCultureNotesCommand(), GetRnaRef(), CSNPDbFeatIterator::GetSeq_feat(), IEditingAction::GetUpdateMRNAProductNameCmd(), CBulkCDS::GetUpdateMRNAProductNameCmd(), CNewCleanup_imp::ImpFeatBC(), ImpFeatPub(), CGff3ImportData::Initialize(), CAnnotMapping_Info::InitializeMappedSeq_feat(), InternalStopCodon(), CFastaObjectLoader::LoadFromStream(), LookForProductName(), COrf::MakeCDSAnnot(), MakeCDSForGoodNucProtSet(), MakeCDSForNucProtSet(), CBioseqEditor::MakeDefaultFeature(), MakeEntryForDeltaConversion(), MakeGeneForFeature(), MakeGeneForNucProtSet(), MakeGeneOntologyFeat(), MakeIntronForMixLoc(), MakeMiscFeature(), MakemRNAforCDS(), MakemRNAForCDS(), MakeMultiSeqCDS(), MakeProteinForGoodNucProtSet(), MakeProteinForNucProtSet(), MakeRegulatoryFeature(), MakeRegulatoryFeatureTest(), MakeRptRegion(), MakeTrnaWithAnticodon(), CCdsToMatPeptide::MergeConvert(), CEditingActionFeatTranslExcept::Modify(), CEditingActionFeatRnaQual::Modify(), CEditingActionFeatSynonym::Modify(), CEditingActionFeatActivity::Modify(), CEditingActionFeatEcNumber::Modify(), CEditingActionFeatFunction::Modify(), CEditingActionFeatProduct::Modify(), CCleanup::MoveFeatToProtein(), CNewCleanup_imp::MoveStandardName(), CCleanup::NormalizeGeneQuals(), CSuspectProductRulesEditor::OnApplyFixes(), CBioseqEditor::OnCreateBiosourceFeat(), CBioseqEditor::OnCreateBond(), CBioseqEditor::OnCreateCodingRegion(), CBioseqEditor::OnCreateGene(), CBioseqEditor::OnCreateImport(), CBioseqEditor::OnCreateProt(), CBioseqEditor::OnCreatePubFeat(), CBioseqEditor::OnCreateRegion(), CBioseqEditor::OnCreateRNA(), CBioseqEditor::OnCreateSecondaryStructure(), CBioseqEditor::OnCreateSite(), CRepeatToFeat::operator()(), CUpdateECNumbers::operator()(), CCleanup::ParseCodeBreaks(), ParseGeneNameSP(), ParseSourceFeat(), CImportFeaturePanel::PopulateImpFeat(), variation_ref::CVariationUtil::PrecursorToProt(), CTabularFormatter_StopCodonChanges::Print(), CFeatTableEdit::ProcessCodonRecognized(), CBedAnnotAssembler::ProcessRecord(), variation_ref::CVariationUtil::ProtToPrecursor(), CGlimmerReader::Read(), CGFFReader::Read(), variation_ref::CVariationUtil::Remap(), CFindASN1Dlg::ReplaceInFeature(), RescueProtProductQual(), CEditingActionFeatCodonsRecognized::ResetValue(), CEditingActionFeatAnticodon::ResetValue(), CEditingActionFeatCodonStart::ResetValue(), CEditingActionFeatTranslTable::ResetValue(), CEditingActionFeatDesc::ResetValue(), CEditingActionFeatNcRnaClass::ResetValue(), CEditingActionFeatLocus_tag::ResetValue(), CEditingActionFeatMaploc::ResetValue(), CEditingActionFeatAllele::ResetValue(), CEditingActionFeatProduct::ResetValue(), CEditingActionFeatGeneLocus::ResetValue(), ReverseComplementFeature(), CLocalFinderApp::Run(), CMacroBioData_BioSourceIter::RunEditCommand(), CMacroBioData_PubdescIter::RunEditCommand(), s_AddSitesToAnnot(), ApplyCDSFrame::s_FindMatchingFrame(), CMacroFunction_ApplyCDSFrame::s_FindMatchingFrame(), s_FixncRNA(), s_FixRNAOtherByName(), s_FixtmRNA(), s_GetProtApplyObjectsFeatures(), s_MakeNewMasterSeq(), s_RemoveOrgFromEndOfProtein(), ApplyCDSFrame::s_SetCDSFrame(), CMacroFunction_ApplyCDSFrame::s_SetCDSFrame(), CSequenceUpdater::s_Shift_CDSCodeBreaks(), CSequenceUpdater::s_Shift_tRNAAntiCodon(), s_UpdateCodeBreaksAndAnticodons(), SeqFeatPub(), CCleanup::SetBestFrame(), IEditingActionBiosource::SetFeat(), CCleanup::SetGeneticCodes(), CCleanup::SetMrnaName(), CCDSTranslationPanel::SetProduct(), CCleanup::SetProteinName(), CAutoSqlStandardFields::SetRegion(), CSeqTableSetDataImpKey::SetString(), CSeqTableSetDataRegion::SetString(), SetTranslExcept(), CMiscSeqTableColumn::SetVal(), CEditingActionFeatCodonsRecognized::SetValue(), CEditingActionFeatRnaQual::SetValue(), CEditingActionFeatRegion::SetValue(), CEditingActionFeatCodonStart::SetValue(), CEditingActionFeatTranslTable::SetValue(), CEditingActionFeatDesc::SetValue(), CEditingActionFeatNcRnaClass::SetValue(), CEditingActionFeatLocus_tag::SetValue(), CEditingActionFeatMaploc::SetValue(), CEditingActionFeatSynonym::SetValue(), CEditingActionFeatAllele::SetValue(), CEditingActionFeatActivity::SetValue(), CEditingActionFeatEcNumber::SetValue(), CEditingActionFeatFunction::SetValue(), CEditingActionFeatProduct::SetValue(), CEditingActionFeatGeneLocus::SetValue(), CNewCleanup_imp::SiteFeatBC(), SpecificHostCleanupCommand(), SPFeatGeneral(), SPFeatProtRef(), SPGetOneGeneRefNew(), SpProcFeatBlk(), CCleanup::TaxonomyLookup(), TaxonomyLookupCommand(), TestMapper_Trimming(), TestMatPeptideListing(), TestMultipleEquivBioSources(), TestOneCDS(), TestOneGapSeq(), TestOneMiscPartial(), TestOverlappingRNAFeatures(), TestTrimForFrame(), TestUTRPair(), CMacroFunction_SwapRelFeatQual::TheFunction(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertStringQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ConvertRNARelQual::TheFunction(), CMacroFunction_ParseStringQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_ParseRNARelQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyStringQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_CopyRNARelQual::TheFunction(), CMacroFunction_FixProteinFormat::TheFunction(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), CMacroFunction_ApplyCDS::TheFunction(), CFeatureCreateDialog::TransferDataFromWindow(), CImportFeaturePanel::TransferDataFromWindow(), CRNAPanel::TransferDataFromWindow(), CFeatureGenerator::SImplementation::TransformProteinAlignToTranscript(), Translate(), CCdregion_translate::TranslateCdregion(), TranslateCodingRegionForValidation(), TrimSequenceAndAnnotation(), TruncateTransSplicedCDSForExtension(), TryOneCDSCase(), UpdateFeat(), UpdatemRNAProduct(), USING_SCOPE(), CPhrap_Contig::x_AddBaseSegFeats(), CConvertGeneToRNA::x_AddGeneFieldsToComment(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureTableReader_Imp::x_AddQualifierToRna(), CPhrap_Read::x_AddQualityFeat(), CPhrap_Contig::x_AddReadLocFeats(), CPhrap_Read::x_AddTagFeats(), CPhrap_Contig::x_AddTagFeats(), CFeatGapInfo::x_AdjustAnticodons(), CReportTrim::x_AdjustCdregionFrame(), CFeatGapInfo::x_AdjustCodebreaks(), CCountryFixup::x_ApplyToSeqAndFeat(), IModifyBiosourceQuals::x_ApplyToSeqAndFeat(), IPubDescEditor::x_ApplyToSeqAndFeat(), IRemovePubs::x_ApplyToSeqAndFeat(), CNewCleanup_imp::x_BondEC(), CFeaturePropagator::x_CdsMapCodeBreaks(), CNewCleanup_imp::x_CleanEmptyFeature(), CEditObjectSeq_feat::x_ConvertCommentToMiscFeat(), CPromote::x_CopyCdregionToRNA(), CCmdFeatIdXrefsFromQualifiers::x_CreateActionCmd(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), CGFFReader::x_CreateGeneFeatures(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CFindITSParser::x_CreateMiscRna(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateMrnaFeature(), CGBankLoadingJob::x_CreateProjectItems(), CWindowMaskerJob::x_CreateProjectItems(), CFindITSParser::x_CreateRRna(), SSNP_Info::x_CreateSeq_feat(), CImportFeatTable::x_DoImportCDS(), CCpgSearchJob::x_DoSearch(), COrfSearchJob::x_DoSearch(), CApplyGCode::x_FindBioSource(), CCountryConflict::x_FindBioSource(), CLatLonTool::x_FindBioSource(), CFeatureTableReader_Imp::x_FinishFeature(), CCleanupApp::x_FixCDS(), CNewCleanup_imp::x_FixMiscRNA(), CSequenceUpdater::x_FuseFeatures(), CCreateGeneModelTask::x_GetCommand(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CEditObjectSeq_feat::x_HandleCdsProduct(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt5End(), CCDSTranslationProblems::x_IsThreeBaseNonsense(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CNewCleanup_imp::x_MoveCdregionXrefsToProt(), CNewCleanup_imp::x_MoveSeqfeatOrgToSourceOrg(), CStrainSerotypeInfluenza::x_ParseEntry(), CGFFReader::x_ParseFeatRecord(), CRNAPanel::x_PopulateTranscriptID(), CFeaturePropagator::x_PropagateCds(), CFeaturePropagator::x_PropagatetRNA(), CSequenceUpdater::x_RemoveNewIDInFeature(), variation_ref::CHgvsParser::x_root(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CEditObjectSeq_feat::x_SetTranslExcept(), CFeatureTableReader_Imp::x_SetupSeqFeat(), variation_ref::CVariationUtil::x_SetVariantProperties(), CVariationNormalization_base< T >::x_Shift(), CConvertFeatureBase::x_SimpleConversion(), CVectorTrimPanel::x_TrimSelected(), CNewCleanup_imp::x_tRNACodonEC(), CFeatModApply::x_TryProtRefMod(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), SSNP_Info::x_UpdateSeq_featData(), CVcfReader::xAssignVariantDel(), CVcfReader::xAssignVariantDelins(), CVcfReader::xAssignVariantIns(), CVcfReader::xAssignVariantMnv(), CVcfReader::xAssignVariantProps(), CVcfReader::xAssignVariantSnv(), CVcfReader::xAssignVariationAlleleSet(), CVcfReader::xAssignVariationIds(), CSoMap::xFeatureMakeCds(), CSoMap::xFeatureMakeGene(), CSoMap::xFeatureMakeImp(), CSoMap::xFeatureMakeMiscFeature(), CSoMap::xFeatureMakeMiscRecomb(), CSoMap::xFeatureMakeMiscRna(), CSoMap::xFeatureMakeNcRna(), CSoMap::xFeatureMakeProt(), CSoMap::xFeatureMakeRegion(), CSoMap::xFeatureMakeRegulatory(), CSoMap::xFeatureMakeRepeatRegion(), CSoMap::xFeatureMakeRna(), CGtfAnnotAssembler::xFeatureSetCds(), CGtfReader::xFeatureSetDataCds(), CGtfReader::xFeatureSetDataGene(), CGtfReader::xFeatureSetDataMrna(), CGtfReader::xFeatureSetDataRna(), CGtfAnnotAssembler::xFeatureSetGene(), CGtfAnnotAssembler::xFeatureSetMrna(), C5ColImportData::xFeatureSetType(), CGvfReader::xFeatureSetVariation(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatTableEdit::xGenerateLocusIdsRegenerate(), CFeatTableEdit::xGenerateMissingMrnaForCds(), CGff2Writer::xGenerateMissingTranscript(), CGff3ImportData::xInitializeDataCds(), CGff3ImportData::xInitializeDataGene(), CGff3ImportData::xInitializeDataRna(), CFeatTableEdit::xMakeGeneForFeature(), CFeatureTableReader::xMoveCdRegions(), CUCSCRegionReader::xParseFeature(), CUCSCRegionReader::xParseFeatureUCSCFormat(), CGff3Reader::xPostProcessAnnot(), CVcfReader::xProcessDataLine(), CBedReader::xSetFeatureBedData(), CBedReader::xSetFeatureDisplayData(), CMicroArrayReader::xSetFeatureDisplayData(), CFeatureTableReader::xTranslateProtein(), CGff3Reader::xUpdateAnnotGeneric(), and CGtfAnnotAssembler::xUpdateCds().

SetData() [2/4]

void CSeqFeatXref_Base::SetData

(

CSeqFeatXref_Base::TData &

value

)

Assign a value to Data data member.

Parameters

value

Reference to value.

Definition at line 74 of file SeqFeatXref_.cpp.

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

Referenced by CNewCleanup_imp::GeneFeatBC(), CSeq_feat::SetGeneXref(), CSeq_feat::SetProtXref(), CAutogeneratedCleanup::x_BasicCleanupSeqFeatXref(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqFeatXref(), and CPromote::x_PromoteCdregion().

SetData() [3/4]

CSeq_feat_Base::TData & CSeq_feat_Base::SetData ( void  )

inline

Assign a value to Data data member.

Returns

Reference to the data value.

Definition at line 934 of file Seq_feat_.hpp.

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

Referenced by CSeq_feat::FindExt().

SetData() [4/4]

CSeqFeatXref_Base::TData & CSeqFeatXref_Base::SetData

(

void

)

Assign a value to Data data member.

Returns

Reference to the data value.

Definition at line 79 of file SeqFeatXref_.cpp.

References CSeqFeatXref_Base::m_Data, and CRef< C, Locker >::Reset().

SetDbxref() [1/2]

CModelEvidenceSupport_Base::TDbxref & CModelEvidenceSupport_Base::SetDbxref ( void  )

inline

Assign a value to Dbxref data member.

Returns

Reference to the data value.

Definition at line 669 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Dbxref, and CModelEvidenceSupport_Base::m_set_State.

SetDbxref() [2/2]

CSeq_feat_Base::TDbxref & CSeq_feat_Base::SetDbxref ( void  )

inline

Assign a value to Dbxref data member.

Returns

Reference to the data value.

Definition at line 1339 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Dbxref, and CSeq_feat_Base::m_set_State.

Referenced by CSeq_feat::AddDbxref(), AddGeneFeat(), CRmvCddFeatDbxref::apply_to(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), DbxrefToSeqID(), FilterDb_xref(), fta_collect_wormbases(), fta_create_imgt_misc_feat(), CNewCleanup_imp::GBQualSeqFeatBC(), CSNPDbFeatIterator::GetSeq_feat(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CEditingActionFeatDbxref::Modify(), CRemoveTaxonFeats::ModifyFeature(), CNewCleanup_imp::MoveDbxrefs(), CRepeatToFeat::operator()(), CNewCleanup_imp::ProtFeatfBC(), RemoveDbxref(), s_CopyDbToFeat(), CNewCleanup_imp::SeqfeatBC(), SetDbxref(), CSeqTableSetDbxref::SetInt(), CSeqTableSetDbxref::SetInt8(), CSeqTableSetDbxref::SetString(), CEditingActionFeatDbxref::SetValue(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureGenerator::SImplementation::x_AddSelectMarkup(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), SSNP_Info::x_CreateSeq_feat(), SSNP_Info::x_UpdateSeq_featData(), CVcfReader::xAssignVariantProps(), CVcfReader::xAssignVariantSource(), CGff3ImportData::xInitializeDbxref(), and CGtfReader::xProcessQualifierSpecialCase().

SetDefaultConcordant()

void CClone_ref_Base::SetDefaultConcordant ( void  )

inline

Assign default value to Concordant data member.

Definition at line 506 of file Clone_ref_.hpp.

References CClone_ref_Base::ResetConcordant().

SetDefaultFrame()

void CCdregion_Base::SetDefaultFrame ( void  )

inline

Assign default value to Frame data member.

Definition at line 528 of file Cdregion_.hpp.

References CCdregion_Base::ResetFrame().

SetDefaultFull_length() [1/2]

void CModelEvidenceItem_Base::SetDefaultFull_length ( void  )

inline

Assign default value to Full_length data member.

Definition at line 467 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::ResetFull_length().

SetDefaultFull_length() [2/2]

void CModelEvidenceSupport_Base::SetDefaultFull_length ( void  )

inline

Assign default value to Full_length data member.

Definition at line 789 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::ResetFull_length().

SetDefaultSame_species()

void CInferenceSupport_Base::SetDefaultSame_species ( void  )

inline

Assign default value to Same_species data member.

Definition at line 584 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::ResetSame_species().

SetDefaultSupports_all_exon_combo() [1/2]

void CModelEvidenceItem_Base::SetDefaultSupports_all_exon_combo ( void  )

inline

Assign default value to Supports_all_exon_combo data member.

Definition at line 517 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::ResetSupports_all_exon_combo().

SetDefaultSupports_all_exon_combo() [2/2]

void CModelEvidenceSupport_Base::SetDefaultSupports_all_exon_combo ( void  )

inline

Assign default value to Supports_all_exon_combo data member.

Definition at line 839 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::ResetSupports_all_exon_combo().

SetDefaultType()

void CInferenceSupport_Base::SetDefaultType ( void  )

inline

Assign default value to Type data member.

Definition at line 487 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::ResetType().

SetDefaultUnique()

void CClone_ref_Base::SetDefaultUnique ( void  )

inline

Assign default value to Unique data member.

Definition at line 556 of file Clone_ref_.hpp.

References CClone_ref_Base::ResetUnique().

SetDescr() [1/3]

void CImp_feat_Base::SetDescr ( const TDescr &  value )

inline

Assign a value to Descr data member.

Parameters

value

Value to assign

Definition at line 362 of file Imp_feat_.hpp.

References CImp_feat_Base::m_Descr, CImp_feat_Base::m_set_State, and rapidjson::value.

SetDescr() [2/3]

void CImp_feat_Base::SetDescr ( CImp_feat_Base::TDescr &&  value )

inline

Definition at line 369 of file Imp_feat_.hpp.

References CImp_feat_Base::m_Descr, CImp_feat_Base::m_set_State, and rapidjson::value.

SetDescr() [3/3]

CImp_feat_Base::TDescr & CImp_feat_Base::SetDescr ( void  )

inline

Assign a value to Descr data member.

Returns

Reference to the data value.

Definition at line 376 of file Imp_feat_.hpp.

References CImp_feat_Base::IsSetDescr(), CImp_feat_Base::m_Descr, CImp_feat_Base::m_set_State, and CSerialObject::UnassignedString().

SetDois() [1/2]

CExperimentSupport_Base::TDois & CExperimentSupport_Base::SetDois ( void  )

inline

Assign a value to Dois data member.

Returns

Reference to the data value.

Definition at line 408 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_Dois, and CExperimentSupport_Base::m_set_State.

SetDois() [2/2]

CInferenceSupport_Base::TDois & CInferenceSupport_Base::SetDois ( void  )

inline

Assign a value to Dois data member.

Returns

Reference to the data value.

Definition at line 688 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Dois, and CInferenceSupport_Base::m_set_State.

SetEst()

CModelEvidenceSupport_Base::TEst & CModelEvidenceSupport_Base::SetEst ( void  )

inline

Assign a value to Est data member.

Returns

Reference to the data value.

Definition at line 598 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Est, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

SetExcept() [1/2]

void CSeq_feat_Base::SetExcept ( CSeq_feat_Base::TExcept  value )

inline

Assign a value to Except data member.

Parameters

value

Value to assign

Definition at line 1018 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Except, CSeq_feat_Base::m_set_State, and rapidjson::value.

Referenced by CExceptionPanel::AddCommand(), AddException(), CExceptionColumn::AddToFeature(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CkCdRegion(), CFixForTransSplicing::CombineFeatures(), CCleanup::FixRNAEditingCodingRegion(), fta_check_artificial_location(), fta_check_exception(), CEditObjectSeq_feat::GetEditCommand(), CAnnotMapping_Info::InitializeMappedSeq_feat(), ProcFeatBlk(), SetExceptFromGbqual(), CEditingActionFeatException::SetValue(), CMacroFunction_UpdateProteinSeqs::TheFunction(), CGenericPropsPanel::TransferDataFromWindow(), CCleanup::x_AddLowQualityException(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CFeatureGenerator::SImplementation::x_SetExceptText(), CGtfReader::xFeatureSetDataCds(), and CGff2Writer::xGenerateMissingTranscript().

SetExcept() [2/2]

CSeq_feat_Base::TExcept & CSeq_feat_Base::SetExcept ( void  )

inline

Assign a value to Except data member.

Returns

Reference to the data value.

Definition at line 1025 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetExcept(), CSeq_feat_Base::m_Except, CSeq_feat_Base::m_set_State, and CSerialObject::UnassignedByte().

Referenced by CSeq_feat::AddExceptText().

SetExcept_text() [1/3]

void CSeq_feat_Base::SetExcept_text ( const TExcept_text &  value )

inline

Assign a value to Except_text data member.

Parameters

value

Value to assign

Definition at line 1414 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Except_text, CSeq_feat_Base::m_set_State, and rapidjson::value.

Referenced by CExceptionPanel::AddCommand(), AddException(), CExceptionColumn::AddToFeature(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CFixForTransSplicing::CombineFeatures(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), CCleanup::FixRNAEditingCodingRegion(), fta_check_artificial_location(), fta_concat_except_text(), CNewCleanup_imp::GBQualSeqFeatBC(), CEditObjectSeq_feat::GetEditCommand(), CAnnotMapping_Info::InitializeMappedSeq_feat(), ProcFeatBlk(), CFindASN1Dlg::ReplaceInFeature(), SetExceptFromGbqual(), CEditingActionFeatException::SetValue(), CMacroFunction_UpdateProteinSeqs::TheFunction(), CGenericPropsPanel::TransferDataFromWindow(), CCleanup::x_AddLowQualityException(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CFeatureGenerator::SImplementation::x_HandleRnaExceptions(), CFeatureGenerator::SImplementation::x_SetExceptText(), CGtfReader::xFeatureSetDataCds(), and CGff2Writer::xGenerateMissingTranscript().

