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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/groupdataspecNCBI__Sequence.html below:

Code generated by DATATOOL from 'seq.asn' (module 'NCBI-Sequence')

class CAlign_def CAlign_def –. More...
class CAlign_def_Base CAlign_def_Base –. More...
class CAnnot_descr CAnnot_descr –. More...
class CAnnot_descr_Base CAnnot_descr_Base –. More...
class CAnnot_id CAnnot_id –. More...
class CAnnot_id_Base CAnnot_id_Base –. More...
class CAnnotdesc CAnnotdesc –. More...
class CAnnotdesc_Base CAnnotdesc_Base –. More...
class CBioseq_Base *** Sequence ******************************** * More...
class CDelta_ext_Base CDelta_ext_Base –. More...
class CDelta_seq CDelta_seq –. More...
class CDelta_seq_Base CDelta_seq_Base –. More...
class CHeterogen CHeterogen –. More...
class CHeterogen_Base cofactor, prosthetic group, inhibitor, etc More...
class CIUPACaa CIUPACaa –. More...
class CIUPACaa_Base IUPAC 1 letter codes, no spaces. More...
class CIUPACna CIUPACna –. More...
class CIUPACna_Base IUPAC 1 letter codes, no spaces. More...
class CLinkage_evidence_Base CLinkage_evidence_Base –. More...
class CMap_ext CMap_ext –. More...
class CMap_ext_Base CMap_ext_Base –. More...
class CMolInfo_Base ******* NOTE: * mol-type, modif, method, and org are consolidated and expanded * in Org-ref, BioSource, and MolInfo in this specification. More...
class CNCBI2na CNCBI2na –. More...
class CNCBI2na_Base 00=A, 01=C, 10=G, 11=T More...
class CNCBI4na CNCBI4na –. More...
class CNCBI4na_Base 1 bit each for agct 0001=A, 0010=C, 0100=G, 1000=T/U 0101=Purine, 1010=Pyrimidine, etc More...
class CNCBI8aa CNCBI8aa –. More...
class CNCBI8aa_Base for modified amino acids More...
class CNCBI8na CNCBI8na –. More...
class CNCBI8na_Base for modified nucleic acids More...
class CNCBIeaa CNCBIeaa –. More...
class CNCBIeaa_Base ASCII extended 1 letter aa codes IUPAC codes + U=selenocysteine. More...
class CNCBIpaa CNCBIpaa –. More...
class CNCBIpaa_Base 25 octets/aa, prob for IUPAC aas in order: A-Y,B,Z,X,(ter),anything probabilities are coded 0-255 = 0.0-1.0 More...
class CNCBIpna CNCBIpna –. More...
class CNCBIpna_Base 5 octets/base, prob for a,c,g,t,n probabilities are coded 0-255 = 0.0-1.0 More...
class CNCBIstdaa CNCBIstdaa –. More...
class CNCBIstdaa_Base codes 0-25, 1 per byte More...
class CNum_cont CNum_cont –. More...
class CNum_cont_Base continuous display numbering system More...
class CNum_enum CNum_enum –. More...
class CNum_enum_Base any tags to residues More...
class CNum_real CNum_real –. More...
class CNum_real_Base mapping to floating point system More...
class CNum_ref CNum_ref –. More...
class CNum_ref_Base by reference to other sequences More...
class CNumbering CNumbering –. More...
class CNumbering_Base any display numbering system More...
class CPubdesc_Base how sequence presented in pub More...
class CRef_ext CRef_ext –. More...
class CRef_ext_Base CRef_ext_Base –. More...
class CSeg_ext CSeg_ext –. More...
class CSeg_ext_Base CSeg_ext_Base –. More...
class CSeq_annot_Base features in table form More...
class CSeq_annot_Base::C_Data C_Data –. More...
class CSeq_data_Base *** Various internal sequence representations ************ * all are controlled, fixed length forms sequence representations More...
class CSeq_descr_Base *** Descriptors ***************************** * More...
class CSeq_ext CSeq_ext –. More...
class CSeq_ext_Base *** Sequence Extensions ********************************** * for representing more complex types * const type uses Seq-hist.assembly More...
class CSeq_gap_Base CSeq_gap_Base –. More...
class CSeq_hist CSeq_hist –. More...
class CSeq_hist_Base *** Sequence History Record *********************************** ** assembly = records how seq was assembled from others ** replaces = records sequences made obsolete by this one ** replaced-by = this seq is made obsolete by another(s) More...
class CSeq_hist_Base::C_Deleted C_Deleted –. More...
class CSeq_hist_rec CSeq_hist_rec –. More...
class CSeq_hist_rec_Base CSeq_hist_rec_Base –. More...
class CSeq_inst_Base *** Instances of sequences ******************************* * the sequence data itself More...
class CSeq_literal_Base CSeq_literal_Base –. More...
class CSeqdesc_Base CSeqdesc_Base –. More...
class CTextannot_id CTextannot_id –. More...
class CTextannot_id_Base *** Sequence Annotation ************************************* * This is a replica of Textseq-id This is specific for annotations, and exists to maintain a semantic difference between IDs assigned to annotations and IDs assigned to sequences More...
typedef CAlign_def_Base CAlign_def::Tparent typedef CSerialObject CAlign_def_Base::Tparent typedef int CAlign_def_Base::TAlign_type typedef list< CRef< CSeq_id > > CAlign_def_Base::TIds typedef Tparent::CMemberIndex< E_memberIndex, 3 > CAlign_def_Base::TmemberIndex typedef CAnnot_descr_Base CAnnot_descr::Tparent typedef CSerialObject CAnnot_descr_Base::Tparent typedef list< CRef< CAnnotdesc > > CAnnot_descr_Base::Tdata typedef CAnnot_id_Base CAnnot_id::Tparent typedef CSerialObject CAnnot_id_Base::Tparent typedef CObject_id CAnnot_id_Base::TLocal typedef NCBI_NS_NCBI::TEntrezId CAnnot_id_Base::TNcbi typedef CDbtag CAnnot_id_Base::TGeneral typedef CTextannot_id CAnnot_id_Base::TOther typedef CAnnotdesc_Base CAnnotdesc::Tparent typedef CSerialObject CAnnotdesc_Base::Tparent typedef string CAnnotdesc_Base::TName typedef string CAnnotdesc_Base::TTitle typedef string CAnnotdesc_Base::TComment typedef CPubdesc CAnnotdesc_Base::TPub typedef CUser_object CAnnotdesc_Base::TUser typedef CDate CAnnotdesc_Base::TCreate_date typedef CDate CAnnotdesc_Base::TUpdate_date typedef CSeq_id CAnnotdesc_Base::TSrc typedef CAlign_def CAnnotdesc_Base::TAlign typedef CSeq_loc CAnnotdesc_Base::TRegion typedef CSerialObject CBioseq_Base::Tparent typedef list< CRef< CSeq_id > > CBioseq_Base::TId typedef CSeq_descr CBioseq_Base::TDescr typedef CSeq_inst CBioseq_Base::TInst typedef list< CRef< CSeq_annot > > CBioseq_Base::TAnnot typedef Tparent::CMemberIndex< E_memberIndex, 5 > CBioseq_Base::TmemberIndex typedef CSerialObject CDelta_ext_Base::Tparent typedef list< CRef< CDelta_seq > > CDelta_ext_Base::Tdata typedef CDelta_seq_Base CDelta_seq::Tparent typedef CSerialObject CDelta_seq_Base::Tparent typedef CSeq_loc CDelta_seq_Base::TLoc typedef CSeq_literal CDelta_seq_Base::TLiteral typedef CHeterogen_Base CHeterogen::Tparent typedef CStringAliasBase< string > CHeterogen_Base::Tparent typedef CIUPACaa_Base CIUPACaa::Tparent typedef CStringAliasBase< string > CIUPACaa_Base::Tparent typedef CIUPACna_Base CIUPACna::Tparent typedef CStringAliasBase< string > CIUPACna_Base::Tparent typedef CSerialObject CLinkage_evidence_Base::Tparent typedef int CLinkage_evidence_Base::TType typedef Tparent::CMemberIndex< E_memberIndex, 2 > CLinkage_evidence_Base::TmemberIndex typedef CMap_ext_Base CMap_ext::Tparent typedef CSerialObject CMap_ext_Base::Tparent typedef list< CRef< CSeq_feat > > CMap_ext_Base::Tdata typedef CSerialObject CMolInfo_Base::Tparent typedef int CMolInfo_Base::TBiomol typedef int CMolInfo_Base::TTech typedef string CMolInfo_Base::TTechexp typedef int CMolInfo_Base::TCompleteness typedef string CMolInfo_Base::TGbmoltype typedef Tparent::CMemberIndex< E_memberIndex, 6 > CMolInfo_Base::TmemberIndex typedef CNCBI2na_Base CNCBI2na::Tparent typedef CStringAliasBase< vector< char > > CNCBI2na_Base::Tparent typedef CNCBI4na_Base CNCBI4na::Tparent typedef CStringAliasBase< vector< char > > CNCBI4na_Base::Tparent typedef CNCBI8aa_Base CNCBI8aa::Tparent typedef CStringAliasBase< vector< char > > CNCBI8aa_Base::Tparent typedef CNCBI8na_Base CNCBI8na::Tparent typedef CStringAliasBase< vector< char > > CNCBI8na_Base::Tparent typedef CNCBIeaa_Base CNCBIeaa::Tparent typedef CStringAliasBase< string > CNCBIeaa_Base::Tparent typedef CNCBIpaa_Base CNCBIpaa::Tparent typedef CStringAliasBase< vector< char > > CNCBIpaa_Base::Tparent typedef CNCBIpna_Base CNCBIpna::Tparent typedef CStringAliasBase< vector< char > > CNCBIpna_Base::Tparent typedef CNCBIstdaa_Base CNCBIstdaa::Tparent typedef CStringAliasBase< vector< char > > CNCBIstdaa_Base::Tparent typedef CNum_cont_Base CNum_cont::Tparent typedef CSerialObject CNum_cont_Base::Tparent typedef TSignedSeqPos CNum_cont_Base::TRefnum typedef bool CNum_cont_Base::THas_zero typedef bool CNum_cont_Base::TAscending typedef Tparent::CMemberIndex< E_memberIndex, 4 > CNum_cont_Base::TmemberIndex typedef CNum_enum_Base CNum_enum::Tparent typedef CSerialObject CNum_enum_Base::Tparent typedef TSeqPos CNum_enum_Base::TNum typedef list< string > CNum_enum_Base::TNames typedef Tparent::CMemberIndex< E_memberIndex, 3 > CNum_enum_Base::TmemberIndex typedef CNum_real_Base CNum_real::Tparent typedef CSerialObject CNum_real_Base::Tparent typedef double CNum_real_Base::TA typedef double CNum_real_Base::TB typedef string CNum_real_Base::TUnits typedef Tparent::CMemberIndex< E_memberIndex, 4 > CNum_real_Base::TmemberIndex typedef CNum_ref_Base CNum_ref::Tparent typedef CSerialObject CNum_ref_Base::Tparent typedef EType CNum_ref_Base::TType typedef CSeq_align CNum_ref_Base::TAligns typedef Tparent::CMemberIndex< E_memberIndex, 3 > CNum_ref_Base::TmemberIndex typedef CNumbering_Base CNumbering::Tparent typedef CSerialObject CNumbering_Base::Tparent typedef CNum_cont CNumbering_Base::TCont typedef CNum_enum CNumbering_Base::TEnum typedef CNum_ref CNumbering_Base::TRef typedef CNum_real CNumbering_Base::TReal typedef CSerialObject CPubdesc_Base::Tparent typedef CPub_equiv CPubdesc_Base::TPub typedef string CPubdesc_Base::TName typedef string CPubdesc_Base::TFig typedef CNumbering CPubdesc_Base::TNum typedef bool CPubdesc_Base::TNumexc typedef bool CPubdesc_Base::TPoly_a typedef string CPubdesc_Base::TMaploc typedef string CPubdesc_Base::TSeq_raw typedef int CPubdesc_Base::TAlign_group typedef string CPubdesc_Base::TComment typedef int CPubdesc_Base::TReftype typedef Tparent::CMemberIndex< E_memberIndex, 12 > CPubdesc_Base::TmemberIndex typedef CRef_ext_Base CRef_ext::Tparent typedef CSeq_loc CRef_ext_Base::Tparent typedef CSeg_ext_Base CSeg_ext::Tparent typedef CSerialObject CSeg_ext_Base::Tparent typedef list< CRef< CSeq_loc > > CSeg_ext_Base::Tdata typedef CSerialObject CSeq_annot_Base::Tparent typedef CSerialObject CSeq_annot_Base::C_Data::Tparent typedef list< CRef< CSeq_feat > > CSeq_annot_Base::C_Data::TFtable typedef list< CRef< CSeq_align > > CSeq_annot_Base::C_Data::TAlign typedef list< CRef< CSeq_graph > > CSeq_annot_Base::C_Data::TGraph typedef list< CRef< CSeq_id > > CSeq_annot_Base::C_Data::TIds typedef list< CRef< CSeq_loc > > CSeq_annot_Base::C_Data::TLocs typedef CSeq_table CSeq_annot_Base::C_Data::TSeq_table typedef list< CRef< CAnnot_id > > CSeq_annot_Base::TId typedef int CSeq_annot_Base::TDb typedef string CSeq_annot_Base::TName typedef CAnnot_descr CSeq_annot_Base::TDesc typedef C_Data CSeq_annot_Base::TData typedef Tparent::CMemberIndex< E_memberIndex, 6 > CSeq_annot_Base::TmemberIndex typedef CSerialObject CSeq_data_Base::Tparent typedef CIUPACna CSeq_data_Base::TIupacna typedef CIUPACaa CSeq_data_Base::TIupacaa typedef CNCBI2na CSeq_data_Base::TNcbi2na typedef CNCBI4na CSeq_data_Base::TNcbi4na typedef CNCBI8na CSeq_data_Base::TNcbi8na typedef CNCBIpna CSeq_data_Base::TNcbipna typedef CNCBI8aa CSeq_data_Base::TNcbi8aa typedef CNCBIeaa CSeq_data_Base::TNcbieaa typedef CNCBIpaa CSeq_data_Base::TNcbipaa typedef CNCBIstdaa CSeq_data_Base::TNcbistdaa typedef CSeq_gap CSeq_data_Base::TGap typedef CSerialObject CSeq_descr_Base::Tparent typedef list< CRef< CSeqdesc > > CSeq_descr_Base::Tdata typedef CSeq_ext_Base CSeq_ext::Tparent typedef CSerialObject CSeq_ext_Base::Tparent typedef CSeg_ext CSeq_ext_Base::TSeg typedef CRef_ext CSeq_ext_Base::TRef typedef CMap_ext CSeq_ext_Base::TMap typedef CDelta_ext CSeq_ext_Base::TDelta typedef CSerialObject CSeq_gap_Base::Tparent typedef int CSeq_gap_Base::TType typedef int CSeq_gap_Base::TLinkage typedef list< CRef< CLinkage_evidence > > CSeq_gap_Base::TLinkage_evidence typedef Tparent::CMemberIndex< E_memberIndex, 4 > CSeq_gap_Base::TmemberIndex typedef CSeq_hist_Base CSeq_hist::Tparent typedef CSerialObject CSeq_hist_Base::Tparent typedef CSerialObject CSeq_hist_Base::C_Deleted::Tparent typedef bool CSeq_hist_Base::C_Deleted::TBool typedef CDate CSeq_hist_Base::C_Deleted::TDate typedef list< CRef< CSeq_align > > CSeq_hist_Base::TAssembly typedef CSeq_hist_rec CSeq_hist_Base::TReplaces typedef CSeq_hist_rec CSeq_hist_Base::TReplaced_by typedef C_Deleted CSeq_hist_Base::TDeleted typedef Tparent::CMemberIndex< E_memberIndex, 5 > CSeq_hist_Base::TmemberIndex typedef CSeq_hist_rec_Base CSeq_hist_rec::Tparent typedef CSerialObject CSeq_hist_rec_Base::Tparent typedef CDate CSeq_hist_rec_Base::TDate typedef list< CRef< CSeq_id > > CSeq_hist_rec_Base::TIds typedef Tparent::CMemberIndex< E_memberIndex, 3 > CSeq_hist_rec_Base::TmemberIndex typedef CSerialObject CSeq_inst_Base::Tparent typedef ERepr CSeq_inst_Base::TRepr typedef EMol CSeq_inst_Base::TMol typedef TSeqPos CSeq_inst_Base::TLength typedef CInt_fuzz CSeq_inst_Base::TFuzz typedef ETopology CSeq_inst_Base::TTopology typedef EStrand CSeq_inst_Base::TStrand typedef CSeq_data CSeq_inst_Base::TSeq_data typedef CSeq_ext CSeq_inst_Base::TExt typedef CSeq_hist CSeq_inst_Base::THist typedef Tparent::CMemberIndex< E_memberIndex, 10 > CSeq_inst_Base::TmemberIndex typedef CSerialObject CSeq_literal_Base::Tparent typedef TSeqPos CSeq_literal_Base::TLength typedef CInt_fuzz CSeq_literal_Base::TFuzz typedef CSeq_data CSeq_literal_Base::TSeq_data typedef Tparent::CMemberIndex< E_memberIndex, 4 > CSeq_literal_Base::TmemberIndex typedef CSerialObject CSeqdesc_Base::Tparent typedef EGIBB_mol CSeqdesc_Base::TMol_type typedef list< EGIBB_mod > CSeqdesc_Base::TModif typedef EGIBB_method CSeqdesc_Base::TMethod typedef string CSeqdesc_Base::TName typedef string CSeqdesc_Base::TTitle typedef COrg_ref CSeqdesc_Base::TOrg typedef string CSeqdesc_Base::TComment typedef CNumbering CSeqdesc_Base::TNum typedef CDbtag CSeqdesc_Base::TMaploc typedef CPIR_block CSeqdesc_Base::TPir typedef CGB_block CSeqdesc_Base::TGenbank typedef CPubdesc CSeqdesc_Base::TPub typedef string CSeqdesc_Base::TRegion typedef CUser_object CSeqdesc_Base::TUser typedef CSP_block CSeqdesc_Base::TSp typedef CDbtag CSeqdesc_Base::TDbxref typedef CEMBL_block CSeqdesc_Base::TEmbl typedef CDate CSeqdesc_Base::TCreate_date typedef CDate CSeqdesc_Base::TUpdate_date typedef CPRF_block CSeqdesc_Base::TPrf typedef CPDB_block CSeqdesc_Base::TPdb typedef CHeterogen CSeqdesc_Base::THet typedef CBioSource CSeqdesc_Base::TSource typedef CMolInfo CSeqdesc_Base::TMolinfo typedef CModelEvidenceSupport CSeqdesc_Base::TModelev typedef CTextannot_id_Base CTextannot_id::Tparent typedef CSerialObject CTextannot_id_Base::Tparent typedef string CTextannot_id_Base::TName typedef string CTextannot_id_Base::TAccession typedef string CTextannot_id_Base::TRelease typedef int CTextannot_id_Base::TVersion typedef Tparent::CMemberIndex< E_memberIndex, 5 > CTextannot_id_Base::TmemberIndex enum CAlign_def_Base::EAlign_type { CAlign_def_Base::eAlign_type_ref = 1 , CAlign_def_Base::eAlign_type_alt = 2 , CAlign_def_Base::eAlign_type_blocks = 3 , CAlign_def_Base::eAlign_type_other = 255 } class of align Seq-annot More...
enum class CAlign_def_Base::E_memberIndex { CAlign_def_Base::e__allMandatory = 0 , CAlign_def_Base::e_align_type , CAlign_def_Base::e_ids } enum CAnnot_id_Base::E_Choice {
  CAnnot_id_Base::e_not_set = 0 , CAnnot_id_Base::e_Local , CAnnot_id_Base::e_Ncbi , CAnnot_id_Base::e_General ,
  CAnnot_id_Base::e_Other
} Choice variants. More...
enum CAnnot_id_Base::E_ChoiceStopper { CAnnot_id_Base::e_MaxChoice = 5 } Maximum+1 value of the choice variant enumerator. More...
enum CAnnotdesc_Base::E_Choice {
  CAnnotdesc_Base::e_not_set = 0 , CAnnotdesc_Base::e_Name , CAnnotdesc_Base::e_Title , CAnnotdesc_Base::e_Comment ,
  CAnnotdesc_Base::e_Pub , CAnnotdesc_Base::e_User , CAnnotdesc_Base::e_Create_date , CAnnotdesc_Base::e_Update_date ,
  CAnnotdesc_Base::e_Src , CAnnotdesc_Base::e_Align , CAnnotdesc_Base::e_Region
} Choice variants. More...
enum CAnnotdesc_Base::E_ChoiceStopper { CAnnotdesc_Base::e_MaxChoice = 11 } Maximum+1 value of the choice variant enumerator. More...
enum class CBioseq_Base::E_memberIndex {
  CBioseq_Base::e__allMandatory = 0 , CBioseq_Base::e_id , CBioseq_Base::e_descr , CBioseq_Base::e_inst ,
  CBioseq_Base::e_annot
} enum CDelta_seq_Base::E_Choice { CDelta_seq_Base::e_not_set = 0 , CDelta_seq_Base::e_Loc , CDelta_seq_Base::e_Literal } Choice variants. More...
enum CDelta_seq_Base::E_ChoiceStopper { CDelta_seq_Base::e_MaxChoice = 3 } Maximum+1 value of the choice variant enumerator. More...
enum EGIBB_method {
  eGIBB_method_concept_trans = 1 , eGIBB_method_seq_pept = 2 , eGIBB_method_both = 3 , eGIBB_method_seq_pept_overlap = 4 ,
  eGIBB_method_seq_pept_homol = 5 , eGIBB_method_concept_trans_a = 6 , eGIBB_method_other = 255
} sequencing methods More...
enum EGIBB_mod {
  eGIBB_mod_dna = 0 , eGIBB_mod_rna = 1 , eGIBB_mod_extrachrom = 2 , eGIBB_mod_plasmid = 3 ,
  eGIBB_mod_mitochondrial = 4 , eGIBB_mod_chloroplast = 5 , eGIBB_mod_kinetoplast = 6 , eGIBB_mod_cyanelle = 7 ,
  eGIBB_mod_synthetic = 8 , eGIBB_mod_recombinant = 9 , eGIBB_mod_partial = 10 , eGIBB_mod_complete = 11 ,
  eGIBB_mod_mutagen = 12 , eGIBB_mod_natmut = 13 , eGIBB_mod_transposon = 14 , eGIBB_mod_insertion_seq = 15 ,
  eGIBB_mod_no_left = 16 , eGIBB_mod_no_right = 17 , eGIBB_mod_macronuclear = 18 , eGIBB_mod_proviral = 19 ,
  eGIBB_mod_est = 20 , eGIBB_mod_sts = 21 , eGIBB_mod_survey = 22 , eGIBB_mod_chromoplast = 23 ,
  eGIBB_mod_genemap = 24 , eGIBB_mod_restmap = 25 , eGIBB_mod_physmap = 26 , eGIBB_mod_other = 255
} GenInfo Backbone modifiers. More...
enum EGIBB_mol {
  eGIBB_mol_unknown = 0 , eGIBB_mol_genomic = 1 , eGIBB_mol_pre_mRNA = 2 , eGIBB_mol_mRNA = 3 ,
  eGIBB_mol_rRNA = 4 , eGIBB_mol_tRNA = 5 , eGIBB_mol_snRNA = 6 , eGIBB_mol_scRNA = 7 ,
  eGIBB_mol_peptide = 8 , eGIBB_mol_other_genetic = 9 , eGIBB_mol_genomic_mRNA = 10 , eGIBB_mol_other = 255
} type of molecule represented More...
enum CLinkage_evidence_Base::EType {
  CLinkage_evidence_Base::eType_paired_ends = 0 , CLinkage_evidence_Base::eType_align_genus = 1 , CLinkage_evidence_Base::eType_align_xgenus = 2 , CLinkage_evidence_Base::eType_align_trnscpt = 3 ,
  CLinkage_evidence_Base::eType_within_clone = 4 , CLinkage_evidence_Base::eType_clone_contig = 5 , CLinkage_evidence_Base::eType_map = 6 , CLinkage_evidence_Base::eType_strobe = 7 ,
  CLinkage_evidence_Base::eType_unspecified = 8 , CLinkage_evidence_Base::eType_pcr = 9 , CLinkage_evidence_Base::eType_proximity_ligation = 10 , CLinkage_evidence_Base::eType_other = 255
} enum class CLinkage_evidence_Base::E_memberIndex { CLinkage_evidence_Base::e__allMandatory = 0 , CLinkage_evidence_Base::e_type } enum CMolInfo_Base::EBiomol {
  CMolInfo_Base::eBiomol_unknown = 0 , CMolInfo_Base::eBiomol_genomic = 1 , CMolInfo_Base::eBiomol_pre_RNA = 2 , CMolInfo_Base::eBiomol_mRNA = 3 ,
  CMolInfo_Base::eBiomol_rRNA = 4 , CMolInfo_Base::eBiomol_tRNA = 5 , CMolInfo_Base::eBiomol_snRNA = 6 , CMolInfo_Base::eBiomol_scRNA = 7 ,
  CMolInfo_Base::eBiomol_peptide = 8 , CMolInfo_Base::eBiomol_other_genetic = 9 , CMolInfo_Base::eBiomol_genomic_mRNA = 10 , CMolInfo_Base::eBiomol_cRNA = 11 ,
  CMolInfo_Base::eBiomol_snoRNA = 12 , CMolInfo_Base::eBiomol_transcribed_RNA = 13 , CMolInfo_Base::eBiomol_ncRNA = 14 , CMolInfo_Base::eBiomol_tmRNA = 15 ,
  CMolInfo_Base::eBiomol_other = 255
} enum CMolInfo_Base::ETech {
  CMolInfo_Base::eTech_unknown = 0 , CMolInfo_Base::eTech_standard = 1 , CMolInfo_Base::eTech_est = 2 , CMolInfo_Base::eTech_sts = 3 ,
  CMolInfo_Base::eTech_survey = 4 , CMolInfo_Base::eTech_genemap = 5 , CMolInfo_Base::eTech_physmap = 6 , CMolInfo_Base::eTech_derived = 7 ,
  CMolInfo_Base::eTech_concept_trans = 8 , CMolInfo_Base::eTech_seq_pept = 9 , CMolInfo_Base::eTech_both = 10 , CMolInfo_Base::eTech_seq_pept_overlap = 11 ,
  CMolInfo_Base::eTech_seq_pept_homol = 12 , CMolInfo_Base::eTech_concept_trans_a = 13 , CMolInfo_Base::eTech_htgs_1 = 14 , CMolInfo_Base::eTech_htgs_2 = 15 ,
  CMolInfo_Base::eTech_htgs_3 = 16 , CMolInfo_Base::eTech_fli_cdna = 17 , CMolInfo_Base::eTech_htgs_0 = 18 , CMolInfo_Base::eTech_htc = 19 ,
  CMolInfo_Base::eTech_wgs = 20 , CMolInfo_Base::eTech_barcode = 21 , CMolInfo_Base::eTech_composite_wgs_htgs = 22 , CMolInfo_Base::eTech_tsa = 23 ,
  CMolInfo_Base::eTech_targeted = 24 , CMolInfo_Base::eTech_other = 255
} enum CMolInfo_Base::ECompleteness {
  CMolInfo_Base::eCompleteness_unknown = 0 , CMolInfo_Base::eCompleteness_complete = 1 , CMolInfo_Base::eCompleteness_partial = 2 , CMolInfo_Base::eCompleteness_no_left = 3 ,
  CMolInfo_Base::eCompleteness_no_right = 4 , CMolInfo_Base::eCompleteness_no_ends = 5 , CMolInfo_Base::eCompleteness_has_left = 6 , CMolInfo_Base::eCompleteness_has_right = 7 ,
  CMolInfo_Base::eCompleteness_other = 255
} enum class CMolInfo_Base::E_memberIndex {
  CMolInfo_Base::e__allMandatory = 0 , CMolInfo_Base::e_biomol , CMolInfo_Base::e_tech , CMolInfo_Base::e_techexp ,
  CMolInfo_Base::e_completeness , CMolInfo_Base::e_gbmoltype
} enum class CNum_cont_Base::E_memberIndex { CNum_cont_Base::e__allMandatory = 0 , CNum_cont_Base::e_refnum , CNum_cont_Base::e_has_zero , CNum_cont_Base::e_ascending } enum class CNum_enum_Base::E_memberIndex { CNum_enum_Base::e__allMandatory = 0 , CNum_enum_Base::e_num , CNum_enum_Base::e_names } enum class CNum_real_Base::E_memberIndex { CNum_real_Base::e__allMandatory = 0 , CNum_real_Base::e_a , CNum_real_Base::e_b , CNum_real_Base::e_units } enum CNum_ref_Base::EType { CNum_ref_Base::eType_not_set = 0 , CNum_ref_Base::eType_sources = 1 , CNum_ref_Base::eType_aligns = 2 } type of reference More...
enum class CNum_ref_Base::E_memberIndex { CNum_ref_Base::e__allMandatory = 0 , CNum_ref_Base::e_type , CNum_ref_Base::e_aligns } enum CNumbering_Base::E_Choice {
  CNumbering_Base::e_not_set = 0 , CNumbering_Base::e_Cont , CNumbering_Base::e_Enum , CNumbering_Base::e_Ref ,
  CNumbering_Base::e_Real
} Choice variants. More...
enum CNumbering_Base::E_ChoiceStopper { CNumbering_Base::e_MaxChoice = 5 } Maximum+1 value of the choice variant enumerator. More...
enum CPubdesc_Base::EReftype { CPubdesc_Base::eReftype_seq = 0 , CPubdesc_Base::eReftype_sites = 1 , CPubdesc_Base::eReftype_feats = 2 , CPubdesc_Base::eReftype_no_target = 3 } type of reference in a GenBank record More...
enum class CPubdesc_Base::E_memberIndex {
  CPubdesc_Base::e__allMandatory = 0 , CPubdesc_Base::e_pub , CPubdesc_Base::e_name , CPubdesc_Base::e_fig ,
  CPubdesc_Base::e_num , CPubdesc_Base::e_numexc , CPubdesc_Base::e_poly_a , CPubdesc_Base::e_maploc ,
  CPubdesc_Base::e_seq_raw , CPubdesc_Base::e_align_group , CPubdesc_Base::e_comment , CPubdesc_Base::e_reftype
} enum CSeq_annot_Base::EDb {
  CSeq_annot_Base::eDb_genbank = 1 , CSeq_annot_Base::eDb_embl = 2 , CSeq_annot_Base::eDb_ddbj = 3 , CSeq_annot_Base::eDb_pir = 4 ,
  CSeq_annot_Base::eDb_sp = 5 , CSeq_annot_Base::eDb_bbone = 6 , CSeq_annot_Base::eDb_pdb = 7 , CSeq_annot_Base::eDb_other = 255
} source of annotation More...
enum CSeq_annot_Base::C_Data::E_Choice {
  CSeq_annot_Base::C_Data::e_not_set = 0 , CSeq_annot_Base::C_Data::e_Ftable , CSeq_annot_Base::C_Data::e_Align , CSeq_annot_Base::C_Data::e_Graph ,
  CSeq_annot_Base::C_Data::e_Ids , CSeq_annot_Base::C_Data::e_Locs , CSeq_annot_Base::C_Data::e_Seq_table
} Choice variants. More...
enum CSeq_annot_Base::C_Data::E_ChoiceStopper { CSeq_annot_Base::C_Data::e_MaxChoice = 7 } Maximum+1 value of the choice variant enumerator. More...
enum class CSeq_annot_Base::E_memberIndex {
  CSeq_annot_Base::e__allMandatory = 0 , CSeq_annot_Base::e_id , CSeq_annot_Base::e_db , CSeq_annot_Base::e_name ,
  CSeq_annot_Base::e_desc , CSeq_annot_Base::e_data
} enum CSeq_data_Base::E_Choice {
  CSeq_data_Base::e_not_set = 0 , CSeq_data_Base::e_Iupacna , CSeq_data_Base::e_Iupacaa , CSeq_data_Base::e_Ncbi2na ,
  CSeq_data_Base::e_Ncbi4na , CSeq_data_Base::e_Ncbi8na , CSeq_data_Base::e_Ncbipna , CSeq_data_Base::e_Ncbi8aa ,
  CSeq_data_Base::e_Ncbieaa , CSeq_data_Base::e_Ncbipaa , CSeq_data_Base::e_Ncbistdaa , CSeq_data_Base::e_Gap
} Choice variants. More...
enum CSeq_data_Base::E_ChoiceStopper { CSeq_data_Base::e_MaxChoice = 12 } Maximum+1 value of the choice variant enumerator. More...
enum CSeq_ext_Base::E_Choice {
  CSeq_ext_Base::e_not_set = 0 , CSeq_ext_Base::e_Seg , CSeq_ext_Base::e_Ref , CSeq_ext_Base::e_Map ,
  CSeq_ext_Base::e_Delta
} Choice variants. More...
enum CSeq_ext_Base::E_ChoiceStopper { CSeq_ext_Base::e_MaxChoice = 5 } Maximum+1 value of the choice variant enumerator. More...
enum CSeq_gap_Base::EType {
  CSeq_gap_Base::eType_unknown = 0 , CSeq_gap_Base::eType_fragment = 1 , CSeq_gap_Base::eType_clone = 2 , CSeq_gap_Base::eType_short_arm = 3 ,
  CSeq_gap_Base::eType_heterochromatin = 4 , CSeq_gap_Base::eType_centromere = 5 , CSeq_gap_Base::eType_telomere = 6 , CSeq_gap_Base::eType_repeat = 7 ,
  CSeq_gap_Base::eType_contig = 8 , CSeq_gap_Base::eType_scaffold = 9 , CSeq_gap_Base::eType_contamination = 10 , CSeq_gap_Base::eType_other = 255
} enum CSeq_gap_Base::ELinkage { CSeq_gap_Base::eLinkage_unlinked = 0 , CSeq_gap_Base::eLinkage_linked = 1 , CSeq_gap_Base::eLinkage_other = 255 } enum class CSeq_gap_Base::E_memberIndex { CSeq_gap_Base::e__allMandatory = 0 , CSeq_gap_Base::e_type , CSeq_gap_Base::e_linkage , CSeq_gap_Base::e_linkage_evidence } enum CSeq_hist_Base::C_Deleted::E_Choice { CSeq_hist_Base::C_Deleted::e_not_set = 0 , CSeq_hist_Base::C_Deleted::e_Bool , CSeq_hist_Base::C_Deleted::e_Date } Choice variants. More...
enum CSeq_hist_Base::C_Deleted::E_ChoiceStopper { CSeq_hist_Base::C_Deleted::e_MaxChoice = 3 } Maximum+1 value of the choice variant enumerator. More...
enum class CSeq_hist_Base::E_memberIndex {
  CSeq_hist_Base::e__allMandatory = 0 , CSeq_hist_Base::e_assembly , CSeq_hist_Base::e_replaces , CSeq_hist_Base::e_replaced_by ,
  CSeq_hist_Base::e_deleted
} enum class CSeq_hist_rec_Base::E_memberIndex { CSeq_hist_rec_Base::e__allMandatory = 0 , CSeq_hist_rec_Base::e_date , CSeq_hist_rec_Base::e_ids } enum CSeq_inst_Base::ERepr {
  CSeq_inst_Base::eRepr_not_set = 0 , CSeq_inst_Base::eRepr_virtual = 1 , CSeq_inst_Base::eRepr_raw = 2 , CSeq_inst_Base::eRepr_seg = 3 ,
  CSeq_inst_Base::eRepr_const = 4 , CSeq_inst_Base::eRepr_ref = 5 , CSeq_inst_Base::eRepr_consen = 6 , CSeq_inst_Base::eRepr_map = 7 ,
  CSeq_inst_Base::eRepr_delta = 8 , CSeq_inst_Base::eRepr_other = 255
} representation class More...
enum CSeq_inst_Base::EMol {
  CSeq_inst_Base::eMol_not_set = 0 , CSeq_inst_Base::eMol_dna = 1 , CSeq_inst_Base::eMol_rna = 2 , CSeq_inst_Base::eMol_aa = 3 ,
  CSeq_inst_Base::eMol_na = 4 , CSeq_inst_Base::eMol_other = 255
} molecule class in living organism More...
enum CSeq_inst_Base::ETopology {
  CSeq_inst_Base::eTopology_not_set = 0 , CSeq_inst_Base::eTopology_linear = 1 , CSeq_inst_Base::eTopology_circular = 2 , CSeq_inst_Base::eTopology_tandem = 3 ,
  CSeq_inst_Base::eTopology_other = 255
} topology of molecule More...
enum CSeq_inst_Base::EStrand {
  CSeq_inst_Base::eStrand_not_set = 0 , CSeq_inst_Base::eStrand_ss = 1 , CSeq_inst_Base::eStrand_ds = 2 , CSeq_inst_Base::eStrand_mixed = 3 ,
  CSeq_inst_Base::eStrand_other = 255
} strandedness in living organism More...
enum class CSeq_inst_Base::E_memberIndex {
  CSeq_inst_Base::e__allMandatory = 0 , CSeq_inst_Base::e_repr , CSeq_inst_Base::e_mol , CSeq_inst_Base::e_length ,
  CSeq_inst_Base::e_fuzz , CSeq_inst_Base::e_topology , CSeq_inst_Base::e_strand , CSeq_inst_Base::e_seq_data ,
  CSeq_inst_Base::e_ext , CSeq_inst_Base::e_hist
} enum class CSeq_literal_Base::E_memberIndex { CSeq_literal_Base::e__allMandatory = 0 , CSeq_literal_Base::e_length , CSeq_literal_Base::e_fuzz , CSeq_literal_Base::e_seq_data } enum CSeqdesc_Base::E_Choice {
  CSeqdesc_Base::e_not_set = 0 , CSeqdesc_Base::e_Mol_type , CSeqdesc_Base::e_Modif , CSeqdesc_Base::e_Method ,
  CSeqdesc_Base::e_Name , CSeqdesc_Base::e_Title , CSeqdesc_Base::e_Org , CSeqdesc_Base::e_Comment ,
  CSeqdesc_Base::e_Num , CSeqdesc_Base::e_Maploc , CSeqdesc_Base::e_Pir , CSeqdesc_Base::e_Genbank ,
  CSeqdesc_Base::e_Pub , CSeqdesc_Base::e_Region , CSeqdesc_Base::e_User , CSeqdesc_Base::e_Sp ,
  CSeqdesc_Base::e_Dbxref , CSeqdesc_Base::e_Embl , CSeqdesc_Base::e_Create_date , CSeqdesc_Base::e_Update_date ,
  CSeqdesc_Base::e_Prf , CSeqdesc_Base::e_Pdb , CSeqdesc_Base::e_Het , CSeqdesc_Base::e_Source ,
  CSeqdesc_Base::e_Molinfo , CSeqdesc_Base::e_Modelev
} Choice variants. More...
enum CSeqdesc_Base::E_ChoiceStopper { CSeqdesc_Base::e_MaxChoice = 26 } Maximum+1 value of the choice variant enumerator. More...
enum class CTextannot_id_Base::E_memberIndex {
  CTextannot_id_Base::e__allMandatory = 0 , CTextannot_id_Base::e_name , CTextannot_id_Base::e_accession , CTextannot_id_Base::e_release ,
  CTextannot_id_Base::e_version
} CAlign_def::CAlign_def (void) CAlign_def::~CAlign_def (void) CAlign_def::CAlign_def (const CAlign_def &value) CAlign_def & CAlign_def::operator= (const CAlign_def &value) CAlign_def_Base::CAlign_def_Base (void) virtual CAlign_def_Base::~CAlign_def_Base (void) CAlign_def_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CAlign_def_Base::EAlign_type (void) Access to EAlign_type's attributes (values, names) as defined in spec. More...