SetExcept_text() [2/3]

void CSeq_feat_Base::SetExcept_text ( CSeq_feat_Base::TExcept_text &&  value )

inline

Definition at line 1421 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Except_text, CSeq_feat_Base::m_set_State, and rapidjson::value.

SetExcept_text() [3/3]

CSeq_feat_Base::TExcept_text & CSeq_feat_Base::SetExcept_text ( void  )

inline

Assign a value to Except_text data member.

Returns

Reference to the data value.

Definition at line 1428 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetExcept_text(), CSeq_feat_Base::m_Except_text, CSeq_feat_Base::m_set_State, and CSerialObject::UnassignedString().

Referenced by CSeq_feat::AddExceptText(), and CSeq_feat::RemoveExceptText().

SetExon_count() [1/4]

void CModelEvidenceItem_Base::SetExon_count ( CModelEvidenceItem_Base::TExon_count  value )

inline

Assign a value to Exon_count data member.

Parameters

value

Value to assign

Definition at line 382 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Exon_count, CModelEvidenceItem_Base::m_set_State, and rapidjson::value.

SetExon_count() [2/4]

void CModelEvidenceSupport_Base::SetExon_count ( CModelEvidenceSupport_Base::TExon_count  value )

inline

Assign a value to Exon_count data member.

Parameters

value

Value to assign

Definition at line 704 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Exon_count, CModelEvidenceSupport_Base::m_set_State, and rapidjson::value.

SetExon_count() [3/4]

CModelEvidenceItem_Base::TExon_count & CModelEvidenceItem_Base::SetExon_count ( void  )

inline

Assign a value to Exon_count data member.

Returns

Reference to the data value.

Definition at line 389 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::IsSetExon_count(), CModelEvidenceItem_Base::m_Exon_count, CModelEvidenceItem_Base::m_set_State, and CSerialObject::UnassignedByte().

SetExon_count() [4/4]

CModelEvidenceSupport_Base::TExon_count & CModelEvidenceSupport_Base::SetExon_count ( void  )

inline

Assign a value to Exon_count data member.

Returns

Reference to the data value.

Definition at line 711 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetExon_count(), CModelEvidenceSupport_Base::m_Exon_count, CModelEvidenceSupport_Base::m_set_State, and CSerialObject::UnassignedByte().

SetExon_length() [1/4]

void CModelEvidenceItem_Base::SetExon_length ( CModelEvidenceItem_Base::TExon_length  value )

inline

Assign a value to Exon_length data member.

Parameters

value

Value to assign

Definition at line 429 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Exon_length, CModelEvidenceItem_Base::m_set_State, and rapidjson::value.

SetExon_length() [2/4]

void CModelEvidenceSupport_Base::SetExon_length ( CModelEvidenceSupport_Base::TExon_length  value )

inline

Assign a value to Exon_length data member.

Parameters

value

Value to assign

Definition at line 751 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Exon_length, CModelEvidenceSupport_Base::m_set_State, and rapidjson::value.

SetExon_length() [3/4]

CModelEvidenceItem_Base::TExon_length & CModelEvidenceItem_Base::SetExon_length ( void  )

inline

Assign a value to Exon_length data member.

Returns

Reference to the data value.

Definition at line 436 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::IsSetExon_length(), CModelEvidenceItem_Base::m_Exon_length, CModelEvidenceItem_Base::m_set_State, and CSerialObject::UnassignedByte().

SetExon_length() [4/4]

CModelEvidenceSupport_Base::TExon_length & CModelEvidenceSupport_Base::SetExon_length ( void  )

inline

Assign a value to Exon_length data member.

Returns

Reference to the data value.

Definition at line 758 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetExon_length(), CModelEvidenceSupport_Base::m_Exon_length, CModelEvidenceSupport_Base::m_set_State, and CSerialObject::UnassignedByte().

SetExp_ev() [1/2]

void CSeq_feat_Base::SetExp_ev ( CSeq_feat_Base::TExp_ev  value )

inline

Assign a value to Exp_ev data member.

Parameters

value

Value to assign

Definition at line 1277 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Exp_ev, CSeq_feat_Base::m_set_State, and rapidjson::value.

Referenced by fta_check_evidence(), CAnnotMapping_Info::InitializeMappedSeq_feat(), COrf::MakeCDSAnnot(), ParseSourceFeat(), CEditingActionFeatEvidence::SetValue(), CFeatureCreateDialog::TransferDataFromWindow(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), and COrfSearchJob::x_DoSearch().

SetExp_ev() [2/2]

CSeq_feat_Base::TExp_ev & CSeq_feat_Base::SetExp_ev ( void  )

inline

Assign a value to Exp_ev data member.

Returns

Reference to the data value.

Definition at line 1284 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetExp_ev(), CSeq_feat_Base::m_Exp_ev, CSeq_feat_Base::m_set_State, and CSerialObject::UnassignedByte().

SetExperiment()

CSeqFeatSupport_Base::TExperiment & CSeqFeatSupport_Base::SetExperiment ( void  )

inline

Assign a value to Experiment data member.

Returns

Reference to the data value.

Definition at line 244 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_Experiment, and CSeqFeatSupport_Base::m_set_State.

SetExplanation() [1/3]

void CExperimentSupport_Base::SetExplanation ( const TExplanation &  value )

inline

Assign a value to Explanation data member.

Parameters

value

Value to assign

Definition at line 339 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_Explanation, CExperimentSupport_Base::m_set_State, and rapidjson::value.

SetExplanation() [2/3]

void CExperimentSupport_Base::SetExplanation ( CExperimentSupport_Base::TExplanation &&  value )

inline

Definition at line 346 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_Explanation, CExperimentSupport_Base::m_set_State, and rapidjson::value.

SetExplanation() [3/3]

CExperimentSupport_Base::TExplanation & CExperimentSupport_Base::SetExplanation ( void  )

inline

Assign a value to Explanation data member.

Returns

Reference to the data value.

Definition at line 353 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::IsSetExplanation(), CExperimentSupport_Base::m_Explanation, CExperimentSupport_Base::m_set_State, and CSerialObject::UnassignedString().

SetExt() [1/2]

void CSeq_feat_Base::SetExt

(

CSeq_feat_Base::TExt &

value

)

Assign a value to Ext data member.

Parameters

value

Reference to value.

Definition at line 153 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Ext, and rapidjson::value.

Referenced by CReadUtil::AddGeneOntologyTerm(), AddGoTermToList(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CSNPDbFeatIterator::GetSeq_feat(), CAnnotMapping_Info::InitializeMappedSeq_feat(), RemoveDuplicateGoTerms(), CSeqTableSetExtType::SetInt(), CSeqTableSetExtType::SetInt8(), CSeqTableSetExtType::SetString(), CFeatureTableReader_Imp::x_AddQualifierToImp(), SSNP_Info::x_CreateSeq_feat(), CSeqTableSetExt::x_SetField(), SSNP_Info::x_UpdateSeq_featData(), CGvfReader::xFeatureSetExt(), CVcfReader::xProcessDataLine(), CVcfReader::xProcessFilter(), CVcfReader::xProcessFormat(), CVcfReader::xProcessInfo(), and CVcfReader::xProcessScore().

SetExt() [2/2]

CSeq_feat_Base::TExt & CSeq_feat_Base::SetExt

(

void

)

Assign a value to Ext data member.

Returns

Reference to the data value.

Definition at line 158 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Ext.

Referenced by CSeq_feat::FindExt(), and CSeq_feat::RemoveExt().

SetExts()

CSeq_feat_Base::TExts & CSeq_feat_Base::SetExts ( void  )

inline

Assign a value to Exts data member.

Returns

Reference to the data value.

Definition at line 1483 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Exts, and CSeq_feat_Base::m_set_State.

Referenced by CSeq_feat::AddExt(), CAnnotationASN1::CImplementationData::AddModel(), variation::CVariationUtil::AsVariation_feats(), CAnnotationASN1::CImplementationData::create_internal_feature(), CSeq_feat::FindExt(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CRepeatToFeat::operator()(), CSeq_feat::RemoveExt(), CVariationNormalization_base< T >::ResetFullyShifted(), CAutoSqlStandardFields::SetDisplayData(), CVariationUtilities::x_AddRefAlleleFixFlag(), CVariationNormalization_base< T >::x_SetShiftFlag(), CBedReader::xSetFeatureBedData(), CBedReader::xSetFeatureLocationBlock(), CBedReader::xSetFeatureLocationCds(), CBedReader::xSetFeatureLocationChrom(), CBedReader::xSetFeatureLocationGene(), CBedReader::xSetFeatureLocationRna(), and CBedReader::xSetFeatureLocationThick().

SetFrame() [1/2]

void CCdregion_Base::SetFrame ( CCdregion_Base::TFrame  value )

inline

Assign a value to Frame data member.

Parameters

value

Value to assign

Definition at line 540 of file Cdregion_.hpp.

References CCdregion_Base::m_Frame, CCdregion_Base::m_set_State, and rapidjson::value.

Referenced by AdjustCDSFrameForStartChange(), CEditSeqEndsWithAlign::AdjustFrame(), BOOST_AUTO_TEST_CASE(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CCDSProductPanel::SetCdregionFields(), CCleanup::SetFrameFromLoc(), CCDSTranslationPanel::SetProduct(), TestMapper_Trimming(), CFeatureTableReader_Imp::x_AddQualifierToCdregion(), CFeatGapInfo::x_AdjustFrame(), CCDSTranslationPanel::x_CollectData(), CImportFeatTable::x_DoImportCDS(), CCreateGeneModelTask::x_GetCommand(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), and CFeatTrim::x_UpdateFrame().

SetFrame() [2/2]

CCdregion_Base::TFrame & CCdregion_Base::SetFrame ( void  )

inline

Assign a value to Frame data member.

Returns

Reference to the data value.

Definition at line 547 of file Cdregion_.hpp.

References CCdregion_Base::IsSetFrame(), CCdregion_Base::m_Frame, CCdregion_Base::m_set_State, and CSerialObject::UnassignedByte().

SetFull_length() [1/4]

void CModelEvidenceItem_Base::SetFull_length ( CModelEvidenceItem_Base::TFull_length  value )

inline

Assign a value to Full_length data member.

Parameters

value

Value to assign

Definition at line 479 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Full_length, CModelEvidenceItem_Base::m_set_State, and rapidjson::value.

SetFull_length() [2/4]

void CModelEvidenceSupport_Base::SetFull_length ( CModelEvidenceSupport_Base::TFull_length  value )

inline

Assign a value to Full_length data member.

Parameters

value

Value to assign

Definition at line 801 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Full_length, CModelEvidenceSupport_Base::m_set_State, and rapidjson::value.

SetFull_length() [3/4]

CModelEvidenceItem_Base::TFull_length & CModelEvidenceItem_Base::SetFull_length ( void  )

inline

Assign a value to Full_length data member.

Returns

Reference to the data value.

Definition at line 486 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::IsSetFull_length(), CModelEvidenceItem_Base::m_Full_length, CModelEvidenceItem_Base::m_set_State, and CSerialObject::UnassignedByte().

SetFull_length() [4/4]

CModelEvidenceSupport_Base::TFull_length & CModelEvidenceSupport_Base::SetFull_length ( void  )

inline

Assign a value to Full_length data member.

Returns

Reference to the data value.

Definition at line 808 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetFull_length(), CModelEvidenceSupport_Base::m_Full_length, CModelEvidenceSupport_Base::m_set_State, and CSerialObject::UnassignedByte().

SetGaps() [1/2]

void CCdregion_Base::SetGaps ( CCdregion_Base::TGaps  value )

inline

Assign a value to Gaps data member.

Parameters

value

Value to assign

Definition at line 634 of file Cdregion_.hpp.

References CCdregion_Base::m_Gaps, CCdregion_Base::m_set_State, and rapidjson::value.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), and CSeq_loc_Conversion_Set::ConvertCdregion().

SetGaps() [2/2]

CCdregion_Base::TGaps & CCdregion_Base::SetGaps ( void  )

inline

Assign a value to Gaps data member.

Returns

Reference to the data value.

Definition at line 641 of file Cdregion_.hpp.

References CCdregion_Base::IsSetGaps(), CCdregion_Base::m_Gaps, CCdregion_Base::m_set_State, and CSerialObject::UnassignedByte().

SetGene() [1/2]

void CSeqFeatData_Base::SetGene

(

CSeqFeatData_Base::TGene &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 278 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Gene, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetGene() [2/2]

CSeqFeatData_Base::TGene & CSeqFeatData_Base::SetGene

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 272 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Gene, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetGeneral() [1/2]

void CFeat_id_Base::SetGeneral

(

CFeat_id_Base::TGeneral &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 168 of file Feat_id_.cpp.

References CObject::AddReference(), CFeat_id_Base::e_General, CFeat_id_Base::m_choice, CFeat_id_Base::m_object, CFeat_id_Base::ResetSelection(), and rapidjson::value.

SetGeneral() [2/2]

CFeat_id_Base::TGeneral & CFeat_id_Base::SetGeneral

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 162 of file Feat_id_.cpp.

References CFeat_id_Base::e_General, eDoNotResetVariant, CFeat_id_Base::m_object, and CFeat_id_Base::Select().

SetGibb() [1/2]

void CFeat_id_Base::SetGibb ( CFeat_id_Base::TGibb  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 340 of file Feat_id_.hpp.

References CFeat_id_Base::e_Gibb, eDoNotResetVariant, CFeat_id_Base::m_Gibb, CFeat_id_Base::Select(), and rapidjson::value.

SetGibb() [2/2]

CFeat_id_Base::TGibb & CFeat_id_Base::SetGibb ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 333 of file Feat_id_.hpp.

References CFeat_id_Base::e_Gibb, eDoNotResetVariant, CFeat_id_Base::m_Gibb, and CFeat_id_Base::Select().

SetGiim() [1/2]

void CFeat_id_Base::SetGiim

(

CFeat_id_Base::TGiim &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 124 of file Feat_id_.cpp.

References CObject::AddReference(), CFeat_id_Base::e_Giim, CFeat_id_Base::m_choice, CFeat_id_Base::m_object, CFeat_id_Base::ResetSelection(), and rapidjson::value.

SetGiim() [2/2]

CFeat_id_Base::TGiim & CFeat_id_Base::SetGiim

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 118 of file Feat_id_.cpp.

References CFeat_id_Base::e_Giim, eDoNotResetVariant, CFeat_id_Base::m_object, and CFeat_id_Base::Select().

SetHet() [1/2]

void CSeqFeatData_Base::SetHet

(

const THet &

value

)

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 542 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Het, eDoNotResetVariant, CSeqFeatData_Base::m_Het, CSeqFeatData_Base::Select(), and rapidjson::value.

SetHet() [2/2]

CSeqFeatData_Base::THet & CSeqFeatData_Base::SetHet ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 1104 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Het, eDoNotResetVariant, CSeqFeatData_Base::m_Het, and CSeqFeatData_Base::Select().

SetId() [1/8]

void CModelEvidenceItem_Base::SetId

(

CModelEvidenceItem_Base::TId &

value

)

Assign a value to Id data member.

Parameters

value

Reference to value.

Definition at line 60 of file ModelEvidenceItem_.cpp.

References CModelEvidenceItem_Base::m_Id, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_support_support_model_evidence_E_E_protein_E_ETC().

SetId() [2/8]

void CSeq_feat_Base::SetId

(

CSeq_feat_Base::TId &

value

)

Assign a value to Id data member.

Parameters

value

Reference to value.

Definition at line 73 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Id, and rapidjson::value.

Referenced by CSeq_annot_Info::AddFeatId(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustSingleFeature(), CmRNACDSLinker::AssignFeatureIds(), CAssignFeatureId::AssignHighestFeatureId(), AssignLocalIdIfEmpty(), BOOST_AUTO_TEST_CASE(), CFeaturePropagator::ConstructProteinFeatureForPropagatedCodingRegion(), CreateXRefLink(), FixFeatureIdsForUpdates(), GetGoodSeqEntryWithFeatureIds(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CmRNACDSLinker::LinkSelectedFeatures(), CRepeatToFeat::operator()(), CIdentifiersPanel::PopulateIdentifiers(), CBedAnnotAssembler::ProcessRecord(), CFeaturePropagator::Propagate(), CFeatIdRemapper::RemapIds(), RemapOtherProtFeats(), CCreateGeneModelTask::s_AssignFeatureIds(), SGeneCdsmRnaFeats::s_CreateXRefLink(), CFixFeatureId::s_ReassignFeatureIds(), CFixFeatureId::s_UpdateFeatureIds(), s_UpdateFeatureIds(), CCmdAssignFeatLocalIds::x_CreateActionCmd(), CGFFReader::x_ParseFeatRecord(), CGtfReader::xCreateFeatureId(), CFeatTableEdit::xCreateMissingParentGene(), CGtfAnnotAssembler::xFeatureSetFeatId(), CFeatTableEdit::xGenerateMissingMrnaForCds(), CGff3AnnotAssembler::xProcessFeatureCds(), CGff3AnnotAssembler::xProcessFeatureDefault(), CGff3AnnotAssembler::xProcessFeatureRna(), CBedReader::xSetFeatureIdsBlock(), CBedReader::xSetFeatureIdsCds(), CBedReader::xSetFeatureIdsChrom(), CBedReader::xSetFeatureIdsGene(), CBedReader::xSetFeatureIdsRna(), and CBedReader::xSetFeatureIdsThick().

SetId() [3/8]

void CSeqFeatXref_Base::SetId

(

CSeqFeatXref_Base::TId &

value

)

Assign a value to Id data member.

Parameters

value

Reference to value.

Definition at line 57 of file SeqFeatXref_.cpp.

References CSeqFeatXref_Base::m_Id, and rapidjson::value.

Referenced by BOOST_AUTO_TEST_CASE(), and CFeatIdRemapper::RemapIds().

SetId() [4/8]

void CGenetic_code_Base::C_E::SetId ( TId  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 538 of file Genetic_code_.hpp.

References eDoNotResetVariant, and rapidjson::value.

SetId() [5/8]

CGenetic_code_Base::C_E::TId & CGenetic_code_Base::C_E::SetId ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 531 of file Genetic_code_.hpp.

References eDoNotResetVariant.

Referenced by InternalStopCodon().

SetId() [6/8]

CModelEvidenceItem_Base::TId & CModelEvidenceItem_Base::SetId ( void  )

inline

Assign a value to Id data member.

Returns

Reference to the data value.

Definition at line 345 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_Id, and CModelEvidenceItem_Base::ResetId().

SetId() [7/8]

CSeq_feat_Base::TId & CSeq_feat_Base::SetId

(

void

)

Assign a value to Id data member.

Returns

Reference to the data value.

Definition at line 78 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Id.

SetId() [8/8]

CSeqFeatXref_Base::TId & CSeqFeatXref_Base::SetId

(

void

)

Assign a value to Id data member.

Returns

Reference to the data value.

Definition at line 62 of file SeqFeatXref_.cpp.

References CSeqFeatXref_Base::m_Id.

SetIdentification() [1/2]

void CModelEvidenceSupport_Base::SetIdentification

(

CModelEvidenceSupport_Base::TIdentification &

value

)

Assign a value to Identification data member.

Parameters

value

Reference to value.

Definition at line 82 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Identification, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

SetIdentification() [2/2]

CModelEvidenceSupport_Base::TIdentification & CModelEvidenceSupport_Base::SetIdentification

(

void

)

Assign a value to Identification data member.

Returns

Reference to the data value.

Definition at line 87 of file ModelEvidenceSupport_.cpp.

References CModelEvidenceSupport_Base::m_Identification.

SetIds()

CSeq_feat_Base::TIds & CSeq_feat_Base::SetIds ( void  )

inline

Assign a value to Ids data member.

Returns

Reference to the data value.

Definition at line 1458 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Ids, and CSeq_feat_Base::m_set_State.

Referenced by CSeq_annot_Info::AddFeatId(), CSeq_annot_Info::ClearFeatIds(), CAnnotationASN1::CImplementationData::create_internal_feature(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CSeq_annot_Info::RemoveFeatId(), s_UpdateFeatureIds(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), and CFeatureGenerator::SImplementation::x_CreateMrnaFeature().

SetImp() [1/2]

void CSeqFeatData_Base::SetImp

(

CSeqFeatData_Base::TImp &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 432 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Imp, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetImp() [2/2]

CSeqFeatData_Base::TImp & CSeqFeatData_Base::SetImp

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 426 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Imp, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetInference()

CSeqFeatSupport_Base::TInference & CSeqFeatSupport_Base::SetInference ( void  )

inline

Assign a value to Inference data member.

Returns

Reference to the data value.

Definition at line 269 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_Inference, and CSeqFeatSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeatSupport().

SetKey() [1/3]

void CImp_feat_Base::SetKey ( const TKey &  value )

inline

Assign a value to Key data member.

Parameters

value

Value to assign

Definition at line 268 of file Imp_feat_.hpp.

References CImp_feat_Base::m_Key, CImp_feat_Base::m_set_State, and rapidjson::value.

Referenced by fta_create_imgt_misc_feat(), GetImpFeat(), CNewCleanup_imp::ImpFeatBC(), ImpFeatPub(), CRepeatToFeat::operator()(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupImpFeat(), and CFeatureTableReader_Imp::x_SetupSeqFeat().

SetKey() [2/3]

void CImp_feat_Base::SetKey ( CImp_feat_Base::TKey &&  value )

inline

Definition at line 275 of file Imp_feat_.hpp.

References CImp_feat_Base::m_Key, CImp_feat_Base::m_set_State, and rapidjson::value.

SetKey() [3/3]

CImp_feat_Base::TKey & CImp_feat_Base::SetKey ( void  )

inline

Assign a value to Key data member.

Returns

Reference to the data value.

Definition at line 282 of file Imp_feat_.hpp.

References CImp_feat_Base::IsSetKey(), CImp_feat_Base::m_Key, CImp_feat_Base::m_set_State, and CSerialObject::UnassignedString().

SetLibrary() [1/3]

void CClone_ref_Base::SetLibrary ( const TLibrary &  value )

inline

Assign a value to Library data member.

Parameters

value

Value to assign

Definition at line 461 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Library, CClone_ref_Base::m_set_State, and rapidjson::value.

SetLibrary() [2/3]

void CClone_ref_Base::SetLibrary ( CClone_ref_Base::TLibrary &&  value )

inline

Definition at line 468 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Library, CClone_ref_Base::m_set_State, and rapidjson::value.

SetLibrary() [3/3]

CClone_ref_Base::TLibrary & CClone_ref_Base::SetLibrary ( void  )

inline

Assign a value to Library data member.

Returns

Reference to the data value.

Definition at line 475 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetLibrary(), CClone_ref_Base::m_Library, CClone_ref_Base::m_set_State, and CSerialObject::UnassignedString().

SetLoc() [1/5]

void CImp_feat_Base::SetLoc ( const TLoc &  value )

inline

Assign a value to Loc data member.

Parameters

value

Value to assign

Definition at line 315 of file Imp_feat_.hpp.

References CImp_feat_Base::m_Loc, CImp_feat_Base::m_set_State, and rapidjson::value.

Referenced by GetImpFeat(), ImpFeatPub(), and CAutogeneratedExtendedCleanup::x_ExtendedCleanupImpFeat().

SetLoc() [2/5]

void CImp_feat_Base::SetLoc ( CImp_feat_Base::TLoc &&  value )

inline

Definition at line 322 of file Imp_feat_.hpp.

References CImp_feat_Base::m_Loc, CImp_feat_Base::m_set_State, and rapidjson::value.

SetLoc() [3/5]

void CCode_break_Base::SetLoc

(

CCode_break_Base::TLoc &

value

)

Assign a value to Loc data member.

Parameters

value

Reference to value.

Definition at line 134 of file Code_break_.cpp.

References CCode_break_Base::m_Loc, and rapidjson::value.

Referenced by AddCodeBreak(), AddTerminalCodeBreak(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), CAnnotationASN1::CImplementationData::create_cdregion_feature(), GetCdRegionCB(), CAddGlobalCodeBreak::GetCommand(), FeatUtil::MakeCodeBreak(), MakeEntryForDeltaConversion(), CCleanup::ParseCodeBreak(), s_StringToCodeBreak(), CCleanup::SetCodeBreakLocation(), CEditingActionFeatTranslExcept::SetValue(), TestOneCDS(), CMacroFunction_ReplaceStopWithSelenocysteine::TheFunction(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_cdregion_cdregion_code_break_E_E_ETC(), CPromote::x_CopyCdregionToRNA(), CFeatTrim::x_TrimCodeBreak(), and CGff3Reader::xUpdateAnnotGeneric().

SetLoc() [4/5]

CCode_break_Base::TLoc & CCode_break_Base::SetLoc ( void  )

inline

Assign a value to Loc data member.

Returns

Reference to the data value.

Definition at line 517 of file Code_break_.hpp.

References CCode_break_Base::m_Loc, and CCode_break_Base::ResetLoc().

SetLoc() [5/5]

CImp_feat_Base::TLoc & CImp_feat_Base::SetLoc ( void  )

inline

Assign a value to Loc data member.

Returns

Reference to the data value.

Definition at line 329 of file Imp_feat_.hpp.

References CImp_feat_Base::IsSetLoc(), CImp_feat_Base::m_Loc, CImp_feat_Base::m_set_State, and CSerialObject::UnassignedString().

SetLocal() [1/2]

void CFeat_id_Base::SetLocal

(

CFeat_id_Base::TLocal &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 146 of file Feat_id_.cpp.

References CObject::AddReference(), CFeat_id_Base::e_Local, CFeat_id_Base::m_choice, CFeat_id_Base::m_object, CFeat_id_Base::ResetSelection(), and rapidjson::value.

SetLocal() [2/2]

CFeat_id_Base::TLocal & CFeat_id_Base::SetLocal

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 140 of file Feat_id_.cpp.

References CFeat_id_Base::e_Local, eDoNotResetVariant, CFeat_id_Base::m_object, and CFeat_id_Base::Select().

Referenced by CSeq_annot_Info::AddFeatId(), CAnnotationASN1::CImplementationData::create_internal_feature(), CFeatureIdGenerator::GetIdFor(), CFeaturePropagator::PropagateFeatureList(), s_SetFeatId(), s_StringToFeatId(), s_UpdateFeatureId(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), CFeatureGenerator::SImplementation::x_CreateMrnaFeature(), CGffBaseColumns::xInitFeatureId(), CBedReader::xSetFeatureIdsBlock(), CBedReader::xSetFeatureIdsCds(), CBedReader::xSetFeatureIdsChrom(), CBedReader::xSetFeatureIdsRna(), and CBedReader::xSetFeatureIdsThick().

SetLocation() [1/4]

void CClone_seq_Base::SetLocation

(

CClone_seq_Base::TLocation &

value

)

Assign a value to Location data member.

Parameters

value

Reference to value.

Definition at line 100 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Location, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_clone_seq_clone_seq_E_E_ETC().

SetLocation() [2/4]

void CSeq_feat_Base::SetLocation

(

CSeq_feat_Base::TLocation &

value

)

Assign a value to Location data member.

Parameters

value

Reference to value.

Definition at line 131 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Location, and rapidjson::value.

Referenced by AddCdregionToSmallGenomeSet(), AddCDSAndProtForBigGoodNucProtSet(), CRevIntPanel::AddCommand(), AddExceptionsToShortIntron(), AddExon(), AddFeat(), AddGeneFeat(), AddGoodImpFeat(), AddGoodSourceFeature(), CExonFromCds::AddIntron(), CReadBlastApp::addLocation(), CBulkCDSAddPanel::AddOneCommand(), AddProteinFeature(), AddProtFeat(), AddSpanningSentinelFeat(), CPartialStartColumn::AddToFeature(), CPartialStopColumn::AddToFeature(), CReportTrim::AdjustAndTranslate(), CAdjustForConsensusSpliceSite::AdjustCDS(), CAdjustForConsensusSpliceSite::AdjustCDSEnds(), AdjustFeatureEnd3(), AdjustFeatureEnd5(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CEditSequence::AdjustFeatureLocations(), CFeatGapInfo::AdjustForRelevantGapIntervals(), AdjustGene(), CAdjustForConsensusSpliceSite::AdjustmRNAToMatchCDSEnds(), AdjustProteinFeaturePartialsToMatchCDS(), CEditSequence::AdjustProtFeatureLocations(), AdjustSingleFeature(), CForeignContaminationScreenReportReader::AnnotateOrRemove(), CReadBlastApp::append_misc_feature(), CFeatTrim::Apply(), CFuseJoinsInLocs::apply(), CConvertDescToFeatComment::apply(), CConvertDescToFeatSource::apply(), CConvertDescToFeatPub::apply(), CConvertDescToFeatPubConstraint::apply(), CRecomputeIntervals::apply(), CAdjustFeatsForIntrons::apply(), CConvertRptUnitRangeToLoc::apply(), CCreateLocusTagGene::apply(), CGroupExplode::apply(), CExplodeRNAFeats::apply(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CSourceModParser::ApplyAllMods(), ApplyFeatureSeqTableToSeqEntry(), ApplyPolicyToFeature(), CLocationEditPolicy::ApplyPolicyToFeature(), CCorrectIntervalOrder::ApplyToCSeq_entry(), variation::CVariationUtil::AsVariation_feats(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildGenProdSetBigNucProtSet(), BuildGenProdSetWithBigProduct(), BuildGoodFeat(), BuildGoodGenProdSet(), BuildGoodSpliceNucProtSet(), BuildtRNA(), ChangeGoodNucProtSetIdToGenbankName(), ChangeNucProtSetNucId(), ChangeNucProtSetProteinId(), Check3Policy(), CheckAdjustStart(), CheckAdjustStop(), CPartialStartColumn::ClearInFeature(), CPartialStopColumn::ClearInFeature(), CCleanup::ClearInternalPartials(), CFixForTransSplicing::CombineFeatures(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CFeaturePropagator::ConstructProteinFeatureForPropagatedCodingRegion(), CConvertCDSToMiscFeat::Convert(), CConvertProtToImp::Convert(), CConvertToBond::Convert(), CVariationNormalizationDelIns::ConvertExpandedInsertionToDelIns(), CCdsToMatPeptide::ConvertInner(), CFeatureGenerator::ConvertLocToAnnot(), CopyFeaturePartials(), CVariationUtilities::CorrectRefAllele(), CAnnotationASN1::CImplementationData::create_cdregion_feature(), CAnnotationASN1::CImplementationData::create_internal_feature(), CreateCds(), CreateControlRegion(), CAlignmentAssistant::CreateFeature(), CEditSequence::CreateFeature(), CSequenceEditingEventHandler::CreateFeature(), CEditingBtnsPanel::CreateFeature(), CFeatureGenerator::CreateMicroIntrons(), CreateMicrosatellite(), CPhrap_Seq::CreatePadsFeat(), CEditSequence::CreateRegulatory(), CSequenceEditingEventHandler::CreateRegulatory(), CFeatureTableReader_Imp::CreateSeqFeat(), CreateTrna(), CEditObjectSeq_feat::CreateWindowImpl(), CSourceFeatureItem::CSourceFeatureItem(), CAddFeatChecker::Do(), EndAdded(), CCleanup::ExpandGeneToIncludeChildren(), CLocationEditPolicy::Extend3(), CEditSequenceEnds::Extend3(), CLocationEditPolicy::Extend5(), CEditSequenceEnds::Extend5(), ExtendCDSToStopCodon(), ExtendToGapsOrEnds(), FeatureAdjustForInsert(), FeatureAdjustForTrim(), FinalCleanup(), CEditingActionFeatGeneLocusPlain::Find(), CEditingActionFeatGeneLocusRna::Find(), CEditingActionFeatGeneLocusCdsGeneProt::Find(), IEditingActionFeat::FindOrCreateProtFeat(), CEditingActionFeatGeneLocus::FindRelated(), IEditingActionFeat::FindRelatedOrCreateProtFeat(), FixMixLoc(), fta_create_imgt_misc_feat(), CGnomonEngine::GetAnnot(), CProductColumn::GetApplyObjects(), CCdsFromGeneMrnaExon::GetCommand(), CExonFromCds::GetCommand(), CExtendCDSToStop::GetCommand(), CFuseFeaturesDlg::GetCommand(), CGeneFeatFromOtherFeatDlg::GetCommand(), CmRNAFromGeneCdsExon::GetCommand(), CResolveIntersectingFeats::GetCommand(), CtRNAFromGene::GetCommand(), CTruncateCDS::GetCommand(), CGeneFeatFromXrefs::GetCommand(), CAdjustForConsensusSpliceSite::GetCommandToAdjustCDSEnds(), GetGoodSeqEntryWithFeatureIds(), CCreatedFeat_Ref::GetMappedFeature(), CCreatedFeat_Ref::GetMappedLocation(), CFeatureGenePanel::GetNewGene(), GetOneGeneRef(), GetProtRefAnnot(), GetRelatedFeatureApplyObjects(), CFeatureSeqTableColumnBase::GetRelatedGeneApplyObjects(), GetRetranslateCDSCommand(), CSNPDbFeatIterator::GetSeq_feat(), GetSeqLocation(), ImpFeatPub(), CGff3ImportData::Initialize(), C5ColImportData::Initialize(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CFastaObjectLoader::LoadFromStream(), COrf::MakeCDSAnnot(), MakeCDSForGoodNucProtSet(), MakeCDSForNucProtSet(), MakeEntryForDeltaConversion(), MakeGeneForFeature(), MakeGeneForNucProtSet(), MakeGeneOntologyFeat(), MakeIntronForMixLoc(), MakeMiscFeature(), MakemRNAforCDS(), MakemRNAForCDS(), MakeMultiSeqCDS(), MakeNucProtSet3Partial(), MakeProteinForGoodNucProtSet(), MakeProteinForNucProtSet(), MakeRegulatoryFeature(), MakeRptRegion(), MakeTrnaWithAnticodon(), CSeq_loc_Mapper_Base::Map(), CCdsToMatPeptide::MergeConvert(), CCleanup::MoveFeatToProtein(), CBioseqEditor::OnCreateBiosourceFeat(), CBioseqEditor::OnCreateFeature(), CRepeatToFeat::operator()(), variation_ref::CVariationUtil::PrecursorToProt(), CBedAnnotAssembler::ProcessRecord(), CFeaturePropagator::Propagate(), variation_ref::CVariationUtil::ProtToPrecursor(), CGlimmerReader::Read(), CGFFReader::Read(), CHgvsReader::ReadSeqAnnot(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), CFeatureGenerator::SImplementation::RecomputePartialFlags(), variation_ref::CVariationUtil::Remap(), RemapOtherProtFeats(), CNewCleanup_imp::ResynchProteinPartials(), RetranslateCdregion(), RetranslateCDS(), CRetranslateCDS::RetranslateCDSCommand(), CExtendCDSToStop::RetranslateCDSCommand(), ReverseComplementFeature(), CLocalFinderApp::Run(), s_AddCDS(), s_AddSitesToAnnot(), CMacroFunction_ConvertLocStrand::s_ConvertLocationStrand(), s_GetProtApplyObjectsFeatures(), s_MakeNewMasterSeq(), s_MoveProteinSpecificFeats(), CSequenceUpdater::s_OffsetFeature(), CInvertProcess::SeqEntryProcess(), CNewCleanup_imp::SeqfeatBC(), CCleanup::SetCDSPartialsByFrameAndTranslation(), SetFeatureLocationBond(), SetLocationSkipGap(), CAnnotMapping_Info::SetMappedSeq_feat(), SetNucProtSetPartials(), CFeatureGenerator::SImplementation::SetPartialFlags(), SetTranslExcept(), SetUpMiscForPartialTest(), SPFeatGeneral(), SPFeatProtRef(), SPGetOneGeneRefNew(), TestMapper_Trimming(), TestMatPeptideListing(), TestMultipleEquivBioSources(), TestOneGapSeq(), TestOneMiscPartial(), TestOverlappingRNAFeatures(), TestTrimForFrame(), TestUTRPair(), CMacroFunction_ApplyCDS::TheFunction(), CFeatureCreateDialog::TransferDataFromWindow(), CFeatureGenerator::SImplementation::TransformProteinAlignToTranscript(), CCdregion_translate::TranslateCdregion(), TrimSeqFeat(), TrimStopsFromCompleteCDS(), TruncateCDSAtStop(), CTruncateCDS::TruncateProteinFeat(), TruncateTransSplicedCDSForExtension(), TryMiscWithNs(), TryOneCase(), TryOneCaseMixLoc(), TryOneCDSCase(), UpdateFeat(), CSeqTableInfo::UpdateSeq_feat(), CCleanup::WGSCleanup(), CPhrap_Contig::x_AddBaseSegFeats(), CFeatureTableReader_Imp::x_AddIntervalToFeature(), CPhrap_Read::x_AddQualityFeat(), CPhrap_Contig::x_AddReadLocFeats(), CPhrap_Read::x_AddTagFeats(), CPhrap_Contig::x_AddTagFeats(), CEditObjectSeq_feat::x_AdjustCircularGene(), CEditObjectSeq_feat::x_AdjustGene(), CEditObjectSeq_feat::x_AdjustLocation(), CSequenceUpdater::x_AdjustProteinFeature(), CAdjustForConsensusSpliceSite::x_AlsoAdjustmRNA(), CFeaturePropagator::x_CdsCleanupPartials(), CFeaturePropagator::x_CdsStopAtStopCodon(), CConvertFeatureBase::x_ClearGenericFields(), CFeatureGenerator::SImplementation::x_CopyAdditionalFeatures(), CPromote::x_CopyCdregionToRNA(), CCorrectGenesDialog::x_CorrectOnePair(), CCorrectGenesDialog::x_CorrectPairInterval(), CFeatureGenerator::SImplementation::x_CreateCdsFeature(), CFeatureGenerator::SImplementation::x_CreateGeneFeature(), CGFFReader::x_CreateGeneFeatures(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CFindITSParser::x_CreateMiscRna(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateMrnaFeature(), CGBankLoadingJob::x_CreateProjectItems(), CWindowMaskerJob::x_CreateProjectItems(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CFindITSParser::x_CreateRRna(), CCpgSearchJob::x_DoSearch(), COrfSearchJob::x_DoSearch(), CNewCleanup_imp::x_ExtendFeatureToCoverSequence(), CFeatureTableReader_Imp::x_FinishFeature(), CNewCleanup_imp::x_FixParentPartials(), CCreateGeneModelTask::x_GetCommand(), CFlatGatherer::x_GetFeatsOnCdsProduct(), CFlatGatherer::x_GetFeatsOnCdsProductIdx(), CAutoDef::x_GetFeatureClauses(), CCDSTranslationProblems::x_GetTranslExceptProblems(), CCreateGeneModelTask::x_Group_By_GeneID(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CEditObjectSeq_feat::x_HandleCdsProduct(), CIdMapperTestApp::x_HandleFeatures(), CAdjustForConsensusSpliceSite::x_HasProteinChanged(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt3End(), CAdjustForConsensusSpliceSite::x_HasProteinChangedAt5End(), CCDSTranslationProblems::x_IsThreeBaseNonsense(), CFeatureGenerator::SImplementation::x_MapFeature(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CConvertFeatureBase::x_MoveFeatureToProtein(), CSequenceUpdater::x_RemoveNewIDInFeature(), CSequenceUpdater::x_ReplaceIdInOldFeatures(), CVectorTrimPanel::x_RetranslateCDS(), CReportTrim::x_RetranslateCDS(), CCorrectRNAStrandDlg::x_ReverseFeatures(), variation_ref::CHgvsParser::x_root(), CUCSCRegionReader::x_SetFeatureLocation(), variation_ref::CVariationUtil::x_SetVariantProperties(), CVariationNormalization_base< T >::x_Shift(), CVectorTrimPanel::x_TrimFeatureLocations(), CAdjustForConsensusSpliceSite::x_UpdateExonFeatures(), CModifySeqId::x_UpdateFeat(), CCreateGeneModelTask::x_UpdateGeneOnSequence(), CEditObjectSeq_feat::x_UpdatemRNA(), CFeatureTableReader_Imp::x_UpdatePointStrand(), SSNP_Info::x_UpdateSeq_feat(), CVcfReader::xAssignFeatureLocationSet(), CGtfAnnotAssembler::xFeatureSetLocation(), CGvfReader::xFeatureSetLocationInterval(), CGvfReader::xFeatureSetLocationPoint(), CGtfAnnotAssembler::xFeatureUpdateLocation(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatTableEdit::xGenerateMissingMrnaForCds(), CGff2Writer::xGenerateMissingTranscript(), CFeatTableEdit::xMakeGeneForFeature(), CBedReader::xParseFeatureGeneModelFormat(), CUCSCRegionReader::xParseFeatureUCSCFormat(), CGff3Reader::xPostProcessAnnot(), CGtfReader::xPostProcessAnnot(), CGff3AnnotAssembler::xProcessFeatureExon(), CGff3AnnotAssembler::xProcessFeatureRna(), CBedReader::xSetFeatureLocation(), CMicroArrayReader::xSetFeatureLocation(), CBedReader::xSetFeatureLocationBlock(), CBedReader::xSetFeatureLocationCds(), CBedReader::xSetFeatureLocationRna(), CBedReader::xSetFeatureLocationThick(), CFeatureTableReader::xTranslateProtein(), and CGtfAnnotAssembler::xUpdateGene().

SetLocation() [3/4]

CClone_seq_Base::TLocation & CClone_seq_Base::SetLocation ( void  )

inline

Assign a value to Location data member.

Returns

Reference to the data value.

Definition at line 513 of file Clone_seq_.hpp.

References CClone_seq_Base::m_Location, and CClone_seq_Base::ResetLocation().

SetLocation() [4/4]

CSeq_feat_Base::TLocation & CSeq_feat_Base::SetLocation ( void  )

inline

Assign a value to Location data member.

Returns

Reference to the data value.

Definition at line 1126 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Location, and CSeq_feat_Base::ResetLocation().

SetMethod() [1/3]

void CModelEvidenceSupport_Base::SetMethod ( const TMethod &  value )

inline

Assign a value to Method data member.

Parameters

value

Value to assign

Definition at line 529 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Method, CModelEvidenceSupport_Base::m_set_State, and rapidjson::value.

SetMethod() [2/3]

void CModelEvidenceSupport_Base::SetMethod ( CModelEvidenceSupport_Base::TMethod &&  value )

inline

Definition at line 536 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Method, CModelEvidenceSupport_Base::m_set_State, and rapidjson::value.

SetMethod() [3/3]

CModelEvidenceSupport_Base::TMethod & CModelEvidenceSupport_Base::SetMethod ( void  )

inline

Assign a value to Method data member.

Returns

Reference to the data value.

Definition at line 543 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetMethod(), CModelEvidenceSupport_Base::m_Method, CModelEvidenceSupport_Base::m_set_State, and CSerialObject::UnassignedString().

SetMismatch() [1/2]

void CCdregion_Base::SetMismatch ( CCdregion_Base::TMismatch  value )

inline

Assign a value to Mismatch data member.

Parameters

value

Value to assign

Definition at line 681 of file Cdregion_.hpp.

References CCdregion_Base::m_Mismatch, CCdregion_Base::m_set_State, and rapidjson::value.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), and CSeq_loc_Conversion_Set::ConvertCdregion().

SetMismatch() [2/2]

CCdregion_Base::TMismatch & CCdregion_Base::SetMismatch ( void  )

inline

Assign a value to Mismatch data member.

Returns

Reference to the data value.

Definition at line 688 of file Cdregion_.hpp.

References CCdregion_Base::IsSetMismatch(), CCdregion_Base::m_Mismatch, CCdregion_Base::m_set_State, and CSerialObject::UnassignedByte().

SetModel_evidence()

CSeqFeatSupport_Base::TModel_evidence & CSeqFeatSupport_Base::SetModel_evidence ( void  )

inline

Assign a value to Model_evidence data member.

Returns

Reference to the data value.