bool CAlign_def_Base::IsSetAlign_type (void) const Check if a value has been assigned to Align_type data member. More...
bool CAlign_def_Base::CanGetAlign_type (void) const Check if it is safe to call GetAlign_type method. More...
void CAlign_def_Base::ResetAlign_type (void) Reset Align_type data member. More...
TAlign_type CAlign_def_Base::GetAlign_type (void) const Get the Align_type member data. More...
void CAlign_def_Base::SetAlign_type (TAlign_type value) Assign a value to Align_type data member. More...
TAlign_type & CAlign_def_Base::SetAlign_type (void) Assign a value to Align_type data member. More...
bool CAlign_def_Base::IsSetIds (void) const used for the one ref seqid for now Check if a value has been assigned to Ids data member. More...
bool CAlign_def_Base::CanGetIds (void) const Check if it is safe to call GetIds method. More...
void CAlign_def_Base::ResetIds (void) Reset Ids data member. More...
const TIds & CAlign_def_Base::GetIds (void) const Get the Ids member data. More...
TIds & CAlign_def_Base::SetIds (void) Assign a value to Ids data member. More...
virtual void CAlign_def_Base::Reset (void) Reset the whole object. More...
CAlign_def_Base::CAlign_def_Base (const CAlign_def_Base &) CAlign_def_Base & CAlign_def_Base::operator= (const CAlign_def_Base &) CAnnot_descr::CAnnot_descr (void) CAnnot_descr::~CAnnot_descr (void) CAnnot_descr::CAnnot_descr (const CAnnot_descr &value) CAnnot_descr & CAnnot_descr::operator= (const CAnnot_descr &value) CAnnot_descr_Base::CAnnot_descr_Base (void) virtual CAnnot_descr_Base::~CAnnot_descr_Base (void) CAnnot_descr_Base::DECLARE_INTERNAL_TYPE_INFO () bool CAnnot_descr_Base::IsSet (void) const Check if a value has been assigned to data member. More...
bool CAnnot_descr_Base::CanGet (void) const Check if it is safe to call Get method. More...
void CAnnot_descr_Base::Reset (void) Reset data member. More...
const Tdata & CAnnot_descr_Base::Get (void) const Get the member data. More...
Tdata & CAnnot_descr_Base::Set (void) Assign a value to data member. More...
CAnnot_descr_Base::operator const Tdata & (void) const Conversion operator to 'const Tdata' type. More...
CAnnot_descr_Base::operator Tdata & (void) Conversion operator to 'Tdata' type. More...
CAnnot_descr_Base::CAnnot_descr_Base (const CAnnot_descr_Base &) CAnnot_descr_Base & CAnnot_descr_Base::operator= (const CAnnot_descr_Base &) CAnnot_id::CAnnot_id (void) CAnnot_id::~CAnnot_id (void) CAnnot_id::CAnnot_id (const CAnnot_id &value) CAnnot_id & CAnnot_id::operator= (const CAnnot_id &value) CAnnot_id_Base::CAnnot_id_Base (void) virtual CAnnot_id_Base::~CAnnot_id_Base (void) CAnnot_id_Base::DECLARE_INTERNAL_TYPE_INFO () virtual void CAnnot_id_Base::Reset (void) Reset the whole object. More...
virtual void CAnnot_id_Base::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CAnnot_id_Base::Which (void) const Which variant is currently selected. More...
void CAnnot_id_Base::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CAnnot_id_Base::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CAnnot_id_Base::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CAnnot_id_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CAnnot_id_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CAnnot_id_Base::IsLocal (void) const Check if variant Local is selected. More...
const TLocal & CAnnot_id_Base::GetLocal (void) const Get the variant data. More...
TLocal & CAnnot_id_Base::SetLocal (void) Select the variant. More...
void CAnnot_id_Base::SetLocal (TLocal &value) Select the variant and set its data. More...
bool CAnnot_id_Base::IsNcbi (void) const Check if variant Ncbi is selected. More...
TNcbi CAnnot_id_Base::GetNcbi (void) const Get the variant data. More...
TNcbi & CAnnot_id_Base::SetNcbi (void) Select the variant. More...
void CAnnot_id_Base::SetNcbi (TNcbi value) Select the variant and set its data. More...
bool CAnnot_id_Base::IsGeneral (void) const Check if variant General is selected. More...
const TGeneral & CAnnot_id_Base::GetGeneral (void) const Get the variant data. More...
TGeneral & CAnnot_id_Base::SetGeneral (void) Select the variant. More...
void CAnnot_id_Base::SetGeneral (TGeneral &value) Select the variant and set its data. More...
bool CAnnot_id_Base::IsOther (void) const Check if variant Other is selected. More...
const TOther & CAnnot_id_Base::GetOther (void) const Get the variant data. More...
TOther & CAnnot_id_Base::SetOther (void) Select the variant. More...
void CAnnot_id_Base::SetOther (TOther &value) Select the variant and set its data. More...
CAnnot_id_Base::CAnnot_id_Base (const CAnnot_id_Base &) CAnnot_id_Base & CAnnot_id_Base::operator= (const CAnnot_id_Base &) void CAnnot_id_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) CAnnotdesc::CAnnotdesc (void) CAnnotdesc::~CAnnotdesc (void) CAnnotdesc::CAnnotdesc (const CAnnotdesc &value) CAnnotdesc & CAnnotdesc::operator= (const CAnnotdesc &value) CAnnotdesc_Base::CAnnotdesc_Base (void) virtual CAnnotdesc_Base::~CAnnotdesc_Base (void) CAnnotdesc_Base::DECLARE_INTERNAL_TYPE_INFO () virtual void CAnnotdesc_Base::Reset (void) Reset the whole object. More...
virtual void CAnnotdesc_Base::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CAnnotdesc_Base::Which (void) const Which variant is currently selected. More...
void CAnnotdesc_Base::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CAnnotdesc_Base::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CAnnotdesc_Base::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CAnnotdesc_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CAnnotdesc_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CAnnotdesc_Base::IsName (void) const Check if variant Name is selected. More...
const TName & CAnnotdesc_Base::GetName (void) const Get the variant data. More...
TName & CAnnotdesc_Base::SetName (void) Select the variant. More...
void CAnnotdesc_Base::SetName (const TName &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsTitle (void) const Check if variant Title is selected. More...
const TTitle & CAnnotdesc_Base::GetTitle (void) const Get the variant data. More...
TTitle & CAnnotdesc_Base::SetTitle (void) Select the variant. More...
void CAnnotdesc_Base::SetTitle (const TTitle &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsComment (void) const Check if variant Comment is selected. More...
const TComment & CAnnotdesc_Base::GetComment (void) const Get the variant data. More...
TComment & CAnnotdesc_Base::SetComment (void) Select the variant. More...
void CAnnotdesc_Base::SetComment (const TComment &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsPub (void) const Check if variant Pub is selected. More...
const TPub & CAnnotdesc_Base::GetPub (void) const Get the variant data. More...
TPub & CAnnotdesc_Base::SetPub (void) Select the variant. More...
void CAnnotdesc_Base::SetPub (TPub &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsUser (void) const Check if variant User is selected. More...
const TUser & CAnnotdesc_Base::GetUser (void) const Get the variant data. More...
TUser & CAnnotdesc_Base::SetUser (void) Select the variant. More...
void CAnnotdesc_Base::SetUser (TUser &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsCreate_date (void) const Check if variant Create_date is selected. More...
const TCreate_date & CAnnotdesc_Base::GetCreate_date (void) const Get the variant data. More...
TCreate_date & CAnnotdesc_Base::SetCreate_date (void) Select the variant. More...
void CAnnotdesc_Base::SetCreate_date (TCreate_date &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsUpdate_date (void) const Check if variant Update_date is selected. More...
const TUpdate_date & CAnnotdesc_Base::GetUpdate_date (void) const Get the variant data. More...
TUpdate_date & CAnnotdesc_Base::SetUpdate_date (void) Select the variant. More...
void CAnnotdesc_Base::SetUpdate_date (TUpdate_date &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsSrc (void) const Check if variant Src is selected. More...
const TSrc & CAnnotdesc_Base::GetSrc (void) const Get the variant data. More...
TSrc & CAnnotdesc_Base::SetSrc (void) Select the variant. More...
void CAnnotdesc_Base::SetSrc (TSrc &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsAlign (void) const Check if variant Align is selected. More...
const TAlign & CAnnotdesc_Base::GetAlign (void) const Get the variant data. More...
TAlign & CAnnotdesc_Base::SetAlign (void) Select the variant. More...
void CAnnotdesc_Base::SetAlign (TAlign &value) Select the variant and set its data. More...
bool CAnnotdesc_Base::IsRegion (void) const Check if variant Region is selected. More...
const TRegion & CAnnotdesc_Base::GetRegion (void) const Get the variant data. More...
TRegion & CAnnotdesc_Base::SetRegion (void) Select the variant. More...
void CAnnotdesc_Base::SetRegion (TRegion &value) Select the variant and set its data. More...
CAnnotdesc_Base::CAnnotdesc_Base (const CAnnotdesc_Base &) CAnnotdesc_Base & CAnnotdesc_Base::operator= (const CAnnotdesc_Base &) void CAnnotdesc_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) CBioseq_Base::CBioseq_Base (void) virtual CBioseq_Base::~CBioseq_Base (void) CBioseq_Base::DECLARE_INTERNAL_TYPE_INFO () bool CBioseq_Base::IsSetId (void) const equivalent identifiers Check if a value has been assigned to Id data member. More...
bool CBioseq_Base::CanGetId (void) const Check if it is safe to call GetId method. More...
void CBioseq_Base::ResetId (void) Reset Id data member. More...
const TId & CBioseq_Base::GetId (void) const Get the Id member data. More...
TId & CBioseq_Base::SetId (void) Assign a value to Id data member. More...
bool CBioseq_Base::IsSetDescr (void) const descriptors Check if a value has been assigned to Descr data member. More...
bool CBioseq_Base::CanGetDescr (void) const Check if it is safe to call GetDescr method. More...
void CBioseq_Base::ResetDescr (void) Reset Descr data member. More...
const TDescr & CBioseq_Base::GetDescr (void) const Get the Descr member data. More...
void CBioseq_Base::SetDescr (TDescr &value) Assign a value to Descr data member. More...
TDescr & CBioseq_Base::SetDescr (void) Assign a value to Descr data member. More...
bool CBioseq_Base::IsSetInst (void) const the sequence data Check if a value has been assigned to Inst data member. More...
bool CBioseq_Base::CanGetInst (void) const Check if it is safe to call GetInst method. More...
void CBioseq_Base::ResetInst (void) Reset Inst data member. More...
const TInst & CBioseq_Base::GetInst (void) const Get the Inst member data. More...
void CBioseq_Base::SetInst (TInst &value) Assign a value to Inst data member. More...
TInst & CBioseq_Base::SetInst (void) Assign a value to Inst data member. More...
bool CBioseq_Base::IsSetAnnot (void) const Check if a value has been assigned to Annot data member. More...
bool CBioseq_Base::CanGetAnnot (void) const Check if it is safe to call GetAnnot method. More...
void CBioseq_Base::ResetAnnot (void) Reset Annot data member. More...
const TAnnot & CBioseq_Base::GetAnnot (void) const Get the Annot member data. More...
TAnnot & CBioseq_Base::SetAnnot (void) Assign a value to Annot data member. More...
virtual void CBioseq_Base::Reset (void) Reset the whole object. More...
CBioseq_Base::CBioseq_Base (const CBioseq_Base &) CBioseq_Base & CBioseq_Base::operator= (const CBioseq_Base &) CDelta_ext_Base::CDelta_ext_Base (void) virtual CDelta_ext_Base::~CDelta_ext_Base (void) CDelta_ext_Base::DECLARE_INTERNAL_TYPE_INFO () bool CDelta_ext_Base::IsSet (void) const Check if a value has been assigned to data member. More...
bool CDelta_ext_Base::CanGet (void) const Check if it is safe to call Get method. More...
void CDelta_ext_Base::Reset (void) Reset data member. More...
const Tdata & CDelta_ext_Base::Get (void) const Get the member data. More...
Tdata & CDelta_ext_Base::Set (void) Assign a value to data member. More...
CDelta_ext_Base::operator const Tdata & (void) const Conversion operator to 'const Tdata' type. More...
CDelta_ext_Base::operator Tdata & (void) Conversion operator to 'Tdata' type. More...
CDelta_ext_Base::CDelta_ext_Base (const CDelta_ext_Base &) CDelta_ext_Base & CDelta_ext_Base::operator= (const CDelta_ext_Base &) CDelta_seq::CDelta_seq (void) CDelta_seq::~CDelta_seq (void) CDelta_seq::CDelta_seq (const CDelta_seq &value) CDelta_seq & CDelta_seq::operator= (const CDelta_seq &value) CDelta_seq_Base::CDelta_seq_Base (void) virtual CDelta_seq_Base::~CDelta_seq_Base (void) CDelta_seq_Base::DECLARE_INTERNAL_TYPE_INFO () virtual void CDelta_seq_Base::Reset (void) Reset the whole object. More...
virtual void CDelta_seq_Base::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CDelta_seq_Base::Which (void) const Which variant is currently selected. More...
void CDelta_seq_Base::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CDelta_seq_Base::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CDelta_seq_Base::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CDelta_seq_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CDelta_seq_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CDelta_seq_Base::IsLoc (void) const Check if variant Loc is selected. More...
const TLoc & CDelta_seq_Base::GetLoc (void) const Get the variant data. More...
TLoc & CDelta_seq_Base::SetLoc (void) Select the variant. More...
void CDelta_seq_Base::SetLoc (TLoc &value) Select the variant and set its data. More...
bool CDelta_seq_Base::IsLiteral (void) const Check if variant Literal is selected. More...
const TLiteral & CDelta_seq_Base::GetLiteral (void) const Get the variant data. More...
TLiteral & CDelta_seq_Base::SetLiteral (void) Select the variant. More...
void CDelta_seq_Base::SetLiteral (TLiteral &value) Select the variant and set its data. More...
CDelta_seq_Base::CDelta_seq_Base (const CDelta_seq_Base &) CDelta_seq_Base & CDelta_seq_Base::operator= (const CDelta_seq_Base &) void CDelta_seq_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) CHeterogen::CHeterogen (void) CHeterogen::CHeterogen (const std::string &value) Explicit constructor from the primitive type. More...
CHeterogen_Base::CHeterogen_Base (void) CHeterogen_Base::DECLARE_STD_ALIAS_TYPE_INFO () CHeterogen_Base::CHeterogen_Base (const string &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CHeterogen_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CHeterogen_Base &obj) CIUPACaa::CIUPACaa (void) CIUPACaa::CIUPACaa (const std::string &value) Explicit constructor from the primitive type. More...
CIUPACaa_Base::CIUPACaa_Base (void) CIUPACaa_Base::DECLARE_STD_ALIAS_TYPE_INFO () CIUPACaa_Base::CIUPACaa_Base (const string &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CIUPACaa_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CIUPACaa_Base &obj) CIUPACna::CIUPACna (void) CIUPACna::CIUPACna (const std::string &value) Explicit constructor from the primitive type. More...
CIUPACna_Base::CIUPACna_Base (void) CIUPACna_Base::DECLARE_STD_ALIAS_TYPE_INFO () CIUPACna_Base::CIUPACna_Base (const string &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CIUPACna_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CIUPACna_Base &obj) CLinkage_evidence_Base::CLinkage_evidence_Base (void) virtual CLinkage_evidence_Base::~CLinkage_evidence_Base (void) CLinkage_evidence_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CLinkage_evidence_Base::EType (void) Access to EType's attributes (values, names) as defined in spec. More...
bool CLinkage_evidence_Base::IsSetType (void) const Check if a value has been assigned to Type data member. More...
bool CLinkage_evidence_Base::CanGetType (void) const Check if it is safe to call GetType method. More...
void CLinkage_evidence_Base::ResetType (void) Reset Type data member. More...
TType CLinkage_evidence_Base::GetType (void) const Get the Type member data. More...
void CLinkage_evidence_Base::SetType (TType value) Assign a value to Type data member. More...
TType & CLinkage_evidence_Base::SetType (void) Assign a value to Type data member. More...
virtual void CLinkage_evidence_Base::Reset (void) Reset the whole object. More...
CLinkage_evidence_Base::CLinkage_evidence_Base (const CLinkage_evidence_Base &) CLinkage_evidence_Base & CLinkage_evidence_Base::operator= (const CLinkage_evidence_Base &) CMap_ext::CMap_ext (void) CMap_ext::~CMap_ext (void) CMap_ext::CMap_ext (const CMap_ext &value) CMap_ext & CMap_ext::operator= (const CMap_ext &value) CMap_ext_Base::CMap_ext_Base (void) virtual CMap_ext_Base::~CMap_ext_Base (void) CMap_ext_Base::DECLARE_INTERNAL_TYPE_INFO () bool CMap_ext_Base::IsSet (void) const Check if a value has been assigned to data member. More...
bool CMap_ext_Base::CanGet (void) const Check if it is safe to call Get method. More...
void CMap_ext_Base::Reset (void) Reset data member. More...
const Tdata & CMap_ext_Base::Get (void) const Get the member data. More...
Tdata & CMap_ext_Base::Set (void) Assign a value to data member. More...
CMap_ext_Base::operator const Tdata & (void) const Conversion operator to 'const Tdata' type. More...
CMap_ext_Base::operator Tdata & (void) Conversion operator to 'Tdata' type. More...
CMap_ext_Base::CMap_ext_Base (const CMap_ext_Base &) CMap_ext_Base & CMap_ext_Base::operator= (const CMap_ext_Base &) CMolInfo_Base::CMolInfo_Base (void) virtual CMolInfo_Base::~CMolInfo_Base (void) CMolInfo_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CMolInfo_Base::EBiomol (void) Access to EBiomol's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CMolInfo_Base::ETech (void) Access to ETech's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CMolInfo_Base::ECompleteness (void) Access to ECompleteness's attributes (values, names) as defined in spec. More...
bool CMolInfo_Base::IsSetBiomol (void) const Check if a value has been assigned to Biomol data member. More...
bool CMolInfo_Base::CanGetBiomol (void) const Check if it is safe to call GetBiomol method. More...
void CMolInfo_Base::ResetBiomol (void) Reset Biomol data member. More...
void CMolInfo_Base::SetDefaultBiomol (void) Assign default value to Biomol data member. More...
TBiomol CMolInfo_Base::GetBiomol (void) const Get the Biomol member data. More...
void CMolInfo_Base::SetBiomol (TBiomol value) Assign a value to Biomol data member. More...
TBiomol & CMolInfo_Base::SetBiomol (void) Assign a value to Biomol data member. More...
bool CMolInfo_Base::IsSetTech (void) const Check if a value has been assigned to Tech data member. More...
bool CMolInfo_Base::CanGetTech (void) const Check if it is safe to call GetTech method. More...
void CMolInfo_Base::ResetTech (void) Reset Tech data member. More...
void CMolInfo_Base::SetDefaultTech (void) Assign default value to Tech data member. More...
TTech CMolInfo_Base::GetTech (void) const Get the Tech member data. More...
void CMolInfo_Base::SetTech (TTech value) Assign a value to Tech data member. More...
TTech & CMolInfo_Base::SetTech (void) Assign a value to Tech data member. More...
bool CMolInfo_Base::IsSetTechexp (void) const explanation if tech not enough More...
bool CMolInfo_Base::CanGetTechexp (void) const Check if it is safe to call GetTechexp method. More...
void CMolInfo_Base::ResetTechexp (void) Reset Techexp data member. More...
const TTechexp & CMolInfo_Base::GetTechexp (void) const Get the Techexp member data. More...
void CMolInfo_Base::SetTechexp (const TTechexp &value) Assign a value to Techexp data member. More...
void CMolInfo_Base::SetTechexp (TTechexp &&value) TTechexp & CMolInfo_Base::SetTechexp (void) Assign a value to Techexp data member. More...
bool CMolInfo_Base::IsSetCompleteness (void) const Check if a value has been assigned to Completeness data member. More...
bool CMolInfo_Base::CanGetCompleteness (void) const Check if it is safe to call GetCompleteness method. More...
void CMolInfo_Base::ResetCompleteness (void) Reset Completeness data member. More...
void CMolInfo_Base::SetDefaultCompleteness (void) Assign default value to Completeness data member. More...
TCompleteness CMolInfo_Base::GetCompleteness (void) const Get the Completeness member data. More...
void CMolInfo_Base::SetCompleteness (TCompleteness value) Assign a value to Completeness data member. More...
TCompleteness & CMolInfo_Base::SetCompleteness (void) Assign a value to Completeness data member. More...
bool CMolInfo_Base::IsSetGbmoltype (void) const identifies particular ncRNA Check if a value has been assigned to Gbmoltype data member. More...
bool CMolInfo_Base::CanGetGbmoltype (void) const Check if it is safe to call GetGbmoltype method. More...
void CMolInfo_Base::ResetGbmoltype (void) Reset Gbmoltype data member. More...
const TGbmoltype & CMolInfo_Base::GetGbmoltype (void) const Get the Gbmoltype member data. More...
void CMolInfo_Base::SetGbmoltype (const TGbmoltype &value) Assign a value to Gbmoltype data member. More...
void CMolInfo_Base::SetGbmoltype (TGbmoltype &&value) TGbmoltype & CMolInfo_Base::SetGbmoltype (void) Assign a value to Gbmoltype data member. More...
virtual void CMolInfo_Base::Reset (void) Reset the whole object. More...
CMolInfo_Base::CMolInfo_Base (const CMolInfo_Base &) CMolInfo_Base & CMolInfo_Base::operator= (const CMolInfo_Base &) CNCBI2na::CNCBI2na (void) CNCBI2na::CNCBI2na (const std::vector< char > &value) Explicit constructor from the primitive type. More...
CNCBI2na_Base::CNCBI2na_Base (void) CNCBI2na_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBI2na_Base::CNCBI2na_Base (const vector< char > &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBI2na_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBI2na_Base &obj) CNCBI4na::CNCBI4na (void) CNCBI4na::CNCBI4na (const std::vector< char > &value) Explicit constructor from the primitive type. More...
CNCBI4na_Base::CNCBI4na_Base (void) CNCBI4na_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBI4na_Base::CNCBI4na_Base (const vector< char > &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBI4na_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBI4na_Base &obj) CNCBI8aa::CNCBI8aa (void) CNCBI8aa::CNCBI8aa (const std::vector< char > &value) Explicit constructor from the primitive type. More...
CNCBI8aa_Base::CNCBI8aa_Base (void) CNCBI8aa_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBI8aa_Base::CNCBI8aa_Base (const vector< char > &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBI8aa_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBI8aa_Base &obj) CNCBI8na::CNCBI8na (void) CNCBI8na::CNCBI8na (const std::vector< char > &value) Explicit constructor from the primitive type. More...
CNCBI8na_Base::CNCBI8na_Base (void) CNCBI8na_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBI8na_Base::CNCBI8na_Base (const vector< char > &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBI8na_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBI8na_Base &obj) CNCBIeaa::CNCBIeaa (void) CNCBIeaa::CNCBIeaa (const std::string &value) Explicit constructor from the primitive type. More...
CNCBIeaa_Base::CNCBIeaa_Base (void) CNCBIeaa_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBIeaa_Base::CNCBIeaa_Base (const string &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBIeaa_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBIeaa_Base &obj) CNCBIpaa::CNCBIpaa (void) CNCBIpaa::CNCBIpaa (const std::vector< char > &value) Explicit constructor from the primitive type. More...
CNCBIpaa_Base::CNCBIpaa_Base (void) CNCBIpaa_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBIpaa_Base::CNCBIpaa_Base (const vector< char > &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBIpaa_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBIpaa_Base &obj) CNCBIpna::CNCBIpna (void) CNCBIpna::CNCBIpna (const std::vector< char > &value) Explicit constructor from the primitive type. More...
CNCBIpna_Base::CNCBIpna_Base (void) CNCBIpna_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBIpna_Base::CNCBIpna_Base (const vector< char > &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBIpna_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBIpna_Base &obj) CNCBIstdaa::CNCBIstdaa (void) CNCBIstdaa::CNCBIstdaa (const std::vector< char > &value) Explicit constructor from the primitive type. More...
CNCBIstdaa_Base::CNCBIstdaa_Base (void) CNCBIstdaa_Base::DECLARE_STD_ALIAS_TYPE_INFO () CNCBIstdaa_Base::CNCBIstdaa_Base (const vector< char > &data) NCBI_NS_NCBI::CNcbiOstream & operator<< (NCBI_NS_NCBI::CNcbiOstream &str, const CNCBIstdaa_Base &obj) NCBI_NS_NCBI::CNcbiIstream & operator>> (NCBI_NS_NCBI::CNcbiIstream &str, CNCBIstdaa_Base &obj) CNum_cont::CNum_cont (void) CNum_cont::~CNum_cont (void) CNum_cont::CNum_cont (const CNum_cont &value) CNum_cont & CNum_cont::operator= (const CNum_cont &value) CNum_cont_Base::CNum_cont_Base (void) virtual CNum_cont_Base::~CNum_cont_Base (void) CNum_cont_Base::DECLARE_INTERNAL_TYPE_INFO () bool CNum_cont_Base::IsSetRefnum (void) const number assigned to first residue Check if a value has been assigned to Refnum data member. More...
bool CNum_cont_Base::CanGetRefnum (void) const Check if it is safe to call GetRefnum method. More...
void CNum_cont_Base::ResetRefnum (void) Reset Refnum data member. More...
void CNum_cont_Base::SetDefaultRefnum (void) Assign default value to Refnum data member. More...
TRefnum CNum_cont_Base::GetRefnum (void) const Get the Refnum member data. More...
void CNum_cont_Base::SetRefnum (TRefnum value) Assign a value to Refnum data member. More...
TRefnum & CNum_cont_Base::SetRefnum (void) Assign a value to Refnum data member. More...
bool CNum_cont_Base::IsSetHas_zero (void) const 0 used? Check if a value has been assigned to Has_zero data member. More...
bool CNum_cont_Base::CanGetHas_zero (void) const Check if it is safe to call GetHas_zero method. More...
void CNum_cont_Base::ResetHas_zero (void) Reset Has_zero data member. More...
void CNum_cont_Base::SetDefaultHas_zero (void) Assign default value to Has_zero data member. More...
THas_zero CNum_cont_Base::GetHas_zero (void) const Get the Has_zero member data. More...
void CNum_cont_Base::SetHas_zero (THas_zero value) Assign a value to Has_zero data member. More...
THas_zero & CNum_cont_Base::SetHas_zero (void) Assign a value to Has_zero data member. More...
bool CNum_cont_Base::IsSetAscending (void) const ascending numbers? Check if a value has been assigned to Ascending data member. More...
bool CNum_cont_Base::CanGetAscending (void) const Check if it is safe to call GetAscending method. More...
void CNum_cont_Base::ResetAscending (void) Reset Ascending data member. More...
void CNum_cont_Base::SetDefaultAscending (void) Assign default value to Ascending data member. More...
TAscending CNum_cont_Base::GetAscending (void) const Get the Ascending member data. More...
void CNum_cont_Base::SetAscending (TAscending value) Assign a value to Ascending data member. More...
TAscending & CNum_cont_Base::SetAscending (void) Assign a value to Ascending data member. More...
virtual void CNum_cont_Base::Reset (void) Reset the whole object. More...
CNum_cont_Base::CNum_cont_Base (const CNum_cont_Base &) CNum_cont_Base & CNum_cont_Base::operator= (const CNum_cont_Base &) CNum_enum::CNum_enum (void) CNum_enum::~CNum_enum (void) CNum_enum::CNum_enum (const CNum_enum &value) CNum_enum & CNum_enum::operator= (const CNum_enum &value) CNum_enum_Base::CNum_enum_Base (void) virtual CNum_enum_Base::~CNum_enum_Base (void) CNum_enum_Base::DECLARE_INTERNAL_TYPE_INFO () bool CNum_enum_Base::IsSetNum (void) const number of tags to follow Check if a value has been assigned to Num data member. More...
bool CNum_enum_Base::CanGetNum (void) const Check if it is safe to call GetNum method. More...
void CNum_enum_Base::ResetNum (void) Reset Num data member. More...
TNum CNum_enum_Base::GetNum (void) const Get the Num member data. More...
void CNum_enum_Base::SetNum (TNum value) Assign a value to Num data member. More...
TNum & CNum_enum_Base::SetNum (void) Assign a value to Num data member. More...
bool CNum_enum_Base::IsSetNames (void) const the tags Check if a value has been assigned to Names data member. More...
bool CNum_enum_Base::CanGetNames (void) const Check if it is safe to call GetNames method. More...
void CNum_enum_Base::ResetNames (void) Reset Names data member. More...
const TNames & CNum_enum_Base::GetNames (void) const Get the Names member data. More...
TNames & CNum_enum_Base::SetNames (void) Assign a value to Names data member. More...
virtual void CNum_enum_Base::Reset (void) Reset the whole object. More...
CNum_enum_Base::CNum_enum_Base (const CNum_enum_Base &) CNum_enum_Base & CNum_enum_Base::operator= (const CNum_enum_Base &) CNum_real::CNum_real (void) CNum_real::~CNum_real (void) CNum_real::CNum_real (const CNum_real &value) CNum_real & CNum_real::operator= (const CNum_real &value) CNum_real_Base::CNum_real_Base (void) virtual CNum_real_Base::~CNum_real_Base (void) CNum_real_Base::DECLARE_INTERNAL_TYPE_INFO () bool CNum_real_Base::IsSetA (void) const from an integer system used by Bioseq Check if a value has been assigned to A data member. More...
bool CNum_real_Base::CanGetA (void) const Check if it is safe to call GetA method. More...
void CNum_real_Base::ResetA (void) Reset A data member. More...
TA CNum_real_Base::GetA (void) const Get the A member data. More...