Definition at line 294 of file SeqFeatSupport_.hpp.

References CSeqFeatSupport_Base::m_Model_evidence, and CSeqFeatSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeatSupport().

SetMrna()

CModelEvidenceSupport_Base::TMrna & CModelEvidenceSupport_Base::SetMrna ( void  )

inline

Assign a value to Mrna data member.

Returns

Reference to the data value.

Definition at line 573 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Mrna, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

SetName() [1/8]

void CClone_ref_Base::SetName ( const TName &  value )

inline

Assign a value to Name data member.

Parameters

value

Value to assign

Definition at line 414 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Name, CClone_ref_Base::m_set_State, and rapidjson::value.

SetName() [2/8]

void CGenetic_code_Base::C_E::SetName

(

const TName &

value

)

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 133 of file Genetic_code_.cpp.

References eDoNotResetVariant, and rapidjson::value.

SetName() [3/8]

void CProgram_id_Base::SetName ( const TName &  value )

inline

Assign a value to Name data member.

Parameters

value

Value to assign

Definition at line 221 of file Program_id_.hpp.

References CProgram_id_Base::m_Name, CProgram_id_Base::m_set_State, and rapidjson::value.

SetName() [4/8]

void CClone_ref_Base::SetName ( CClone_ref_Base::TName &&  value )

inline

Definition at line 421 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Name, CClone_ref_Base::m_set_State, and rapidjson::value.

SetName() [5/8]

void CProgram_id_Base::SetName ( CProgram_id_Base::TName &&  value )

inline

Definition at line 228 of file Program_id_.hpp.

References CProgram_id_Base::m_Name, CProgram_id_Base::m_set_State, and rapidjson::value.

SetName() [6/8]

CClone_ref_Base::TName & CClone_ref_Base::SetName ( void  )

inline

Assign a value to Name data member.

Returns

Reference to the data value.

Definition at line 428 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetName(), CClone_ref_Base::m_Name, CClone_ref_Base::m_set_State, and CSerialObject::UnassignedString().

SetName() [7/8]

CGenetic_code_Base::C_E::TName & CGenetic_code_Base::C_E::SetName ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 511 of file Genetic_code_.hpp.

References eDoNotResetVariant.

SetName() [8/8]

CProgram_id_Base::TName & CProgram_id_Base::SetName ( void  )

inline

Assign a value to Name data member.

Returns

Reference to the data value.

Definition at line 235 of file Program_id_.hpp.

References CProgram_id_Base::IsSetName(), CProgram_id_Base::m_Name, CProgram_id_Base::m_set_State, and CSerialObject::UnassignedString().

SetNcbi8aa() [1/3]

void CCode_break_Base::C_Aa::SetNcbi8aa ( TNcbi8aa  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 462 of file Code_break_.hpp.

References eDoNotResetVariant, and rapidjson::value.

SetNcbi8aa() [2/3]

CCode_break_Base::C_Aa::TNcbi8aa & CCode_break_Base::C_Aa::SetNcbi8aa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 455 of file Code_break_.hpp.

References eDoNotResetVariant.

SetNcbi8aa() [3/3]

CGenetic_code_Base::C_E::TNcbi8aa & CGenetic_code_Base::C_E::SetNcbi8aa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 578 of file Genetic_code_.hpp.

References eDoNotResetVariant.

SetNcbieaa() [1/4]

void CGenetic_code_Base::C_E::SetNcbieaa

(

const TNcbieaa &

value

)

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 139 of file Genetic_code_.cpp.

References eDoNotResetVariant, and rapidjson::value.

SetNcbieaa() [2/4]

void CCode_break_Base::C_Aa::SetNcbieaa ( TNcbieaa  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 435 of file Code_break_.hpp.

References eDoNotResetVariant, and rapidjson::value.

SetNcbieaa() [3/4]

CCode_break_Base::C_Aa::TNcbieaa & CCode_break_Base::C_Aa::SetNcbieaa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 428 of file Code_break_.hpp.

References eDoNotResetVariant.

Referenced by CCleanup::ParseCodeBreak().

SetNcbieaa() [4/4]

CGenetic_code_Base::C_E::TNcbieaa & CGenetic_code_Base::C_E::SetNcbieaa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 558 of file Genetic_code_.hpp.

References eDoNotResetVariant.

SetNcbistdaa() [1/3]

void CCode_break_Base::C_Aa::SetNcbistdaa ( TNcbistdaa  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 489 of file Code_break_.hpp.

References eDoNotResetVariant, and rapidjson::value.

SetNcbistdaa() [2/3]

CCode_break_Base::C_Aa::TNcbistdaa & CCode_break_Base::C_Aa::SetNcbistdaa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 482 of file Code_break_.hpp.

References eDoNotResetVariant.

SetNcbistdaa() [3/3]

CGenetic_code_Base::C_E::TNcbistdaa & CGenetic_code_Base::C_E::SetNcbistdaa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 598 of file Genetic_code_.hpp.

References eDoNotResetVariant.

SetNon_std_residue() [1/2]

void CSeqFeatData_Base::SetNon_std_residue

(

const TNon_std_residue &

value

)

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 536 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Non_std_residue, eDoNotResetVariant, CSeqFeatData_Base::m_string, CSeqFeatData_Base::Select(), and rapidjson::value.

SetNon_std_residue() [2/2]

CSeqFeatData_Base::TNon_std_residue & CSeqFeatData_Base::SetNon_std_residue ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 1084 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Non_std_residue, eDoNotResetVariant, CSeqFeatData_Base::m_string, and CSeqFeatData_Base::Select().

SetNum() [1/2]

void CSeqFeatData_Base::SetNum

(

CSeqFeatData_Base::TNum &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 526 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Num, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetNum() [2/2]

CSeqFeatData_Base::TNum & CSeqFeatData_Base::SetNum

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 520 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Num, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetOrf() [1/2]

void CCdregion_Base::SetOrf ( CCdregion_Base::TOrf  value )

inline

Assign a value to Orf data member.

Parameters

value

Value to assign

Definition at line 490 of file Cdregion_.hpp.

References CCdregion_Base::m_Orf, CCdregion_Base::m_set_State, and rapidjson::value.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), and CSeq_loc_Conversion_Set::ConvertCdregion().

SetOrf() [2/2]

CCdregion_Base::TOrf & CCdregion_Base::SetOrf ( void  )

inline

Assign a value to Orf data member.

Returns

Reference to the data value.

Definition at line 497 of file Cdregion_.hpp.

References CCdregion_Base::IsSetOrf(), CCdregion_Base::m_Orf, CCdregion_Base::m_set_State, and CSerialObject::UnassignedByte().

SetOrg() [1/2]

void CSeqFeatData_Base::SetOrg

(

CSeqFeatData_Base::TOrg &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 300 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Org, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetOrg() [2/2]

CSeqFeatData_Base::TOrg & CSeqFeatData_Base::SetOrg

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 294 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Org, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetOther_type() [1/3]

void CInferenceSupport_Base::SetOther_type ( const TOther_type &  value )

inline

Assign a value to Other_type data member.

Parameters

value

Value to assign

Definition at line 539 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Other_type, CInferenceSupport_Base::m_set_State, and rapidjson::value.

SetOther_type() [2/3]

void CInferenceSupport_Base::SetOther_type ( CInferenceSupport_Base::TOther_type &&  value )

inline

Definition at line 546 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Other_type, CInferenceSupport_Base::m_set_State, and rapidjson::value.

SetOther_type() [3/3]

CInferenceSupport_Base::TOther_type & CInferenceSupport_Base::SetOther_type ( void  )

inline

Assign a value to Other_type data member.

Returns

Reference to the data value.

Definition at line 553 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::IsSetOther_type(), CInferenceSupport_Base::m_Other_type, CInferenceSupport_Base::m_set_State, and CSerialObject::UnassignedString().

SetPartial() [1/2]

void CSeq_feat_Base::SetPartial ( CSeq_feat_Base::TPartial  value )

inline

Assign a value to Partial data member.

Parameters

value

Value to assign

Definition at line 971 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Partial, CSeq_feat_Base::m_set_State, and rapidjson::value.

Referenced by CExonFromCds::AddIntron(), CBulkCDSAddPanel::AddOneCommand(), CPartialStartColumn::AddToFeature(), CPartialStopColumn::AddToFeature(), AdjustFeaturePartialFlagForLocation(), CFeatGapInfo::AdjustForRelevantGapIntervals(), AdjustGene(), CFeatTrim::Apply(), CRecomputeIntervals::apply(), CAdjustFeatsForIntrons::apply(), CCreateLocusTagGene::apply(), CGroupExplode::apply(), CExplodeRNAFeats::apply(), BOOST_AUTO_TEST_CASE(), CPartialStartColumn::ClearInFeature(), CPartialStopColumn::ClearInFeature(), CFixForTransSplicing::CombineFeatures(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CFeaturePropagator::ConstructProteinFeatureForPropagatedCodingRegion(), CAnnotationASN1::CImplementationData::create_cdregion_feature(), CreateControlRegion(), CEditingActionFeatGeneLocusPlain::Find(), CEditingActionFeatGeneLocusRna::Find(), CEditingActionFeatGeneLocusCdsGeneProt::Find(), IEditingActionFeat::FindOrCreateProtFeat(), CEditingActionFeatGeneLocus::FindRelated(), IEditingActionFeat::FindRelatedOrCreateProtFeat(), CNewCleanup_imp::GBQualSeqFeatBC(), CCdsFromGeneMrnaExon::GetCommand(), CExonFromCds::GetCommand(), CExtendCDSToStop::GetCommand(), CFuseFeaturesDlg::GetCommand(), CGeneFeatFromOtherFeatDlg::GetCommand(), CmRNAFromGeneCdsExon::GetCommand(), CResolveIntersectingFeats::GetCommand(), CtRNAFromGene::GetCommand(), CTruncateCDS::GetCommand(), CGeneFeatFromXrefs::GetCommand(), GetEditLocationCommand(), CCreatedFeat_Ref::GetMappedFeature(), CFeatureGenePanel::GetNewGene(), GetProtRefAnnot(), CFeatTableEdit::InferPartials(), MakeGeneForFeature(), MakemRNAforCDS(), MakeNucProtSet3Partial(), CCdsToMatPeptide::MergeConvert(), ProcFeatBlk(), CFeaturePropagator::Propagate(), RemapOtherProtFeats(), CNewCleanup_imp::ResynchProteinPartials(), s_FixPartial(), CAnnotMapping_Info::SetMappedSeq_feat(), SetNucProtSetPartials(), SetPartial(), CFeatureGenerator::SImplementation::SetPartialFlags(), CEditingActionFeatPartial::SetValue(), SPFeatGeneral(), SPFeatProtRef(), SpProcFeatBlk(), TestMatPeptideListing(), TestOneMiscPartial(), CMacroFunction_ApplyCDS::TheFunction(), CGenericPropsPanel::TransferDataFromWindow(), TruncateCDSAtStop(), CTruncateCDS::TruncateProteinFeat(), UpdateFeat(), CSeqTableInfo::UpdateSeq_feat(), CFeatureTableReader_Imp::x_AddIntervalToFeature(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CEditObjectSeq_feat::x_AdjustGene(), CEditObjectSeq_feat::x_AdjustLocation(), CFeaturePropagator::x_CdsCleanupPartials(), CCorrectGenesDialog::x_CorrectPairInterval(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CFindITSParser::x_CreateMiscRna(), CFindITSParser::x_CreateRRna(), CNewCleanup_imp::x_FixParentPartials(), CSequenceUpdater::x_MappedFeature_ChangeId(), CSequenceUpdater::x_MappedFeature_ThroughAlign(), CReportTrim::x_RetranslateCDS(), CCreateGeneModelTask::x_UpdateGeneOnSequence(), CEditObjectSeq_feat::x_UpdatemRNA(), and CFeatTableEdit::xAdjustExistingParentGene().

SetPartial() [2/2]

CSeq_feat_Base::TPartial & CSeq_feat_Base::SetPartial ( void  )

inline

Assign a value to Partial data member.

Returns

Reference to the data value.

Definition at line 978 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetPartial(), CSeq_feat_Base::m_Partial, CSeq_feat_Base::m_set_State, and CSerialObject::UnassignedByte().

SetPlacement_method() [1/2]

void CClone_ref_Base::SetPlacement_method ( CClone_ref_Base::TPlacement_method  value )

inline

Assign a value to Placement_method data member.

Parameters

value

Value to assign

Definition at line 615 of file Clone_ref_.hpp.

References CClone_ref_Base::m_Placement_method, CClone_ref_Base::m_set_State, and rapidjson::value.

SetPlacement_method() [2/2]

CClone_ref_Base::TPlacement_method & CClone_ref_Base::SetPlacement_method ( void  )

inline

Assign a value to Placement_method data member.

Returns

Reference to the data value.

Definition at line 622 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetPlacement_method(), CClone_ref_Base::m_Placement_method, CClone_ref_Base::m_set_State, and CSerialObject::UnassignedByte().

SetPmids() [1/2]

CExperimentSupport_Base::TPmids & CExperimentSupport_Base::SetPmids ( void  )

inline

Assign a value to Pmids data member.

Returns

Reference to the data value.

Definition at line 383 of file ExperimentSupport_.hpp.

References CExperimentSupport_Base::m_Pmids, and CExperimentSupport_Base::m_set_State.

SetPmids() [2/2]

CInferenceSupport_Base::TPmids & CInferenceSupport_Base::SetPmids ( void  )

inline

Assign a value to Pmids data member.

Returns

Reference to the data value.

Definition at line 663 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Pmids, and CInferenceSupport_Base::m_set_State.

SetProduct() [1/2]

void CSeq_feat_Base::SetProduct

(

CSeq_feat_Base::TProduct &

value

)

Assign a value to Product data member.

Parameters

value

Reference to value.

Definition at line 110 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Product, and rapidjson::value.

Referenced by AddCdregionToSmallGenomeSet(), AddCDSAndProtForBigGoodNucProtSet(), CFeatGapInfo::AdjustForRelevantGapIntervals(), AdjustSingleFeature(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildGenProdSetWithBigProduct(), BuildGoodGenProdSet(), ChangeGoodNucProtSetIdToGenbankName(), ChangeNucProtSetProteinId(), CkCdRegion(), CFixForTransSplicing::CombineFeatures(), CFeatureGenerator::ConvertLocToAnnot(), CAnnotationASN1::CImplementationData::create_cdregion_feature(), CCreateProteinId::create_protein_ids(), CFuseFeaturesDlg::GetCommand(), GetGoodSeqEntryWithFeatureIds(), CCreatedFeat_Ref::GetMappedFeature(), GetProtRefSeqId(), CAnnotMapping_Info::InitializeMappedSeq_feat(), MakeCDSForGoodNucProtSet(), MakeCDSForNucProtSet(), CSeq_loc_Mapper_Base::Map(), CCdsToMatPeptide::MergeConvert(), CGlimmerReader::Read(), CGFFReader::Read(), RenameGeneratedBioseqs(), CRetranslateCDS::RetranslateCDSCommand(), s_AddCDS(), CAnnotMapping_Info::SetMappedSeq_feat(), CCDSTranslationPanel::SetProduct(), CEditingActionFeatTranscriptId::SetValue(), CRNAPanel::TransferDataFromWindow(), CFeatureGenerator::SImplementation::TransformProteinAlignToTranscript(), TranslateCDSCommand(), TrimSeqFeat(), CSeqTableInfo::UpdateSeq_feat(), CCleanup::WGSCleanup(), CPhrap_Contig::x_AddBaseSegFeats(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CPhrap_Contig::x_AddReadLocFeats(), CFeatureGenerator::SImplementation::x_CreateMrnaFeature(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CImportFeatTable::x_DoImportCDS(), CCreateGeneModelTask::x_GetCommand(), CSequenceUpdater::x_ImportCDSProduct(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CGFFReader::x_SetProducts(), CPromote::x_SetSeqFeatProduct(), CVectorTrimPanel::x_TrimFeatureLocations(), CModifySeqId::x_UpdateFeat(), CGtfReader::xFeatureSetDataCds(), CFeatTableEdit::xFeatureSetProduct(), CFeatTableEdit::xGenerate_mRNA_Product(), and CFeatureTableReader::xTranslateProtein().

SetProduct() [2/2]

CSeq_feat_Base::TProduct & CSeq_feat_Base::SetProduct

(

void

)

Assign a value to Product data member.

Returns

Reference to the data value.

Definition at line 115 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Product.

SetPrograms()

CEvidenceBasis_Base::TPrograms & CEvidenceBasis_Base::SetPrograms ( void  )

inline

Assign a value to Programs data member.

Returns

Reference to the data value.

Definition at line 209 of file EvidenceBasis_.hpp.

References CEvidenceBasis_Base::m_Programs, and CEvidenceBasis_Base::m_set_State.

SetProt() [1/2]

void CSeqFeatData_Base::SetProt

(

CSeqFeatData_Base::TProt &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 344 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Prot, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetProt() [2/2]

CSeqFeatData_Base::TProt & CSeqFeatData_Base::SetProt

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 338 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Prot, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetProtein()

CModelEvidenceSupport_Base::TProtein & CModelEvidenceSupport_Base::SetProtein ( void  )

inline

Assign a value to Protein data member.

Returns

Reference to the data value.

Definition at line 623 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_Protein, and CModelEvidenceSupport_Base::m_set_State.

Referenced by CAutogeneratedCleanup::x_BasicCleanupModelEvidenceSupport().

SetPsec_str() [1/2]

void CSeqFeatData_Base::SetPsec_str ( CSeqFeatData_Base::TPsec_str  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 1064 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Psec_str, eDoNotResetVariant, CSeqFeatData_Base::m_Psec_str, CSeqFeatData_Base::Select(), and rapidjson::value.

SetPsec_str() [2/2]

CSeqFeatData_Base::TPsec_str & CSeqFeatData_Base::SetPsec_str ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 1057 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Psec_str, eDoNotResetVariant, CSeqFeatData_Base::m_Psec_str, and CSeqFeatData_Base::Select().

SetPseudo() [1/2]

void CSeq_feat_Base::SetPseudo ( CSeq_feat_Base::TPseudo  value )

inline

Assign a value to Pseudo data member.

Parameters

value

Value to assign

Definition at line 1374 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Pseudo, CSeq_feat_Base::m_set_State, and rapidjson::value.

Referenced by CPseudoPanel::AddCommand(), AddExceptionsToShortIntron(), AddGeneFeat(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CSequenceEditingEventHandler::CombineSelectedGenesIntoPseudogenes(), CConvertCDSToPseudoGene::Convert(), CNewCleanup_imp::GBQualSeqFeatBC(), CGeneFeatFromXrefs::GetCommand(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CGenericPropsPanel::ModifyPseudo(), ProcFeatBlk(), SetUpMiscForPartialTest(), CEditingActionFeatPseudo::SetValue(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CConvertFeatureBase::x_ConvertToCDS(), CValidError_bioseq::x_ValidateCDSmRNAmatch(), CSoMap::xFeatureMakeCds(), CSoMap::xFeatureMakeGene(), CSoMap::xFeatureMakeImp(), CSoMap::xFeatureMakeMiscRna(), CSoMap::xFeatureMakeRna(), and CGtfReader::xProcessQualifierSpecialCase().

SetPseudo() [2/2]

CSeq_feat_Base::TPseudo & CSeq_feat_Base::SetPseudo ( void  )

inline

Assign a value to Pseudo data member.

Returns

Reference to the data value.

Definition at line 1381 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetPseudo(), CSeq_feat_Base::m_Pseudo, CSeq_feat_Base::m_set_State, and CSerialObject::UnassignedByte().

SetPub() [1/2]

void CSeqFeatData_Base::SetPub

(

CSeqFeatData_Base::TPub &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 388 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Pub, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetPub() [2/2]

CSeqFeatData_Base::TPub & CSeqFeatData_Base::SetPub

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 382 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Pub, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetQual() [1/4]

void CGb_qual_Base::SetQual ( const TQual &  value )

inline

Assign a value to Qual data member.

Parameters

value

Value to assign

Definition at line 221 of file Gb_qual_.hpp.

References CGb_qual_Base::m_Qual, CGb_qual_Base::m_set_State, and rapidjson::value.

Referenced by AddExon(), AddGeneFeat(), CSeq_feat::AddQualifier(), BOOST_AUTO_TEST_CASE(), ConvertProteinToImp(), ConvertRegulatoryFeature(), CGBQualPanel::CreateControls(), CEditSequence::CreateRegulatory(), CSequenceEditingEventHandler::CreateRegulatory(), fta_convert_to_regulatory(), fta_fix_labels(), CNewCleanup_imp::GBQualBC(), CNewCleanup_imp::ImpFeatBC(), MergeNoteQual(), ParseQualifiers(), CGBQualPanel::PopulateGBQuals(), CTable2AsnContext::RenameProteinIdsQuals(), s_ExpandThisQual(), CSeqTableSetQual::SetString(), SPGetPEValue(), SplitMultiValQual(), CFeatureTableReader_Imp::x_AddGBQualToFeature(), CFeatureGenerator::SImplementation::x_AddKeywordQuals(), CNewCleanup_imp::x_ChangeInsertionSeqToMobileElement(), CNewCleanup_imp::x_CleanupRptUnit(), CSNPDbFeatIterator::SCreateCache::x_GetCommonAllele(), CGFFReader::x_ParseFeatRecord(), CNewCleanup_imp::x_SeqFeatRnaGBQualBC(), CFeatureGenerator::SImplementation::x_SetExceptText(), CFeatureGenerator::SImplementation::x_SetQualForGapFilledModel(), SSNP_Info::x_UpdateSeq_featData(), CSoMap::xFeatureMakeMiscFeature(), CSoMap::xFeatureMakeMiscRecomb(), CSoMap::xFeatureMakeRegulatory(), CSoMap::xFeatureMakeRepeatRegion(), CGff2Record::xMigrateAttributes(), XMLGetQuals(), and XMLGetXrefs().

SetQual() [2/4]

void CGb_qual_Base::SetQual ( CGb_qual_Base::TQual &&  value )

inline

Definition at line 228 of file Gb_qual_.hpp.

References CGb_qual_Base::m_Qual, CGb_qual_Base::m_set_State, and rapidjson::value.

SetQual() [3/4]

CGb_qual_Base::TQual & CGb_qual_Base::SetQual ( void  )

inline

Assign a value to Qual data member.

Returns

Reference to the data value.

Definition at line 235 of file Gb_qual_.hpp.

References CGb_qual_Base::IsSetQual(), CGb_qual_Base::m_Qual, CGb_qual_Base::m_set_State, and CSerialObject::UnassignedString().

Referenced by CGb_qual::CGb_qual().

SetQual() [4/4]

CSeq_feat_Base::TQual & CSeq_feat_Base::SetQual ( void  )

inline

Assign a value to Qual data member.

Returns

Reference to the data value.

Definition at line 1153 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_Qual, and CSeq_feat_Base::m_set_State.

Referenced by CPseudoPanel::AddCommand(), CExperimentPanel::AddCommand(), CEditInferencePanel::AddCommand(), AddExon(), AddGeneFeat(), CSeq_feat::AddOrReplaceQualifier(), CSeq_feat::AddQualifier(), CGbQualColumn::AddToFeature(), CSatelliteTypeNameColumn::AddToFeature(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CEditObjectSeq_feat::CanClose(), CheckRegulatoryFeatures(), CkCdRegion(), CGbQualColumn::ClearInFeature(), CSatelliteTypeNameColumn::ClearInFeature(), CConvertBioSrcToRptRegion::Convert(), CConvertImpToProt::Convert(), CConvertProtToImp::Convert(), ConvertProteinToImp(), ConvertRegulatoryFeature(), CGBQualPanel::CreateControls(), CreateMicrosatellite(), CEditSequence::CreateRegulatory(), CSequenceEditingEventHandler::CreateRegulatory(), FilterDb_xref(), fta_check_artificial_location(), fta_check_codon_quals(), fta_check_exception(), fta_collect_olts(), fta_parse_rrna_feat(), GetCdRegionCB(), GetProtRefAnnot(), GetProtRefSeqId(), GetRnaRef(), CSNPDbFeatIterator::GetSeq_feat(), CWrongIllegalQuals::IllegalQualsToNote(), CNewCleanup_imp::ImpFeatBC(), CAnnotMapping_Info::InitializeMappedSeq_feat(), LookForProductName(), MakeRegulatoryFeature(), MakeRegulatoryFeatureTest(), MakeRptRegion(), CEditingActionFeatGbQual::Modify(), CEditingActionFeatGbQualTwoNames::Modify(), CEditingActionFeatRnaQual::Modify(), CEditingActionFeatSynonym::Modify(), CEditingActionFeatActivity::Modify(), CEditingActionFeatEcNumber::Modify(), CEditingActionFeatFunction::Modify(), CEditingActionFeatProduct::Modify(), CGenericPropsPanel::ModifyPseudo(), CNewCleanup_imp::MoveCitationQuals(), CNewCleanup_imp::MoveDbxrefs(), CNewCleanup_imp::MoveStandardName(), CRepeatToFeat::operator()(), CCleanup::ParseCodeBreaks(), CGBQualPanel::PopulateGBQuals(), CExperimentListPanel::PopulateGBQuals(), CInferenceListPanel::PopulateGBQuals(), ProcFeatBlk(), QualsToSeqID(), CTable2AsnContext::RemoveProteinIdsQuals(), CSeq_feat::RemoveQualifier(), CTable2AsnContext::RenameProteinIdsQuals(), RescueProtProductQual(), CWrongIllegalQuals::RmIllegalQuals(), CWrongIllegalQuals::RmWrongOrIllegalQuals(), CWrongIllegalQuals::RmWrongQuals(), s_FixncRNA(), s_FixtmRNA(), s_SetFeatField(), CCleanup::s_SetProductOnFeat(), s_TestOneWrongQual(), CFeatureGenerator::SImplementation::SetFeatureExceptions(), CCleanup::SetMrnaName(), CSeqTableSetQual::SetString(), SortGBQuals(), SPGetPEValue(), TestNewAccessionAsInference(), TestTrimForFrame(), CGBQualPanel::TransferDataFromWindow(), CGBQualStringListValidator::TransferFromWindow(), TryOneCDSCase(), CWrongIllegalQuals::WrongQualsToNote(), CFeatureTableReader_Imp::x_AddGBQualToFeature(), CFeatureGenerator::SImplementation::x_AddKeywordQuals(), CSatelliteColumn::x_AddSatelliteName(), CSatelliteColumn::x_AddSatelliteType(), CFeatGapInfo::x_AdjustOrigLabel(), x_AdjustOrigLabel(), CSatelliteColumn::x_ClearSatelliteSubFields(), CNewCleanup_imp::x_ConvertGoQualifiers(), CConvertFeatureBase::x_ExtractQuals(), CNewCleanup_imp::x_FixMiscRNA(), CExperimentListPanel::x_GetExperiments(), CInferenceListPanel::x_GetInferences(), CPromote::x_GetProductId(), CGFFReader::x_ParseFeatRecord(), CFeatureGenerator::SImplementation::x_SetExceptText(), CExperimentListPanel::x_SetExperiments(), CInferenceListPanel::x_SetInferences(), CFeatureGenerator::SImplementation::x_SetQualForGapFilledModel(), SSNP_Info::x_UpdateSeq_featData(), CSoMap::xFeatureMakeMiscFeature(), CSoMap::xFeatureMakeMiscRecomb(), CSoMap::xFeatureMakeRegion(), CSoMap::xFeatureMakeRegulatory(), CSoMap::xFeatureMakeRepeatRegion(), and CGtfReader::xFeatureTrimQualifiers().

SetRegion() [1/2]

void CSeqFeatData_Base::SetRegion

(

const TRegion &

value

)

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 442 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Region, eDoNotResetVariant, CSeqFeatData_Base::m_string, CSeqFeatData_Base::Select(), and rapidjson::value.

SetRegion() [2/2]

CSeqFeatData_Base::TRegion & CSeqFeatData_Base::SetRegion ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 947 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Region, eDoNotResetVariant, CSeqFeatData_Base::m_string, and CSeqFeatData_Base::Select().

SetRna() [1/2]

void CSeqFeatData_Base::SetRna

(

CSeqFeatData_Base::TRna &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 366 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Rna, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetRna() [2/2]

CSeqFeatData_Base::TRna & CSeqFeatData_Base::SetRna

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 360 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Rna, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetRsite() [1/2]

void CSeqFeatData_Base::SetRsite

(

CSeqFeatData_Base::TRsite &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 460 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Rsite, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetRsite() [2/2]

CSeqFeatData_Base::TRsite & CSeqFeatData_Base::SetRsite

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 454 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Rsite, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetSame_species() [1/2]

void CInferenceSupport_Base::SetSame_species ( CInferenceSupport_Base::TSame_species  value )

inline

Assign a value to Same_species data member.

Parameters

value

Value to assign

Definition at line 596 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_Same_species, CInferenceSupport_Base::m_set_State, and rapidjson::value.

SetSame_species() [2/2]

CInferenceSupport_Base::TSame_species & CInferenceSupport_Base::SetSame_species ( void  )

inline

Assign a value to Same_species data member.

Returns

Reference to the data value.

Definition at line 603 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::IsSetSame_species(), CInferenceSupport_Base::m_Same_species, CInferenceSupport_Base::m_set_State, and CSerialObject::UnassignedByte().

SetSeq() [1/4]

void CClone_seq_Base::SetSeq

(

CClone_seq_Base::TSeq &

value

)

Assign a value to Seq data member.

Parameters

value

Reference to value.

Definition at line 110 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Seq, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_clone_clone_clone_seq_clone_seq_E_E_ETC().

SetSeq() [2/4]

void CSeqFeatData_Base::SetSeq

(

CSeqFeatData_Base::TSeq &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 410 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Seq, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetSeq() [3/4]

CClone_seq_Base::TSeq & CClone_seq_Base::SetSeq

(

void

)

Assign a value to Seq data member.

Returns

Reference to the data value.

Definition at line 115 of file Clone_seq_.cpp.

References CClone_seq_Base::m_Seq.

SetSeq() [4/4]

CSeqFeatData_Base::TSeq & CSeqFeatData_Base::SetSeq

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 404 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Seq, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetSite() [1/2]

void CSeqFeatData_Base::SetSite ( CSeqFeatData_Base::TSite  value )

inline

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 1013 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Site, eDoNotResetVariant, CSeqFeatData_Base::m_Site, CSeqFeatData_Base::Select(), and rapidjson::value.

SetSite() [2/2]

CSeqFeatData_Base::TSite & CSeqFeatData_Base::SetSite ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 1006 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::e_Site, eDoNotResetVariant, CSeqFeatData_Base::m_Site, and CSeqFeatData_Base::Select().

SetSncbi8aa()

CGenetic_code_Base::C_E::TSncbi8aa & CGenetic_code_Base::C_E::SetSncbi8aa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 638 of file Genetic_code_.hpp.

References eDoNotResetVariant.

SetSncbieaa() [1/2]

void CGenetic_code_Base::C_E::SetSncbieaa

(

const TSncbieaa &

value

)

Select the variant and set its data.

Parameters

value

Variant data.

Definition at line 145 of file Genetic_code_.cpp.

References eDoNotResetVariant, and rapidjson::value.

SetSncbieaa() [2/2]

CGenetic_code_Base::C_E::TSncbieaa & CGenetic_code_Base::C_E::SetSncbieaa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 618 of file Genetic_code_.hpp.

References eDoNotResetVariant.

SetSncbistdaa()

CGenetic_code_Base::C_E::TSncbistdaa & CGenetic_code_Base::C_E::SetSncbistdaa ( void  )

inline

Select the variant.

Returns

Reference to the variant data.

Definition at line 658 of file Genetic_code_.hpp.

References eDoNotResetVariant.

SetStops() [1/2]

void CCdregion_Base::SetStops ( CCdregion_Base::TStops  value )

inline

Assign a value to Stops data member.

Parameters

value

Value to assign

Definition at line 774 of file Cdregion_.hpp.

References CCdregion_Base::m_set_State, CCdregion_Base::m_Stops, and rapidjson::value.

Referenced by CSeq_loc_Conversion::ConvertCdregion(), CSeq_loc_Conversion_Set::ConvertCdregion(), and InternalStopCodon().

SetStops() [2/2]

CCdregion_Base::TStops & CCdregion_Base::SetStops ( void  )

inline

Assign a value to Stops data member.

Returns

Reference to the data value.

Definition at line 781 of file Cdregion_.hpp.

References CCdregion_Base::IsSetStops(), CCdregion_Base::m_set_State, CCdregion_Base::m_Stops, and CSerialObject::UnassignedByte().

SetSupport() [1/4]

void CSeq_feat_Base::SetSupport

(

CSeq_feat_Base::TSupport &

value

)

Assign a value to Support data member.

Parameters

value

Reference to value.

Definition at line 217 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Support, and rapidjson::value.

Referenced by CAutogeneratedCleanup::BasicCleanupSeqFeat(), and CModifySeqId::x_UpdateFeat().

SetSupport() [2/4]

void CClone_seq_Base::SetSupport ( CClone_seq_Base::TSupport  value )

inline

Assign a value to Support data member.

Parameters

value

Value to assign

Definition at line 592 of file Clone_seq_.hpp.

References CClone_seq_Base::m_set_State, CClone_seq_Base::m_Support, and rapidjson::value.

SetSupport() [3/4]

CClone_seq_Base::TSupport & CClone_seq_Base::SetSupport ( void  )

inline

Assign a value to Support data member.

Returns

Reference to the data value.

Definition at line 599 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetSupport(), CClone_seq_Base::m_set_State, CClone_seq_Base::m_Support, and CSerialObject::UnassignedByte().

SetSupport() [4/4]

CSeq_feat_Base::TSupport & CSeq_feat_Base::SetSupport

(

void

)

Assign a value to Support data member.

Returns

Reference to the data value.

Definition at line 222 of file Seq_feat_.cpp.

References CSeq_feat_Base::m_Support.

SetSupports_all_exon_combo() [1/4]

void CModelEvidenceItem_Base::SetSupports_all_exon_combo ( CModelEvidenceItem_Base::TSupports_all_exon_combo  value )

inline

Assign a value to Supports_all_exon_combo data member.

Parameters

value

Value to assign

Definition at line 529 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::m_set_State, CModelEvidenceItem_Base::m_Supports_all_exon_combo, and rapidjson::value.

SetSupports_all_exon_combo() [2/4]

void CModelEvidenceSupport_Base::SetSupports_all_exon_combo ( CModelEvidenceSupport_Base::TSupports_all_exon_combo  value )

inline

Assign a value to Supports_all_exon_combo data member.

Parameters

value

Value to assign

Definition at line 851 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::m_set_State, CModelEvidenceSupport_Base::m_Supports_all_exon_combo, and rapidjson::value.

SetSupports_all_exon_combo() [3/4]

CModelEvidenceItem_Base::TSupports_all_exon_combo & CModelEvidenceItem_Base::SetSupports_all_exon_combo ( void  )

inline

Assign a value to Supports_all_exon_combo data member.

Returns

Reference to the data value.

Definition at line 536 of file ModelEvidenceItem_.hpp.

References CModelEvidenceItem_Base::IsSetSupports_all_exon_combo(), CModelEvidenceItem_Base::m_set_State, CModelEvidenceItem_Base::m_Supports_all_exon_combo, and CSerialObject::UnassignedByte().

SetSupports_all_exon_combo() [4/4]

CModelEvidenceSupport_Base::TSupports_all_exon_combo & CModelEvidenceSupport_Base::SetSupports_all_exon_combo ( void  )

inline

Assign a value to Supports_all_exon_combo data member.

Returns

Reference to the data value.

Definition at line 858 of file ModelEvidenceSupport_.hpp.

References CModelEvidenceSupport_Base::IsSetSupports_all_exon_combo(), CModelEvidenceSupport_Base::m_set_State, CModelEvidenceSupport_Base::m_Supports_all_exon_combo, and CSerialObject::UnassignedByte().

SetTitle() [1/3]

void CSeq_feat_Base::SetTitle ( const TTitle &  value )

inline

Assign a value to Title data member.

Parameters

value

Value to assign

Definition at line 1181 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State, CSeq_feat_Base::m_Title, and rapidjson::value.

Referenced by AddSpanningSentinelFeat(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CAddFeatChecker::Do(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), CAnnotMapping_Info::InitializeMappedSeq_feat(), COrf::MakeCDSAnnot(), CFindASN1Dlg::ReplaceInFeature(), CPhrap_Read::x_AddTagFeats(), CPhrap_Contig::x_AddTagFeats(), COrfSearchJob::x_DoSearch(), CUCSCRegionReader::xParseFeature(), CUCSCRegionReader::xParseFeatureUCSCFormat(), and CBedReader::xSetFeatureTitle().

SetTitle() [2/3]

void CSeq_feat_Base::SetTitle ( CSeq_feat_Base::TTitle &&  value )

inline

Definition at line 1188 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State, CSeq_feat_Base::m_Title, and rapidjson::value.

SetTitle() [3/3]

CSeq_feat_Base::TTitle & CSeq_feat_Base::SetTitle ( void  )

inline

Assign a value to Title data member.

Returns

Reference to the data value.

Definition at line 1195 of file Seq_feat_.hpp.

References CSeq_feat_Base::IsSetTitle(), CSeq_feat_Base::m_set_State, CSeq_feat_Base::m_Title, and CSerialObject::UnassignedString().

SetTxinit() [1/2]

void CSeqFeatData_Base::SetTxinit

(

CSeqFeatData_Base::TTxinit &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 504 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Txinit, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetTxinit() [2/2]

CSeqFeatData_Base::TTxinit & CSeqFeatData_Base::SetTxinit

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 498 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Txinit, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetType() [1/4]

void CClone_seq_Base::SetType ( CClone_seq_Base::TType  value )

inline

Assign a value to Type data member.

Parameters

value

Value to assign

Definition at line 426 of file Clone_seq_.hpp.

References CClone_seq_Base::m_set_State, CClone_seq_Base::m_Type, and rapidjson::value.

SetType() [2/4]

void CInferenceSupport_Base::SetType ( CInferenceSupport_Base::TType  value )

inline

Assign a value to Type data member.

Parameters

value

Value to assign

Definition at line 499 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::m_set_State, CInferenceSupport_Base::m_Type, and rapidjson::value.

SetType() [3/4]

CClone_seq_Base::TType & CClone_seq_Base::SetType ( void  )

inline

Assign a value to Type data member.

Returns

Reference to the data value.

Definition at line 433 of file Clone_seq_.hpp.

References CClone_seq_Base::IsSetType(), CClone_seq_Base::m_set_State, CClone_seq_Base::m_Type, and CSerialObject::UnassignedByte().

SetType() [4/4]

CInferenceSupport_Base::TType & CInferenceSupport_Base::SetType ( void  )

inline

Assign a value to Type data member.

Returns

Reference to the data value.

Definition at line 506 of file InferenceSupport_.hpp.

References CInferenceSupport_Base::IsSetType(), CInferenceSupport_Base::m_set_State, CInferenceSupport_Base::m_Type, and CSerialObject::UnassignedByte().

SetUnique() [1/2]

void CClone_ref_Base::SetUnique ( CClone_ref_Base::TUnique  value )

inline

Assign a value to Unique data member.

Parameters

value

Value to assign

Definition at line 568 of file Clone_ref_.hpp.

References CClone_ref_Base::m_set_State, CClone_ref_Base::m_Unique, and rapidjson::value.

SetUnique() [2/2]

CClone_ref_Base::TUnique & CClone_ref_Base::SetUnique ( void  )

inline

Assign a value to Unique data member.

Returns

Reference to the data value.

Definition at line 575 of file Clone_ref_.hpp.

References CClone_ref_Base::IsSetUnique(), CClone_ref_Base::m_set_State, CClone_ref_Base::m_Unique, and CSerialObject::UnassignedByte().

SetUser() [1/2]

void CSeqFeatData_Base::SetUser

(

CSeqFeatData_Base::TUser &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 482 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_User, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetUser() [2/2]

CSeqFeatData_Base::TUser & CSeqFeatData_Base::SetUser

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 476 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_User, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetVal() [1/3]

void CGb_qual_Base::SetVal ( const TVal &  value )

inline

Assign a value to Val data member.

Parameters

value

Value to assign

Definition at line 268 of file Gb_qual_.hpp.

References CGb_qual_Base::m_set_State, CGb_qual_Base::m_Val, and rapidjson::value.

Referenced by AddExon(), AddGeneFeat(), CSeq_feat::AddQualifier(), BOOST_AUTO_TEST_CASE(), CkQualNote(), CkQualText(), ConvertProteinToImp(), ConvertQualifierValue(), ConvertRegulatoryFeature(), CGBQualPanel::CreateControls(), CEditSequence::CreateRegulatory(), CSequenceEditingEventHandler::CreateRegulatory(), fta_convert_to_regulatory(), fta_fix_labels(), CNewCleanup_imp::GBQualBC(), GetSourceDbtag(), CNewCleanup_imp::ImpFeatBC(), MergeNoteQual(), ParseQualifiers(), CGBQualPanel::PopulateGBQuals(), CEditingActionFeatDualVal1::ResetValue(), CEditingActionFeatDualVal2::ResetValue(), s_ExpandThisQual(), CSeqTableSetQual::SetString(), CEditingActionFeatGbQual::SetValue(), CEditingActionFeatDualVal1::SetValue(), CEditingActionFeatDualVal2::SetValue(), CEditingActionFeatCodonsRecognized::SetValue(), CEditingActionFeatAnticodon::SetValue(), CEditingActionFeatTranslExcept::SetValue(), CEditingActionFeatRnaQual::SetValue(), CEditingActionFeatRegion::SetValue(), CEditingActionFeatCodonStart::SetValue(), CEditingActionFeatTranslTable::SetValue(), CEditingActionFeatDesc::SetValue(), CEditingActionFeatLocus_tag::SetValue(), CEditingActionFeatMaploc::SetValue(), CEditingActionFeatSynonym::SetValue(), CEditingActionFeatAllele::SetValue(), CEditingActionFeatActivity::SetValue(), CEditingActionFeatTranslation::SetValue(), CEditingActionFeatEcNumber::SetValue(), CEditingActionFeatFunction::SetValue(), CEditingActionFeatProduct::SetValue(), CEditingActionFeatGeneLocus::SetValue(), CEditingActionFeatTranscriptId::SetValue(), SPGetPEValue(), SplitMultiValQual(), CGBQualPanel::Update_tRNA_ProductQual(), CFeatureTableReader_Imp::x_AddGBQualToFeature(), CFeatureGenerator::SImplementation::x_AddKeywordQuals(), CNewCleanup_imp::x_ChangeInsertionSeqToMobileElement(), CNewCleanup_imp::x_CleanupRptUnit(), CSNPDbFeatIterator::SCreateCache::x_GetCachedAllele(), CSNPDbFeatIterator::SCreateCache::x_GetCommonAllele(), CGFFReader::x_ParseFeatRecord(), CNewCleanup_imp::x_SeqFeatRnaGBQualBC(), CFeatureGenerator::SImplementation::x_SetExceptText(), CFeatureGenerator::SImplementation::x_SetQualForGapFilledModel(), SSNP_Info::x_UpdateSeq_featData(), CSoMap::xFeatureMakeMiscFeature(), CSoMap::xFeatureMakeMiscRecomb(), CSoMap::xFeatureMakeRegulatory(), CSoMap::xFeatureMakeRepeatRegion(), CGff2Record::xMigrateAttributes(), XMLGetQuals(), and XMLGetXrefs().

SetVal() [2/3]

void CGb_qual_Base::SetVal ( CGb_qual_Base::TVal &&  value )

inline

Definition at line 275 of file Gb_qual_.hpp.

References CGb_qual_Base::m_set_State, CGb_qual_Base::m_Val, and rapidjson::value.

SetVal() [3/3]

CGb_qual_Base::TVal & CGb_qual_Base::SetVal ( void  )

inline

Assign a value to Val data member.

Returns

Reference to the data value.

Definition at line 282 of file Gb_qual_.hpp.

References CGb_qual_Base::IsSetVal(), CGb_qual_Base::m_set_State, CGb_qual_Base::m_Val, and CSerialObject::UnassignedString().