void CNum_real_Base::SetA (TA value) Assign a value to A data member. More...
TA & CNum_real_Base::SetA (void) Assign a value to A data member. More...
bool CNum_real_Base::IsSetB (void) const position = (a * int_position) + b Check if a value has been assigned to B data member. More...
bool CNum_real_Base::CanGetB (void) const Check if it is safe to call GetB method. More...
void CNum_real_Base::ResetB (void) Reset B data member. More...
TB CNum_real_Base::GetB (void) const Get the B member data. More...
void CNum_real_Base::SetB (TB value) Assign a value to B data member. More...
TB & CNum_real_Base::SetB (void) Assign a value to B data member. More...
bool CNum_real_Base::IsSetUnits (void) const Check if a value has been assigned to Units data member. More...
bool CNum_real_Base::CanGetUnits (void) const Check if it is safe to call GetUnits method. More...
void CNum_real_Base::ResetUnits (void) Reset Units data member. More...
const TUnits & CNum_real_Base::GetUnits (void) const Get the Units member data. More...
void CNum_real_Base::SetUnits (const TUnits &value) Assign a value to Units data member. More...
void CNum_real_Base::SetUnits (TUnits &&value) TUnits & CNum_real_Base::SetUnits (void) Assign a value to Units data member. More...
virtual void CNum_real_Base::Reset (void) Reset the whole object. More...
CNum_real_Base::CNum_real_Base (const CNum_real_Base &) CNum_real_Base & CNum_real_Base::operator= (const CNum_real_Base &) CNum_ref::CNum_ref (void) CNum_ref::~CNum_ref (void) CNum_ref::CNum_ref (const CNum_ref &value) CNum_ref & CNum_ref::operator= (const CNum_ref &value) CNum_ref_Base::CNum_ref_Base (void) virtual CNum_ref_Base::~CNum_ref_Base (void) CNum_ref_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CNum_ref_Base::EType (void) Access to EType's attributes (values, names) as defined in spec. More...
bool CNum_ref_Base::IsSetType (void) const Check if a value has been assigned to Type data member. More...
bool CNum_ref_Base::CanGetType (void) const Check if it is safe to call GetType method. More...
void CNum_ref_Base::ResetType (void) Reset Type data member. More...
TType CNum_ref_Base::GetType (void) const Get the Type member data. More...
void CNum_ref_Base::SetType (TType value) Assign a value to Type data member. More...
TType & CNum_ref_Base::SetType (void) Assign a value to Type data member. More...
bool CNum_ref_Base::IsSetAligns (void) const Check if a value has been assigned to Aligns data member. More...
bool CNum_ref_Base::CanGetAligns (void) const Check if it is safe to call GetAligns method. More...
void CNum_ref_Base::ResetAligns (void) Reset Aligns data member. More...
const TAligns & CNum_ref_Base::GetAligns (void) const Get the Aligns member data. More...
void CNum_ref_Base::SetAligns (TAligns &value) Assign a value to Aligns data member. More...
TAligns & CNum_ref_Base::SetAligns (void) Assign a value to Aligns data member. More...
virtual void CNum_ref_Base::Reset (void) Reset the whole object. More...
CNum_ref_Base::CNum_ref_Base (const CNum_ref_Base &) CNum_ref_Base & CNum_ref_Base::operator= (const CNum_ref_Base &) CNumbering::CNumbering (void) CNumbering::~CNumbering (void) CNumbering::CNumbering (const CNumbering &value) CNumbering & CNumbering::operator= (const CNumbering &value) CNumbering_Base::CNumbering_Base (void) virtual CNumbering_Base::~CNumbering_Base (void) CNumbering_Base::DECLARE_INTERNAL_TYPE_INFO () virtual void CNumbering_Base::Reset (void) Reset the whole object. More...
virtual void CNumbering_Base::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CNumbering_Base::Which (void) const Which variant is currently selected. More...
void CNumbering_Base::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CNumbering_Base::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CNumbering_Base::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CNumbering_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CNumbering_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CNumbering_Base::IsCont (void) const Check if variant Cont is selected. More...
const TCont & CNumbering_Base::GetCont (void) const Get the variant data. More...
TCont & CNumbering_Base::SetCont (void) Select the variant. More...
void CNumbering_Base::SetCont (TCont &value) Select the variant and set its data. More...
bool CNumbering_Base::IsEnum (void) const Check if variant Enum is selected. More...
const TEnum & CNumbering_Base::GetEnum (void) const Get the variant data. More...
TEnum & CNumbering_Base::SetEnum (void) Select the variant. More...
void CNumbering_Base::SetEnum (TEnum &value) Select the variant and set its data. More...
bool CNumbering_Base::IsRef (void) const Check if variant Ref is selected. More...
const TRef & CNumbering_Base::GetRef (void) const Get the variant data. More...
TRef & CNumbering_Base::SetRef (void) Select the variant. More...
void CNumbering_Base::SetRef (TRef &value) Select the variant and set its data. More...
bool CNumbering_Base::IsReal (void) const Check if variant Real is selected. More...
const TReal & CNumbering_Base::GetReal (void) const Get the variant data. More...
TReal & CNumbering_Base::SetReal (void) Select the variant. More...
void CNumbering_Base::SetReal (TReal &value) Select the variant and set its data. More...
CNumbering_Base::CNumbering_Base (const CNumbering_Base &) CNumbering_Base & CNumbering_Base::operator= (const CNumbering_Base &) void CNumbering_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) CPubdesc_Base::CPubdesc_Base (void) virtual CPubdesc_Base::~CPubdesc_Base (void) CPubdesc_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CPubdesc_Base::EReftype (void) Access to EReftype's attributes (values, names) as defined in spec. More...
bool CPubdesc_Base::IsSetPub (void) const the citation(s) Check if a value has been assigned to Pub data member. More...
bool CPubdesc_Base::CanGetPub (void) const Check if it is safe to call GetPub method. More...
void CPubdesc_Base::ResetPub (void) Reset Pub data member. More...
const TPub & CPubdesc_Base::GetPub (void) const Get the Pub member data. More...
void CPubdesc_Base::SetPub (TPub &value) Assign a value to Pub data member. More...
TPub & CPubdesc_Base::SetPub (void) Assign a value to Pub data member. More...
bool CPubdesc_Base::IsSetName (void) const name used in paper Check if a value has been assigned to Name data member. More...
bool CPubdesc_Base::CanGetName (void) const Check if it is safe to call GetName method. More...
void CPubdesc_Base::ResetName (void) Reset Name data member. More...
const TName & CPubdesc_Base::GetName (void) const Get the Name member data. More...
void CPubdesc_Base::SetName (const TName &value) Assign a value to Name data member. More...
void CPubdesc_Base::SetName (TName &&value) TName & CPubdesc_Base::SetName (void) Assign a value to Name data member. More...
bool CPubdesc_Base::IsSetFig (void) const figure in paper Check if a value has been assigned to Fig data member. More...
bool CPubdesc_Base::CanGetFig (void) const Check if it is safe to call GetFig method. More...
void CPubdesc_Base::ResetFig (void) Reset Fig data member. More...
const TFig & CPubdesc_Base::GetFig (void) const Get the Fig member data. More...
void CPubdesc_Base::SetFig (const TFig &value) Assign a value to Fig data member. More...
void CPubdesc_Base::SetFig (TFig &&value) TFig & CPubdesc_Base::SetFig (void) Assign a value to Fig data member. More...
bool CPubdesc_Base::IsSetNum (void) const numbering from paper Check if a value has been assigned to Num data member. More...
bool CPubdesc_Base::CanGetNum (void) const Check if it is safe to call GetNum method. More...
void CPubdesc_Base::ResetNum (void) Reset Num data member. More...
const TNum & CPubdesc_Base::GetNum (void) const Get the Num member data. More...
void CPubdesc_Base::SetNum (TNum &value) Assign a value to Num data member. More...
TNum & CPubdesc_Base::SetNum (void) Assign a value to Num data member. More...
bool CPubdesc_Base::IsSetNumexc (void) const numbering problem with paper Check if a value has been assigned to Numexc data member. More...
bool CPubdesc_Base::CanGetNumexc (void) const Check if it is safe to call GetNumexc method. More...
void CPubdesc_Base::ResetNumexc (void) Reset Numexc data member. More...
TNumexc CPubdesc_Base::GetNumexc (void) const Get the Numexc member data. More...
void CPubdesc_Base::SetNumexc (TNumexc value) Assign a value to Numexc data member. More...
TNumexc & CPubdesc_Base::SetNumexc (void) Assign a value to Numexc data member. More...
bool CPubdesc_Base::IsSetPoly_a (void) const poly A tail indicated in figure? Check if a value has been assigned to Poly_a data member. More...
bool CPubdesc_Base::CanGetPoly_a (void) const Check if it is safe to call GetPoly_a method. More...
void CPubdesc_Base::ResetPoly_a (void) Reset Poly_a data member. More...
TPoly_a CPubdesc_Base::GetPoly_a (void) const Get the Poly_a member data. More...
void CPubdesc_Base::SetPoly_a (TPoly_a value) Assign a value to Poly_a data member. More...
TPoly_a & CPubdesc_Base::SetPoly_a (void) Assign a value to Poly_a data member. More...
bool CPubdesc_Base::IsSetMaploc (void) const map location reported in paper Check if a value has been assigned to Maploc data member. More...
bool CPubdesc_Base::CanGetMaploc (void) const Check if it is safe to call GetMaploc method. More...
void CPubdesc_Base::ResetMaploc (void) Reset Maploc data member. More...
const TMaploc & CPubdesc_Base::GetMaploc (void) const Get the Maploc member data. More...
void CPubdesc_Base::SetMaploc (const TMaploc &value) Assign a value to Maploc data member. More...
void CPubdesc_Base::SetMaploc (TMaploc &&value) TMaploc & CPubdesc_Base::SetMaploc (void) Assign a value to Maploc data member. More...
bool CPubdesc_Base::IsSetSeq_raw (void) const original sequence from paper Check if a value has been assigned to Seq_raw data member. More...
bool CPubdesc_Base::CanGetSeq_raw (void) const Check if it is safe to call GetSeq_raw method. More...
void CPubdesc_Base::ResetSeq_raw (void) Reset Seq_raw data member. More...
const TSeq_raw & CPubdesc_Base::GetSeq_raw (void) const Get the Seq_raw member data. More...
void CPubdesc_Base::SetSeq_raw (const TSeq_raw &value) Assign a value to Seq_raw data member. More...
void CPubdesc_Base::SetSeq_raw (TSeq_raw &&value) TSeq_raw & CPubdesc_Base::SetSeq_raw (void) Assign a value to Seq_raw data member. More...
bool CPubdesc_Base::IsSetAlign_group (void) const this seq aligned with others in paper Check if a value has been assigned to Align_group data member. More...
bool CPubdesc_Base::CanGetAlign_group (void) const Check if it is safe to call GetAlign_group method. More...
void CPubdesc_Base::ResetAlign_group (void) Reset Align_group data member. More...
TAlign_group CPubdesc_Base::GetAlign_group (void) const Get the Align_group member data. More...
void CPubdesc_Base::SetAlign_group (TAlign_group value) Assign a value to Align_group data member. More...
TAlign_group & CPubdesc_Base::SetAlign_group (void) Assign a value to Align_group data member. More...
bool CPubdesc_Base::IsSetComment (void) const any comment on this pub in context Check if a value has been assigned to Comment data member. More...
bool CPubdesc_Base::CanGetComment (void) const Check if it is safe to call GetComment method. More...
void CPubdesc_Base::ResetComment (void) Reset Comment data member. More...
const TComment & CPubdesc_Base::GetComment (void) const Get the Comment member data. More...
void CPubdesc_Base::SetComment (const TComment &value) Assign a value to Comment data member. More...
void CPubdesc_Base::SetComment (TComment &&value) TComment & CPubdesc_Base::SetComment (void) Assign a value to Comment data member. More...
bool CPubdesc_Base::IsSetReftype (void) const Check if a value has been assigned to Reftype data member. More...
bool CPubdesc_Base::CanGetReftype (void) const Check if it is safe to call GetReftype method. More...
void CPubdesc_Base::ResetReftype (void) Reset Reftype data member. More...
void CPubdesc_Base::SetDefaultReftype (void) Assign default value to Reftype data member. More...
TReftype CPubdesc_Base::GetReftype (void) const Get the Reftype member data. More...
void CPubdesc_Base::SetReftype (TReftype value) Assign a value to Reftype data member. More...
TReftype & CPubdesc_Base::SetReftype (void) Assign a value to Reftype data member. More...
virtual void CPubdesc_Base::Reset (void) Reset the whole object. More...
CPubdesc_Base::CPubdesc_Base (const CPubdesc_Base &) CPubdesc_Base & CPubdesc_Base::operator= (const CPubdesc_Base &) CRef_ext::CRef_ext (void) CRef_ext_Base::CRef_ext_Base (void) CRef_ext_Base::DECLARE_INTERNAL_TYPE_INFO () const CSeq_loc & CRef_ext_Base::Get (void) const CSeq_loc & CRef_ext_Base::Set (void) CSeg_ext::CSeg_ext (void) CSeg_ext::~CSeg_ext (void) CSeg_ext::CSeg_ext (const CSeg_ext &value) CSeg_ext & CSeg_ext::operator= (const CSeg_ext &value) CSeg_ext_Base::CSeg_ext_Base (void) virtual CSeg_ext_Base::~CSeg_ext_Base (void) CSeg_ext_Base::DECLARE_INTERNAL_TYPE_INFO () bool CSeg_ext_Base::IsSet (void) const Check if a value has been assigned to data member. More...
bool CSeg_ext_Base::CanGet (void) const Check if it is safe to call Get method. More...
void CSeg_ext_Base::Reset (void) Reset data member. More...
const Tdata & CSeg_ext_Base::Get (void) const Get the member data. More...
Tdata & CSeg_ext_Base::Set (void) Assign a value to data member. More...
CSeg_ext_Base::operator const Tdata & (void) const Conversion operator to 'const Tdata' type. More...
CSeg_ext_Base::operator Tdata & (void) Conversion operator to 'Tdata' type. More...
CSeg_ext_Base::CSeg_ext_Base (const CSeg_ext_Base &) CSeg_ext_Base & CSeg_ext_Base::operator= (const CSeg_ext_Base &) CSeq_annot_Base::CSeq_annot_Base (void) virtual CSeq_annot_Base::~CSeq_annot_Base (void) CSeq_annot_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CSeq_annot_Base::EDb (void) Access to EDb's attributes (values, names) as defined in spec. More...
CSeq_annot_Base::C_Data::C_Data (void) CSeq_annot_Base::C_Data::~C_Data (void) CSeq_annot_Base::C_Data::DECLARE_INTERNAL_TYPE_INFO () void CSeq_annot_Base::C_Data::Reset (void) Reset the whole object. More...
void CSeq_annot_Base::C_Data::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CSeq_annot_Base::C_Data::Which (void) const Which variant is currently selected. More...
void CSeq_annot_Base::C_Data::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CSeq_annot_Base::C_Data::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CSeq_annot_Base::C_Data::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CSeq_annot_Base::C_Data::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CSeq_annot_Base::C_Data::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CSeq_annot_Base::C_Data::IsFtable (void) const Check if variant Ftable is selected. More...
const TFtable & CSeq_annot_Base::C_Data::GetFtable (void) const Get the variant data. More...
TFtable & CSeq_annot_Base::C_Data::SetFtable (void) Select the variant. More...
bool CSeq_annot_Base::C_Data::IsAlign (void) const Check if variant Align is selected. More...
const TAlign & CSeq_annot_Base::C_Data::GetAlign (void) const Get the variant data. More...
TAlign & CSeq_annot_Base::C_Data::SetAlign (void) Select the variant. More...
bool CSeq_annot_Base::C_Data::IsGraph (void) const Check if variant Graph is selected. More...
const TGraph & CSeq_annot_Base::C_Data::GetGraph (void) const Get the variant data. More...
TGraph & CSeq_annot_Base::C_Data::SetGraph (void) Select the variant. More...
bool CSeq_annot_Base::C_Data::IsIds (void) const Check if variant Ids is selected. More...
const TIds & CSeq_annot_Base::C_Data::GetIds (void) const Get the variant data. More...
TIds & CSeq_annot_Base::C_Data::SetIds (void) Select the variant. More...
bool CSeq_annot_Base::C_Data::IsLocs (void) const Check if variant Locs is selected. More...
const TLocs & CSeq_annot_Base::C_Data::GetLocs (void) const Get the variant data. More...
TLocs & CSeq_annot_Base::C_Data::SetLocs (void) Select the variant. More...
bool CSeq_annot_Base::C_Data::IsSeq_table (void) const Check if variant Seq_table is selected. More...
const TSeq_table & CSeq_annot_Base::C_Data::GetSeq_table (void) const Get the variant data. More...
TSeq_table & CSeq_annot_Base::C_Data::SetSeq_table (void) Select the variant. More...
void CSeq_annot_Base::C_Data::SetSeq_table (TSeq_table &value) Select the variant and set its data. More...
CSeq_annot_Base::C_Data::C_Data (const C_Data &) C_Data & CSeq_annot_Base::C_Data::operator= (const C_Data &) void CSeq_annot_Base::C_Data::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) bool CSeq_annot_Base::IsSetId (void) const Check if a value has been assigned to Id data member. More...
bool CSeq_annot_Base::CanGetId (void) const Check if it is safe to call GetId method. More...
void CSeq_annot_Base::ResetId (void) Reset Id data member. More...
const TId & CSeq_annot_Base::GetId (void) const Get the Id member data. More...
TId & CSeq_annot_Base::SetId (void) Assign a value to Id data member. More...
bool CSeq_annot_Base::IsSetDb (void) const Check if a value has been assigned to Db data member. More...
bool CSeq_annot_Base::CanGetDb (void) const Check if it is safe to call GetDb method. More...
void CSeq_annot_Base::ResetDb (void) Reset Db data member. More...
TDb CSeq_annot_Base::GetDb (void) const Get the Db member data. More...
void CSeq_annot_Base::SetDb (TDb value) Assign a value to Db data member. More...
TDb & CSeq_annot_Base::SetDb (void) Assign a value to Db data member. More...
bool CSeq_annot_Base::IsSetName (void) const source if "other" above Check if a value has been assigned to Name data member. More...
bool CSeq_annot_Base::CanGetName (void) const Check if it is safe to call GetName method. More...
void CSeq_annot_Base::ResetName (void) Reset Name data member. More...
const TName & CSeq_annot_Base::GetName (void) const Get the Name member data. More...
void CSeq_annot_Base::SetName (const TName &value) Assign a value to Name data member. More...
void CSeq_annot_Base::SetName (TName &&value) TName & CSeq_annot_Base::SetName (void) Assign a value to Name data member. More...
bool CSeq_annot_Base::IsSetDesc (void) const used only for stand alone Seq-annots Check if a value has been assigned to Desc data member. More...
bool CSeq_annot_Base::CanGetDesc (void) const Check if it is safe to call GetDesc method. More...
void CSeq_annot_Base::ResetDesc (void) Reset Desc data member. More...
const TDesc & CSeq_annot_Base::GetDesc (void) const Get the Desc member data. More...
void CSeq_annot_Base::SetDesc (TDesc &value) Assign a value to Desc data member. More...
TDesc & CSeq_annot_Base::SetDesc (void) Assign a value to Desc data member. More...
bool CSeq_annot_Base::IsSetData (void) const Check if a value has been assigned to Data data member. More...
bool CSeq_annot_Base::CanGetData (void) const Check if it is safe to call GetData method. More...
void CSeq_annot_Base::ResetData (void) Reset Data data member. More...
const TData & CSeq_annot_Base::GetData (void) const Get the Data member data. More...
void CSeq_annot_Base::SetData (TData &value) Assign a value to Data data member. More...
TData & CSeq_annot_Base::SetData (void) Assign a value to Data data member. More...
virtual void CSeq_annot_Base::Reset (void) Reset the whole object. More...
CSeq_annot_Base::CSeq_annot_Base (const CSeq_annot_Base &) CSeq_annot_Base & CSeq_annot_Base::operator= (const CSeq_annot_Base &) CSeq_data_Base::CSeq_data_Base (void) virtual CSeq_data_Base::~CSeq_data_Base (void) CSeq_data_Base::DECLARE_INTERNAL_TYPE_INFO () virtual void CSeq_data_Base::Reset (void) Reset the whole object. More...
virtual void CSeq_data_Base::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CSeq_data_Base::Which (void) const Which variant is currently selected. More...
void CSeq_data_Base::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CSeq_data_Base::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CSeq_data_Base::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CSeq_data_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CSeq_data_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CSeq_data_Base::IsIupacna (void) const Check if variant Iupacna is selected. More...
const TIupacna & CSeq_data_Base::GetIupacna (void) const Get the variant data. More...
TIupacna & CSeq_data_Base::SetIupacna (void) Select the variant. More...
void CSeq_data_Base::SetIupacna (const TIupacna &value) Select the variant and set its data. More...
bool CSeq_data_Base::IsIupacaa (void) const Check if variant Iupacaa is selected. More...
const TIupacaa & CSeq_data_Base::GetIupacaa (void) const Get the variant data. More...
TIupacaa & CSeq_data_Base::SetIupacaa (void) Select the variant. More...
void CSeq_data_Base::SetIupacaa (const TIupacaa &value) Select the variant and set its data. More...
bool CSeq_data_Base::IsNcbi2na (void) const Check if variant Ncbi2na is selected. More...
const TNcbi2na & CSeq_data_Base::GetNcbi2na (void) const Get the variant data. More...
TNcbi2na & CSeq_data_Base::SetNcbi2na (void) Select the variant. More...
bool CSeq_data_Base::IsNcbi4na (void) const Check if variant Ncbi4na is selected. More...
const TNcbi4na & CSeq_data_Base::GetNcbi4na (void) const Get the variant data. More...
TNcbi4na & CSeq_data_Base::SetNcbi4na (void) Select the variant. More...
bool CSeq_data_Base::IsNcbi8na (void) const Check if variant Ncbi8na is selected. More...
const TNcbi8na & CSeq_data_Base::GetNcbi8na (void) const Get the variant data. More...
TNcbi8na & CSeq_data_Base::SetNcbi8na (void) Select the variant. More...
bool CSeq_data_Base::IsNcbipna (void) const Check if variant Ncbipna is selected. More...
const TNcbipna & CSeq_data_Base::GetNcbipna (void) const Get the variant data. More...
TNcbipna & CSeq_data_Base::SetNcbipna (void) Select the variant. More...
bool CSeq_data_Base::IsNcbi8aa (void) const Check if variant Ncbi8aa is selected. More...
const TNcbi8aa & CSeq_data_Base::GetNcbi8aa (void) const Get the variant data. More...
TNcbi8aa & CSeq_data_Base::SetNcbi8aa (void) Select the variant. More...
bool CSeq_data_Base::IsNcbieaa (void) const Check if variant Ncbieaa is selected. More...
const TNcbieaa & CSeq_data_Base::GetNcbieaa (void) const Get the variant data. More...
TNcbieaa & CSeq_data_Base::SetNcbieaa (void) Select the variant. More...
void CSeq_data_Base::SetNcbieaa (const TNcbieaa &value) Select the variant and set its data. More...
bool CSeq_data_Base::IsNcbipaa (void) const Check if variant Ncbipaa is selected. More...
const TNcbipaa & CSeq_data_Base::GetNcbipaa (void) const Get the variant data. More...
TNcbipaa & CSeq_data_Base::SetNcbipaa (void) Select the variant. More...
bool CSeq_data_Base::IsNcbistdaa (void) const Check if variant Ncbistdaa is selected. More...
const TNcbistdaa & CSeq_data_Base::GetNcbistdaa (void) const Get the variant data. More...
TNcbistdaa & CSeq_data_Base::SetNcbistdaa (void) Select the variant. More...
bool CSeq_data_Base::IsGap (void) const Check if variant Gap is selected. More...
const TGap & CSeq_data_Base::GetGap (void) const Get the variant data. More...
TGap & CSeq_data_Base::SetGap (void) Select the variant. More...
void CSeq_data_Base::SetGap (TGap &value) Select the variant and set its data. More...
CSeq_data_Base::CSeq_data_Base (const CSeq_data_Base &) CSeq_data_Base & CSeq_data_Base::operator= (const CSeq_data_Base &) void CSeq_data_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) CSeq_descr_Base::CSeq_descr_Base (void) virtual CSeq_descr_Base::~CSeq_descr_Base (void) CSeq_descr_Base::DECLARE_INTERNAL_TYPE_INFO () bool CSeq_descr_Base::IsSet (void) const Check if a value has been assigned to data member. More...
bool CSeq_descr_Base::CanGet (void) const Check if it is safe to call Get method. More...
void CSeq_descr_Base::Reset (void) Reset data member. More...
const Tdata & CSeq_descr_Base::Get (void) const Get the member data. More...
Tdata & CSeq_descr_Base::Set (void) Assign a value to data member. More...
CSeq_descr_Base::operator const Tdata & (void) const Conversion operator to 'const Tdata' type. More...
CSeq_descr_Base::operator Tdata & (void) Conversion operator to 'Tdata' type. More...
CSeq_descr_Base::CSeq_descr_Base (const CSeq_descr_Base &) CSeq_descr_Base & CSeq_descr_Base::operator= (const CSeq_descr_Base &) CSeq_ext::CSeq_ext (void) CSeq_ext::~CSeq_ext (void) CSeq_ext::CSeq_ext (const CSeq_ext &value) CSeq_ext & CSeq_ext::operator= (const CSeq_ext &value) CSeq_ext_Base::CSeq_ext_Base (void) virtual CSeq_ext_Base::~CSeq_ext_Base (void) CSeq_ext_Base::DECLARE_INTERNAL_TYPE_INFO () virtual void CSeq_ext_Base::Reset (void) Reset the whole object. More...
virtual void CSeq_ext_Base::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CSeq_ext_Base::Which (void) const Which variant is currently selected. More...
void CSeq_ext_Base::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CSeq_ext_Base::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CSeq_ext_Base::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CSeq_ext_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CSeq_ext_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CSeq_ext_Base::IsSeg (void) const Check if variant Seg is selected. More...
const TSeg & CSeq_ext_Base::GetSeg (void) const Get the variant data. More...
TSeg & CSeq_ext_Base::SetSeg (void) Select the variant. More...
void CSeq_ext_Base::SetSeg (TSeg &value) Select the variant and set its data. More...
bool CSeq_ext_Base::IsRef (void) const Check if variant Ref is selected. More...
const TRef & CSeq_ext_Base::GetRef (void) const Get the variant data. More...
TRef & CSeq_ext_Base::SetRef (void) Select the variant. More...
void CSeq_ext_Base::SetRef (TRef &value) Select the variant and set its data. More...
bool CSeq_ext_Base::IsMap (void) const Check if variant Map is selected. More...
const TMap & CSeq_ext_Base::GetMap (void) const Get the variant data. More...
TMap & CSeq_ext_Base::SetMap (void) Select the variant. More...
void CSeq_ext_Base::SetMap (TMap &value) Select the variant and set its data. More...
bool CSeq_ext_Base::IsDelta (void) const Check if variant Delta is selected. More...
const TDelta & CSeq_ext_Base::GetDelta (void) const Get the variant data. More...
TDelta & CSeq_ext_Base::SetDelta (void) Select the variant. More...
void CSeq_ext_Base::SetDelta (TDelta &value) Select the variant and set its data. More...
CSeq_ext_Base::CSeq_ext_Base (const CSeq_ext_Base &) CSeq_ext_Base & CSeq_ext_Base::operator= (const CSeq_ext_Base &) void CSeq_ext_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) CSeq_gap_Base::CSeq_gap_Base (void) virtual CSeq_gap_Base::~CSeq_gap_Base (void) CSeq_gap_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CSeq_gap_Base::EType (void) Access to EType's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CSeq_gap_Base::ELinkage (void) Access to ELinkage's attributes (values, names) as defined in spec. More...
bool CSeq_gap_Base::IsSetType (void) const Check if a value has been assigned to Type data member. More...
bool CSeq_gap_Base::CanGetType (void) const Check if it is safe to call GetType method. More...
void CSeq_gap_Base::ResetType (void) Reset Type data member. More...
TType CSeq_gap_Base::GetType (void) const Get the Type member data. More...
void CSeq_gap_Base::SetType (TType value) Assign a value to Type data member. More...
TType & CSeq_gap_Base::SetType (void) Assign a value to Type data member. More...
bool CSeq_gap_Base::IsSetLinkage (void) const Check if a value has been assigned to Linkage data member. More...
bool CSeq_gap_Base::CanGetLinkage (void) const Check if it is safe to call GetLinkage method. More...
void CSeq_gap_Base::ResetLinkage (void) Reset Linkage data member. More...
TLinkage CSeq_gap_Base::GetLinkage (void) const Get the Linkage member data. More...
void CSeq_gap_Base::SetLinkage (TLinkage value) Assign a value to Linkage data member. More...
TLinkage & CSeq_gap_Base::SetLinkage (void) Assign a value to Linkage data member. More...
bool CSeq_gap_Base::IsSetLinkage_evidence (void) const Check if a value has been assigned to Linkage_evidence data member. More...
bool CSeq_gap_Base::CanGetLinkage_evidence (void) const Check if it is safe to call GetLinkage_evidence method. More...
void CSeq_gap_Base::ResetLinkage_evidence (void) Reset Linkage_evidence data member. More...
const TLinkage_evidence & CSeq_gap_Base::GetLinkage_evidence (void) const Get the Linkage_evidence member data. More...
TLinkage_evidence & CSeq_gap_Base::SetLinkage_evidence (void) Assign a value to Linkage_evidence data member. More...
virtual void CSeq_gap_Base::Reset (void) Reset the whole object. More...
CSeq_gap_Base::CSeq_gap_Base (const CSeq_gap_Base &) CSeq_gap_Base & CSeq_gap_Base::operator= (const CSeq_gap_Base &) CSeq_hist::CSeq_hist (void) CSeq_hist::~CSeq_hist (void) CSeq_hist::CSeq_hist (const CSeq_hist &value) CSeq_hist & CSeq_hist::operator= (const CSeq_hist &value) CSeq_hist_Base::CSeq_hist_Base (void) virtual CSeq_hist_Base::~CSeq_hist_Base (void) CSeq_hist_Base::DECLARE_INTERNAL_TYPE_INFO () CSeq_hist_Base::C_Deleted::C_Deleted (void) CSeq_hist_Base::C_Deleted::~C_Deleted (void) CSeq_hist_Base::C_Deleted::DECLARE_INTERNAL_TYPE_INFO () void CSeq_hist_Base::C_Deleted::Reset (void) Reset the whole object. More...