Referenced by CGb_qual::CGb_qual().

SetVariation() [1/2]

void CSeqFeatData_Base::SetVariation

(

CSeqFeatData_Base::TVariation &

value

)

Select the variant and set its data.

Parameters

value

Reference to the data.

Definition at line 604 of file SeqFeatData_.cpp.

References CObject::AddReference(), CSeqFeatData_Base::e_Variation, CSeqFeatData_Base::m_choice, CSeqFeatData_Base::m_object, CSeqFeatData_Base::ResetSelection(), and rapidjson::value.

SetVariation() [2/2]

CSeqFeatData_Base::TVariation & CSeqFeatData_Base::SetVariation

(

void

)

Select the variant.

Returns

Reference to the variant data.

Definition at line 598 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::e_Variation, eDoNotResetVariant, CSeqFeatData_Base::m_object, and CSeqFeatData_Base::Select().

SetVersion() [1/3]

void CProgram_id_Base::SetVersion ( const TVersion &  value )

inline

Assign a value to Version data member.

Parameters

value

Value to assign

Definition at line 268 of file Program_id_.hpp.

References CProgram_id_Base::m_set_State, CProgram_id_Base::m_Version, and rapidjson::value.

SetVersion() [2/3]

void CProgram_id_Base::SetVersion ( CProgram_id_Base::TVersion &&  value )

inline

Definition at line 275 of file Program_id_.hpp.

References CProgram_id_Base::m_set_State, CProgram_id_Base::m_Version, and rapidjson::value.

SetVersion() [3/3]

CProgram_id_Base::TVersion & CProgram_id_Base::SetVersion ( void  )

inline

Assign a value to Version data member.

Returns

Reference to the data value.

Definition at line 282 of file Program_id_.hpp.

References CProgram_id_Base::IsSetVersion(), CProgram_id_Base::m_set_State, CProgram_id_Base::m_Version, and CSerialObject::UnassignedString().

SetXref()

CSeq_feat_Base::TXref & CSeq_feat_Base::SetXref ( void  )

inline

Assign a value to Xref data member.

Returns

Reference to the data value.

Definition at line 1314 of file Seq_feat_.hpp.

References CSeq_feat_Base::m_set_State, and CSeq_feat_Base::m_Xref.

Referenced by CSeq_annot_Info::AddFeatId(), CFeatureGenePanel::AddReciprocicalXref(), CSeq_feat::AddSeqFeatXref(), subfuse::CSubmissionCollector::AdjustLocalIds(), AdjustProteinFeature(), CAutogeneratedCleanup::BasicCleanupSeqFeat(), BOOST_AUTO_TEST_CASE(), CSequenceEditingEventHandler::CDSGeneRangeErrorRestore(), CSequenceEditingEventHandler::CDSGeneRangeErrorSuppress(), CkCdRegion(), CSeq_annot_Info::ClearFeatIds(), CClearFeatureId::ClearFeatureIds(), ClearGeneXref(), CEditObjectSeq_feat::CreateWindowImpl(), CreateXRefLink(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqFeat(), CCleanup::FixGeneXrefSkew(), CNewCleanup_imp::GBQualSeqFeatBC(), CNewCleanup_imp::GeneFeatBC(), CAnnotMapping_Info::InitializeMappedSeq_feat(), CCleanup::NormalizeGeneQuals(), CRepeatToFeat::operator()(), CFeatIdRemapper::RemapIds(), CSeq_annot_Info::RemoveFeatId(), s_CreateXRefLink(), CmRNACDSLinker::s_CreateXRefLink(), SGeneCdsmRnaFeats::s_CreateXRefLink(), CFixFeatureId::s_ReassignFeatureIds(), CCleanup::s_SetProductOnFeat(), CFixFeatureId::s_UpdateFeatureIds(), s_UpdateFeatureIds(), CSeq_feat::SetGeneXref(), CIdentifiersPanel::SetIdXrefs(), CCleanup::SetProteinName(), CSeq_feat::SetProtXref(), CMacroFunction_SetRelFeatQual::TheFunction(), CMacroFunction_ConvertFeatQual::TheFunction(), CMacroFunction_ParseFeatQual::TheFunction(), CMacroFunction_AddParsedToFeatQual::TheFunction(), CMacroFunction_CopyFeatQual::TheFunction(), CMacroFunction_RemoveGeneXref::TheFunction(), CFeatureGenePanel::TransferDataFromWindow(), TranslateCDSCommand(), CEditObjectSeq_feat::x_HandleCdsProduct(), CNewCleanup_imp::x_MoveCdregionXrefsToProt(), CGFFReader::x_ParseFeatRecord(), CPromote::x_PromoteCdregion(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CMacroFunction_SwapRelFeatQual::x_SetOrCreateDestFeatFields(), CFeatTableEdit::xCreateMissingParentGene(), CGff3Reader::xFeatureSetXrefGrandParent(), CGff3Reader::xFeatureSetXrefParent(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatTableEdit::xGenerateMissingMrnaForCds(), CBedReader::xSetFeatureIdsBlock(), CBedReader::xSetFeatureIdsCds(), CBedReader::xSetFeatureIdsChrom(), CBedReader::xSetFeatureIdsRna(), CBedReader::xSetFeatureIdsThick(), CGff2Reader::xSetXrefFromTo(), and CFeatureTableReader::xTranslateProtein().

ThrowInvalidSelection() [1/4]

void CCode_break_Base::C_Aa::ThrowInvalidSelection

(

E_Choice

index

)

const

Throw 'InvalidSelection' exception.

Parameters

index

Expected selection.

Definition at line 92 of file Code_break_.cpp.

References DIAG_COMPILE_INFO.

ThrowInvalidSelection() [2/4]

void CFeat_id_Base::ThrowInvalidSelection

(

E_Choice

index

)

const

Throw 'InvalidSelection' exception.

Parameters

index

Expected selection.

Definition at line 107 of file Feat_id_.cpp.

References DIAG_COMPILE_INFO, CFeat_id_Base::m_choice, and CFeat_id_Base::sm_SelectionNames.

Referenced by CFeat_id_Base::CheckSelected().

ThrowInvalidSelection() [3/4]

void CGenetic_code_Base::C_E::ThrowInvalidSelection

(

E_Choice

index

)

const

Throw 'InvalidSelection' exception.

Parameters

index

Expected selection.

Definition at line 128 of file Genetic_code_.cpp.

References DIAG_COMPILE_INFO.

ThrowInvalidSelection() [4/4]

void CSeqFeatData_Base::ThrowInvalidSelection

(

E_Choice

index

)

const

Throw 'InvalidSelection' exception.

Parameters

index

Expected selection.

Definition at line 261 of file SeqFeatData_.cpp.

References DIAG_COMPILE_INFO, CSeqFeatData_Base::m_choice, and CSeqFeatData_Base::sm_SelectionNames.

Referenced by CSeqFeatData_Base::CheckSelected().

Which() [1/4]

CCode_break_Base::C_Aa::E_Choice CCode_break_Base::C_Aa::Which ( void  ) const

inline

Which variant is currently selected.

Returns

Choice state enumerator.

Definition at line 386 of file Code_break_.hpp.

References CCode_break_Base::C_Aa::m_choice.

Referenced by CWriteUtil::GetAaName(), CEditingActionFeatTranslExcept::GetValue(), CCleanup::IsMethionine(), IsStopCodon(), s_IsEmpty(), and s_IsSelenocysteine().

Which() [2/4]

CFeat_id_Base::E_Choice CFeat_id_Base::Which ( void  ) const

inline

Which variant is currently selected.

Returns

Choice state enumerator.

Definition at line 291 of file Feat_id_.hpp.

References CFeat_id_Base::m_choice.

Referenced by CFeatComparatorByLabel::Less(), SChildLess::operator()(), s_Fingerprint_Feat_id(), and CFeatGlyph::x_GetFeatureId().

Which() [3/4]

CGenetic_code_Base::C_E::E_Choice CGenetic_code_Base::C_E::Which ( void  ) const

inline

Which variant is currently selected.

Returns

Choice state enumerator.

Definition at line 469 of file Genetic_code_.hpp.

References CGenetic_code_Base::C_E::m_choice.

Which() [4/4]

CSeqFeatData_Base::E_Choice CSeqFeatData_Base::Which ( void  ) const

inline

Which variant is currently selected.

Returns

Choice state enumerator.

Definition at line 857 of file SeqFeatData_.hpp.

References CSeqFeatData_Base::m_choice.

Referenced by CLinkUtils::AddDbxrefLinksForSNP(), AddMiscRNAFeatures(), CProductColumn::AddToFeature(), CRemoveFeaturesDlg::ApplyToCSeq_entry(), CTextPanel::CanShowFlatFile(), CSeq_feat::CompareNonLocation(), CSeq_loc_Conversion::ConvertFeature(), CSeq_loc_Conversion_Set::ConvertFeature(), DeleteProteinAndRenormalizeNucProtSet(), CFeatGlyph::GetCustomColorIdx(), CValidErrorFormat::GetFeatureContentLabel(), CFeatureItem::GetKey(), CGuiObjectInfoVariation::GetLinks(), CSeqUtils::GetMappingInfo(), GetProteinWeight(), GetTargetedLocusName(), IfCDSGeneFeat(), CTextPanel::InitWidget(), CCompareFeats::IsSameType(), CCleanup::MoveFeatToProtein(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), RetranslateCdregion(), s_FindKeyFromFeatDefType(), s_GetCdregionContentLabel(), s_GetCdregionLabel(), s_GetContentLabel(), s_IsOperon(), s_SkipFeature(), CFeatureGenerator::SImplementation::SetFeatureExceptions(), TrimSequenceAndAnnotation(), CValidError_bioseq::ValidateFeatPartialInContext(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_feat::ValidateSeqFeatContext(), CValidError_feat::ValidateSeqFeatXref(), CFeatureItem::x_AddFTableQuals(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureItem::x_AddQualsGene(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_data(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_ETC(), CNewCleanup_imp::x_CleanEmptyFeature(), CFeatureGenerator::SImplementation::x_CopyAdditionalFeatures(), CSGFeatureJob::x_CreateFeature1(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqFeatData(), CFeatureTableReader_Imp::x_FinishFeature(), CSequenceUpdater::x_FuseFeatures(), CFlatGatherer::x_GatherFeaturesOnRange(), CFlatGatherer::x_GatherFeaturesOnRangeIdx(), CFlatGatherer::x_GatherFeaturesOnWholeLocation(), CFlatGatherer::x_GatherFeaturesOnWholeLocationIdx(), CFastaOstreamEx::x_GetOtherIdString(), CAutoDefFeatureClause::x_GetProductName(), CCompareSeqRegions::x_GetPutativeMatches(), CSeqFeatData::x_InitFeatDataInfo(), CSeq_loc_Mapper_Base::x_InitializeFeat(), CValidError_bioseq::x_ReportImproperPartial(), CValidError_bioseq::x_ReportInternalPartial(), CTextPanel::x_SaveViewType(), CFeatureSearchJob::x_SearchFeatures(), CNewCleanup_imp::x_ShouldRemoveEmptyFeature(), CSplitDataLoader::x_SplitFeats(), CVectorTrimPanel::x_TrimSelected(), CSingleFeatValidator::x_ValidateGbquals(), CSingleFeatValidator::x_ValidateSeqFeatDataType(), and CGff2Writer::xAssignFeatureAttributeDbxref().

~C_Aa()

CCode_break_Base::C_Aa::~C_Aa

(

void

)

Definition at line 119 of file Code_break_.cpp.

References CCode_break_Base::Reset().

~C_E()

CGenetic_code_Base::C_E::~C_E

(

void

)

Definition at line 178 of file Genetic_code_.cpp.

References CGenetic_code_Base::Reset().

~CCdregion()

CCdregion::~CCdregion

(

void

)

Definition at line 50 of file Cdregion.cpp.

~CCdregion_Base()

CCdregion_Base::~CCdregion_Base ( void  )

virtual

Definition at line 123 of file Cdregion_.cpp.

~CClone_ref()

CClone_ref::~CClone_ref

(

void

)

Definition at line 50 of file Clone_ref.cpp.

~CClone_ref_Base()

CClone_ref_Base::~CClone_ref_Base ( void  )

virtual

Definition at line 129 of file Clone_ref_.cpp.

~CClone_seq()

CClone_seq::~CClone_seq

(

void

)

Definition at line 50 of file Clone_seq.cpp.

~CClone_seq_Base()

CClone_seq_Base::~CClone_seq_Base ( void  )

virtual

Definition at line 175 of file Clone_seq_.cpp.

~CClone_seq_set()

CClone_seq_set::~CClone_seq_set

(

void

)

Definition at line 50 of file Clone_seq_set.cpp.

~CClone_seq_set_Base()

CClone_seq_set_Base::~CClone_seq_set_Base ( void  )

virtual

Definition at line 74 of file Clone_seq_set_.cpp.

~CCode_break()

CCode_break::~CCode_break

(

void

)

Definition at line 50 of file Code_break.cpp.

~CCode_break_Base()

CCode_break_Base::~CCode_break_Base ( void  )

virtual

Definition at line 181 of file Code_break_.cpp.

~CEvidenceBasis()

CEvidenceBasis::~CEvidenceBasis

(

void

)

Definition at line 50 of file EvidenceBasis.cpp.

~CEvidenceBasis_Base()

CEvidenceBasis_Base::~CEvidenceBasis_Base ( void  )

virtual

Definition at line 88 of file EvidenceBasis_.cpp.

~CExperimentSupport()

CExperimentSupport::~CExperimentSupport

(

void

)

Definition at line 50 of file ExperimentSupport.cpp.

~CExperimentSupport_Base()

CExperimentSupport_Base::~CExperimentSupport_Base ( void  )

virtual

Definition at line 97 of file ExperimentSupport_.cpp.

~CFeat_id()

CFeat_id::~CFeat_id

(

void

)

Definition at line 50 of file Feat_id.cpp.

~CFeat_id_Base()

CFeat_id_Base::~CFeat_id_Base ( void  )

virtual

Definition at line 200 of file Feat_id_.cpp.

References CFeat_id_Base::Reset().

~CGb_qual_Base()

CGb_qual_Base::~CGb_qual_Base ( void  )

virtual

Definition at line 86 of file Gb_qual_.cpp.

~CGenetic_code_Base()

CGenetic_code_Base::~CGenetic_code_Base ( void  )

virtual

Definition at line 207 of file Genetic_code_.cpp.

~CGenetic_code_table_Base()

CGenetic_code_table_Base::~CGenetic_code_table_Base ( void  )

virtual

Definition at line 74 of file Genetic_code_table_.cpp.

~CImp_feat_Base()

CImp_feat_Base::~CImp_feat_Base ( void  )

virtual

Definition at line 94 of file Imp_feat_.cpp.

~CInferenceSupport()

CInferenceSupport::~CInferenceSupport

(

void

)

Definition at line 50 of file InferenceSupport.cpp.

~CInferenceSupport_Base()

CInferenceSupport_Base::~CInferenceSupport_Base ( void  )

virtual

Definition at line 142 of file InferenceSupport_.cpp.

~CModelEvidenceItem()

CModelEvidenceItem::~CModelEvidenceItem

(

void

)

Definition at line 50 of file ModelEvidenceItem.cpp.

~CModelEvidenceItem_Base()

CModelEvidenceItem_Base::~CModelEvidenceItem_Base ( void  )

virtual

Definition at line 99 of file ModelEvidenceItem_.cpp.

~CModelEvidenceSupport()

CModelEvidenceSupport::~CModelEvidenceSupport

(

void

)

Definition at line 50 of file ModelEvidenceSupport.cpp.

~CModelEvidenceSupport_Base()

CModelEvidenceSupport_Base::~CModelEvidenceSupport_Base ( void  )

virtual

Definition at line 141 of file ModelEvidenceSupport_.cpp.

~CProgram_id()

CProgram_id::~CProgram_id

(

void

)

Definition at line 50 of file Program_id.cpp.

~CProgram_id_Base()

CProgram_id_Base::~CProgram_id_Base ( void  )

virtual

Definition at line 86 of file Program_id_.cpp.

~CSeq_feat_Base()

CSeq_feat_Base::~CSeq_feat_Base ( void  )

virtual

Definition at line 292 of file Seq_feat_.cpp.

~CSeqFeatData_Base()

CSeqFeatData_Base::~CSeqFeatData_Base ( void  )

virtual

Definition at line 654 of file SeqFeatData_.cpp.

References CSeqFeatData_Base::Reset().

~CSeqFeatSupport()

CSeqFeatSupport::~CSeqFeatSupport

(

void

)

Definition at line 50 of file SeqFeatSupport.cpp.

~CSeqFeatSupport_Base()

CSeqFeatSupport_Base::~CSeqFeatSupport_Base ( void  )

virtual

Definition at line 97 of file SeqFeatSupport_.cpp.

~CSeqFeatXref()

CSeqFeatXref::~CSeqFeatXref

(

void

)

Definition at line 50 of file SeqFeatXref.cpp.

~CSeqFeatXref_Base()

CSeqFeatXref_Base::~CSeqFeatXref_Base ( void  )

virtual

Definition at line 110 of file SeqFeatXref_.cpp.

Variable Documentation

union { ... }

union { ... }

union { ... }

union { ... }

m_Aa

CRef< TAa > CCode_break_Base::m_Aa

private

Definition at line 373 of file Code_break_.hpp.

Referenced by BEGIN_NAMED_BASE_CLASS_INFO(), CCode_break_Base::GetAa(), CCode_break_Base::IsSetAa(), CCode_break_Base::ResetAa(), and CCode_break_Base::SetAa().

m_Accessions

list< CRef< CSeq_id > > CEvidenceBasis_Base::m_Accessions

private

Definition at line 178 of file EvidenceBasis_.hpp.

Referenced by CEvidenceBasis_Base::GetAccessions(), CEvidenceBasis_Base::ResetAccessions(), and CEvidenceBasis_Base::SetAccessions().

m_Align_id

CRef< TAlign_id > CClone_seq_Base::m_Align_id

private

Definition at line 384 of file Clone_seq_.hpp.

Referenced by CClone_seq_Base::GetAlign_id(), CClone_seq_Base::IsSetAlign_id(), CClone_seq_Base::ResetAlign_id(), and CClone_seq_Base::SetAlign_id().

m_Basis

CRef< TBasis > CInferenceSupport_Base::m_Basis

private

Definition at line 406 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::GetBasis(), CInferenceSupport_Base::IsSetBasis(), CInferenceSupport_Base::ResetBasis(), and CInferenceSupport_Base::SetBasis().

[1/2]

TBond { ... } ::m_Bond

Definition at line 838 of file SeqFeatData_.hpp.

m_Bond [2/2]

TBond CSeqFeatData_Base::m_Bond

Definition at line 838 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::DoSelect(), CSeqFeatData_Base::GetBond(), and CSeqFeatData_Base::SetBond().

m_Category [1/2]

int CExperimentSupport_Base::m_Category

private

Definition at line 255 of file ExperimentSupport_.hpp.

Referenced by CExperimentSupport_Base::GetCategory(), CExperimentSupport_Base::ResetCategory(), and CExperimentSupport_Base::SetCategory().

m_Category [2/2]

int CInferenceSupport_Base::m_Category

private

Definition at line 402 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::GetCategory(), CInferenceSupport_Base::ResetCategory(), and CInferenceSupport_Base::SetCategory().

m_choice [1/4]

E_Choice CCode_break_Base::C_Aa::m_choice

private

Definition at line 259 of file Code_break_.hpp.

Referenced by CCode_break_Base::C_Aa::Reset(), and CCode_break_Base::C_Aa::Which().

m_choice [2/4]

E_Choice CFeat_id_Base::m_choice

private

Definition at line 269 of file Feat_id_.hpp.

Referenced by CFeat_id_Base::CheckSelected(), CFeat_id_Base::DoSelect(), CFeat_id_Base::IsGeneral(), CFeat_id_Base::IsGibb(), CFeat_id_Base::IsGiim(), CFeat_id_Base::IsLocal(), CFeat_id_Base::Reset(), CFeat_id_Base::ResetSelection(), CFeat_id_Base::SetGeneral(), CFeat_id_Base::SetGiim(), CFeat_id_Base::SetLocal(), CFeat_id_Base::ThrowInvalidSelection(), and CFeat_id_Base::Which().

m_choice [3/4]

E_Choice CGenetic_code_Base::C_E::m_choice

private

Definition at line 389 of file Genetic_code_.hpp.

Referenced by CGenetic_code_Base::C_E::Reset(), and CGenetic_code_Base::C_E::Which().

m_choice [4/4]

E_Choice CSeqFeatData_Base::m_choice

private

Definition at line 831 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::CheckSelected(), CSeqFeatData_Base::DoSelect(), CSeqFeatData_Base::IsBiosrc(), CSeqFeatData_Base::IsBond(), CSeqFeatData_Base::IsCdregion(), CSeqFeatData_Base::IsClone(), CSeqFeatData_Base::IsComment(), CSeqFeatData_Base::IsGene(), CSeqFeatData_Base::IsHet(), CSeqFeatData_Base::IsImp(), CSeqFeatData_Base::IsNon_std_residue(), CSeqFeatData_Base::IsNum(), CSeqFeatData_Base::IsOrg(), CSeqFeatData_Base::IsProt(), CSeqFeatData_Base::IsPsec_str(), CSeqFeatData_Base::IsPub(), CSeqFeatData_Base::IsRegion(), CSeqFeatData_Base::IsRna(), CSeqFeatData_Base::IsRsite(), CSeqFeatData_Base::IsSeq(), CSeqFeatData_Base::IsSite(), CSeqFeatData_Base::IsTxinit(), CSeqFeatData_Base::IsUser(), CSeqFeatData_Base::IsVariation(), CSeqFeatData_Base::Reset(), CSeqFeatData_Base::ResetSelection(), CSeqFeatData_Base::SetBiosrc(), CSeqFeatData_Base::SetCdregion(), CSeqFeatData_Base::SetClone(), CSeqFeatData_Base::SetGene(), CSeqFeatData_Base::SetImp(), CSeqFeatData_Base::SetNum(), CSeqFeatData_Base::SetOrg(), CSeqFeatData_Base::SetProt(), CSeqFeatData_Base::SetPub(), CSeqFeatData_Base::SetRna(), CSeqFeatData_Base::SetRsite(), CSeqFeatData_Base::SetSeq(), CSeqFeatData_Base::SetTxinit(), CSeqFeatData_Base::SetUser(), CSeqFeatData_Base::SetVariation(), CSeqFeatData_Base::ThrowInvalidSelection(), and CSeqFeatData_Base::Which().

m_Cit

CRef< TCit > CSeq_feat_Base::m_Cit

private

Definition at line 871 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetCit(), CSeq_feat_Base::IsSetCit(), CSeq_feat_Base::ResetCit(), and CSeq_feat_Base::SetCit().

m_Clone_seq

CRef< TClone_seq > CClone_ref_Base::m_Clone_seq

private

Definition at line 380 of file Clone_ref_.hpp.

Referenced by CClone_ref_Base::GetClone_seq(), CClone_ref_Base::IsSetClone_seq(), CClone_ref_Base::ResetClone_seq(), and CClone_ref_Base::SetClone_seq().

m_Code

CRef< TCode > CCdregion_Base::m_Code

private

Definition at line 447 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetCode(), CCdregion_Base::IsSetCode(), CCdregion_Base::ResetCode(), and CCdregion_Base::SetCode().

m_Code_break

list< CRef< CCode_break > > CCdregion_Base::m_Code_break

private

Definition at line 448 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetCode_break(), CCdregion_Base::ResetCode_break(), and CCdregion_Base::SetCode_break().

m_Comment

string CSeq_feat_Base::m_Comment

private

Definition at line 865 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetComment(), CSeq_feat_Base::ResetComment(), and CSeq_feat_Base::SetComment().

m_Concordant

bool CClone_ref_Base::m_Concordant

private

Definition at line 377 of file Clone_ref_.hpp.

Referenced by CClone_ref_Base::GetConcordant(), CClone_ref_Base::ResetConcordant(), and CClone_ref_Base::SetConcordant().

m_Confidence

int CClone_seq_Base::m_Confidence

private

Definition at line 381 of file Clone_seq_.hpp.

Referenced by CClone_seq_Base::GetConfidence(), CClone_seq_Base::ResetConfidence(), and CClone_seq_Base::SetConfidence().

m_Conflict

bool CCdregion_Base::m_Conflict

private

Definition at line 444 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetConflict(), CCdregion_Base::ResetConflict(), and CCdregion_Base::SetConflict().

m_data [1/3]

list< CRef< CClone_seq > > CClone_seq_set_Base::m_data

private

Definition at line 139 of file Clone_seq_set_.hpp.

Referenced by CClone_seq_set_Base::Get(), CClone_seq_set_Base::Reset(), and CClone_seq_set_Base::Set().

m_data [2/3]

list< CRef< C_E > > CGenetic_code_Base::m_data

private

Definition at line 456 of file Genetic_code_.hpp.

Referenced by BEGIN_NAMED_BASE_IMPLICIT_CLASS_INFO(), CGenetic_code_Base::Get(), CGenetic_code_Base::operator const Tdata &(), CGenetic_code_Base::operator Tdata &(), CGenetic_code_Base::Reset(), and CGenetic_code_Base::Set().

m_data [3/3]

list< CRef< CGenetic_code > > CGenetic_code_table_Base::m_data

private

Definition at line 140 of file Genetic_code_table_.hpp.

Referenced by CGenetic_code_table_Base::Get(), CGenetic_code_table_Base::Reset(), and CGenetic_code_table_Base::Set().

m_Data [1/2]

CRef< TData > CSeq_feat_Base::m_Data

private

Definition at line 862 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetData(), CSeq_feat_Base::IsSetData(), CSeq_feat_Base::ResetData(), and CSeq_feat_Base::SetData().

m_Data [2/2]

CRef< TData > CSeqFeatXref_Base::m_Data

private

Definition at line 189 of file SeqFeatXref_.hpp.

Referenced by CSeqFeatXref_Base::GetData(), CSeqFeatXref_Base::IsSetData(), CSeqFeatXref_Base::ResetData(), and CSeqFeatXref_Base::SetData().

m_Dbxref [1/2]

list< CRef< CDbtag > > CModelEvidenceSupport_Base::m_Dbxref

private

Definition at line 491 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetDbxref(), CModelEvidenceSupport_Base::ResetDbxref(), and CModelEvidenceSupport_Base::SetDbxref().

m_Dbxref [2/2]

vector< CRef< CDbtag > > CSeq_feat_Base::m_Dbxref

private

Definition at line 874 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetDbxref(), CSeq_feat_Base::ResetDbxref(), and CSeq_feat_Base::SetDbxref().

m_Descr

string CImp_feat_Base::m_Descr

private

Definition at line 234 of file Imp_feat_.hpp.

Referenced by CImp_feat_Base::GetDescr(), CImp_feat_Base::ResetDescr(), and CImp_feat_Base::SetDescr().

m_Dois [1/2]

list< CDOI > CExperimentSupport_Base::m_Dois

private

Definition at line 258 of file ExperimentSupport_.hpp.

Referenced by CExperimentSupport_Base::GetDois(), CExperimentSupport_Base::ResetDois(), and CExperimentSupport_Base::SetDois().

m_Dois [2/2]

list< CDOI > CInferenceSupport_Base::m_Dois

private

Definition at line 408 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::GetDois(), CInferenceSupport_Base::ResetDois(), and CInferenceSupport_Base::SetDois().

m_dummy_pointer_for_alignment [1/2]

void* CGenetic_code_Base::C_E::m_dummy_pointer_for_alignment

Definition at line 402 of file Genetic_code_.hpp.

[2/2]

void* { ... } ::m_dummy_pointer_for_alignment

Definition at line 402 of file Genetic_code_.hpp.

m_Est

list< CRef< CModelEvidenceItem > > CModelEvidenceSupport_Base::m_Est

private

Definition at line 488 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetEst(), CModelEvidenceSupport_Base::ResetEst(), and CModelEvidenceSupport_Base::SetEst().

m_Except

bool CSeq_feat_Base::m_Except

private

Definition at line 864 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetExcept(), CSeq_feat_Base::ResetExcept(), and CSeq_feat_Base::SetExcept().

m_Except_text

string CSeq_feat_Base::m_Except_text

private

Definition at line 876 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetExcept_text(), CSeq_feat_Base::ResetExcept_text(), and CSeq_feat_Base::SetExcept_text().

m_Exon_count [1/2]

int CModelEvidenceItem_Base::m_Exon_count

private

Definition at line 308 of file ModelEvidenceItem_.hpp.

Referenced by CModelEvidenceItem_Base::GetExon_count(), CModelEvidenceItem_Base::ResetExon_count(), and CModelEvidenceItem_Base::SetExon_count().

m_Exon_count [2/2]

int CModelEvidenceSupport_Base::m_Exon_count

private

Definition at line 492 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetExon_count(), CModelEvidenceSupport_Base::ResetExon_count(), and CModelEvidenceSupport_Base::SetExon_count().

m_Exon_length [1/2]

int CModelEvidenceItem_Base::m_Exon_length

private

Definition at line 309 of file ModelEvidenceItem_.hpp.

Referenced by CModelEvidenceItem_Base::GetExon_length(), CModelEvidenceItem_Base::ResetExon_length(), and CModelEvidenceItem_Base::SetExon_length().

m_Exon_length [2/2]

int CModelEvidenceSupport_Base::m_Exon_length

private

Definition at line 493 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetExon_length(), CModelEvidenceSupport_Base::ResetExon_length(), and CModelEvidenceSupport_Base::SetExon_length().

m_Exp_ev

EExp_ev CSeq_feat_Base::m_Exp_ev

private

Definition at line 872 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetExp_ev(), CSeq_feat_Base::ResetExp_ev(), and CSeq_feat_Base::SetExp_ev().

m_Experiment

list< CRef< CExperimentSupport > > CSeqFeatSupport_Base::m_Experiment

private

Definition at line 211 of file SeqFeatSupport_.hpp.

Referenced by CSeqFeatSupport_Base::GetExperiment(), CSeqFeatSupport_Base::ResetExperiment(), and CSeqFeatSupport_Base::SetExperiment().

m_Explanation

string CExperimentSupport_Base::m_Explanation

private

Definition at line 256 of file ExperimentSupport_.hpp.

Referenced by CExperimentSupport_Base::GetExplanation(), CExperimentSupport_Base::ResetExplanation(), and CExperimentSupport_Base::SetExplanation().

m_Ext

CRef< TExt > CSeq_feat_Base::m_Ext

private

Definition at line 870 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetExt(), CSeq_feat_Base::IsSetExt(), CSeq_feat_Base::ResetExt(), and CSeq_feat_Base::SetExt().

m_Exts

list< CRef< CUser_object > > CSeq_feat_Base::m_Exts

private

Definition at line 878 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetExts(), CSeq_feat_Base::ResetExts(), and CSeq_feat_Base::SetExts().

m_Frame

EFrame CCdregion_Base::m_Frame

private

Definition at line 443 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetFrame(), CCdregion_Base::ResetFrame(), and CCdregion_Base::SetFrame().

m_Full_length [1/2]

bool CModelEvidenceItem_Base::m_Full_length

private

Definition at line 310 of file ModelEvidenceItem_.hpp.

Referenced by CModelEvidenceItem_Base::GetFull_length(), CModelEvidenceItem_Base::ResetFull_length(), and CModelEvidenceItem_Base::SetFull_length().

m_Full_length [2/2]

bool CModelEvidenceSupport_Base::m_Full_length

private

Definition at line 494 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetFull_length(), CModelEvidenceSupport_Base::ResetFull_length(), and CModelEvidenceSupport_Base::SetFull_length().

m_Gaps

TSeqPos CCdregion_Base::m_Gaps

private

Definition at line 445 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetGaps(), CCdregion_Base::ResetGaps(), and CCdregion_Base::SetGaps().

m_Gibb [1/2]

TGibb CFeat_id_Base::m_Gibb

Definition at line 276 of file Feat_id_.hpp.

Referenced by CFeat_id_Base::DoSelect(), CFeat_id_Base::GetGibb(), and CFeat_id_Base::SetGibb().

[2/2]

TGibb { ... } ::m_Gibb

Definition at line 276 of file Feat_id_.hpp.

m_Het [1/2]

NCBI_NS_NCBI::CUnionBuffer<THet> CSeqFeatData_Base::m_Het

Definition at line 841 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::DoSelect(), CSeqFeatData_Base::GetHet(), CSeqFeatData_Base::ResetSelection(), and CSeqFeatData_Base::SetHet().

[2/2]

NCBI_NS_NCBI::CUnionBuffer<THet> { ... } ::m_Het

Definition at line 841 of file SeqFeatData_.hpp.

m_Id [1/5]

TId CGenetic_code_Base::C_E::m_Id

Definition at line 396 of file Genetic_code_.hpp.

[2/5]

TId { ... } ::m_Id

Definition at line 396 of file Genetic_code_.hpp.

m_Id [3/5]

CRef< TId > CModelEvidenceItem_Base::m_Id

private

Definition at line 307 of file ModelEvidenceItem_.hpp.

Referenced by CModelEvidenceItem_Base::GetId(), CModelEvidenceItem_Base::IsSetId(), CModelEvidenceItem_Base::ResetId(), and CModelEvidenceItem_Base::SetId().

m_Id [4/5]

CRef< TId > CSeq_feat_Base::m_Id

private

Definition at line 861 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetId(), CSeq_feat_Base::IsSetId(), CSeq_feat_Base::ResetId(), and CSeq_feat_Base::SetId().

m_Id [5/5]

CRef< TId > CSeqFeatXref_Base::m_Id

private

Definition at line 188 of file SeqFeatXref_.hpp.

Referenced by CSeqFeatXref_Base::GetId(), CSeqFeatXref_Base::IsSetId(), CSeqFeatXref_Base::ResetId(), and CSeqFeatXref_Base::SetId().

m_Identification

CRef< TIdentification > CModelEvidenceSupport_Base::m_Identification

private

Definition at line 490 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetIdentification(), CModelEvidenceSupport_Base::IsSetIdentification(), CModelEvidenceSupport_Base::ResetIdentification(), and CModelEvidenceSupport_Base::SetIdentification().

m_Ids

list< CRef< CFeat_id > > CSeq_feat_Base::m_Ids

private

Definition at line 877 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetIds(), CSeq_feat_Base::ResetIds(), and CSeq_feat_Base::SetIds().

m_Inference

list< CRef< CInferenceSupport > > CSeqFeatSupport_Base::m_Inference

private

Definition at line 212 of file SeqFeatSupport_.hpp.

Referenced by CSeqFeatSupport_Base::GetInference(), CSeqFeatSupport_Base::ResetInference(), and CSeqFeatSupport_Base::SetInference().

m_Key

string CImp_feat_Base::m_Key

private

Definition at line 232 of file Imp_feat_.hpp.

Referenced by CImp_feat_Base::GetKey(), CImp_feat_Base::ResetKey(), and CImp_feat_Base::SetKey().

m_Library

string CClone_ref_Base::m_Library

private

Definition at line 376 of file Clone_ref_.hpp.

Referenced by CClone_ref_Base::GetLibrary(), CClone_ref_Base::ResetLibrary(), and CClone_ref_Base::SetLibrary().

m_Loc [1/2]

CRef< TLoc > CCode_break_Base::m_Loc

private

Definition at line 372 of file Code_break_.hpp.

Referenced by BEGIN_NAMED_BASE_CLASS_INFO(), CCode_break_Base::GetLoc(), CCode_break_Base::IsSetLoc(), CCode_break_Base::ResetLoc(), and CCode_break_Base::SetLoc().

m_Loc [2/2]

string CImp_feat_Base::m_Loc

private

Definition at line 233 of file Imp_feat_.hpp.

Referenced by CImp_feat_Base::GetLoc(), CImp_feat_Base::ResetLoc(), and CImp_feat_Base::SetLoc().

m_Location [1/2]

CRef< TLocation > CClone_seq_Base::m_Location

private

Definition at line 382 of file Clone_seq_.hpp.

Referenced by CClone_seq_Base::GetLocation(), CClone_seq_Base::IsSetLocation(), CClone_seq_Base::ResetLocation(), and CClone_seq_Base::SetLocation().

m_Location [2/2]

CRef< TLocation > CSeq_feat_Base::m_Location

private

Definition at line 867 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetLocation(), CSeq_feat_Base::IsSetLocation(), CSeq_feat_Base::ResetLocation(), and CSeq_feat_Base::SetLocation().

m_Method

string CModelEvidenceSupport_Base::m_Method

private

Definition at line 486 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetMethod(), CModelEvidenceSupport_Base::ResetMethod(), and CModelEvidenceSupport_Base::SetMethod().

m_Mismatch

TSeqPos CCdregion_Base::m_Mismatch

private

Definition at line 446 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetMismatch(), CCdregion_Base::ResetMismatch(), and CCdregion_Base::SetMismatch().

m_Model_evidence

list< CRef< CModelEvidenceSupport > > CSeqFeatSupport_Base::m_Model_evidence

private

Definition at line 213 of file SeqFeatSupport_.hpp.

Referenced by CSeqFeatSupport_Base::GetModel_evidence(), CSeqFeatSupport_Base::ResetModel_evidence(), and CSeqFeatSupport_Base::SetModel_evidence().

m_Mrna

list< CRef< CModelEvidenceItem > > CModelEvidenceSupport_Base::m_Mrna

private

Definition at line 487 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetMrna(), CModelEvidenceSupport_Base::ResetMrna(), and CModelEvidenceSupport_Base::SetMrna().

m_Name [1/2]

string CClone_ref_Base::m_Name

private

Definition at line 375 of file Clone_ref_.hpp.

Referenced by CClone_ref_Base::GetName(), CClone_ref_Base::ResetName(), and CClone_ref_Base::SetName().

m_Name [2/2]

string CProgram_id_Base::m_Name

private

Definition at line 186 of file Program_id_.hpp.

Referenced by CProgram_id_Base::GetName(), CProgram_id_Base::ResetName(), and CProgram_id_Base::SetName().

m_Ncbi8aa [1/4]

TNcbi8aa CCode_break_Base::C_Aa::m_Ncbi8aa

Definition at line 267 of file Code_break_.hpp.

[2/4]

TNcbi8aa { ... } ::m_Ncbi8aa

Definition at line 267 of file Code_break_.hpp.

m_Ncbi8aa [3/4]

NCBI_NS_NCBI::CUnionBuffer<TNcbi8aa> CGenetic_code_Base::C_E::m_Ncbi8aa

Definition at line 397 of file Genetic_code_.hpp.

[4/4]

NCBI_NS_NCBI::CUnionBuffer<TNcbi8aa> { ... } ::m_Ncbi8aa

Definition at line 397 of file Genetic_code_.hpp.

[1/2]

TNcbieaa { ... } ::m_Ncbieaa

Definition at line 266 of file Code_break_.hpp.

m_Ncbieaa [2/2]

TNcbieaa CCode_break_Base::C_Aa::m_Ncbieaa

Definition at line 266 of file Code_break_.hpp.

m_Ncbistdaa [1/4]

TNcbistdaa CCode_break_Base::C_Aa::m_Ncbistdaa

Definition at line 268 of file Code_break_.hpp.

[2/4]

TNcbistdaa { ... } ::m_Ncbistdaa

Definition at line 268 of file Code_break_.hpp.

m_Ncbistdaa [3/4]

NCBI_NS_NCBI::CUnionBuffer<TNcbistdaa> CGenetic_code_Base::C_E::m_Ncbistdaa

Definition at line 398 of file Genetic_code_.hpp.

[4/4]

NCBI_NS_NCBI::CUnionBuffer<TNcbistdaa> { ... } ::m_Ncbistdaa

Definition at line 398 of file Genetic_code_.hpp.

m_object [1/4]

NCBI_NS_NCBI::CSerialObject* CFeat_id_Base::m_object

Definition at line 277 of file Feat_id_.hpp.

Referenced by CFeat_id_Base::DoSelect(), CFeat_id_Base::GetGeneral(), CFeat_id_Base::GetGiim(), CFeat_id_Base::GetLocal(), CFeat_id_Base::ResetSelection(), CFeat_id_Base::SetGeneral(), CFeat_id_Base::SetGiim(), and CFeat_id_Base::SetLocal().

[2/4]

NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 277 of file Feat_id_.hpp.

m_object [3/4]

NCBI_NS_NCBI::CSerialObject* CSeqFeatData_Base::m_object

Definition at line 843 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::DoSelect(), CSeqFeatData_Base::GetBiosrc(), CSeqFeatData_Base::GetCdregion(), CSeqFeatData_Base::GetClone(), CSeqFeatData_Base::GetGene(), CSeqFeatData_Base::GetImp(), CSeqFeatData_Base::GetNum(), CSeqFeatData_Base::GetOrg(), CSeqFeatData_Base::GetProt(), CSeqFeatData_Base::GetPub(), CSeqFeatData_Base::GetRna(), CSeqFeatData_Base::GetRsite(), CSeqFeatData_Base::GetSeq(), CSeqFeatData_Base::GetTxinit(), CSeqFeatData_Base::GetUser(), CSeqFeatData_Base::GetVariation(), CSeqFeatData_Base::ResetSelection(), CSeqFeatData_Base::SetBiosrc(), CSeqFeatData_Base::SetCdregion(), CSeqFeatData_Base::SetClone(), CSeqFeatData_Base::SetGene(), CSeqFeatData_Base::SetImp(), CSeqFeatData_Base::SetNum(), CSeqFeatData_Base::SetOrg(), CSeqFeatData_Base::SetProt(), CSeqFeatData_Base::SetPub(), CSeqFeatData_Base::SetRna(), CSeqFeatData_Base::SetRsite(), CSeqFeatData_Base::SetSeq(), CSeqFeatData_Base::SetTxinit(), CSeqFeatData_Base::SetUser(), and CSeqFeatData_Base::SetVariation().

[4/4]

NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 843 of file SeqFeatData_.hpp.

m_Orf

bool CCdregion_Base::m_Orf

private

Definition at line 442 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetOrf(), CCdregion_Base::ResetOrf(), and CCdregion_Base::SetOrf().

m_Other_type

string CInferenceSupport_Base::m_Other_type

private

Definition at line 404 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::GetOther_type(), CInferenceSupport_Base::ResetOther_type(), and CInferenceSupport_Base::SetOther_type().

m_Partial

bool CSeq_feat_Base::m_Partial

private

Definition at line 863 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetPartial(), CSeq_feat_Base::ResetPartial(), and CSeq_feat_Base::SetPartial().

m_Placement_method

int CClone_ref_Base::m_Placement_method

private

Definition at line 379 of file Clone_ref_.hpp.

Referenced by CClone_ref_Base::GetPlacement_method(), CClone_ref_Base::ResetPlacement_method(), and CClone_ref_Base::SetPlacement_method().

m_Pmids [1/2]

list< CPubMedId > CExperimentSupport_Base::m_Pmids

private

Definition at line 257 of file ExperimentSupport_.hpp.

Referenced by CExperimentSupport_Base::GetPmids(), CExperimentSupport_Base::ResetPmids(), and CExperimentSupport_Base::SetPmids().

m_Pmids [2/2]

list< CPubMedId > CInferenceSupport_Base::m_Pmids

private

Definition at line 407 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::GetPmids(), CInferenceSupport_Base::ResetPmids(), and CInferenceSupport_Base::SetPmids().

m_Product

CRef< TProduct > CSeq_feat_Base::m_Product

private

Definition at line 866 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetProduct(), CSeq_feat_Base::IsSetProduct(), CSeq_feat_Base::ResetProduct(), and CSeq_feat_Base::SetProduct().

m_Programs

list< CRef< CProgram_id > > CEvidenceBasis_Base::m_Programs

private

Definition at line 177 of file EvidenceBasis_.hpp.