void CSeq_hist_Base::C_Deleted::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CSeq_hist_Base::C_Deleted::Which (void) const Which variant is currently selected. More...
void CSeq_hist_Base::C_Deleted::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CSeq_hist_Base::C_Deleted::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CSeq_hist_Base::C_Deleted::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CSeq_hist_Base::C_Deleted::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CSeq_hist_Base::C_Deleted::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CSeq_hist_Base::C_Deleted::IsBool (void) const Check if variant Bool is selected. More...
TBool CSeq_hist_Base::C_Deleted::GetBool (void) const Get the variant data. More...
TBool & CSeq_hist_Base::C_Deleted::SetBool (void) Select the variant. More...
void CSeq_hist_Base::C_Deleted::SetBool (TBool value) Select the variant and set its data. More...
bool CSeq_hist_Base::C_Deleted::IsDate (void) const Check if variant Date is selected. More...
const TDate & CSeq_hist_Base::C_Deleted::GetDate (void) const Get the variant data. More...
TDate & CSeq_hist_Base::C_Deleted::SetDate (void) Select the variant. More...
void CSeq_hist_Base::C_Deleted::SetDate (TDate &value) Select the variant and set its data. More...
CSeq_hist_Base::C_Deleted::C_Deleted (const C_Deleted &) C_Deleted & CSeq_hist_Base::C_Deleted::operator= (const C_Deleted &) void CSeq_hist_Base::C_Deleted::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) bool CSeq_hist_Base::IsSetAssembly (void) const how was this assembled? Check if a value has been assigned to Assembly data member. More...
bool CSeq_hist_Base::CanGetAssembly (void) const Check if it is safe to call GetAssembly method. More...
void CSeq_hist_Base::ResetAssembly (void) Reset Assembly data member. More...
const TAssembly & CSeq_hist_Base::GetAssembly (void) const Get the Assembly member data. More...
TAssembly & CSeq_hist_Base::SetAssembly (void) Assign a value to Assembly data member. More...
bool CSeq_hist_Base::IsSetReplaces (void) const seq makes these seqs obsolete Check if a value has been assigned to Replaces data member. More...
bool CSeq_hist_Base::CanGetReplaces (void) const Check if it is safe to call GetReplaces method. More...
void CSeq_hist_Base::ResetReplaces (void) Reset Replaces data member. More...
const TReplaces & CSeq_hist_Base::GetReplaces (void) const Get the Replaces member data. More...
void CSeq_hist_Base::SetReplaces (TReplaces &value) Assign a value to Replaces data member. More...
TReplaces & CSeq_hist_Base::SetReplaces (void) Assign a value to Replaces data member. More...
bool CSeq_hist_Base::IsSetReplaced_by (void) const these seqs make this one obsolete Check if a value has been assigned to Replaced_by data member. More...
bool CSeq_hist_Base::CanGetReplaced_by (void) const Check if it is safe to call GetReplaced_by method. More...
void CSeq_hist_Base::ResetReplaced_by (void) Reset Replaced_by data member. More...
const TReplaced_by & CSeq_hist_Base::GetReplaced_by (void) const Get the Replaced_by member data. More...
void CSeq_hist_Base::SetReplaced_by (TReplaced_by &value) Assign a value to Replaced_by data member. More...
TReplaced_by & CSeq_hist_Base::SetReplaced_by (void) Assign a value to Replaced_by data member. More...
bool CSeq_hist_Base::IsSetDeleted (void) const Check if a value has been assigned to Deleted data member. More...
bool CSeq_hist_Base::CanGetDeleted (void) const Check if it is safe to call GetDeleted method. More...
void CSeq_hist_Base::ResetDeleted (void) Reset Deleted data member. More...
const TDeleted & CSeq_hist_Base::GetDeleted (void) const Get the Deleted member data. More...
void CSeq_hist_Base::SetDeleted (TDeleted &value) Assign a value to Deleted data member. More...
TDeleted & CSeq_hist_Base::SetDeleted (void) Assign a value to Deleted data member. More...
virtual void CSeq_hist_Base::Reset (void) Reset the whole object. More...
CSeq_hist_Base::CSeq_hist_Base (const CSeq_hist_Base &) CSeq_hist_Base & CSeq_hist_Base::operator= (const CSeq_hist_Base &) CSeq_hist_rec::CSeq_hist_rec (void) CSeq_hist_rec::~CSeq_hist_rec (void) CSeq_hist_rec::CSeq_hist_rec (const CSeq_hist_rec &value) CSeq_hist_rec & CSeq_hist_rec::operator= (const CSeq_hist_rec &value) CSeq_hist_rec_Base::CSeq_hist_rec_Base (void) virtual CSeq_hist_rec_Base::~CSeq_hist_rec_Base (void) CSeq_hist_rec_Base::DECLARE_INTERNAL_TYPE_INFO () bool CSeq_hist_rec_Base::IsSetDate (void) const Check if a value has been assigned to Date data member. More...
bool CSeq_hist_rec_Base::CanGetDate (void) const Check if it is safe to call GetDate method. More...
void CSeq_hist_rec_Base::ResetDate (void) Reset Date data member. More...
const TDate & CSeq_hist_rec_Base::GetDate (void) const Get the Date member data. More...
void CSeq_hist_rec_Base::SetDate (TDate &value) Assign a value to Date data member. More...
TDate & CSeq_hist_rec_Base::SetDate (void) Assign a value to Date data member. More...
bool CSeq_hist_rec_Base::IsSetIds (void) const Check if a value has been assigned to Ids data member. More...
bool CSeq_hist_rec_Base::CanGetIds (void) const Check if it is safe to call GetIds method. More...
void CSeq_hist_rec_Base::ResetIds (void) Reset Ids data member. More...
const TIds & CSeq_hist_rec_Base::GetIds (void) const Get the Ids member data. More...
TIds & CSeq_hist_rec_Base::SetIds (void) Assign a value to Ids data member. More...
virtual void CSeq_hist_rec_Base::Reset (void) Reset the whole object. More...
CSeq_hist_rec_Base::CSeq_hist_rec_Base (const CSeq_hist_rec_Base &) CSeq_hist_rec_Base & CSeq_hist_rec_Base::operator= (const CSeq_hist_rec_Base &) CSeq_inst_Base::CSeq_inst_Base (void) virtual CSeq_inst_Base::~CSeq_inst_Base (void) CSeq_inst_Base::DECLARE_INTERNAL_TYPE_INFO () static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CSeq_inst_Base::ERepr (void) Access to ERepr's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CSeq_inst_Base::EMol (void) Access to EMol's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CSeq_inst_Base::ETopology (void) Access to ETopology's attributes (values, names) as defined in spec. More...
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CSeq_inst_Base::EStrand (void) Access to EStrand's attributes (values, names) as defined in spec. More...
bool CSeq_inst_Base::IsSetRepr (void) const Check if a value has been assigned to Repr data member. More...
bool CSeq_inst_Base::CanGetRepr (void) const Check if it is safe to call GetRepr method. More...
void CSeq_inst_Base::ResetRepr (void) Reset Repr data member. More...
TRepr CSeq_inst_Base::GetRepr (void) const Get the Repr member data. More...
void CSeq_inst_Base::SetRepr (TRepr value) Assign a value to Repr data member. More...
TRepr & CSeq_inst_Base::SetRepr (void) Assign a value to Repr data member. More...
bool CSeq_inst_Base::IsSetMol (void) const Check if a value has been assigned to Mol data member. More...
bool CSeq_inst_Base::CanGetMol (void) const Check if it is safe to call GetMol method. More...
void CSeq_inst_Base::ResetMol (void) Reset Mol data member. More...
TMol CSeq_inst_Base::GetMol (void) const Get the Mol member data. More...
void CSeq_inst_Base::SetMol (TMol value) Assign a value to Mol data member. More...
TMol & CSeq_inst_Base::SetMol (void) Assign a value to Mol data member. More...
bool CSeq_inst_Base::IsSetLength (void) const length of sequence in residues Check if a value has been assigned to Length data member. More...
bool CSeq_inst_Base::CanGetLength (void) const Check if it is safe to call GetLength method. More...
void CSeq_inst_Base::ResetLength (void) Reset Length data member. More...
TLength CSeq_inst_Base::GetLength (void) const Get the Length member data. More...
void CSeq_inst_Base::SetLength (TLength value) Assign a value to Length data member. More...
TLength & CSeq_inst_Base::SetLength (void) Assign a value to Length data member. More...
bool CSeq_inst_Base::IsSetFuzz (void) const length uncertainty Check if a value has been assigned to Fuzz data member. More...
bool CSeq_inst_Base::CanGetFuzz (void) const Check if it is safe to call GetFuzz method. More...
void CSeq_inst_Base::ResetFuzz (void) Reset Fuzz data member. More...
const TFuzz & CSeq_inst_Base::GetFuzz (void) const Get the Fuzz member data. More...
void CSeq_inst_Base::SetFuzz (TFuzz &value) Assign a value to Fuzz data member. More...
TFuzz & CSeq_inst_Base::SetFuzz (void) Assign a value to Fuzz data member. More...
bool CSeq_inst_Base::IsSetTopology (void) const Check if a value has been assigned to Topology data member. More...
bool CSeq_inst_Base::CanGetTopology (void) const Check if it is safe to call GetTopology method. More...
void CSeq_inst_Base::ResetTopology (void) Reset Topology data member. More...
void CSeq_inst_Base::SetDefaultTopology (void) Assign default value to Topology data member. More...
TTopology CSeq_inst_Base::GetTopology (void) const Get the Topology member data. More...
void CSeq_inst_Base::SetTopology (TTopology value) Assign a value to Topology data member. More...
TTopology & CSeq_inst_Base::SetTopology (void) Assign a value to Topology data member. More...
bool CSeq_inst_Base::IsSetStrand (void) const Check if a value has been assigned to Strand data member. More...
bool CSeq_inst_Base::CanGetStrand (void) const Check if it is safe to call GetStrand method. More...
void CSeq_inst_Base::ResetStrand (void) Reset Strand data member. More...
TStrand CSeq_inst_Base::GetStrand (void) const Get the Strand member data. More...
void CSeq_inst_Base::SetStrand (TStrand value) Assign a value to Strand data member. More...
TStrand & CSeq_inst_Base::SetStrand (void) Assign a value to Strand data member. More...
bool CSeq_inst_Base::IsSetSeq_data (void) const the sequence Check if a value has been assigned to Seq_data data member. More...
bool CSeq_inst_Base::CanGetSeq_data (void) const Check if it is safe to call GetSeq_data method. More...
void CSeq_inst_Base::ResetSeq_data (void) Reset Seq_data data member. More...
const TSeq_data & CSeq_inst_Base::GetSeq_data (void) const Get the Seq_data member data. More...
void CSeq_inst_Base::SetSeq_data (TSeq_data &value) Assign a value to Seq_data data member. More...
TSeq_data & CSeq_inst_Base::SetSeq_data (void) Assign a value to Seq_data data member. More...
bool CSeq_inst_Base::IsSetExt (void) const extensions for special types Check if a value has been assigned to Ext data member. More...
bool CSeq_inst_Base::CanGetExt (void) const Check if it is safe to call GetExt method. More...
void CSeq_inst_Base::ResetExt (void) Reset Ext data member. More...
const TExt & CSeq_inst_Base::GetExt (void) const Get the Ext member data. More...
void CSeq_inst_Base::SetExt (TExt &value) Assign a value to Ext data member. More...
TExt & CSeq_inst_Base::SetExt (void) Assign a value to Ext data member. More...
bool CSeq_inst_Base::IsSetHist (void) const sequence history Check if a value has been assigned to Hist data member. More...
bool CSeq_inst_Base::CanGetHist (void) const Check if it is safe to call GetHist method. More...
void CSeq_inst_Base::ResetHist (void) Reset Hist data member. More...
const THist & CSeq_inst_Base::GetHist (void) const Get the Hist member data. More...
void CSeq_inst_Base::SetHist (THist &value) Assign a value to Hist data member. More...
THist & CSeq_inst_Base::SetHist (void) Assign a value to Hist data member. More...
virtual void CSeq_inst_Base::Reset (void) Reset the whole object. More...
CSeq_inst_Base::CSeq_inst_Base (const CSeq_inst_Base &) CSeq_inst_Base & CSeq_inst_Base::operator= (const CSeq_inst_Base &) CSeq_literal_Base::CSeq_literal_Base (void) virtual CSeq_literal_Base::~CSeq_literal_Base (void) CSeq_literal_Base::DECLARE_INTERNAL_TYPE_INFO () bool CSeq_literal_Base::IsSetLength (void) const must give a length in residues Check if a value has been assigned to Length data member. More...
bool CSeq_literal_Base::CanGetLength (void) const Check if it is safe to call GetLength method. More...
void CSeq_literal_Base::ResetLength (void) Reset Length data member. More...
TLength CSeq_literal_Base::GetLength (void) const Get the Length member data. More...
void CSeq_literal_Base::SetLength (TLength value) Assign a value to Length data member. More...
TLength & CSeq_literal_Base::SetLength (void) Assign a value to Length data member. More...
bool CSeq_literal_Base::IsSetFuzz (void) const could be unsure Check if a value has been assigned to Fuzz data member. More...
bool CSeq_literal_Base::CanGetFuzz (void) const Check if it is safe to call GetFuzz method. More...
void CSeq_literal_Base::ResetFuzz (void) Reset Fuzz data member. More...
const TFuzz & CSeq_literal_Base::GetFuzz (void) const Get the Fuzz member data. More...
void CSeq_literal_Base::SetFuzz (TFuzz &value) Assign a value to Fuzz data member. More...
TFuzz & CSeq_literal_Base::SetFuzz (void) Assign a value to Fuzz data member. More...
bool CSeq_literal_Base::IsSetSeq_data (void) const may have the data Check if a value has been assigned to Seq_data data member. More...
bool CSeq_literal_Base::CanGetSeq_data (void) const Check if it is safe to call GetSeq_data method. More...
void CSeq_literal_Base::ResetSeq_data (void) Reset Seq_data data member. More...
const TSeq_data & CSeq_literal_Base::GetSeq_data (void) const Get the Seq_data member data. More...
void CSeq_literal_Base::SetSeq_data (TSeq_data &value) Assign a value to Seq_data data member. More...
TSeq_data & CSeq_literal_Base::SetSeq_data (void) Assign a value to Seq_data data member. More...
virtual void CSeq_literal_Base::Reset (void) Reset the whole object. More...
CSeq_literal_Base::CSeq_literal_Base (const CSeq_literal_Base &) CSeq_literal_Base & CSeq_literal_Base::operator= (const CSeq_literal_Base &) CSeqdesc_Base::CSeqdesc_Base (void) virtual CSeqdesc_Base::~CSeqdesc_Base (void) CSeqdesc_Base::DECLARE_INTERNAL_TYPE_INFO () virtual void CSeqdesc_Base::Reset (void) Reset the whole object. More...
virtual void CSeqdesc_Base::ResetSelection (void) Reset the selection (set it to e_not_set). More...
E_Choice CSeqdesc_Base::Which (void) const Which variant is currently selected. More...
void CSeqdesc_Base::CheckSelected (E_Choice index) const Verify selection, throw exception if it differs from the expected. More...
void CSeqdesc_Base::ThrowInvalidSelection (E_Choice index) const Throw 'InvalidSelection' exception. More...
static string CSeqdesc_Base::SelectionName (E_Choice index) Retrieve selection name (for diagnostic purposes). More...
void CSeqdesc_Base::Select (E_Choice index, EResetVariant reset=eDoResetVariant) Select the requested variant if needed. More...
void CSeqdesc_Base::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool) Select the requested variant if needed, allocating CObject variants from memory pool. More...
bool CSeqdesc_Base::IsMol_type (void) const Check if variant Mol_type is selected. More...
TMol_type CSeqdesc_Base::GetMol_type (void) const Get the variant data. More...
TMol_type & CSeqdesc_Base::SetMol_type (void) Select the variant. More...
void CSeqdesc_Base::SetMol_type (TMol_type value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsModif (void) const Check if variant Modif is selected. More...
const TModif & CSeqdesc_Base::GetModif (void) const Get the variant data. More...
TModif & CSeqdesc_Base::SetModif (void) Select the variant. More...
bool CSeqdesc_Base::IsMethod (void) const Check if variant Method is selected. More...
TMethod CSeqdesc_Base::GetMethod (void) const Get the variant data. More...
TMethod & CSeqdesc_Base::SetMethod (void) Select the variant. More...
void CSeqdesc_Base::SetMethod (TMethod value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsName (void) const Check if variant Name is selected. More...
const TName & CSeqdesc_Base::GetName (void) const Get the variant data. More...
TName & CSeqdesc_Base::SetName (void) Select the variant. More...
void CSeqdesc_Base::SetName (const TName &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsTitle (void) const Check if variant Title is selected. More...
const TTitle & CSeqdesc_Base::GetTitle (void) const Get the variant data. More...
TTitle & CSeqdesc_Base::SetTitle (void) Select the variant. More...
void CSeqdesc_Base::SetTitle (const TTitle &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsOrg (void) const Check if variant Org is selected. More...
const TOrg & CSeqdesc_Base::GetOrg (void) const Get the variant data. More...
TOrg & CSeqdesc_Base::SetOrg (void) Select the variant. More...
void CSeqdesc_Base::SetOrg (TOrg &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsComment (void) const Check if variant Comment is selected. More...
const TComment & CSeqdesc_Base::GetComment (void) const Get the variant data. More...
TComment & CSeqdesc_Base::SetComment (void) Select the variant. More...
void CSeqdesc_Base::SetComment (const TComment &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsNum (void) const Check if variant Num is selected. More...
const TNum & CSeqdesc_Base::GetNum (void) const Get the variant data. More...
TNum & CSeqdesc_Base::SetNum (void) Select the variant. More...
void CSeqdesc_Base::SetNum (TNum &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsMaploc (void) const Check if variant Maploc is selected. More...
const TMaploc & CSeqdesc_Base::GetMaploc (void) const Get the variant data. More...
TMaploc & CSeqdesc_Base::SetMaploc (void) Select the variant. More...
void CSeqdesc_Base::SetMaploc (TMaploc &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsPir (void) const Check if variant Pir is selected. More...
const TPir & CSeqdesc_Base::GetPir (void) const Get the variant data. More...
TPir & CSeqdesc_Base::SetPir (void) Select the variant. More...
void CSeqdesc_Base::SetPir (TPir &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsGenbank (void) const Check if variant Genbank is selected. More...
const TGenbank & CSeqdesc_Base::GetGenbank (void) const Get the variant data. More...
TGenbank & CSeqdesc_Base::SetGenbank (void) Select the variant. More...
void CSeqdesc_Base::SetGenbank (TGenbank &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsPub (void) const Check if variant Pub is selected. More...
const TPub & CSeqdesc_Base::GetPub (void) const Get the variant data. More...
TPub & CSeqdesc_Base::SetPub (void) Select the variant. More...
void CSeqdesc_Base::SetPub (TPub &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsRegion (void) const Check if variant Region is selected. More...
const TRegion & CSeqdesc_Base::GetRegion (void) const Get the variant data. More...
TRegion & CSeqdesc_Base::SetRegion (void) Select the variant. More...
void CSeqdesc_Base::SetRegion (const TRegion &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsUser (void) const Check if variant User is selected. More...
const TUser & CSeqdesc_Base::GetUser (void) const Get the variant data. More...
TUser & CSeqdesc_Base::SetUser (void) Select the variant. More...
void CSeqdesc_Base::SetUser (TUser &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsSp (void) const Check if variant Sp is selected. More...
const TSp & CSeqdesc_Base::GetSp (void) const Get the variant data. More...
TSp & CSeqdesc_Base::SetSp (void) Select the variant. More...
void CSeqdesc_Base::SetSp (TSp &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsDbxref (void) const Check if variant Dbxref is selected. More...
const TDbxref & CSeqdesc_Base::GetDbxref (void) const Get the variant data. More...
TDbxref & CSeqdesc_Base::SetDbxref (void) Select the variant. More...
void CSeqdesc_Base::SetDbxref (TDbxref &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsEmbl (void) const Check if variant Embl is selected. More...
const TEmbl & CSeqdesc_Base::GetEmbl (void) const Get the variant data. More...
TEmbl & CSeqdesc_Base::SetEmbl (void) Select the variant. More...
void CSeqdesc_Base::SetEmbl (TEmbl &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsCreate_date (void) const Check if variant Create_date is selected. More...
const TCreate_date & CSeqdesc_Base::GetCreate_date (void) const Get the variant data. More...
TCreate_date & CSeqdesc_Base::SetCreate_date (void) Select the variant. More...
void CSeqdesc_Base::SetCreate_date (TCreate_date &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsUpdate_date (void) const Check if variant Update_date is selected. More...
const TUpdate_date & CSeqdesc_Base::GetUpdate_date (void) const Get the variant data. More...
TUpdate_date & CSeqdesc_Base::SetUpdate_date (void) Select the variant. More...
void CSeqdesc_Base::SetUpdate_date (TUpdate_date &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsPrf (void) const Check if variant Prf is selected. More...
const TPrf & CSeqdesc_Base::GetPrf (void) const Get the variant data. More...
TPrf & CSeqdesc_Base::SetPrf (void) Select the variant. More...
void CSeqdesc_Base::SetPrf (TPrf &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsPdb (void) const Check if variant Pdb is selected. More...
const TPdb & CSeqdesc_Base::GetPdb (void) const Get the variant data. More...
TPdb & CSeqdesc_Base::SetPdb (void) Select the variant. More...
void CSeqdesc_Base::SetPdb (TPdb &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsHet (void) const Check if variant Het is selected. More...
const THet & CSeqdesc_Base::GetHet (void) const Get the variant data. More...
THet & CSeqdesc_Base::SetHet (void) Select the variant. More...
void CSeqdesc_Base::SetHet (const THet &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsSource (void) const Check if variant Source is selected. More...
const TSource & CSeqdesc_Base::GetSource (void) const Get the variant data. More...
TSource & CSeqdesc_Base::SetSource (void) Select the variant. More...
void CSeqdesc_Base::SetSource (TSource &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsMolinfo (void) const Check if variant Molinfo is selected. More...
const TMolinfo & CSeqdesc_Base::GetMolinfo (void) const Get the variant data. More...
TMolinfo & CSeqdesc_Base::SetMolinfo (void) Select the variant. More...
void CSeqdesc_Base::SetMolinfo (TMolinfo &value) Select the variant and set its data. More...
bool CSeqdesc_Base::IsModelev (void) const Check if variant Modelev is selected. More...
const TModelev & CSeqdesc_Base::GetModelev (void) const Get the variant data. More...
TModelev & CSeqdesc_Base::SetModelev (void) Select the variant. More...
void CSeqdesc_Base::SetModelev (TModelev &value) Select the variant and set its data. More...
CSeqdesc_Base::CSeqdesc_Base (const CSeqdesc_Base &) CSeqdesc_Base & CSeqdesc_Base::operator= (const CSeqdesc_Base &) void CSeqdesc_Base::DoSelect (E_Choice index, CObjectMemoryPool *pool=0) CTextannot_id::CTextannot_id (void) CTextannot_id::~CTextannot_id (void) CTextannot_id::CTextannot_id (const CTextannot_id &value) CTextannot_id & CTextannot_id::operator= (const CTextannot_id &value) CTextannot_id_Base::CTextannot_id_Base (void) virtual CTextannot_id_Base::~CTextannot_id_Base (void) CTextannot_id_Base::DECLARE_INTERNAL_TYPE_INFO () bool CTextannot_id_Base::IsSetName (void) const Check if a value has been assigned to Name data member. More...
bool CTextannot_id_Base::CanGetName (void) const Check if it is safe to call GetName method. More...
void CTextannot_id_Base::ResetName (void) Reset Name data member. More...
const TName & CTextannot_id_Base::GetName (void) const Get the Name member data. More...
void CTextannot_id_Base::SetName (const TName &value) Assign a value to Name data member. More...
void CTextannot_id_Base::SetName (TName &&value) TName & CTextannot_id_Base::SetName (void) Assign a value to Name data member. More...
bool CTextannot_id_Base::IsSetAccession (void) const Check if a value has been assigned to Accession data member. More...
bool CTextannot_id_Base::CanGetAccession (void) const Check if it is safe to call GetAccession method. More...
void CTextannot_id_Base::ResetAccession (void) Reset Accession data member. More...
const TAccession & CTextannot_id_Base::GetAccession (void) const Get the Accession member data. More...
void CTextannot_id_Base::SetAccession (const TAccession &value) Assign a value to Accession data member. More...
void CTextannot_id_Base::SetAccession (TAccession &&value) TAccession & CTextannot_id_Base::SetAccession (void) Assign a value to Accession data member. More...
bool CTextannot_id_Base::IsSetRelease (void) const Check if a value has been assigned to Release data member. More...
bool CTextannot_id_Base::CanGetRelease (void) const Check if it is safe to call GetRelease method. More...
void CTextannot_id_Base::ResetRelease (void) Reset Release data member. More...
const TRelease & CTextannot_id_Base::GetRelease (void) const Get the Release member data. More...
void CTextannot_id_Base::SetRelease (const TRelease &value) Assign a value to Release data member. More...
void CTextannot_id_Base::SetRelease (TRelease &&value) TRelease & CTextannot_id_Base::SetRelease (void) Assign a value to Release data member. More...
bool CTextannot_id_Base::IsSetVersion (void) const Check if a value has been assigned to Version data member. More...
bool CTextannot_id_Base::CanGetVersion (void) const Check if it is safe to call GetVersion method. More...
void CTextannot_id_Base::ResetVersion (void) Reset Version data member. More...
TVersion CTextannot_id_Base::GetVersion (void) const Get the Version member data. More...
void CTextannot_id_Base::SetVersion (TVersion value) Assign a value to Version data member. More...
TVersion & CTextannot_id_Base::SetVersion (void) Assign a value to Version data member. More...
virtual void CTextannot_id_Base::Reset (void) Reset the whole object. More...
CTextannot_id_Base::CTextannot_id_Base (const CTextannot_id_Base &) CTextannot_id_Base & CTextannot_id_Base::operator= (const CTextannot_id_Base &) ◆ TA ◆ TAccession ◆ TAlign [1/2] ◆ TAlign [2/2] ◆ TAlign_group ◆ TAlign_type ◆ TAligns ◆ TAnnot ◆ TAscending ◆ TAssembly ◆ TB ◆ TBiomol ◆ TBool ◆ TComment [1/3] ◆ TComment [2/3] ◆ TComment [3/3] ◆ TCompleteness ◆ TCont ◆ TCreate_date [1/2] ◆ TCreate_date [2/2] ◆ Tdata [1/5] ◆ Tdata [2/5] ◆ Tdata [3/5] ◆ Tdata [4/5] ◆ TData ◆ Tdata [5/5] ◆ TDate [1/2] ◆ TDate [2/2] ◆ TDb ◆ TDbxref ◆ TDeleted ◆ TDelta ◆ TDesc ◆ TDescr ◆ TEmbl ◆ TEnum ◆ TExt ◆ TFig ◆ TFtable ◆ TFuzz [1/2] ◆ TFuzz [2/2] ◆ TGap ◆ TGbmoltype ◆ TGenbank ◆ TGeneral ◆ TGraph ◆ THas_zero ◆ THet ◆ THist ◆ TId [1/2] ◆ TId [2/2] ◆ TIds [1/3] ◆ TIds [2/3] ◆ TIds [3/3] ◆ TInst ◆ TIupacaa ◆ TIupacna ◆ TLength [1/2] ◆ TLength [2/2] ◆ TLinkage ◆ TLinkage_evidence ◆ TLiteral ◆ TLoc ◆ TLocal ◆ TLocs ◆ TMap ◆ TMaploc [1/2] ◆ TMaploc [2/2] ◆ TmemberIndex [1/16] ◆ TmemberIndex [2/16] ◆ TmemberIndex [3/16] ◆ TmemberIndex [4/16] ◆ TmemberIndex [5/16] ◆ TmemberIndex [6/16] ◆ TmemberIndex [7/16] ◆ TmemberIndex [8/16] ◆ TmemberIndex [9/16] ◆ TmemberIndex [10/16] ◆ TmemberIndex [11/16] ◆ TmemberIndex [12/16] ◆ TmemberIndex [13/16] ◆ TmemberIndex [14/16] ◆ TmemberIndex [15/16] ◆ TmemberIndex [16/16] ◆ TMethod ◆ TModelev ◆ TModif ◆ TMol ◆ TMol_type ◆ TMolinfo ◆ TName [1/5] ◆ TName [2/5] ◆ TName [3/5] ◆ TName [4/5] ◆ TName [5/5] ◆ TNames ◆ TNcbi ◆ TNcbi2na ◆ TNcbi4na ◆ TNcbi8aa ◆ TNcbi8na ◆ TNcbieaa ◆ TNcbipaa ◆ TNcbipna ◆ TNcbistdaa ◆ TNum [1/3] ◆ TNum [2/3] ◆ TNum [3/3] ◆ TNumexc ◆ TOrg ◆ TOther ◆ Tparent [1/70] ◆ Tparent [2/70] ◆ Tparent [3/70] ◆ Tparent [4/70] ◆ Tparent [5/70] ◆ Tparent [6/70] ◆ Tparent [7/70] ◆ Tparent [8/70] ◆ Tparent [9/70] ◆ Tparent [10/70] ◆ Tparent [11/70] ◆ Tparent [12/70] ◆ Tparent [13/70] ◆ Tparent [14/70] ◆ Tparent [15/70] ◆ Tparent [16/70] ◆ Tparent [17/70] ◆ Tparent [18/70] ◆ Tparent [19/70] ◆ Tparent [20/70] ◆ Tparent [21/70] ◆ Tparent [22/70] ◆ Tparent [23/70] ◆ Tparent [24/70] ◆ Tparent [25/70] ◆ Tparent [26/70] ◆ Tparent [27/70] ◆ Tparent [28/70] ◆ Tparent [29/70] ◆ Tparent [30/70] ◆ Tparent [31/70] ◆ Tparent [32/70] ◆ Tparent [33/70] ◆ Tparent [34/70] ◆ Tparent [35/70] ◆ Tparent [36/70] ◆ Tparent [37/70] ◆ Tparent [38/70] ◆ Tparent [39/70] ◆ Tparent [40/70] ◆ Tparent [41/70] ◆ Tparent [42/70] ◆ Tparent [43/70] ◆ Tparent [44/70] ◆ Tparent [45/70] ◆ Tparent [46/70] ◆ Tparent [47/70] ◆ Tparent [48/70] ◆ Tparent [49/70] ◆ Tparent [50/70] ◆ Tparent [51/70] ◆ Tparent [52/70] ◆ Tparent [53/70] ◆ Tparent [54/70] ◆ Tparent [55/70] ◆ Tparent [56/70] ◆ Tparent [57/70] ◆ Tparent [58/70] ◆ Tparent [59/70] ◆ Tparent [60/70] ◆ Tparent [61/70] ◆ Tparent [62/70] ◆ Tparent [63/70] ◆ Tparent [64/70] ◆ Tparent [65/70] ◆ Tparent [66/70] ◆ Tparent [67/70] ◆ Tparent [68/70] ◆ Tparent [69/70] ◆ Tparent [70/70] ◆ TPdb ◆ TPir ◆ TPoly_a ◆ TPrf ◆ TPub [1/3] ◆ TPub [2/3] ◆ TPub [3/3] ◆ TReal ◆ TRef [1/2] ◆ TRef [2/2] ◆ TRefnum ◆ TReftype ◆ TRegion [1/2] ◆ TRegion [2/2] ◆ TRelease ◆ TReplaced_by ◆ TReplaces ◆ TRepr ◆ TSeg ◆ TSeq_data [1/2] ◆ TSeq_data [2/2] ◆ TSeq_raw ◆ TSeq_table ◆ TSource ◆ TSp ◆ TSrc ◆ TStrand ◆ TTech ◆ TTechexp ◆ TTitle [1/2] ◆ TTitle [2/2] ◆ TTopology ◆ TType [1/3] ◆ TType [2/3] ◆ TType [3/3] ◆ TUnits ◆ TUpdate_date [1/2] ◆ TUpdate_date [2/2] ◆ TUser [1/2] ◆ TUser [2/2] ◆ TVersion ◆ E_Choice [1/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Local e_Ncbi e_General e_Other

Definition at line 88 of file Annot_id_.hpp.

◆ E_Choice [2/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Name

a short name for this collection

e_Title

a title for this collection

e_Comment

a more extensive comment

e_Pub

a reference to the publication

e_User

user defined object

e_Create_date

date entry first created/released

e_Update_date

date of last update

e_Src

source sequence from which annot came

e_Align

definition of the SeqAligns

e_Region

all contents cover this region

Definition at line 95 of file Annotdesc_.hpp.

◆ E_Choice [3/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Loc

point to a sequence

e_Literal

a piece of sequence

Definition at line 87 of file Delta_seq_.hpp.

◆ E_Choice [4/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Cont

continuous numbering

e_Enum

enumerated names for residues

e_Ref

by reference to another sequence

e_Real

supports mapping to a float system

Definition at line 90 of file Numbering_.hpp.

◆ E_Choice [5/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Ftable e_Align e_Graph e_Ids

used for communication between tools

e_Locs

used for communication between tools

e_Seq_table

Definition at line 131 of file Seq_annot_.hpp.

◆ E_Choice [6/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Iupacna

IUPAC 1 letter nuc acid code.

e_Iupacaa

IUPAC 1 letter amino acid code.

e_Ncbi2na

2 bit nucleic acid code

e_Ncbi4na

4 bit nucleic acid code

e_Ncbi8na

8 bit extended nucleic acid code

e_Ncbipna

nucleic acid probabilities

e_Ncbi8aa

8 bit extended amino acid codes

e_Ncbieaa

extended ASCII 1 letter aa codes

e_Ncbipaa

amino acid probabilities

e_Ncbistdaa

consecutive codes for std aas

e_Gap

gap types

Definition at line 102 of file Seq_data_.hpp.

◆ E_Choice [7/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Seg

segmented sequences

e_Ref

hot link to another sequence (a view)

e_Map

ordered map of markers

e_Delta

Definition at line 92 of file Seq_ext_.hpp.

◆ E_Choice [8/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Bool e_Date

Definition at line 113 of file Seq_hist_.hpp.

◆ E_Choice [9/9]

Choice variants.

Enumerator e_not_set

No variant selected.

e_Mol_type

type of molecule

e_Modif

modifiers

e_Method

sequencing method

e_Name

a name for this sequence

e_Title

a title for this sequence

e_Org

if all from one organism

e_Comment

a more extensive comment

e_Num

a numbering system

e_Maploc

map location of this sequence

e_Pir

PIR specific info.

e_Genbank

GenBank specific info.

e_Pub

a reference to the publication

e_Region

overall region (globin locus)

e_User

user defined object

e_Sp

SWISSPROT specific info.

e_Dbxref

xref to other databases

e_Embl

EMBL specific information.

e_Create_date

date entry first created/released

e_Update_date

date of last update

e_Prf

PRF specific information.

e_Pdb

PDB specific information.

e_Het

cofactor, etc associated but not bound

e_Source

source of materials, includes Org-ref

e_Molinfo

info on the molecule and techniques

e_Modelev

model evidence for XM records

Definition at line 109 of file Seqdesc_.hpp.

◆ E_ChoiceStopper [1/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Other+1

Definition at line 96 of file Annot_id_.hpp.

◆ E_ChoiceStopper [2/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Region+1

Definition at line 109 of file Annotdesc_.hpp.

◆ E_ChoiceStopper [3/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Literal+1

Definition at line 93 of file Delta_seq_.hpp.

◆ E_ChoiceStopper [4/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Real+1

Definition at line 98 of file Numbering_.hpp.

◆ E_ChoiceStopper [5/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Seq_table+1

Definition at line 141 of file Seq_annot_.hpp.

◆ E_ChoiceStopper [6/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Gap+1

Definition at line 117 of file Seq_data_.hpp.

◆ E_ChoiceStopper [7/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Delta+1

Definition at line 100 of file Seq_ext_.hpp.

◆ E_ChoiceStopper [8/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Date+1

Definition at line 119 of file Seq_hist_.hpp.

◆ E_ChoiceStopper [9/9]

Maximum+1 value of the choice variant enumerator.

Enumerator e_MaxChoice

== e_Modelev+1

Definition at line 138 of file Seqdesc_.hpp.

◆ E_memberIndex [1/16] Enumerator e__allMandatory e_align_type e_ids

Definition at line 104 of file Align_def_.hpp.

◆ E_memberIndex [2/16] Enumerator e__allMandatory e_id e_descr e_inst e_annot

Definition at line 100 of file Bioseq_.hpp.

◆ E_memberIndex [3/16] ◆ E_memberIndex [4/16] Enumerator e__allMandatory e_biomol e_tech e_techexp e_completeness e_gbmoltype

Definition at line 177 of file MolInfo_.hpp.

◆ E_memberIndex [5/16] Enumerator e__allMandatory e_refnum e_has_zero e_ascending

Definition at line 87 of file Num_cont_.hpp.

◆ E_memberIndex [6/16] Enumerator e__allMandatory e_num e_names

Definition at line 91 of file Num_enum_.hpp.

◆ E_memberIndex [7/16] Enumerator e__allMandatory e_a e_b e_units

Definition at line 91 of file Num_real_.hpp.

◆ E_memberIndex [8/16] Enumerator e__allMandatory e_type e_aligns

Definition at line 100 of file Num_ref_.hpp.

◆ E_memberIndex [9/16] Enumerator e__allMandatory e_pub e_name e_fig e_num e_numexc e_poly_a e_maploc e_seq_raw e_align_group e_comment e_reftype

Definition at line 115 of file Pubdesc_.hpp.

◆ E_memberIndex [10/16] Enumerator e__allMandatory e_id e_db e_name e_desc e_data

Definition at line 363 of file Seq_annot_.hpp.

◆ E_memberIndex [11/16] Enumerator e__allMandatory e_type e_linkage e_linkage_evidence

Definition at line 121 of file Seq_gap_.hpp.

◆ E_memberIndex [12/16] Enumerator e__allMandatory e_assembly e_replaces e_replaced_by e_deleted

Definition at line 254 of file Seq_hist_.hpp.

◆ E_memberIndex [13/16] ◆ E_memberIndex [14/16] Enumerator e__allMandatory e_repr e_mol e_length e_fuzz e_topology e_strand e_seq_data e_ext e_hist

Definition at line 156 of file Seq_inst_.hpp.

◆ E_memberIndex [15/16] Enumerator e__allMandatory e_length e_fuzz e_seq_data

Definition at line 91 of file Seq_literal_.hpp.

◆ E_memberIndex [16/16] Enumerator e__allMandatory e_name e_accession e_release e_version

Definition at line 97 of file Textannot_id_.hpp.

◆ EAlign_type

class of align Seq-annot

Enumerator eAlign_type_ref

set of alignments to the same sequence

eAlign_type_alt

set of alternate alignments of the same seqs

eAlign_type_blocks

set of aligned blocks in the same seqs

eAlign_type_other

Definition at line 89 of file Align_def_.hpp.

◆ EBiomol Enumerator eBiomol_unknown eBiomol_genomic eBiomol_pre_RNA

precursor RNA of any sort really

eBiomol_mRNA eBiomol_rRNA eBiomol_tRNA eBiomol_snRNA eBiomol_scRNA eBiomol_peptide eBiomol_other_genetic

other genetic material

eBiomol_genomic_mRNA

reported a mix of genomic and cdna sequence

eBiomol_cRNA

viral RNA genome copy intermediate

eBiomol_snoRNA

small nucleolar RNA

eBiomol_transcribed_RNA

transcribed RNA other than existing classes

eBiomol_ncRNA eBiomol_tmRNA eBiomol_other

Definition at line 99 of file MolInfo_.hpp.

◆ ECompleteness Enumerator eCompleteness_unknown eCompleteness_complete

complete biological entity

eCompleteness_partial

partial but no details given

eCompleteness_no_left

missing 5' or NH3 end

eCompleteness_no_right

missing 3' or COOH end

eCompleteness_no_ends

missing both ends

eCompleteness_has_left

5' or NH3 end present

eCompleteness_has_right

3' or COOH end present

eCompleteness_other

Definition at line 154 of file MolInfo_.hpp.

◆ EDb

source of annotation

Enumerator eDb_genbank eDb_embl eDb_ddbj eDb_pir eDb_sp eDb_bbone eDb_pdb eDb_other

Definition at line 98 of file Seq_annot_.hpp.

◆ EGIBB_method

sequencing methods

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

Enumerator eGIBB_method_concept_trans

conceptual translation

eGIBB_method_seq_pept

peptide was sequenced

eGIBB_method_both

concept transl. w/ partial pept. seq.

eGIBB_method_seq_pept_overlap

sequenced peptide, ordered by overlap

eGIBB_method_seq_pept_homol

sequenced peptide, ordered by homology

eGIBB_method_concept_trans_a

conceptual transl. supplied by author

eGIBB_method_other

Definition at line 64 of file GIBB_method_.hpp.

◆ EGIBB_mod

GenInfo Backbone modifiers.

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

Enumerator eGIBB_mod_dna eGIBB_mod_rna eGIBB_mod_extrachrom eGIBB_mod_plasmid eGIBB_mod_mitochondrial eGIBB_mod_chloroplast eGIBB_mod_kinetoplast eGIBB_mod_cyanelle eGIBB_mod_synthetic eGIBB_mod_recombinant eGIBB_mod_partial eGIBB_mod_complete eGIBB_mod_mutagen

subject of mutagenesis ?

eGIBB_mod_natmut

natural mutant ?

eGIBB_mod_transposon eGIBB_mod_insertion_seq eGIBB_mod_no_left

missing left end (5' for na, NH2 for aa)

eGIBB_mod_no_right

missing right end (3' or COOH)

eGIBB_mod_macronuclear eGIBB_mod_proviral eGIBB_mod_est

expressed sequence tag

eGIBB_mod_sts

sequence tagged site

eGIBB_mod_survey

one pass survey sequence

eGIBB_mod_chromoplast eGIBB_mod_genemap

is a genetic map

eGIBB_mod_restmap

is an ordered restriction map

eGIBB_mod_physmap

is a physical map (not ordered restriction map)

eGIBB_mod_other

Definition at line 64 of file GIBB_mod_.hpp.

◆ EGIBB_mol

type of molecule represented

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

Enumerator eGIBB_mol_unknown eGIBB_mol_genomic eGIBB_mol_pre_mRNA

precursor RNA of any sort really

eGIBB_mol_mRNA eGIBB_mol_rRNA eGIBB_mol_tRNA eGIBB_mol_snRNA eGIBB_mol_scRNA eGIBB_mol_peptide eGIBB_mol_other_genetic

other genetic material

eGIBB_mol_genomic_mRNA

reported a mix of genomic and cdna sequence

eGIBB_mol_other

Definition at line 64 of file GIBB_mol_.hpp.

◆ ELinkage Enumerator eLinkage_unlinked eLinkage_linked eLinkage_other

Definition at line 106 of file Seq_gap_.hpp.

◆ EMol

molecule class in living organism

Enumerator eMol_not_set

> cdna = rna

eMol_dna eMol_rna eMol_aa eMol_na

just a nucleic acid

eMol_other

Definition at line 108 of file Seq_inst_.hpp.

◆ EReftype

type of reference in a GenBank record

Enumerator eReftype_seq

refers to sequence

eReftype_sites

refers to unspecified features

eReftype_feats

refers to specified features

eReftype_no_target

nothing specified (EMBL)

Definition at line 91 of file Pubdesc_.hpp.

◆ ERepr

representation class

Enumerator eRepr_not_set

empty

eRepr_virtual

no seq data

eRepr_raw

continuous sequence

eRepr_seg

segmented sequence

eRepr_const

constructed sequence

eRepr_ref

reference to another sequence

eRepr_consen

consensus sequence or pattern

eRepr_map

ordered map of any kind

eRepr_delta

sequence made by changes (delta) to others

eRepr_other

Definition at line 91 of file Seq_inst_.hpp.

◆ EStrand

strandedness in living organism

Enumerator eStrand_not_set eStrand_ss

single strand

eStrand_ds

double strand

eStrand_mixed eStrand_other

default ds for DNA, ss for RNA, pept

Definition at line 133 of file Seq_inst_.hpp.

◆ ETech Enumerator eTech_unknown eTech_standard

standard sequencing

eTech_est

Expressed Sequence Tag.

eTech_sts

Sequence Tagged Site.

eTech_survey

one-pass genomic sequence

eTech_genemap

from genetic mapping techniques

eTech_physmap

from physical mapping techniques

eTech_derived

derived from other data, not a primary entity

eTech_concept_trans

conceptual translation

eTech_seq_pept

peptide was sequenced

eTech_both

concept transl. w/ partial pept. seq.

eTech_seq_pept_overlap

sequenced peptide, ordered by overlap

eTech_seq_pept_homol

sequenced peptide, ordered by homology

eTech_concept_trans_a

conceptual transl. supplied by author

eTech_htgs_1

unordered High Throughput sequence contig

eTech_htgs_2

ordered High Throughput sequence contig

eTech_htgs_3

finished High Throughput sequence

eTech_fli_cdna

full length insert cDNA

eTech_htgs_0

single genomic reads for coordination

eTech_htc

high throughput cDNA

eTech_wgs

whole genome shotgun sequencing

eTech_barcode

barcode of life project

eTech_composite_wgs_htgs

composite of WGS and HTGS

eTech_tsa

transcriptome shotgun assembly

eTech_targeted

targeted locus sets/studies

eTech_other

use Source.techexp

Definition at line 122 of file MolInfo_.hpp.