Referenced by CEvidenceBasis_Base::GetPrograms(), CEvidenceBasis_Base::ResetPrograms(), and CEvidenceBasis_Base::SetPrograms().

m_Protein

list< CRef< CModelEvidenceItem > > CModelEvidenceSupport_Base::m_Protein

private

Definition at line 489 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetProtein(), CModelEvidenceSupport_Base::ResetProtein(), and CModelEvidenceSupport_Base::SetProtein().

m_Psec_str [1/2]

TPsec_str CSeqFeatData_Base::m_Psec_str

Definition at line 840 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::DoSelect(), CSeqFeatData_Base::GetPsec_str(), and CSeqFeatData_Base::SetPsec_str().

[2/2]

TPsec_str { ... } ::m_Psec_str

Definition at line 840 of file SeqFeatData_.hpp.

m_Pseudo

bool CSeq_feat_Base::m_Pseudo

private

Definition at line 875 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetPseudo(), CSeq_feat_Base::ResetPseudo(), and CSeq_feat_Base::SetPseudo().

m_Qual [1/2]

string CGb_qual_Base::m_Qual

private

Definition at line 186 of file Gb_qual_.hpp.

Referenced by CGb_qual_Base::GetQual(), CGb_qual_Base::ResetQual(), and CGb_qual_Base::SetQual().

m_Qual [2/2]

vector< CRef< CGb_qual > > CSeq_feat_Base::m_Qual

private

Definition at line 868 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetQual(), CSeq_feat_Base::ResetQual(), and CSeq_feat_Base::SetQual().

m_Same_species

bool CInferenceSupport_Base::m_Same_species

private

Definition at line 405 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::GetSame_species(), CInferenceSupport_Base::ResetSame_species(), and CInferenceSupport_Base::SetSame_species().

m_Seq

CRef< TSeq > CClone_seq_Base::m_Seq

private

Definition at line 383 of file Clone_seq_.hpp.

Referenced by CClone_seq_Base::GetSeq(), CClone_seq_Base::IsSetSeq(), CClone_seq_Base::ResetSeq(), and CClone_seq_Base::SetSeq().

m_set_State [1/18]

Uint4 CCdregion_Base::m_set_State[1]

private

Definition at line 441 of file Cdregion_.hpp.

Referenced by CCdregion_Base::CCdregion_Base(), CCdregion_Base::IsSetCode_break(), CCdregion_Base::IsSetConflict(), CCdregion_Base::IsSetFrame(), CCdregion_Base::IsSetGaps(), CCdregion_Base::IsSetMismatch(), CCdregion_Base::IsSetOrf(), CCdregion_Base::IsSetStops(), CCdregion_Base::ResetCode_break(), CCdregion_Base::ResetConflict(), CCdregion_Base::ResetFrame(), CCdregion_Base::ResetGaps(), CCdregion_Base::ResetMismatch(), CCdregion_Base::ResetOrf(), CCdregion_Base::ResetStops(), CCdregion_Base::SetCode_break(), CCdregion_Base::SetConflict(), CCdregion_Base::SetFrame(), CCdregion_Base::SetGaps(), CCdregion_Base::SetMismatch(), CCdregion_Base::SetOrf(), and CCdregion_Base::SetStops().

m_set_State [2/18]

Uint4 CClone_ref_Base::m_set_State[1]

private

Definition at line 374 of file Clone_ref_.hpp.

Referenced by CClone_ref_Base::CClone_ref_Base(), CClone_ref_Base::IsSetConcordant(), CClone_ref_Base::IsSetLibrary(), CClone_ref_Base::IsSetName(), CClone_ref_Base::IsSetPlacement_method(), CClone_ref_Base::IsSetUnique(), CClone_ref_Base::ResetConcordant(), CClone_ref_Base::ResetLibrary(), CClone_ref_Base::ResetName(), CClone_ref_Base::ResetPlacement_method(), CClone_ref_Base::ResetUnique(), CClone_ref_Base::SetConcordant(), CClone_ref_Base::SetLibrary(), CClone_ref_Base::SetName(), CClone_ref_Base::SetPlacement_method(), and CClone_ref_Base::SetUnique().

m_set_State [3/18]

Uint4 CClone_seq_Base::m_set_State[1]

private

Definition at line 379 of file Clone_seq_.hpp.

Referenced by CClone_seq_Base::CClone_seq_Base(), CClone_seq_Base::IsSetConfidence(), CClone_seq_Base::IsSetSupport(), CClone_seq_Base::IsSetType(), CClone_seq_Base::ResetConfidence(), CClone_seq_Base::ResetSupport(), CClone_seq_Base::ResetType(), CClone_seq_Base::SetConfidence(), CClone_seq_Base::SetSupport(), and CClone_seq_Base::SetType().

m_set_State [4/18]

Uint4 CClone_seq_set_Base::m_set_State[1]

private

Definition at line 138 of file Clone_seq_set_.hpp.

Referenced by CClone_seq_set_Base::CClone_seq_set_Base(), CClone_seq_set_Base::IsSet(), CClone_seq_set_Base::Reset(), and CClone_seq_set_Base::Set().

m_set_State [5/18]

Uint4 CCode_break_Base::m_set_State[1]

private

Definition at line 371 of file Code_break_.hpp.

Referenced by CCode_break_Base::CCode_break_Base().

m_set_State [6/18]

Uint4 CEvidenceBasis_Base::m_set_State[1]

private

Definition at line 176 of file EvidenceBasis_.hpp.

Referenced by CEvidenceBasis_Base::CEvidenceBasis_Base(), CEvidenceBasis_Base::IsSetAccessions(), CEvidenceBasis_Base::IsSetPrograms(), CEvidenceBasis_Base::ResetAccessions(), CEvidenceBasis_Base::ResetPrograms(), CEvidenceBasis_Base::SetAccessions(), and CEvidenceBasis_Base::SetPrograms().

m_set_State [7/18]

Uint4 CExperimentSupport_Base::m_set_State[1]

private

Definition at line 254 of file ExperimentSupport_.hpp.

Referenced by CExperimentSupport_Base::CExperimentSupport_Base(), CExperimentSupport_Base::IsSetCategory(), CExperimentSupport_Base::IsSetDois(), CExperimentSupport_Base::IsSetExplanation(), CExperimentSupport_Base::IsSetPmids(), CExperimentSupport_Base::ResetCategory(), CExperimentSupport_Base::ResetDois(), CExperimentSupport_Base::ResetExplanation(), CExperimentSupport_Base::ResetPmids(), CExperimentSupport_Base::SetCategory(), CExperimentSupport_Base::SetDois(), CExperimentSupport_Base::SetExplanation(), and CExperimentSupport_Base::SetPmids().

m_set_State [8/18]

Uint4 CGb_qual_Base::m_set_State[1]

private

Definition at line 185 of file Gb_qual_.hpp.

Referenced by CGb_qual_Base::CGb_qual_Base(), CGb_qual_Base::IsSetQual(), CGb_qual_Base::IsSetVal(), CGb_qual_Base::ResetQual(), CGb_qual_Base::ResetVal(), CGb_qual_Base::SetQual(), and CGb_qual_Base::SetVal().

m_set_State [9/18]

Uint4 CGenetic_code_Base::m_set_State[1]

private

Definition at line 455 of file Genetic_code_.hpp.

Referenced by BEGIN_NAMED_BASE_IMPLICIT_CLASS_INFO(), CGenetic_code_Base::CGenetic_code_Base(), CGenetic_code_Base::IsSet(), CGenetic_code_Base::operator Tdata &(), CGenetic_code_Base::Reset(), and CGenetic_code_Base::Set().

m_set_State [10/18]

Uint4 CGenetic_code_table_Base::m_set_State[1]

private

Definition at line 139 of file Genetic_code_table_.hpp.

Referenced by CGenetic_code_table_Base::CGenetic_code_table_Base(), CGenetic_code_table_Base::IsSet(), CGenetic_code_table_Base::Reset(), and CGenetic_code_table_Base::Set().

m_set_State [11/18]

Uint4 CImp_feat_Base::m_set_State[1]

private

Definition at line 231 of file Imp_feat_.hpp.

Referenced by CImp_feat_Base::CImp_feat_Base(), CImp_feat_Base::IsSetDescr(), CImp_feat_Base::IsSetKey(), CImp_feat_Base::IsSetLoc(), CImp_feat_Base::ResetDescr(), CImp_feat_Base::ResetKey(), CImp_feat_Base::ResetLoc(), CImp_feat_Base::SetDescr(), CImp_feat_Base::SetKey(), and CImp_feat_Base::SetLoc().

m_set_State [12/18]

Uint4 CInferenceSupport_Base::m_set_State[1]

private

Definition at line 401 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::CInferenceSupport_Base(), CInferenceSupport_Base::IsSetCategory(), CInferenceSupport_Base::IsSetDois(), CInferenceSupport_Base::IsSetOther_type(), CInferenceSupport_Base::IsSetPmids(), CInferenceSupport_Base::IsSetSame_species(), CInferenceSupport_Base::IsSetType(), CInferenceSupport_Base::ResetCategory(), CInferenceSupport_Base::ResetDois(), CInferenceSupport_Base::ResetOther_type(), CInferenceSupport_Base::ResetPmids(), CInferenceSupport_Base::ResetSame_species(), CInferenceSupport_Base::ResetType(), CInferenceSupport_Base::SetCategory(), CInferenceSupport_Base::SetDois(), CInferenceSupport_Base::SetOther_type(), CInferenceSupport_Base::SetPmids(), CInferenceSupport_Base::SetSame_species(), and CInferenceSupport_Base::SetType().

m_set_State [13/18]

Uint4 CModelEvidenceItem_Base::m_set_State[1]

private

Definition at line 306 of file ModelEvidenceItem_.hpp.

Referenced by CModelEvidenceItem_Base::CModelEvidenceItem_Base(), CModelEvidenceItem_Base::IsSetExon_count(), CModelEvidenceItem_Base::IsSetExon_length(), CModelEvidenceItem_Base::IsSetFull_length(), CModelEvidenceItem_Base::IsSetSupports_all_exon_combo(), CModelEvidenceItem_Base::ResetExon_count(), CModelEvidenceItem_Base::ResetExon_length(), CModelEvidenceItem_Base::ResetFull_length(), CModelEvidenceItem_Base::ResetSupports_all_exon_combo(), CModelEvidenceItem_Base::SetExon_count(), CModelEvidenceItem_Base::SetExon_length(), CModelEvidenceItem_Base::SetFull_length(), and CModelEvidenceItem_Base::SetSupports_all_exon_combo().

m_set_State [14/18]

Uint4 CModelEvidenceSupport_Base::m_set_State[1]

private

Definition at line 485 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::CModelEvidenceSupport_Base(), CModelEvidenceSupport_Base::IsSetDbxref(), CModelEvidenceSupport_Base::IsSetEst(), CModelEvidenceSupport_Base::IsSetExon_count(), CModelEvidenceSupport_Base::IsSetExon_length(), CModelEvidenceSupport_Base::IsSetFull_length(), CModelEvidenceSupport_Base::IsSetMethod(), CModelEvidenceSupport_Base::IsSetMrna(), CModelEvidenceSupport_Base::IsSetProtein(), CModelEvidenceSupport_Base::IsSetSupports_all_exon_combo(), CModelEvidenceSupport_Base::ResetDbxref(), CModelEvidenceSupport_Base::ResetEst(), CModelEvidenceSupport_Base::ResetExon_count(), CModelEvidenceSupport_Base::ResetExon_length(), CModelEvidenceSupport_Base::ResetFull_length(), CModelEvidenceSupport_Base::ResetMethod(), CModelEvidenceSupport_Base::ResetMrna(), CModelEvidenceSupport_Base::ResetProtein(), CModelEvidenceSupport_Base::ResetSupports_all_exon_combo(), CModelEvidenceSupport_Base::SetDbxref(), CModelEvidenceSupport_Base::SetEst(), CModelEvidenceSupport_Base::SetExon_count(), CModelEvidenceSupport_Base::SetExon_length(), CModelEvidenceSupport_Base::SetFull_length(), CModelEvidenceSupport_Base::SetMethod(), CModelEvidenceSupport_Base::SetMrna(), CModelEvidenceSupport_Base::SetProtein(), and CModelEvidenceSupport_Base::SetSupports_all_exon_combo().

m_set_State [15/18]

Uint4 CProgram_id_Base::m_set_State[1]

private

Definition at line 185 of file Program_id_.hpp.

Referenced by CProgram_id_Base::CProgram_id_Base(), CProgram_id_Base::IsSetName(), CProgram_id_Base::IsSetVersion(), CProgram_id_Base::ResetName(), CProgram_id_Base::ResetVersion(), CProgram_id_Base::SetName(), and CProgram_id_Base::SetVersion().

m_set_State [16/18]

Uint4 CSeqFeatSupport_Base::m_set_State[1]

private

Definition at line 210 of file SeqFeatSupport_.hpp.

Referenced by CSeqFeatSupport_Base::CSeqFeatSupport_Base(), CSeqFeatSupport_Base::IsSetExperiment(), CSeqFeatSupport_Base::IsSetInference(), CSeqFeatSupport_Base::IsSetModel_evidence(), CSeqFeatSupport_Base::ResetExperiment(), CSeqFeatSupport_Base::ResetInference(), CSeqFeatSupport_Base::ResetModel_evidence(), CSeqFeatSupport_Base::SetExperiment(), CSeqFeatSupport_Base::SetInference(), and CSeqFeatSupport_Base::SetModel_evidence().

m_set_State [17/18]

Uint4 CSeqFeatXref_Base::m_set_State[1]

private

Definition at line 187 of file SeqFeatXref_.hpp.

Referenced by CSeqFeatXref_Base::CSeqFeatXref_Base().

m_set_State [18/18]

Uint4 CSeq_feat_Base::m_set_State[2]

private

Definition at line 860 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::CSeq_feat_Base(), CSeq_feat_Base::IsSetComment(), CSeq_feat_Base::IsSetDbxref(), CSeq_feat_Base::IsSetExcept(), CSeq_feat_Base::IsSetExcept_text(), CSeq_feat_Base::IsSetExp_ev(), CSeq_feat_Base::IsSetExts(), CSeq_feat_Base::IsSetIds(), CSeq_feat_Base::IsSetPartial(), CSeq_feat_Base::IsSetPseudo(), CSeq_feat_Base::IsSetQual(), CSeq_feat_Base::IsSetTitle(), CSeq_feat_Base::IsSetXref(), CSeq_feat_Base::ResetComment(), CSeq_feat_Base::ResetDbxref(), CSeq_feat_Base::ResetExcept(), CSeq_feat_Base::ResetExcept_text(), CSeq_feat_Base::ResetExp_ev(), CSeq_feat_Base::ResetExts(), CSeq_feat_Base::ResetIds(), CSeq_feat_Base::ResetPartial(), CSeq_feat_Base::ResetPseudo(), CSeq_feat_Base::ResetQual(), CSeq_feat_Base::ResetTitle(), CSeq_feat_Base::ResetXref(), CSeq_feat_Base::SetComment(), CSeq_feat_Base::SetDbxref(), CSeq_feat_Base::SetExcept(), CSeq_feat_Base::SetExcept_text(), CSeq_feat_Base::SetExp_ev(), CSeq_feat_Base::SetExts(), CSeq_feat_Base::SetIds(), CSeq_feat_Base::SetPartial(), CSeq_feat_Base::SetPseudo(), CSeq_feat_Base::SetQual(), CSeq_feat_Base::SetTitle(), and CSeq_feat_Base::SetXref().

m_Site [1/2]

TSite CSeqFeatData_Base::m_Site

Definition at line 839 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::DoSelect(), CSeqFeatData_Base::GetSite(), and CSeqFeatData_Base::SetSite().

[2/2]

TSite { ... } ::m_Site

Definition at line 839 of file SeqFeatData_.hpp.

[1/2]

NCBI_NS_NCBI::CUnionBuffer<TSncbi8aa> { ... } ::m_Sncbi8aa

Definition at line 399 of file Genetic_code_.hpp.

m_Sncbi8aa [2/2]

NCBI_NS_NCBI::CUnionBuffer<TSncbi8aa> CGenetic_code_Base::C_E::m_Sncbi8aa

Definition at line 399 of file Genetic_code_.hpp.

[1/2]

NCBI_NS_NCBI::CUnionBuffer<TSncbistdaa> { ... } ::m_Sncbistdaa

Definition at line 400 of file Genetic_code_.hpp.

m_Sncbistdaa [2/2]

NCBI_NS_NCBI::CUnionBuffer<TSncbistdaa> CGenetic_code_Base::C_E::m_Sncbistdaa

Definition at line 400 of file Genetic_code_.hpp.

m_Stops

TSeqPos CCdregion_Base::m_Stops

private

Definition at line 449 of file Cdregion_.hpp.

Referenced by CCdregion_Base::GetStops(), CCdregion_Base::ResetStops(), and CCdregion_Base::SetStops().

[1/4]

NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> { ... } ::m_string

Definition at line 401 of file Genetic_code_.hpp.

m_string [2/4]

NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> CGenetic_code_Base::C_E::m_string

Definition at line 401 of file Genetic_code_.hpp.

m_string [3/4]

NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> CSeqFeatData_Base::m_string

Definition at line 842 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::DoSelect(), CSeqFeatData_Base::GetNon_std_residue(), CSeqFeatData_Base::GetRegion(), CSeqFeatData_Base::ResetSelection(), CSeqFeatData_Base::SetNon_std_residue(), and CSeqFeatData_Base::SetRegion().

[4/4]

NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> { ... } ::m_string

Definition at line 842 of file SeqFeatData_.hpp.

m_Support [1/2]

int CClone_seq_Base::m_Support

private

Definition at line 385 of file Clone_seq_.hpp.

Referenced by CClone_seq_Base::GetSupport(), CClone_seq_Base::ResetSupport(), and CClone_seq_Base::SetSupport().

m_Support [2/2]

CRef< TSupport > CSeq_feat_Base::m_Support

private

Definition at line 879 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetSupport(), CSeq_feat_Base::IsSetSupport(), CSeq_feat_Base::ResetSupport(), and CSeq_feat_Base::SetSupport().

m_Supports_all_exon_combo [1/2]

bool CModelEvidenceItem_Base::m_Supports_all_exon_combo

private

Definition at line 311 of file ModelEvidenceItem_.hpp.

Referenced by CModelEvidenceItem_Base::GetSupports_all_exon_combo(), CModelEvidenceItem_Base::ResetSupports_all_exon_combo(), and CModelEvidenceItem_Base::SetSupports_all_exon_combo().

m_Supports_all_exon_combo [2/2]

bool CModelEvidenceSupport_Base::m_Supports_all_exon_combo

private

Definition at line 495 of file ModelEvidenceSupport_.hpp.

Referenced by CModelEvidenceSupport_Base::GetSupports_all_exon_combo(), CModelEvidenceSupport_Base::ResetSupports_all_exon_combo(), and CModelEvidenceSupport_Base::SetSupports_all_exon_combo().

m_Title

string CSeq_feat_Base::m_Title

private

Definition at line 869 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetTitle(), CSeq_feat_Base::ResetTitle(), and CSeq_feat_Base::SetTitle().

m_Type [1/2]

int CClone_seq_Base::m_Type

private

Definition at line 380 of file Clone_seq_.hpp.

Referenced by CClone_seq_Base::GetType(), CClone_seq_Base::ResetType(), and CClone_seq_Base::SetType().

m_Type [2/2]

int CInferenceSupport_Base::m_Type

private

Definition at line 403 of file InferenceSupport_.hpp.

Referenced by CInferenceSupport_Base::GetType(), CInferenceSupport_Base::ResetType(), and CInferenceSupport_Base::SetType().

m_Unique

bool CClone_ref_Base::m_Unique

private

Definition at line 378 of file Clone_ref_.hpp.

Referenced by CClone_ref_Base::GetUnique(), CClone_ref_Base::ResetUnique(), and CClone_ref_Base::SetUnique().

m_Val

string CGb_qual_Base::m_Val

private

Definition at line 187 of file Gb_qual_.hpp.

Referenced by CGb_qual_Base::GetVal(), CGb_qual_Base::ResetVal(), and CGb_qual_Base::SetVal().

m_Version

string CProgram_id_Base::m_Version

private

Definition at line 187 of file Program_id_.hpp.

Referenced by CProgram_id_Base::GetVersion(), CProgram_id_Base::ResetVersion(), and CProgram_id_Base::SetVersion().

m_Xref

vector< CRef< CSeqFeatXref > > CSeq_feat_Base::m_Xref

private

Definition at line 873 of file Seq_feat_.hpp.

Referenced by CSeq_feat_Base::GetXref(), CSeq_feat_Base::ResetXref(), and CSeq_feat_Base::SetXref().

sm_SelectionNames [1/4]

const char *const CCode_break_Base::C_Aa::sm_SelectionNames

staticprivate

Initial value:

= {
    "not set",
    "ncbieaa",
    "ncbi8aa",
    "ncbistdaa"
}

Definition at line 263 of file Code_break_.hpp.

sm_SelectionNames [2/4]

const char *const CFeat_id_Base::sm_SelectionNames

staticprivate

Initial value:

= {
    "not set",
    "gibb",
    "giim",
    "local",
    "general"
}

Definition at line 273 of file Feat_id_.hpp.

Referenced by CFeat_id_Base::SelectionName(), and CFeat_id_Base::ThrowInvalidSelection().

sm_SelectionNames [3/4]

const char *const CGenetic_code_Base::C_E::sm_SelectionNames

staticprivate

Initial value:

= {
    "not set",
    "name",
    "id",
    "ncbieaa",
    "ncbi8aa",
    "ncbistdaa",
    "sncbieaa",
    "sncbi8aa",
    "sncbistdaa"
}

Definition at line 393 of file Genetic_code_.hpp.

sm_SelectionNames [4/4]

const char *const CSeqFeatData_Base::sm_SelectionNames

staticprivate

Initial value:

= {
    "not set",
    "gene",
    "org",
    "cdregion",
    "prot",
    "rna",
    "pub",
    "seq",
    "imp",
    "region",
    "comment",
    "bond",
    "site",
    "rsite",
    "user",
    "txinit",
    "num",
    "psec-str",
    "non-std-residue",
    "het",
    "biosrc",
    "clone",
    "variation"
}

Definition at line 835 of file SeqFeatData_.hpp.

Referenced by CSeqFeatData_Base::SelectionName(), and CSeqFeatData_Base::ThrowInvalidSelection().