◆ ETopology

topology of molecule

Enumerator eTopology_not_set eTopology_linear eTopology_circular eTopology_tandem

some part of tandem repeat

eTopology_other

Definition at line 121 of file Seq_inst_.hpp.

◆ EType [1/3] Enumerator eType_paired_ends eType_align_genus eType_align_xgenus eType_align_trnscpt eType_within_clone eType_clone_contig eType_map eType_strobe eType_unspecified eType_pcr eType_proximity_ligation eType_other

Definition at line 80 of file Linkage_evidence_.hpp.

◆ EType [2/3]

type of reference

Enumerator eType_not_set eType_sources

by segmented or const seq sources

eType_aligns

by alignments given below

Definition at line 86 of file Num_ref_.hpp.

◆ EType [3/3] Enumerator eType_unknown eType_fragment

Deprecated. Used only for AGP 1.1.

eType_clone

Deprecated. Used only for AGP 1.1.

eType_short_arm eType_heterochromatin eType_centromere eType_telomere eType_repeat eType_contig eType_scaffold eType_contamination eType_other

Definition at line 88 of file Seq_gap_.hpp.

◆ C_Data() [1/2] ◆ C_Data() [2/2] ◆ C_Deleted() [1/2] ◆ C_Deleted() [2/2] ◆ CAlign_def() [1/2] ◆ CAlign_def() [2/2] CAlign_def::CAlign_def ( void ) inline

Definition at line 86 of file Align_def.hpp.

◆ CAlign_def_Base() [1/2] ◆ CAlign_def_Base() [2/2] ◆ CanGet() [1/5] bool CAnnot_descr_Base::CanGet ( void ) const inline ◆ CanGet() [2/5] bool CDelta_ext_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 Delta_ext_.hpp.

◆ CanGet() [3/5] bool CMap_ext_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 Map_ext_.hpp.

◆ CanGet() [4/5] bool CSeg_ext_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 Seg_ext_.hpp.

◆ CanGet() [5/5] bool CSeq_descr_Base::CanGet ( void ) const inline ◆ CanGetA() bool CNum_real_Base::CanGetA ( void ) const inline ◆ CanGetAccession() bool CTextannot_id_Base::CanGetAccession ( void ) const inline ◆ CanGetAlign_group() bool CPubdesc_Base::CanGetAlign_group ( void ) const inline ◆ CanGetAlign_type() bool CAlign_def_Base::CanGetAlign_type ( void ) const inline ◆ CanGetAligns() bool CNum_ref_Base::CanGetAligns ( void ) const inline ◆ CanGetAnnot() bool CBioseq_Base::CanGetAnnot ( void ) const inline ◆ CanGetAscending() bool CNum_cont_Base::CanGetAscending ( void ) const inline

Check if it is safe to call GetAscending method.

Returns

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

Definition at line 353 of file Num_cont_.hpp.

◆ CanGetAssembly() bool CSeq_hist_Base::CanGetAssembly ( void ) const inline ◆ CanGetB() bool CNum_real_Base::CanGetB ( void ) const inline ◆ CanGetBiomol() bool CMolInfo_Base::CanGetBiomol ( void ) const inline ◆ CanGetComment() bool CPubdesc_Base::CanGetComment ( void ) const inline ◆ CanGetCompleteness() bool CMolInfo_Base::CanGetCompleteness ( void ) const inline ◆ CanGetData() bool CSeq_annot_Base::CanGetData ( void ) const inline ◆ CanGetDate() bool CSeq_hist_rec_Base::CanGetDate ( void ) const inline ◆ CanGetDb() bool CSeq_annot_Base::CanGetDb ( void ) const inline ◆ CanGetDeleted() bool CSeq_hist_Base::CanGetDeleted ( void ) const inline ◆ CanGetDesc() bool CSeq_annot_Base::CanGetDesc ( void ) const inline

Check if it is safe to call GetDesc method.

Returns

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

Definition at line 846 of file Seq_annot_.hpp.

References CSeq_annot_Base::IsSetDesc().

Referenced by CGBDocument::AddItems(), CVcfObjectLoader::Execute(), CSeq_annot_Base::GetDesc(), s_CollapseProjectFolder(), s_IsMatchById(), CSeq_annot_Handle::Seq_annot_CanGetDesc(), CUCSCRegionWriter::WriteAnnot(), CBedWriter::WriteAnnot(), CTableAnnotDataSource::x_GetColumnMetaInfo(), CSGAnnotJob::x_PercentileButNotMax(), CWiggleWriter::xWriteAnnotGraphs(), and CWiggleWriter::xWriteAnnotTable().

◆ CanGetDescr() bool CBioseq_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 309 of file Bioseq_.hpp.

References CBioseq_Base::IsSetDescr().

Referenced by CDiscrepancyContext::AutofixBioseq(), BOOST_AUTO_TEST_CASE(), CSeqEntrySource::CSeqEntrySource(), get_title(), CBioseq_Base::GetDescr(), CBlastQuerySourceBioseqSet::GetSegmentInfo(), CMolinfo_field::GetSequenceQualFromBioseq(), CBlastQuerySourceBioseqSet::GetTitle(), CDiscrepancyContext::PopulateBioseq(), s_GetTitle(), s_HasDefline(), s_HasTitle(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CWriteDB_Impl::x_GetBioseqBinaryHeader(), and CWriteDB_Impl::x_GetFastaReaderDeflines().

◆ CanGetExt() bool CSeq_inst_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 832 of file Seq_inst_.hpp.

References CSeq_inst_Base::IsSetExt().

Referenced by CSequenceTrack::CSequenceTrack(), GetDeltaSeqForPosition(), CSeq_inst_Base::GetExt(), HasAssemblyOrNullGap(), CValidError_bioseq::HasBadWGSGap(), CValidError_bioseq::ReportBadAssemblyGap(), s_GetFlankingGapTypes(), CUnorderedSplitter::SplitId(), CUnorderedSplitter::SplitLoc(), and CValidError_bioseq::x_IsDeltaLitOnly().

◆ CanGetFig() bool CPubdesc_Base::CanGetFig ( void ) const inline ◆ CanGetFuzz() [1/2] bool CSeq_inst_Base::CanGetFuzz ( void ) const inline ◆ CanGetFuzz() [2/2] bool CSeq_literal_Base::CanGetFuzz ( void ) const inline ◆ CanGetGbmoltype() bool CMolInfo_Base::CanGetGbmoltype ( void ) const inline ◆ CanGetHas_zero() bool CNum_cont_Base::CanGetHas_zero ( void ) const inline

Check if it is safe to call GetHas_zero method.

Returns

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

Definition at line 303 of file Num_cont_.hpp.

◆ CanGetHist() bool CSeq_inst_Base::CanGetHist ( void ) const inline ◆ CanGetId() [1/2] bool CBioseq_Base::CanGetId ( void ) const inline ◆ CanGetId() [2/2] bool CSeq_annot_Base::CanGetId ( void ) const inline ◆ CanGetIds() [1/2] bool CAlign_def_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 261 of file Align_def_.hpp.

◆ CanGetIds() [2/2] bool CSeq_hist_rec_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 224 of file Seq_hist_rec_.hpp.

◆ CanGetInst() bool CBioseq_Base::CanGetInst ( void ) const inline

Check if it is safe to call GetInst method.

Returns

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

Definition at line 330 of file Bioseq_.hpp.

Referenced by CValidError_bioseq::CheckTpaHistory(), CBlastBioseqMaker::IsEmptyBioseq(), RetrieveGi555WithTimeOut(), RetrieveLargeProteinWithTimeOut(), RetrievePartsOfLargeChromosome(), CSeqDBDemo_SeqidToBioseq::Run(), CWinMaskDemoApplication::Run(), CWriteDB_Impl::x_ComputeSeqLength(), CWriteDB_Impl::x_CookSequence(), and CPrimeCacheApplication::x_StripSeqEntry().

◆ CanGetLength() [1/2] bool CSeq_inst_Base::CanGetLength ( void ) const inline ◆ CanGetLength() [2/2] bool CSeq_literal_Base::CanGetLength ( void ) const inline ◆ CanGetLinkage() bool CSeq_gap_Base::CanGetLinkage ( void ) const inline ◆ CanGetLinkage_evidence() bool CSeq_gap_Base::CanGetLinkage_evidence ( void ) const inline ◆ CanGetMaploc() bool CPubdesc_Base::CanGetMaploc ( void ) const inline ◆ CanGetMol() bool CSeq_inst_Base::CanGetMol ( void ) const inline ◆ CanGetName() [1/3] bool CPubdesc_Base::CanGetName ( void ) const inline ◆ CanGetName() [2/3] bool CSeq_annot_Base::CanGetName ( void ) const inline ◆ CanGetName() [3/3] bool CTextannot_id_Base::CanGetName ( void ) const inline ◆ CanGetNames() bool CNum_enum_Base::CanGetNames ( void ) const inline

Check if it is safe to call GetNames method.

Returns

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

Definition at line 249 of file Num_enum_.hpp.

◆ CanGetNum() [1/2] bool CNum_enum_Base::CanGetNum ( void ) const inline ◆ CanGetNum() [2/2] bool CPubdesc_Base::CanGetNum ( void ) const inline ◆ CanGetNumexc() bool CPubdesc_Base::CanGetNumexc ( void ) const inline ◆ CanGetPoly_a() bool CPubdesc_Base::CanGetPoly_a ( void ) const inline ◆ CanGetPub() bool CPubdesc_Base::CanGetPub ( void ) const inline ◆ CanGetRefnum() bool CNum_cont_Base::CanGetRefnum ( void ) const inline

Check if it is safe to call GetRefnum method.

Returns

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

Definition at line 253 of file Num_cont_.hpp.

◆ CanGetReftype() bool CPubdesc_Base::CanGetReftype ( void ) const inline

Check if it is safe to call GetReftype method.

Returns

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

Definition at line 1026 of file Pubdesc_.hpp.

◆ CanGetRelease() bool CTextannot_id_Base::CanGetRelease ( void ) const inline ◆ CanGetReplaced_by() bool CSeq_hist_Base::CanGetReplaced_by ( void ) const inline ◆ CanGetReplaces() bool CSeq_hist_Base::CanGetReplaces ( void ) const inline ◆ CanGetRepr() bool CSeq_inst_Base::CanGetRepr ( void ) const inline ◆ CanGetSeq_data() [1/2] bool CSeq_inst_Base::CanGetSeq_data ( void ) const inline

Check if it is safe to call GetSeq_data method.

Returns

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

Definition at line 811 of file Seq_inst_.hpp.

References CSeq_inst_Base::IsSetSeq_data().

Referenced by BOOST_AUTO_TEST_CASE(), CSeq_inst_Base::GetSeq_data(), CBlastBioseqMaker::IsEmptyBioseq(), RetrievePartsOfLargeChromosome(), CWinMaskDemoApplication::Run(), s_HasRawSequence(), CUnorderedSplitter::SplitId(), CUnorderedSplitter::SplitLoc(), and CWriteDB_Impl::x_CookSequence().

◆ CanGetSeq_data() [2/2] bool CSeq_literal_Base::CanGetSeq_data ( void ) const inline

Check if it is safe to call GetSeq_data method.

Returns

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

Definition at line 316 of file Seq_literal_.hpp.

References CSeq_literal_Base::IsSetSeq_data().

Referenced by NSNPVariationHelper::GetDeltas(), GetDeltaSeqSummary(), CSeq_literal_Base::GetSeq_data(), CGuiObjectInfoVariant::GetToolTip(), NSnpGui::GetVcfType(), s_FixBioseqDeltas(), s_NsAreGaps(), CFeatureItem::x_AddQualsVariation(), CValidError_bioseq::x_CountAdjacentNs(), and CUnorderedSplitter::x_SplitDeltaExt().

◆ CanGetSeq_raw() bool CPubdesc_Base::CanGetSeq_raw ( void ) const inline ◆ CanGetStrand() bool CSeq_inst_Base::CanGetStrand ( void ) const inline ◆ CanGetTech() bool CMolInfo_Base::CanGetTech ( void ) const inline ◆ CanGetTechexp() bool CMolInfo_Base::CanGetTechexp ( void ) const inline ◆ CanGetTopology() bool CSeq_inst_Base::CanGetTopology ( void ) const inline ◆ CanGetType() [1/3] bool CLinkage_evidence_Base::CanGetType ( void ) const inline ◆ CanGetType() [2/3] bool CNum_ref_Base::CanGetType ( void ) const inline ◆ CanGetType() [3/3] bool CSeq_gap_Base::CanGetType ( void ) const inline ◆ CanGetUnits() bool CNum_real_Base::CanGetUnits ( void ) const inline ◆ CanGetVersion() bool CTextannot_id_Base::CanGetVersion ( void ) const inline ◆ CAnnot_descr() [1/2] ◆ CAnnot_descr() [2/2] CAnnot_descr::CAnnot_descr ( void ) inline

Definition at line 86 of file Annot_descr.hpp.

◆ CAnnot_descr_Base() [1/2] ◆ CAnnot_descr_Base() [2/2] ◆ CAnnot_id() [1/2] ◆ CAnnot_id() [2/2] CAnnot_id::CAnnot_id ( void ) inline

Definition at line 86 of file Annot_id.hpp.

◆ CAnnot_id_Base() [1/2] ◆ CAnnot_id_Base() [2/2] ◆ CAnnotdesc() [1/2] ◆ CAnnotdesc() [2/2] CAnnotdesc::CAnnotdesc ( void ) inline

Definition at line 86 of file Annotdesc.hpp.

◆ CAnnotdesc_Base() [1/2] ◆ CAnnotdesc_Base() [2/2] ◆ CBioseq_Base() [1/2] ◆ CBioseq_Base() [2/2] ◆ CDelta_ext_Base() [1/2] ◆ CDelta_ext_Base() [2/2] ◆ CDelta_seq() [1/2] ◆ CDelta_seq() [2/2] CDelta_seq::CDelta_seq ( void ) inline

Definition at line 86 of file Delta_seq.hpp.

◆ CDelta_seq_Base() [1/2] ◆ CDelta_seq_Base() [2/2] ◆ CheckSelected() [1/9] void CAnnot_id_Base::CheckSelected ( E_Choice index ) const inline ◆ CheckSelected() [2/9] void CAnnotdesc_Base::CheckSelected ( E_Choice index ) const inline

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

Parameters: index Expected selection.

Definition at line 472 of file Annotdesc_.hpp.

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

Referenced by CAnnotdesc_Base::GetAlign(), CAnnotdesc_Base::GetComment(), CAnnotdesc_Base::GetCreate_date(), CAnnotdesc_Base::GetName(), CAnnotdesc_Base::GetPub(), CAnnotdesc_Base::GetRegion(), CAnnotdesc_Base::GetSrc(), CAnnotdesc_Base::GetTitle(), CAnnotdesc_Base::GetUpdate_date(), and CAnnotdesc_Base::GetUser().

◆ CheckSelected() [3/9] void CDelta_seq_Base::CheckSelected ( E_Choice index ) const inline ◆ CheckSelected() [4/9] void CNumbering_Base::CheckSelected ( E_Choice index ) const inline ◆ CheckSelected() [5/9] void CSeq_annot_Base::C_Data::CheckSelected ( E_Choice index ) const inline

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

Parameters: index Expected selection.

Definition at line 592 of file Seq_annot_.hpp.

◆ CheckSelected() [6/9] void CSeq_data_Base::CheckSelected ( E_Choice index ) const inline

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

Parameters: index Expected selection.

Definition at line 481 of file Seq_data_.hpp.

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

Referenced by CSeq_data_Base::GetGap(), CSeq_data_Base::GetIupacaa(), CSeq_data_Base::GetIupacna(), CSeq_data_Base::GetNcbi2na(), CSeq_data_Base::GetNcbi4na(), CSeq_data_Base::GetNcbi8aa(), CSeq_data_Base::GetNcbi8na(), CSeq_data_Base::GetNcbieaa(), CSeq_data_Base::GetNcbipaa(), CSeq_data_Base::GetNcbipna(), and CSeq_data_Base::GetNcbistdaa().

◆ CheckSelected() [7/9] void CSeq_ext_Base::CheckSelected ( E_Choice index ) const inline ◆ CheckSelected() [8/9] void CSeq_hist_Base::C_Deleted::CheckSelected ( E_Choice index ) const inline

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

Parameters: index Expected selection.

Definition at line 444 of file Seq_hist_.hpp.

◆ CheckSelected() [9/9] void CSeqdesc_Base::CheckSelected ( E_Choice index ) const inline

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

Parameters: index Expected selection.

Definition at line 909 of file Seqdesc_.hpp.

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

◆ CHeterogen() [1/2]

Explicit constructor from the primitive type.

Definition at line 72 of file Heterogen.hpp.

◆ CHeterogen() [2/2] CHeterogen::CHeterogen ( void ) inline

Definition at line 69 of file Heterogen.hpp.

◆ CHeterogen_Base() [1/2] ◆ CHeterogen_Base() [2/2] CHeterogen_Base::CHeterogen_Base ( void ) inline

Definition at line 96 of file Heterogen_.hpp.

◆ CIUPACaa() [1/2]

Explicit constructor from the primitive type.

Definition at line 72 of file IUPACaa.hpp.

◆ CIUPACaa() [2/2] CIUPACaa::CIUPACaa ( void ) inline

Definition at line 69 of file IUPACaa.hpp.

◆ CIUPACaa_Base() [1/2] ◆ CIUPACaa_Base() [2/2] CIUPACaa_Base::CIUPACaa_Base ( void ) inline

Definition at line 96 of file IUPACaa_.hpp.

◆ CIUPACna() [1/2]

Explicit constructor from the primitive type.

Definition at line 72 of file IUPACna.hpp.

◆ CIUPACna() [2/2] CIUPACna::CIUPACna ( void ) inline

Definition at line 69 of file IUPACna.hpp.

◆ CIUPACna_Base() [1/2] ◆ CIUPACna_Base() [2/2] CIUPACna_Base::CIUPACna_Base ( void ) inline

Definition at line 96 of file IUPACna_.hpp.

◆ CLinkage_evidence_Base() [1/2] ◆ CLinkage_evidence_Base() [2/2] END_CLASS_INFO CLinkage_evidence_Base::CLinkage_evidence_Base ( void ) ◆ CMap_ext() [1/2] ◆ CMap_ext() [2/2] CMap_ext::CMap_ext ( void ) inline

Definition at line 86 of file Map_ext.hpp.

◆ CMap_ext_Base() [1/2] ◆ CMap_ext_Base() [2/2] ◆ CMolInfo_Base() [1/2] ◆ CMolInfo_Base() [2/2] ◆ CNCBI2na() [1/2] CNCBI2na::CNCBI2na ( const std::vector< char > & value ) inlineexplicit

Explicit constructor from the primitive type.

Definition at line 72 of file NCBI2na.hpp.

◆ CNCBI2na() [2/2] CNCBI2na::CNCBI2na ( void ) inline

Definition at line 69 of file NCBI2na.hpp.

◆ CNCBI2na_Base() [1/2] CNCBI2na_Base::CNCBI2na_Base ( const vector< char > & data ) inlineexplicit

Definition at line 101 of file NCBI2na_.hpp.

◆ CNCBI2na_Base() [2/2] CNCBI2na_Base::CNCBI2na_Base ( void ) inline

Definition at line 96 of file NCBI2na_.hpp.

◆ CNCBI4na() [1/2] CNCBI4na::CNCBI4na ( const std::vector< char > & value ) inlineexplicit

Explicit constructor from the primitive type.

Definition at line 72 of file NCBI4na.hpp.

◆ CNCBI4na() [2/2] CNCBI4na::CNCBI4na ( void ) inline

Definition at line 69 of file NCBI4na.hpp.

◆ CNCBI4na_Base() [1/2] CNCBI4na_Base::CNCBI4na_Base ( const vector< char > & data ) inlineexplicit

Definition at line 103 of file NCBI4na_.hpp.

◆ CNCBI4na_Base() [2/2] CNCBI4na_Base::CNCBI4na_Base ( void ) inline

Definition at line 98 of file NCBI4na_.hpp.

◆ CNCBI8aa() [1/2] CNCBI8aa::CNCBI8aa ( const std::vector< char > & value ) inlineexplicit

Explicit constructor from the primitive type.

Definition at line 72 of file NCBI8aa.hpp.

◆ CNCBI8aa() [2/2] CNCBI8aa::CNCBI8aa ( void ) inline

Definition at line 69 of file NCBI8aa.hpp.

◆ CNCBI8aa_Base() [1/2] CNCBI8aa_Base::CNCBI8aa_Base ( const vector< char > & data ) inlineexplicit

Definition at line 101 of file NCBI8aa_.hpp.

◆ CNCBI8aa_Base() [2/2] CNCBI8aa_Base::CNCBI8aa_Base ( void ) inline

Definition at line 96 of file NCBI8aa_.hpp.

◆ CNCBI8na() [1/2] CNCBI8na::CNCBI8na ( const std::vector< char > & value ) inlineexplicit

Explicit constructor from the primitive type.

Definition at line 72 of file NCBI8na.hpp.

◆ CNCBI8na() [2/2] CNCBI8na::CNCBI8na ( void ) inline

Definition at line 69 of file NCBI8na.hpp.

◆ CNCBI8na_Base() [1/2] CNCBI8na_Base::CNCBI8na_Base ( const vector< char > & data ) inlineexplicit

Definition at line 101 of file NCBI8na_.hpp.

◆ CNCBI8na_Base() [2/2] CNCBI8na_Base::CNCBI8na_Base ( void ) inline

Definition at line 96 of file NCBI8na_.hpp.

◆ CNCBIeaa() [1/2]

Explicit constructor from the primitive type.

Definition at line 72 of file NCBIeaa.hpp.

◆ CNCBIeaa() [2/2] CNCBIeaa::CNCBIeaa ( void ) inline

Definition at line 69 of file NCBIeaa.hpp.

◆ CNCBIeaa_Base() [1/2] ◆ CNCBIeaa_Base() [2/2] CNCBIeaa_Base::CNCBIeaa_Base ( void ) inline

Definition at line 97 of file NCBIeaa_.hpp.

◆ CNCBIpaa() [1/2] CNCBIpaa::CNCBIpaa ( const std::vector< char > & value ) inlineexplicit

Explicit constructor from the primitive type.

Definition at line 72 of file NCBIpaa.hpp.

◆ CNCBIpaa() [2/2] CNCBIpaa::CNCBIpaa ( void ) inline

Definition at line 69 of file NCBIpaa.hpp.

◆ CNCBIpaa_Base() [1/2] CNCBIpaa_Base::CNCBIpaa_Base ( const vector< char > & data ) inlineexplicit

Definition at line 103 of file NCBIpaa_.hpp.

◆ CNCBIpaa_Base() [2/2] CNCBIpaa_Base::CNCBIpaa_Base ( void ) inline

Definition at line 98 of file NCBIpaa_.hpp.

◆ CNCBIpna() [1/2] CNCBIpna::CNCBIpna ( const std::vector< char > & value ) inlineexplicit

Explicit constructor from the primitive type.

Definition at line 72 of file NCBIpna.hpp.

◆ CNCBIpna() [2/2] CNCBIpna::CNCBIpna ( void ) inline

Definition at line 69 of file NCBIpna.hpp.

◆ CNCBIpna_Base() [1/2] CNCBIpna_Base::CNCBIpna_Base ( const vector< char > & data ) inlineexplicit

Definition at line 102 of file NCBIpna_.hpp.

◆ CNCBIpna_Base() [2/2] CNCBIpna_Base::CNCBIpna_Base ( void ) inline

Definition at line 97 of file NCBIpna_.hpp.

◆ CNCBIstdaa() [1/2] CNCBIstdaa::CNCBIstdaa ( const std::vector< char > & value ) inlineexplicit

Explicit constructor from the primitive type.

Definition at line 72 of file NCBIstdaa.hpp.

◆ CNCBIstdaa() [2/2] CNCBIstdaa::CNCBIstdaa ( void ) inline

Definition at line 69 of file NCBIstdaa.hpp.

◆ CNCBIstdaa_Base() [1/2] CNCBIstdaa_Base::CNCBIstdaa_Base ( const vector< char > & data ) inlineexplicit

Definition at line 101 of file NCBIstdaa_.hpp.

◆ CNCBIstdaa_Base() [2/2] CNCBIstdaa_Base::CNCBIstdaa_Base ( void ) inline

Definition at line 96 of file NCBIstdaa_.hpp.

◆ CNum_cont() [1/2] ◆ CNum_cont() [2/2] CNum_cont::CNum_cont ( void ) inline

Definition at line 86 of file Num_cont.hpp.

◆ CNum_cont_Base() [1/2] ◆ CNum_cont_Base() [2/2] ◆ CNum_enum() [1/2] ◆ CNum_enum() [2/2] CNum_enum::CNum_enum ( void ) inline

Definition at line 86 of file Num_enum.hpp.

◆ CNum_enum_Base() [1/2] ◆ CNum_enum_Base() [2/2] ◆ CNum_real() [1/2] ◆ CNum_real() [2/2] CNum_real::CNum_real ( void ) inline

Definition at line 86 of file Num_real.hpp.

◆ CNum_real_Base() [1/2] ◆ CNum_real_Base() [2/2] ◆ CNum_ref() [1/2] ◆ CNum_ref() [2/2] CNum_ref::CNum_ref ( void ) inline

Definition at line 86 of file Num_ref.hpp.

◆ CNum_ref_Base() [1/2] ◆ CNum_ref_Base() [2/2] ◆ CNumbering() [1/2] ◆ CNumbering() [2/2] CNumbering::CNumbering ( void ) inline

Definition at line 86 of file Numbering.hpp.

◆ CNumbering_Base() [1/2] ◆ CNumbering_Base() [2/2] ◆ CPubdesc_Base() [1/2] ◆ CPubdesc_Base() [2/2] ◆ CRef_ext() CRef_ext::CRef_ext ( void ) inline

Definition at line 69 of file Ref_ext.hpp.

◆ CRef_ext_Base() CRef_ext_Base::CRef_ext_Base ( void ) inline

Definition at line 96 of file Ref_ext_.hpp.

◆ CSeg_ext() [1/2] ◆ CSeg_ext() [2/2] CSeg_ext::CSeg_ext ( void ) inline

Definition at line 86 of file Seg_ext.hpp.

◆ CSeg_ext_Base() [1/2] ◆ CSeg_ext_Base() [2/2] ◆ CSeq_annot_Base() [1/2] ◆ CSeq_annot_Base() [2/2] ◆ CSeq_data_Base() [1/2] ◆ CSeq_data_Base() [2/2] ◆ CSeq_descr_Base() [1/2] ◆ CSeq_descr_Base() [2/2] ◆ CSeq_ext() [1/2] ◆ CSeq_ext() [2/2] CSeq_ext::CSeq_ext ( void ) inline

Definition at line 86 of file Seq_ext.hpp.

◆ CSeq_ext_Base() [1/2] ◆ CSeq_ext_Base() [2/2] ◆ CSeq_gap_Base() [1/2] ◆ CSeq_gap_Base() [2/2] ◆ CSeq_hist() [1/2] ◆ CSeq_hist() [2/2] CSeq_hist::CSeq_hist ( void ) inline

Definition at line 86 of file Seq_hist.hpp.

◆ CSeq_hist_Base() [1/2] ◆ CSeq_hist_Base() [2/2] ◆ CSeq_hist_rec() [1/2] ◆ CSeq_hist_rec() [2/2] CSeq_hist_rec::CSeq_hist_rec ( void ) inline

Definition at line 86 of file Seq_hist_rec.hpp.

◆ CSeq_hist_rec_Base() [1/2] ◆ CSeq_hist_rec_Base() [2/2] ◆ CSeq_inst_Base() [1/2] ◆ CSeq_inst_Base() [2/2] ◆ CSeq_literal_Base() [1/2] ◆ CSeq_literal_Base() [2/2] ◆ CSeqdesc_Base() [1/2] ◆ CSeqdesc_Base() [2/2] ◆ CTextannot_id() [1/2] ◆ CTextannot_id() [2/2] CTextannot_id::CTextannot_id ( void ) inline

Definition at line 86 of file Textannot_id.hpp.

◆ CTextannot_id_Base() [1/2] ◆ CTextannot_id_Base() [2/2] ◆ DECLARE_INTERNAL_TYPE_INFO() [1/31] CAlign_def_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [2/31] CAnnot_descr_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [3/31] CAnnot_id_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [4/31] CAnnotdesc_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [5/31] CBioseq_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [6/31] CDelta_ext_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [7/31] CDelta_seq_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [8/31] CLinkage_evidence_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [9/31] CMap_ext_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [10/31] CMolInfo_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [11/31] CNum_cont_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [12/31] CNum_enum_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [13/31] CNum_real_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [14/31] CNum_ref_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [15/31] CNumbering_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [16/31] CPubdesc_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [17/31] CRef_ext_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [18/31] CSeg_ext_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [19/31] CSeq_annot_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [20/31] CSeq_annot_Base::C_Data::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [21/31] CSeq_data_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [22/31] CSeq_descr_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [23/31] CSeq_ext_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [24/31] CSeq_gap_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [25/31] CSeq_hist_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [26/31] CSeq_hist_Base::C_Deleted::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [27/31] CSeq_hist_rec_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [28/31] CSeq_inst_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [29/31] CSeq_literal_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [30/31] CSeqdesc_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_INTERNAL_TYPE_INFO() [31/31] CTextannot_id_Base::DECLARE_INTERNAL_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [1/11] CHeterogen_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [2/11] CIUPACaa_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [3/11] CIUPACna_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [4/11] CNCBI2na_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [5/11] CNCBI4na_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [6/11] CNCBI8aa_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [7/11] CNCBI8na_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [8/11] CNCBIeaa_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [9/11] CNCBIpaa_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [10/11] CNCBIpna_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DECLARE_STD_ALIAS_TYPE_INFO() [11/11] CNCBIstdaa_Base::DECLARE_STD_ALIAS_TYPE_INFO ( ) ◆ DoSelect() [1/9] ◆ DoSelect() [2/9]

Definition at line 85 of file Annotdesc_.cpp.

References CObject::AddReference(), CAnnotdesc_Base::e_Align, CAnnotdesc_Base::e_Comment, CAnnotdesc_Base::e_Create_date, CAnnotdesc_Base::e_Name, CAnnotdesc_Base::e_Pub, CAnnotdesc_Base::e_Region, CAnnotdesc_Base::e_Src, CAnnotdesc_Base::e_Title, CAnnotdesc_Base::e_Update_date, CAnnotdesc_Base::e_User, CAnnotdesc_Base::m_choice, CAnnotdesc_Base::m_object, and CAnnotdesc_Base::m_string.

◆ DoSelect() [3/9] ◆ DoSelect() [4/9] ◆ DoSelect() [5/9] ◆ DoSelect() [6/9]

Definition at line 99 of file Seq_data_.cpp.

◆ DoSelect() [7/9] ◆ DoSelect() [8/9] ◆ DoSelect() [9/9]

Definition at line 111 of file Seqdesc_.cpp.

References CObject::AddReference(), CSeqdesc_Base::e_Comment, CSeqdesc_Base::e_Create_date, CSeqdesc_Base::e_Dbxref, CSeqdesc_Base::e_Embl, CSeqdesc_Base::e_Genbank, CSeqdesc_Base::e_Het, CSeqdesc_Base::e_Maploc, CSeqdesc_Base::e_Method, CSeqdesc_Base::e_Modelev, CSeqdesc_Base::e_Modif, CSeqdesc_Base::e_Mol_type, CSeqdesc_Base::e_Molinfo, CSeqdesc_Base::e_Name, CSeqdesc_Base::e_Num, CSeqdesc_Base::e_Org, CSeqdesc_Base::e_Pdb, CSeqdesc_Base::e_Pir, CSeqdesc_Base::e_Prf, CSeqdesc_Base::e_Pub, CSeqdesc_Base::e_Region, CSeqdesc_Base::e_Source, CSeqdesc_Base::e_Sp, CSeqdesc_Base::e_Title, CSeqdesc_Base::e_Update_date, CSeqdesc_Base::e_User, CSeqdesc_Base::m_choice, CSeqdesc_Base::m_Het, CSeqdesc_Base::m_Method, CSeqdesc_Base::m_Modif, CSeqdesc_Base::m_Mol_type, CSeqdesc_Base::m_object, and CSeqdesc_Base::m_string.

◆ EAlign_type()

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

◆ EBiomol()

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

◆ ECompleteness()

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

◆ EDb()

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

◆ ELinkage()

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

◆ EMol()

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

◆ EReftype()

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

◆ ERepr()

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

◆ EStrand()

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

◆ ETech()

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

◆ ETopology()

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

◆ EType() [1/3]

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

◆ EType() [2/3]

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

◆ EType() [3/3]

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

◆ Get() [1/6]

Get the member data.

Returns: Reference to the member data.

Definition at line 164 of file Annot_descr_.hpp.

References CAnnot_descr_Base::m_data.

Referenced by CBedTrackRecord::Assign(), BOOST_AUTO_TEST_CASE(), CBedObjectLoader::Execute(), CVcfObjectLoader::Execute(), CWigObjectLoader::Execute(), CSeq_annot_Finder::Find(), CSeqUtils::GetAnnotUserField(), CBamUtils::GetCoverageGraphInfo(), NSnp::GetCreateTime(), CWriteUtil::GetDescriptor(), CAnnotObject_Info::GetLocsTypes(), CAnnotObject_Info::GetMaps(), CSeq_annot_SplitInfo::GetName(), CSGSeqGraphJob::GetSeqtableAnnots(), CReadUtil::GetTrackValue(), CSeqTableReader::Init(), MakeCompartments(), NSnpBins::ReadAnnotDesc(), s_CollapseProjectFolder(), s_GetAnnotContent(), s_GetAnnotName(), s_GetVcfMetaInfo(), s_IsMatchById(), s_IsSameSeqAnnot(), s_RetainEmptyAnnot(), CValidError_annot::ValidateSeqAnnot(), CUCSCRegionWriter::WriteAnnot(), CBedWriter::WriteAnnot(), CGvfWriter::WriteHeader(), CFeatureItem::x_AddQualSeqfeatNote(), CFlatGatherer::x_AnnotComments(), CBioseqContext::x_CheckForShowComments(), CAdvancedAlignCleanup::x_CleanupProsplignCompartment(), CFlatGatherer::x_GetAnnotDescStrucCommentFromBioseqHandle(), CBamRefSeqInfo::x_LoadRangesCov(), CSGAnnotJob::x_PercentileButNotMax(), CProSplignJob::x_ProcessCompartment(), CAttribTableColumnIdPanel::x_TableReaderCommon(), CSeq_annot_Info::x_UpdateName(), CVcfWriter::x_WriteMetaCreateNew(), and CWiggleWriter::xWriteTrackLine().

◆ Get() [2/6]

Get the member data.

Returns: Reference to the member data.

Definition at line 164 of file Delta_ext_.hpp.

References CDelta_ext_Base::m_data.

◆ Get() [3/6] ◆ Get() [4/6] ◆ Get() [5/6] ◆ Get() [6/6]

Get the member data.

Returns: Reference to the member data.

Definition at line 166 of file Seq_descr_.hpp.

References CSeq_descr_Base::m_data.

Referenced by AddLocalIdUserObjects(), AddMasterDescr(), CWGSDb_Impl::AddMasterDescr(), CNewCleanup_imp::AddProteinTitles(), CBioseq_Base_Info::AddSeq_descr(), CBlobSplitterImpl::AttachToSkeleton(), CDiscrepancyContext::AutofixBioseq(), CDiscrepancyContext::AutofixBioseq_set(), CDiscrepancyContext::AutofixSeq_descr(), CSequesterSets::BioseqSetDescriptorPropagateDown(), BioseqSetDescriptorPropagateUp(), CSequesterSets::BioseqSetDescriptorPropagateUp(), BOOST_AUTO_TEST_CASE(), BuildProtBioseqSet(), CheckHost(), CheckLocalId(), CNewCleanup_imp::ClearEmptyDescr(), CollectDescriptors(), CSeq_descr_SplitInfo::Compare(), CompareDescrFeatSources(), CWithdrawSequences::CopyDescrToEntry(), CBlobSplitterImpl::CopySkeleton(), extractBioseqInfo(), CBlastDBExtractor::ExtractTitle(), CFindPub::find_pub(), FindUnverified(), FixDupDates(), FixEmblUpdateDates(), fta_tsa_tls_comment_dblink_check(), CValidError_imp::GatherTentativeName(), GenerateDiffListFromBioSource(), GenerateDiffListFromDescriptors(), get_title(), GetBioseqDiffs(), GetBioseqForSeqdesc(), CDUpdater::GetBlastDefline(), CBioseq::GetClosestDescriptor(), AlignmentCollection::GetDefline(), CEditObjectSet::GetEditCommand(), GetMolInfo(), variation::CVariationUtil::GetMolType(), IAlignRowHandle::GetOrgLabel(), CTable2AsnContext::GetOrgName(), GetPDBBlockFromSeqEntry(), GetProtRefDescr(), CBlastQuerySourceBioseqSet::GetSegmentInfo(), CWGSSeqIterator::GetSeq_descr(), CWGSScaffoldIterator::GetSeq_descr(), CWGSProteinIterator::GetSeq_descr(), CAlignFormatUtil::GetSeqDescrString(), CMolinfo_field::GetSequenceQualFromBioseq(), GetSourceDescriptors(), GetSpeciesFromBioseq(), TaxClient::GetTaxIDFromBioseq(), GetTaxIdInBioseq(), CBlastQuerySourceBioseqSet::GetTitle(), GuessGeneticCode(), HasRepairedIDs(), CWriteUtil::IsNucleotideSequence(), CWriteUtil::IsProteinSequence(), IsPubInSet(), variation::IsRefSeqGene(), variation::IsRightPartial(), CSeqEntrySource::IsUnverified(), IsUnverifiedContaminant(), IsUnverifiedFeature(), IsUnverifiedMisassembled(), IsUnverifiedOrganism(), CValidError_bioseq::IsWGS(), CMultiReader::LoadDescriptors(), CWGSMasterDescrSetter::Loaded(), CMultiReader::LoadTemplate(), CAutoAddDesc::LocateDesc(), CBlobSplitterImpl::MakeID2Chunk(), CTable2AsnContext::MergeSeqDescr(), CRemoveSet::MoveDescrToEntries(), CSegregateSetsBase::MoveDescrToEntries(), MoveSourceDescrToTop(), seqsubmit_split::NeedToInclude(), no_reference(), CDiscrepancyContext::PopulateBioseq(), CDiscrepancyContext::PopulateSeqSet(), CSeq_descr::PostRead(), CSeq_descr::PreWrite(), PrintASN1(), PropagateDBLink(), PropagateSuppliedLineage(), CNewCleanup_imp::ProtSeqBC(), CCleanup::PubAlreadyInSet(), CDUpdater::reformatBioseq(), CCleanup::RemoveNcbiCleanupObject(), CCleanup::RemoveUnseenTitles(), RemoveUserObjectType(), CAgpconvertApplication::Run(), s_AddSeqTitleToPssm(), s_AutoDefUserObjectFromBioseq(), s_CheckForSegments(), s_GetDescriptor(), s_GetFastaDefline(), s_GetInfluenzaLabel(), s_GetMolInfoAndSrcDescriptors(), s_GetOrgModNatHost(), s_GetQualityString(), s_GetSequenceId(), s_GetSourceDescriptors(), s_GetSourceSubtype(), s_GetTaxId(), s_GetTitle(), s_GetTitleDesc(), s_HasDescriptorOfType(), s_HasTitle(), s_HasWGSTech(), s_IsRefSeqGene(), CMacroFunction_RefreshDefline::s_RefreshDeflineCommand(), CValidError_bioseqset::SetShouldNotHaveMolInfo(), CValidErrorSuppress::SetSuppressedCodes(), CValidError_bioseqset::ShouldHaveNoDblink(), ShowOrgRef(), SimplifyBioseqForCD(), CReadInSkipObjectHook< Object >::SkipObject(), CBioseq_Info::sx_ShallowCopy(), CBioseq_set_Info::sx_ShallowCopy(), TrimEntry(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_bioseq::ValidateSeqGap(), CValidError_bioseqset::ValidateSetElements(), CValidError_bioseqset::ValidateSetTitle(), CVdbFastaExtractor::Write(), CCleanupHugeAsnReader::x_AddTopLevelDescriptors(), x_ApplyCmd(), CAutogeneratedCleanup::x_BasicCleanupBioseqDescr(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CNewCleanup_imp::x_ClearEmptyDescr(), CNewCleanup_imp::x_CollapseSet(), CGC_Assembly_Parser::x_CopyData(), CPhrap_Read::x_CreateDesc(), CPhrap_Contig::x_CreateDesc(), CSubmissionWizard::x_ExtractDescriptors(), CWriteDB_Impl::x_GetBioseqBinaryHeader(), CBioseq_Base_Info::x_GetDescList(), CWriteDB_Impl::x_GetFastaReaderDeflines(), x_GetMolLocTypeUserObj(), CDumpASNIndex::x_GetTaxId(), CCommonComponentScorer::x_GetUserCompList(), CWGSFileInfo::x_InitMasterDescr(), CSeqMasterIndex::x_InitSeqs(), CAgpconvertApplication::x_LoadTemplate(), CMakeProfileDBApp::x_MakeVol(), CNewCleanup_imp::x_MoveNpDBlinks(), CGC_Assembly_Parser::x_ParseGCSequence(), CPrimeCacheApplication::x_Process_Fasta(), CBioseq_Base_Info::x_RealLoadDescr(), CNewCleanup_imp::x_RemoveDupBioSource(), variation_ref::CHgvsParser::x_SeqIdToHgvsHeader(), CAgpConverter::x_SetChromosomeNameInSourceSubtype(), CStartItem::x_SetDate(), CGffFeatureContext::xAssignSequenceHasBioSource(), CGffFeatureContext::xAssignSequenceIsGenomicRecord(), seqsubmit_split::CSeqSubSplitter::xFlattenSeqEntry(), CBsDiffApp::xGetBioSampleAccs(), CBsDiffApp::xGetBioSource(), CGenbank2Asn::xGetEntry(), CXml2Asn::xGetEntry(), and seqsubmit_split::CSeqSubSplitter::xMergeSeqDescr().

◆ GetA() ◆ GetAccession() ◆ GetAlign() [1/2] ◆ GetAlign() [2/2]

Get the variant data.

Returns: Reference to the data.

Definition at line 641 of file Seq_annot_.hpp.

Referenced by BOOST_AUTO_TEST_CASE(), Convert_Seq_annot_Seq_align(), Convert_Seq_annot_Seq_loc_All(), Convert_Seq_annot_Seq_loc_TotalRange(), CSeq_annot_SplitInfo::CountAnnotObjects(), CTableDataAlnSummary::CTableDataAlnSummary(), CMAViewManager::DoTransition(), AnnotObjTrait< CSeq_align >::GetCont(), GetDenDiagSet(), CCdCore::GetNumRows(), CMAViewManager::NeedAnchorPanel(), CEditsSaver::Remove(), CAlignCleanupApplication::Run(), CTestBlastp_All::RunTest(), s_GetAnnotContent(), CRemoveSeqFromAlignDlg::SearchSeq_entry(), CSeq_annot_SplitInfo::SetSeq_annot(), TestSimpleAlignment(), CValidError_annot::ValidateSeqAnnot(), CAlnWriter::WriteAnnot(), CPslWriter::WriteAnnot(), CUpdateMultiSeq_Dlg::x_CreateAlignmentForIdenticalUpdates(), CBLASTSeqToolJob::x_CreateProjectItems(), CGroupAlignmentsJob::x_CreateProjectItems(), CUpdateMultiSeq_Dlg::x_GenerateAlignments(), CAppHitFilter::x_ReadInputHits(), and CSplitDataLoader::x_SplitAligns().

◆ GetAlign_group() ◆ GetAlign_type() ◆ GetAligns() ◆ GetAnnot()

Get the Annot member data.

Returns: Reference to the member data.

Definition at line 366 of file Bioseq_.hpp.

References CBioseq_Base::m_Annot.

Referenced by AddFeat(), AddFeatureToBioseq(), CReadBlastApp::addLocation(), CReadBlastApp::AnalyzeSeqsViaBioseqs(), CDiscrepancyContext::AutofixBioseq(), CheckMiscPartialErrors(), CkCdRegion(), CReadBlastApp::collectPerfectHits(), CBlobSplitterImpl::CopySkeleton(), CReadBlastApp::fit_blast(), fta_collect_genes(), GetEmblDescr(), GetGenBankDescr(), CReadBlastApp::getGenomicInterval(), CReadBlastApp::getGenomicLocation(), CReadBlastApp::getLocusTag(), GetMMDBId(), CReadBlastApp::GetProtName(), GetProtRefDescr(), CReadBlastApp::has_blast_hits(), CReadBlastApp::hasGenomicInterval(), CReadBlastApp::hasGenomicLocation(), CCleanup::MoveFeatToProtein(), CFeatureTableReader::MoveRegionsToProteins(), no_reference(), CDiscrepancyContext::PopulateBioseq(), CFeatureTableReader::RemoveEmptyFtable(), s_GetClipLoc(), s_GetQualityString(), s_HasUnprocessedCdregions(), CClippedScorer::ScoreAlignments(), CBioseq_Info::sx_ShallowCopy(), CdBlaster::truncateBioseq(), objects::VisitAllFeatures(), CQualScoreWriter::Write(), x_InferenceInSeqs(), CSeqMasterIndex::x_InitSeqs(), CNewCleanup_imp::x_IsCommentRedundantWithEC(), CBamRefSeqInfo::x_LoadRangesCov(), CNewCleanup_imp::x_MoveCdregionXrefsToProt(), CNewCleanup_imp::x_RemoveEmptyFeatureTables(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CGff3Writer::x_WriteBioseqHandle(), CQualScoreWriter::x_WriteHeader(), and CFeatureTableReader::xParseCdregions().

◆ GetAscending() ◆ GetAssembly()

Get the Assembly member data.

Returns: Reference to the member data.

Definition at line 512 of file Seq_hist_.hpp.

References CSeq_hist_Base::m_Assembly.

Referenced by BOOST_AUTO_TEST_CASE(), CValidError_bioseq::CheckTpaHistory(), CSeq_hist_SplitInfo::CSeq_hist_SplitInfo(), GetAllSwitchPoints(), CBioseq::GetNonLocalId(), CCommentItem::GetStringForTPA(), RestoreModelFromInternalGnomonFeature(), RestoreModelFromPublicMrnaFeature(), CCreateSeqHistForTpa::ValidateAlignments(), CSGSwitchPointJob::x_Execute(), CPrimaryItem::x_GatherInfo(), CCommonComponentScorer::x_GetSeqHistCompList(), and CPrimaryItem::x_GetStrForPrimary().

◆ GetB() ◆ GetBiomol()

Get the Biomol member data.

Returns: Copy of the member data.

Definition at line 447 of file MolInfo_.hpp.

References CMolInfo_Base::m_Biomol.

Referenced by AddDefaultSentinelFeats(), AdjustProteinMolInfoToMatchCDS(), CMolInfoEditDlg::ApplyToMolInfo(), CValidError_bioseqset::CheckForInconsistentBiomols(), FinalCleanup(), CFlatFileGenerator::Generate(), CWriteUtil::GetBiomol(), CBioseqContext::GetBiomol(), CMolInfo::GetLabel(), variation::CVariationUtil::GetMolType(), CMolinfo_field::GetSequenceQualFromBioseq(), GetTitle(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CMolInfoField::GetVal(), CEditingActionMolInfoMolecule::GetValue(), CValidError_bioseq::IsMrna(), CSeqTextDataSource::IsmRNASequence(), CValidError_imp::IsOtherDNA(), CNewCleanup_imp::MolInfoBC(), CMolInfoSubpanel::OnSelectButton(), CAdjustForConsensusSpliceSite::s_IsBioseqGood_AdjustEnds(), s_UpdateGlobalInfo(), CMolInfoSubpanel::SetClusters(), CCleanup::SetMolinfoBiomol(), CReadInSkipObjectHook< Object >::SkipObject(), CMolTypeValidator::Validate(), CValidError_imp::ValidateBioSourceForSeq(), CValidError_desc::ValidateMolInfo(), CValidError_bioseq::ValidateMolInfoContext(), CSubmissionWizard::x_ApplyMolinfoToRecords(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CNewCleanup_imp::x_ExtendSingleGeneOnMrna(), CAsn2FastaApp::x_GetFastaOstream(), CAutoDef::x_GetOneNonFeatureClause(), CBioseqIndex::x_InitDescs(), CPrimeCacheApplication::x_Process_Fasta(), CSplignTool::x_SelectCompatibleInputObjects(), CAutoDefFeatureClause::x_SetBiomol(), CLocusItem::x_SetBiomol(), CDeflineGenerator::x_SetFlags(), CFeatureGenerator::SImplementation::x_SetQualForGapFilledModel(), CValidError_bioseq::x_ValidateAbuttingRNA(), CValidError_bioseq::x_ValidateAbuttingUTR(), CValidError_bioseq::x_ValidateCompletness(), CValidError_bioseq::x_ValidateMolInfoForBioSource(), CRNAValidator::x_ValidateRnaProductType(), and CGffFeatureContext::xAssignSequenceIsGenomicRecord().

◆ GetBool() ◆ GetComment() [1/3] ◆ GetComment() [2/3] ◆ GetComment() [3/3]

Get the variant data.

Returns: Reference to the data.

Definition at line 1058 of file Seqdesc_.hpp.

References CSeqdesc_Base::CheckSelected(), CSeqdesc_Base::e_Comment, and CSeqdesc_Base::m_string.

Referenced by BOOST_AUTO_TEST_CASE(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), CCommentDescField::GetVal(), CEditingActionDescCommentDescriptor::GetValue(), CEditingActionDescComment::GetValue(), CCommentDescField::IsEmpty(), CFindASN1Dlg::ReplaceInDesc(), s_GetContentLabel(), CCommentDescField::SetVal(), CValidError_desc::ValidateSeqDesc(), CFeatureItem::x_AddQualProtComment(), CValidError_bioseq::x_CheckForMultipleComments(), CCommentItem::x_GatherDescInfo(), and CBioseqIndex::x_InitDescs().

◆ GetCompleteness()

Get the Completeness member data.

Returns: Copy of the member data.

Definition at line 594 of file MolInfo_.hpp.

References CMolInfo_Base::m_Completeness.

Referenced by AdjustProteinMolInfoToMatchCDS(), CMolInfoEditDlg::ApplyToMolInfo(), BOOST_AUTO_TEST_CASE(), CkNonTerSP(), CCmdAddCDS::Execute(), CMolInfo::GetLabel(), CMolinfo_field::GetSequenceQualFromBioseq(), CCommentItem::GetStringForMolinfo(), CMolInfoField::GetVal(), CEditingActionMolInfoCompletedness::GetValue(), CValidError_bioseq::IsPartial(), variation::IsRightPartial(), CNewCleanup_imp::MolInfoBC(), s_IsBioseqPartial(), s_IsPartial(), SeqLocPartialCheck(), SetMolinfoCompleteness(), SetMolInfoCompleteness(), CReadInSkipObjectHook< Object >::SkipObject(), CValidError_bioseq::ValidateBioseqContext(), CValidError_imp::ValidateBioSourceForSeq(), CValidError_bioseq::ValidateMolInfoContext(), CCmdCreateCDS::x_AddMolinfoDescriptorToProtein(), CFlatGatherer::x_HTGSComments(), CBioseqIndex::x_InitDescs(), CMacroFunction_AutodefComplete::x_IsComplete(), CPrimeCacheApplication::x_Process_Fasta(), CDeflineGenerator::x_SetFlags(), x_TitleFromChromosome(), CCdregionValidator::x_ValidateCDSPartial(), CValidError_bioseq::x_ValidateCompletness(), CProtValidator::x_ValidateMolinfoPartials(), and CValidError_bioseq::x_ValidateTitle().

◆ GetCont() ◆ GetCreate_date() [1/2] ◆ GetCreate_date() [2/2]

Get the variant data.

Returns: Reference to the data.

Definition at line 472 of file Seqdesc_.cpp.

References CSeqdesc_Base::CheckSelected(), CSeqdesc_Base::e_Create_date, and CSeqdesc_Base::m_object.

Referenced by CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), SLaterDate::operator()(), s_GetContentLabel(), s_GetDate(), CValidError_desc::ValidateSeqDesc(), CValidError_bioseq::ValidateSeqDescContext(), CDateItem::x_GatherInfo(), CLocusItem::x_GetDateForBioseq(), and CStartItem::x_SetDate().

◆ GetData()

Get the Data member data.

Returns: Reference to the member data.

Definition at line 873 of file Seq_annot_.hpp.

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

Referenced by AlignmentCollection::addPendingAlignment(), CImportFeatTable::AddSeqAnnotToSeqEntry(), CRemoveSeqAnnot::ApplyToSeqAnot(), CDiscrepancyContext::AutofixSeq_annot(), BOOST_AUTO_TEST_CASE(), CTestBlastp::CanTest(), FeatUtil::ContainsData(), Convert_Seq_annot_Seq_align(), Convert_Seq_annot_Seq_feat(), Convert_Seq_annot_Seq_graph(), Convert_Seq_annot_Seq_id(), Convert_Seq_annot_Seq_loc_All(), Convert_Seq_annot_Seq_loc_TotalRange(), CBlobSplitterImpl::CopyAnnot(), CVariationUtilities::CorrectRefAllele(), CSeq_annot_SplitInfo::CountAnnotObjects(), CTableDataSeq_annot::CreateObject(), CTableDataAlnSummary::CTableDataAlnSummary(), DemoteCDSToNucSeq(), DoImportFTable(), CMAViewManager::DoTransition(), EraseRow(), FindCd(), CScore_Partial::Get(), IIndexedFeatureReader::GetAnnotId(), CDataTrackUtils::GetColumnHeader(), AnnotObjTrait< CSeq_feat >::GetCont(), AnnotObjTrait< CSeq_align >::GetCont(), AnnotObjTrait< CSeq_graph >::GetCont(), CShowBlastDeflineTest::GetDeflineInfo(), GetDenDiagSet(), CDesktopAnnotItem::GetDescription(), CDataTrackUtils::GetFeatSubtypes(), CGuiObjectInfoSeq_annot::GetIcon(), GetInteractionDataFromIbis(), CSeq_annotHandler::GetLabel(), CNAUtils::GetNATrackInfo(), CCdCore::GetNumRows(), CSeq_annot_Handle::GetSeq_tableNumRows(), CGuiObjectInfoSeq_annot::GetSubtype(), CGffRecord::GetSubtypeOf(), CGuiObjectInfoSeq_annot::GetViewCategory(), CVcfTableView::GetVisibleRanges(), CTableDataFTable::Init(), CFeatTableEdit::InstantiateProductsNames(), CSeq_annot::IsAlign(), CSeq_annot_Handle::IsAlign(), CSeq_annot::IsFtable(), CSeq_annot_Handle::IsFtable(), CSeq_annot::IsGraph(), CSeq_annot_Handle::IsGraph(), CSeq_annot::IsIds(), CSeq_annot_Handle::IsIds(), CSeq_annot::IsLocs(), CSeq_annot_Handle::IsLocs(), CSeq_annot::IsSeq_table(), CSeq_annot_Handle::IsSeq_table(), CWriteUtil::IsThreeFeatFormat(), CCSRARefSeqInfo::LoadAnnotMainChunk(), CMakeCdrProds::MakeCdrProds(), CBlobSplitterImpl::MakeID2Chunk(), CBlobSplitterImpl::MakeSeq_annot(), CSeq_loc_Mapper_Base::Map(), CMAViewManager::NeedAnchorPanel(), CWholeFileAnnotation::Open(), PromoteCDSToNucProtSet(), CPromote::PromoteFeatures(), CGFFReader::Read(), ReadTabDelimitedTable(), CEditsSaver::Remove(), CAlignCleanupApplication::Run(), CGeneModelDemoApp::Run(), CFeatImportApp::Run(), CTestBlastp_All::RunTest(), CTestProtProd_Cdd::RunTest(), s_AttachAnnotToScope(), s_GetAnnotContent(), s_GetAnnotId(), s_GetAnnotType(), s_GetClipLoc(), s_GetSeqAnnotChoiceMask(), s_ReadMultipleTablesFromString(), UpdateViewer::SaveAlignments(), CClippedScorer::ScoreAlignments(), CRemoveSeqFromAlignDlg::SearchSeq_entry(), SetDenDiagSet(), CSeq_annot_SplitInfo::SetSeq_annot(), CNewCleanup_imp::ShouldRemoveAnnot(), SrchCdRegion(), sRunTest(), CMytestApplication::TestFeatureGeneOverlap(), TestSimpleAlignment(), CCmdPromoteCDS::Unexecute(), CValidError_annot::ValidateSeqAnnot(), CValidError_annot::ValidateSeqAnnotContext(), CVecscreenTest::VecscreenDisplay(), CSeq_annot_Handle::Which(), CUCSCRegionWriter::WriteAnnot(), CAlnWriter::WriteAnnot(), CPslWriter::WriteAnnot(), CSequenceEditingEventHandler::x_CacheSelectedLocations(), CImportFeatTable::x_CheckCollidingIds(), CImportFeatTable::x_CheckConsistentProteinIds(), CImportFeatTable::x_ContainsDuplicateIds(), CUpdateMultiSeq_Dlg::x_CreateAlignmentForIdenticalUpdates(), CImportFeatTable::x_CreateCommand(), CGFFReader::x_CreateGeneFeatures(), CBLASTSeqToolJob::x_CreateProjectItems(), CGroupAlignmentsJob::x_CreateProjectItems(), CUpdateMultiSeq_Dlg::x_GenerateAlignments(), CProjectFileWriter::x_GetAnnotId(), CAlignFilter::x_GetRegionMap(), CCreateGeneModelTask::x_Group_By_GeneID(), CID2SNPProcessor_Impl::x_LoadBlob(), CSGSegmentSmearJob::x_LoadFromNA(), CBamRefSeqInfo::x_LoadRangesCov(), CAppHitFilter::x_ReadInputHits(), CWiggleExportJob::x_RecalculateGraph(), CVariationNormalization_base< T >::x_Shift(), CSplitDataLoader::x_SplitAligns(), CSplitDataLoader::x_SplitAnnot(), CSplitDataLoader::x_SplitFeats(), CSplitDataLoader::x_SplitGraphs(), CCreateGeneModelTask::x_StoreGeneratedFeats(), CFormatGuessEx::x_TryBed15(), CFormatGuessEx::x_TryWiggle(), CModifySeqId::x_UpdateSeqAnnot(), CGff2Reader::xAssignAnnotId(), CMultiReaderApp::xPostProcessAnnot(), CWiggleReader::xPostProcessAnnot(), CMultiReaderApp::xProcess5ColFeatTable(), CMultiReaderApp::xProcessRmo(), CBedGraphWriter::xWriteAnnotFeatureTable(), CBedGraphWriter::xWriteAnnotGraphs(), CWiggleWriter::xWriteAnnotGraphs(), CBedGraphWriter::xWriteAnnotSeqTable(), and CWiggleWriter::xWriteAnnotTable().

◆ GetDate() [1/2] ◆ GetDate() [2/2] ◆ GetDb() ◆ GetDbxref() ◆ GetDeleted() ◆ GetDelta()

Get the variant data.

Returns: Reference to the data.

Definition at line 180 of file Seq_ext_.cpp.

References CSeq_ext_Base::CheckSelected(), CSeq_ext_Base::e_Delta, and CSeq_ext_Base::m_object.

◆ GetDesc()

Get the Desc member data.

Returns: Reference to the member data.

Definition at line 852 of file Seq_annot_.hpp.

References CSeq_annot_Base::CanGetDesc(), CSeq_annot_Base::m_Desc, and CSerialObject::ThrowUnassigned().

Referenced by CBedTrackRecord::Assign(), BOOST_AUTO_TEST_CASE(), CVcfObjectLoader::Execute(), CSeq_annot_Finder::Find(), CSeqUtils::GetAnnotUserField(), CBamUtils::GetCoverageGraphInfo(), CWriteUtil::GetDescriptor(), CAnnotObject_Info::GetLocsTypes(), CAnnotObject_Info::GetMaps(), CSeq_annot_SplitInfo::GetName(), CReadUtil::GetTrackValue(), MakeCompartments(), CBlobSplitterImpl::MakeSeq_annot(), s_CollapseProjectFolder(), s_GetAnnotContent(), s_GetAnnotName(), s_GetVcfMetaInfo(), s_IsMatchById(), s_RetainEmptyAnnot(), s_SetSearchParam(), CSeq_annot_Handle::Seq_annot_GetDesc(), CValidError_annot::ValidateSeqAnnot(), CUCSCRegionWriter::WriteAnnot(), CBedWriter::WriteAnnot(), CGvfWriter::WriteHeader(), CAdvancedAlignCleanup::x_CleanupProsplignCompartment(), CAnnotGetter::x_GetCompleteSeqAnnot(), CBamRefSeqInfo::x_LoadRangesCov(), CSGAnnotJob::x_PercentileButNotMax(), CProSplignJob::x_ProcessCompartment(), CSeq_annot_Info::x_UpdateName(), CVcfWriter::x_WriteMetaCreateNew(), CWiggleWriter::xWriteAnnotGraphs(), and CWiggleWriter::xWriteAnnotTable().

◆ GetDescr()

Get the Descr member data.

Returns: Reference to the member data.

Definition at line 315 of file Bioseq_.hpp.

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

Referenced by AddLocalIdUserObjects(), CWGSDb_Impl::AddMasterDescr(), CNewCleanup_imp::AddProteinTitles(), AddSeqdescToBioseq(), CDiscrepancyContext::AutofixBioseq(), BOOST_AUTO_TEST_CASE(), CheckHost(), CheckLocalId(), CollectDescriptors(), CompareDescrFeatSources(), CBlobSplitterImpl::CopySkeleton(), CSeqEntrySource::CSeqEntrySource(), extractBioseqInfo(), CBlastDBExtractor::ExtractTitle(), FindUnverified(), fta_tsa_tls_comment_dblink_check(), get_title(), GetBioseqForSeqdesc(), CDUpdater::GetBlastDefline(), AlignmentCollection::GetDefline(), GetDescrPointer(), GetMolInfo(), GetPDBBlockFromSeqEntry(), GetProtRefDescr(), CBlastQuerySourceBioseqSet::GetSegmentInfo(), CAlignFormatUtil::GetSeqDescrString(), CMolinfo_field::GetSequenceQualFromBioseq(), GetSpeciesFromBioseq(), CBioseq::GetTaxId(), TaxClient::GetTaxIDFromBioseq(), GetTaxIdInBioseq(), CBlastQuerySourceBioseqSet::GetTitle(), HasRepairedIDs(), IsUnverifiedContaminant(), IsUnverifiedFeature(), IsUnverifiedMisassembled(), IsUnverifiedOrganism(), CValidError_bioseq::IsWGS(), no_reference(), CApplyMods::operator()(), CDiscrepancyContext::PopulateBioseq(), PrintASN1(), PropagateSuppliedLineage(), RemoveUserObjectType(), CAgpconvertApplication::Run(), s_AddSeqTitleToPssm(), s_AutoDefUserObjectFromBioseq(), s_GetFastaDefline(), s_GetQualityString(), s_GetSequenceId(), s_GetTitle(), s_HasDescriptorOfType(), s_HasTitle(), s_HasWGSTech(), CSequenceEditingEventHandler::SaveDescriptors(), CValidErrorSuppress::SetSuppressedCodes(), ShowOrgRef(), SimplifyBioseqForCD(), CBioseq_Info::sx_ShallowCopy(), TrimEntry(), CTable2AsnContext::UpdateTaxonFromTable(), CValidError_bioseq::ValidateBioseq(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_bioseq::ValidateSeqGap(), CValidError_bioseqset::ValidateSetElements(), CVdbFastaExtractor::Write(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CNewCleanup_imp::x_CleanupGenbankBlock(), CNewCleanup_imp::x_ClearEmptyDescr(), CSubmissionWizard::x_ExtractDescriptorsFromSeqEntry(), CWriteDB_Impl::x_GetBioseqBinaryHeader(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CDumpASNIndex::x_GetTaxId(), CSeqMasterIndex::x_InitSeqs(), CMakeProfileDBApp::x_MakeVol(), CAgpConverter::x_SetChromosomeNameInSourceSubtype(), CMakeProfileDBApp::x_UpdateCobalt(), CGenbank2Asn::xGetEntry(), and CXml2Asn::xGetEntry().

◆ GetEmbl() ◆ GetEnum() ◆ GetExt()

Get the Ext member data.

Returns: Reference to the member data.

Definition at line 838 of file Seq_inst_.hpp.

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

◆ GetFig() ◆ GetFtable()

Get the variant data.

Returns: Reference to the data.

Definition at line 621 of file Seq_annot_.hpp.

Referenced by CImportFeatTable::AddSeqAnnotToSeqEntry(), CDiscrepancyContext::AutofixSeq_annot(), BOOST_AUTO_TEST_CASE(), FeatUtil::ContainsData(), Convert_Seq_annot_Seq_feat(), Convert_Seq_annot_Seq_loc_All(), Convert_Seq_annot_Seq_loc_TotalRange(), CSeq_annot_SplitInfo::CountAnnotObjects(), DemoteCDSToNucSeq(), DoImportFTable(), FindCd(), CScore_Partial::Get(), IIndexedFeatureReader::GetAnnotId(), AnnotObjTrait< CSeq_feat >::GetCont(), CDataTrackUtils::GetFeatSubtypes(), GetInteractionDataFromIbis(), CGffRecord::GetSubtypeOf(), CVcfTableView::GetVisibleRanges(), CTableDataFTable::Init(), CFeatTableEdit::InstantiateProductsNames(), CWriteUtil::IsThreeFeatFormat(), CBlobSplitterImpl::MakeID2Chunk(), CWholeFileAnnotation::Open(), PromoteCDSToNucProtSet(), CEditsSaver::Remove(), CGeneModelDemoApp::Run(), CTestProtProd_Cdd::RunTest(), s_GetAnnotContent(), s_GetClipLoc(), s_ReadMultipleTablesFromString(), CClippedScorer::ScoreAlignments(), CSeq_annot_SplitInfo::SetSeq_annot(), CNewCleanup_imp::ShouldRemoveAnnot(), CCmdPromoteCDS::Unexecute(), CValidError_annot::ValidateSeqAnnot(), CValidError_annot::ValidateSeqAnnotContext(), CUCSCRegionWriter::WriteAnnot(), CSequenceEditingEventHandler::x_CacheSelectedLocations(), CImportFeatTable::x_CheckCollidingIds(), CImportFeatTable::x_CheckConsistentProteinIds(), CImportFeatTable::x_ContainsDuplicateIds(), CImportFeatTable::x_CreateCommand(), CProjectFileWriter::x_GetAnnotId(), CAlignFilter::x_GetRegionMap(), CCreateGeneModelTask::x_Group_By_GeneID(), CSplitDataLoader::x_SplitFeats(), CCreateGeneModelTask::x_StoreGeneratedFeats(), CMultiReaderApp::xProcess5ColFeatTable(), CMultiReaderApp::xProcessRmo(), and CBedGraphWriter::xWriteAnnotFeatureTable().

◆ GetFuzz() [1/2] ◆ GetFuzz() [2/2] ◆ GetGap()

Get the variant data.

Returns: Reference to the data.

Definition at line 184 of file Seq_data_.cpp.

References CSeq_data_Base::CheckSelected(), CSeq_data_Base::e_Gap, and CSeq_data_Base::m_object.

Referenced by CSeq_literal::GetBridgeability(), GetLinkage(), s_GetFlankingGapTypes(), s_NewGapItem(), s_SubtractTail(), CValidError_bioseq::ValidateDelta(), WriteLinkageEvidence(), CBioseqIndex::x_InitGaps(), and CGapsEditor::x_SetGapParameters().

◆ GetGbmoltype() ◆ GetGenbank()

Get the variant data.

Returns: Reference to the data.

Definition at line 334 of file Seqdesc_.cpp.

References CSeqdesc_Base::CheckSelected(), CSeqdesc_Base::e_Genbank, and CSeqdesc_Base::m_object.

Referenced by BOOST_AUTO_TEST_CASE(), CEditHistory::GetCommand(), CAutoDef::GetKeywordPrefix(), CGenbankKeywordField::GetVals(), CGBBlockField::GetVals(), CGenbankKeywordField::IsEmpty(), CGBBlockField::IsEmpty(), CValidError_bioseq::IsHistAssemblyMissing(), CSGSequenceDS::IsRefSeqGene(), variation::IsRefSeqGene(), CFindASN1Dlg::ReplaceInDesc(), s_DetermineComponentType(), CMacroFunction_RemoveQual::s_RemoveFields(), CGBBlockField::SetVal(), CGenbankKeywordField::SetVal(), CAddSecondary::TransferDataToWindow(), CValidError_bioseq::ValidateMolInfoContext(), CValidError_bioseq::ValidateSecondaryAccConflict(), CValidError_bioseq::ValidateSeqDescContext(), CAccessionItem::x_GatherInfo(), COriginItem::x_GatherInfo(), CSourceItem::x_GatherInfo(), CLocusItem::x_GetDateForBioseq(), CValidError_bioseq::x_IsActiveFin(), x_IsWgsSecondary(), and CFlatGatherer::x_UnorderedComments().

◆ GetGeneral() ◆ GetGraph()

Get the variant data.

Returns: Reference to the data.

Definition at line 661 of file Seq_annot_.hpp.

Referenced by Convert_Seq_annot_Seq_graph(), Convert_Seq_annot_Seq_loc_TotalRange(), CSeq_annot_SplitInfo::CountAnnotObjects(), AnnotObjTrait< CSeq_graph >::GetCont(), CCSRARefSeqInfo::LoadAnnotMainChunk(), CEditsSaver::Remove(), s_GetAnnotContent(), CSeq_annot_SplitInfo::SetSeq_annot(), CValidError_annot::ValidateSeqAnnot(), CValidError_annot::ValidateSeqAnnotContext(), CID2SNPProcessor_Impl::x_LoadBlob(), CBamRefSeqInfo::x_LoadRangesCov(), CWiggleExportJob::x_RecalculateGraph(), CSplitDataLoader::x_SplitGraphs(), CBedGraphWriter::xWriteAnnotGraphs(), and CWiggleWriter::xWriteAnnotGraphs().

◆ GetHas_zero() ◆ GetHet() ◆ GetHist()

Get the Hist member data.

Returns: Reference to the member data.

Definition at line 859 of file Seq_inst_.hpp.

References CSeq_inst_Base::CanGetHist(), CSeq_inst_Base::m_Hist, and CSerialObject::ThrowUnassigned().

Referenced by CLoadSecondaryAccessions::apply(), BOOST_AUTO_TEST_CASE(), CValidError_bioseq::CheckTpaHistory(), CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CBlobSplitterImpl::CopySequence(), CAddSecondary::GetCommand(), CRemoveSeqHistAssembly::GetCommand(), CBioseq::GetNonLocalId(), CValidError_bioseq::IsHistAssemblyMissing(), RestoreModelFromInternalGnomonFeature(), RestoreModelFromPublicMrnaFeature(), CBioseq_Info::sx_ShallowCopy(), CSplitCacheApp::TestSplitBlob(), CValidError_bioseq::ValidateHistory(), CSGSwitchPointJob::x_Execute(), and x_FindLatestSequence().

◆ GetId() [1/2]

Get the Id member data.

Returns: Reference to the member data.

Definition at line 290 of file Bioseq_.hpp.

References CBioseq_Base::m_Id.

◆ GetId() [2/2] ◆ GetIds() [1/3] ◆ GetIds() [2/3] ◆ GetIds() [3/3] ◆ GetInst()

Get the Inst member data.

Returns: Reference to the member data.

Definition at line 336 of file Bioseq_.hpp.

References CBioseq_Base::m_Inst, and CBioseq_Base::ResetInst().

◆ GetIupacaa()

Get the variant data.

Returns: Reference to the data.

Definition at line 530 of file Seq_data_.hpp.

References CSeq_data_Base::CheckSelected(), CSeq_data_Base::e_Iupacaa, and CSeq_data_Base::m_Iupacaa.

Referenced by CSeqportUtil_implementation::AppendIupacaa(), CBlastFormattingMatrix::CBlastFormattingMatrix(), CheckTranslatedBioseq(), CSeq_inst::ConvertDeltaToRaw(), CSeqportUtil_implementation::FastValidateIupacaa(), CValidError_bioseq::GetDataLen(), NSNPVariationHelper::GetDeltas(), CSeqportUtil_implementation::GetIupacaaCopy(), CBlobSplitterImpl::GetLength(), GetNcbieaaString(), GetNcbistdSeq(), GetRawSequenceString(), GetSeqLength(), CGuiObjectInfoVariant::GetToolTip(), NSnpGui::GetVcfType(), CSeqportUtil_implementation::Pack(), PackSeqData(), SeqToDeltaSP(), SetNewProteinSequence(), CSeqportUtil_implementation::ValidateIupacaa(), CCleanup::WGSCleanup(), variation::CVariationUtil::x_InferNAfromAA(), variation_ref::CVariationUtil::x_ProtToPrecursor(), CVectorTrimPanel::x_RetranslateCDS(), and variation_ref::CHgvsParser::x_SeqLiteralToStr().

◆ GetIupacna()

Get the variant data.

Returns: Reference to the data.

Definition at line 510 of file Seq_data_.hpp.

References CSeq_data_Base::CheckSelected(), CSeq_data_Base::e_Iupacna, and CSeq_data_Base::m_Iupacna.

Referenced by AddLiteral(), CSeqportUtil_implementation::AppendIupacna(), BOOST_AUTO_TEST_CASE(), variation::ContainsIupacNaAmbiguities(), CSeq_inst::ConvertDeltaToRaw(), ConvertRawToDeltaByNs(), CountNs(), CountNucleotides(), CSeqportUtil_implementation::FastValidateIupacna(), GapsToDelta(), CSeqportUtil_implementation::GetAmbigs_iupacna_ncbi2na(), CValidError_bioseq::GetDataLen(), NSNPVariationHelper::GetDeltas(), CSeqportUtil_implementation::GetIupacnaCopy(), CBlobSplitterImpl::GetLength(), CGuiObjectInfoVariant::GetToolTip(), NSnpGui::GetVcfType(), InsertStop(), CVariationUtilities::IsReferenceCorrect(), CSeqportUtil_implementation::MapIupacnaToNcbi2na(), RevComp(), CWinMaskDemoApplication::Run(), CNmer_repeatsApplication::Run(), s_GetAltRefFromInst(), s_GetQuerySequence(), SeqToDelta(), SetSequenceEnd(), SetSequenceStart(), variation::CVariationUtil::TranslateNAtoAA(), CSeqportUtil_implementation::ValidateIupacna(), CVdbFastaExtractor::Write(), CFeatureItem::x_AddQualsVariation(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), variation_ref::CHgvsParser::x_SeqLiteralToStr(), variation::CHgvsParser::x_SeqLiteralToStr(), CVariationNormalization_base< T >::x_Shift(), and CForeignContaminationScreenReportReader::xTrimData().

◆ GetLength() [1/2]

Get the Length member data.

Returns: Copy of the member data.

Definition at line 659 of file Seq_inst_.hpp.

References CSeq_inst_Base::CanGetLength(), CSeq_inst_Base::m_Length, and CSerialObject::ThrowUnassigned().

Referenced by CGapsEditor::AddBioseqAsLiteral(), AddProtFeat(), CFeatGapInfo::AdjustProteinSeq(), AppendBioseqLabel(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), CFastaReader::AssembleSeq(), BOOST_AUTO_TEST_CASE(), BuildGoodByteGraph(), CDiscrepancyContext::BuildSeqSummary(), Check3Policy(), CheckAdjustStart(), CheckAdjustStop(), CValidError_bioseq::CheckSourceDescriptor(), seqsubmit_split::SLongestFirstCompare::compare_seq(), seqsubmit_split::SShortestFirstCompare::compare_seq(), CGapsEditor::ConvertBioseqToDelta(), CSeq_inst::ConvertDeltaToRaw(), CGapsEditor::ConvertNs2Gaps(), ConvertRawToDeltaByNs(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CreateTruncatedSequence(), CSeqMap::CSeqMap(), CLocationEditPolicy::Extend5(), CDesktopBioseqItem::GetDescription(), GetGoodSeqEntryWithFeatureIds(), CBioseq_set::GetLabel(), CBlobSplitterImpl::GetLength(), CBioseq::GetLength(), CReadBlastApp::getQueryLen(), CPssm::GetQueryLength(), GetRetranslateCDSCommand(), GetSeqLength(), CValidError_graph::GetUngappedSeqLen(), CFastaObjectLoader::LoadFromStream(), MakeMultiSeqCDS(), NormalizeUnknownLengthGaps(), CBioseq::PackAsDeltaSeq(), PatchTargetSequence(), CBlastFormat::PrintReport(), PrintTabular(), PrintTabularUnaligned(), RemoteFetchLongNucleotideBioseq(), ReverseComplement(), CSeqDBDemo_SeqidToBioseq::Run(), CWinMaskDemoApplication::Run(), s_BasicValidation(), s_GetTrimCoordinates(), s_PercentBioseqMatch(), s_WillReportTerminalGap(), PssmScorer::score(), SetNewProteinSequence(), CReadBlastApp::short_proteins(), CBioseq_Info::sx_ShallowCopy(), TrimSeqData(), TrimSequenceAndAnnotation(), TrimStopsFromCompleteCDS(), CdBlaster::truncateBioseq(), TruncateTransSplicedCDSForExtension(), CValidError_bioseq::ValidateDelta(), CValidError_graph::ValidateGraphsOnBioseq(), CValidError_bioseq::ValidateNsAndGaps(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateSegRef(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_bioseq::ValidateSeqLen(), WriteDB_Ncbi4naToBinary(), CAlignFormatUtil::x_AcknowledgeBlastSequence(), CWriteDB_Impl::x_ComputeSeqLength(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CBlastFastaInputSource::x_FastaToSeqLoc(), CSraInputSource::x_GetNextSeq_loc(), CVectorTrimPanel::x_GetTrimCoordinates(), CASN1InputSourceOMF::x_ReadOneSeq(), CVectorTrimPanel::x_RetranslateCDS(), CWGSSeqIterator::x_SetDelta(), CVectorTrimPanel::x_SetSeqData(), CSplitDataLoader::x_SplitSeqData(), CSequenceDataTester::x_TestSingleSequence_Remote(), CGff3Writer::xAssignFeature(), CGff3Writer::xAssignFeatureEndpoints(), CFeatTableEdit::xGenerate_mRNA_Product(), CFeatureTableReader::xTranslateProtein(), CGff3Writer::xWriteFeatureGeneric(), and CGff3Writer::xWriteFeatureTrna().

◆ GetLength() [2/2]

Get the Length member data.

Returns: Copy of the member data.

Definition at line 261 of file Seq_literal_.hpp.

References CSeq_literal_Base::CanGetLength(), CSeq_literal_Base::m_Length, and CSerialObject::ThrowUnassigned().

Referenced by AddLiteral(), CConvertGapsBySize::apply(), CExpandGaps::apply(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), variation::CVariationUtil::AttachSeq(), CSeq_inst::ConvertDeltaToRaw(), CGapsEditor::ConvertNs2Gaps(), variation::CVariationUtil::FlipStrand(), CAddLinkageToGaps::GetCommand(), GetDeltaSeqSummary(), CBlobSplitterImpl::GetLength(), CGuiObjectInfoVariant::GetToolTip(), variation::CVariationUtil::Remap(), ReverseComplement(), s_CheckSeg(), s_FixBioseqDeltas(), s_GetDeltaLen(), s_GetUngapLoc(), s_IntervalsMatchGaps(), s_IsConWithGaps(), CUpdateSeq_Input::s_IsDeltaWithNoGaps(), s_NsAreGaps(), variation_ref::CVariationUtil::s_ResolveIntronicOffsets(), variation::CVariationUtil::s_SpliceLiterals(), s_SubtractTail(), variation::CVariationUtil::TranslateNAtoAA(), CValidError_bioseq::ValidateDelta(), CSeqMap::x_Add(), CFeatureItem::x_AddQualsVariation(), CBioseq_Info::x_CalcBioseqLength(), CValidError_bioseq::x_CountAdjacentNs(), CContigItem::x_GatherInfo(), variation_ref::CHgvsParser::x_GetInstLength(), variation::CHgvsParser::x_GetInstLength(), CValidError_graph::x_GetLitLength(), CGencollIdMapper::x_IsLoc_Int_InAGap(), variation::CHgvsParser::x_no_change(), variation_ref::CHgvsParser::x_nuc_subst(), variation::CHgvsParser::x_nuc_subst(), variation::CHgvsParser::x_prot_missense(), variation_ref::CHgvsParser::x_prot_pos(), variation::CHgvsParser::x_prot_pos(), CGapsEditor::x_SetGapParameters(), variation_ref::CVariationUtil::x_SetVariantProperties(), CUnorderedSplitter::x_SplitDeltaExt(), CValidError_graph::x_ValidateGraphOnDeltaBioseq(), CForeignContaminationScreenReportReader::xTrimExt(), and CForeignContaminationScreenReportReader::xTrimLiteral().

◆ GetLinkage() ◆ GetLinkage_evidence() ◆ GetLiteral()

Get the variant data.

Returns: Reference to the data.

Definition at line 124 of file Delta_seq_.cpp.

References CDelta_seq_Base::CheckSelected(), CDelta_seq_Base::e_Literal, and CDelta_seq_Base::m_object.

Referenced by AddLiteral(), CConvertGapsBySize::apply(), CExpandGaps::apply(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), CBlobSplitterImpl::AttachToSkeleton(), CBlobSplitterImpl::CopySequence(), CAddLinkageToGaps::GetCommand(), CBlobSplitterImpl::GetLength(), CExpandGaps::IsSkipGap(), s_CheckSeg(), s_GetDeltaLen(), s_GetUngapLoc(), s_NsAreGaps(), CSeqMap::x_Add(), CBioseq_Info::x_CalcBioseqLength(), CGencollIdMapper::x_IsLoc_Int_InAGap(), CGapsEditor::x_SetGapParameters(), CUnorderedSplitter::x_SplitDeltaExt(), CForeignContaminationScreenReportReader::xCheckLen(), and CForeignContaminationScreenReportReader::xTrimExt().

◆ GetLoc() ◆ GetLocal() ◆ GetLocs() ◆ GetMap() ◆ GetMaploc() [1/2] ◆ GetMaploc() [2/2] ◆ GetMethod() ◆ GetModelev() ◆ GetModif() ◆ GetMol()

Get the Mol member data.

Returns: Copy of the member data.

Definition at line 612 of file Seq_inst_.hpp.

References CSeq_inst_Base::CanGetMol(), CSeq_inst_Base::m_Mol, and CSerialObject::ThrowUnassigned().

Referenced by CCleanup::AddMissingMolInfo(), AppendBioseqLabel(), CClearKeywords::ApplyToCSeq_entry(), CMolInfoEditDlg::ApplyToInst(), CMolInfoEditDlg::ApplyToMolInfo(), CFastaReaderEx::AssignMolType(), BOOST_AUTO_TEST_CASE(), CAlnVec::CalculateScore(), CSequenceEditingEventHandler::ChangeToGenomicDna(), CBlobSplitterImpl::CopySequence(), CNewCleanup_imp::CreateMissingMolInfo(), CMolInfoEditDlg::CreateNewMolInfo(), CSeqMap::CSeqMap(), CSeqVector::CSeqVector(), sequpd::FindMatches(), CReadBlastApp::fit_blast(), CValidError_bioseq::GapByGapInst(), CAlnVecMultiDataSource::GetAlignType(), CSGAlignmentJob::GetAlignType(), CDataTrackUtils::GetAlignType(), CAdjustForConsensusSpliceSite::GetCommandToAdjustCDSEnds(), CDesktopBioseqItem::GetDescription(), CBioseq_set::GetGenomicFromGenProdSet(), CAutoDef::GetOneDefLine(), CMolinfo_field::GetSequenceQualFromBioseq(), CSeq_id::GetStringDescr(), CValidError_bioseq::GetTSAConflictingBiomolTechErrors(), CMolInfoField::GetVal(), CEditingActionMolInfoClass::GetValue(), CDeflineProcess::IndexedProcess(), CSeq_inst::IsAa(), IsBadSeqInstStrand(), CSeq_inst::IsNa(), CMolInfoSubpanel::OnSelectButton(), s_is_na(), s_ReplaceAllMolinfo(), s_WillReportTerminalGap(), CFlatfileProcess::SeqEntryProcess(), CGeneOverlapProcess::SeqEntryProcess(), CGeneFeatTreeProcess::SeqEntryProcess(), CMolInfoSubpanel::SetClusters(), CBioseq_Info::sx_ShallowCopy(), CValidError_imp::ValidateBioSourceForSeq(), CValidError_bioseq::ValidateInst(), CValidError_bioseq::ValidateMolInfoContext(), CValidError_bioseq::ValidateNsAndGaps(), CValidError_bioseqset::ValidatePartsSet(), CValidError_bioseqset::ValidateSegSet(), CValidError_bioseq::ValidateSeqIds(), CSeq_id::WriteAsFasta(), CFastaOstream::x_GetBestId(), CUnorderedSplitter::x_SplitDeltaExt(), CUnorderedSplitter::x_SplitSeqData(), CPrimeCacheApplication::x_StripSeqEntry(), and CValidError_bioseq::x_ValidateAbuttingRNA().

◆ GetMol_type() ◆ GetMolinfo()

Get the variant data.

Returns: Reference to the data.

Definition at line 588 of file Seqdesc_.cpp.

References CSeqdesc_Base::CheckSelected(), CSeqdesc_Base::e_Molinfo, and CSeqdesc_Base::m_object.

◆ GetName() [1/5] ◆ GetName() [2/5] ◆ GetName() [3/5] ◆ GetName() [4/5] ◆ GetName() [5/5] ◆ GetNames() ◆ GetNcbi() ◆ GetNcbi2na()

Get the variant data.

Returns: Reference to the data.

Definition at line 550 of file Seq_data_.hpp.

References CSeq_data_Base::CheckSelected(), CSeq_data_Base::e_Ncbi2na, and CSeq_data_Base::m_Ncbi2na.

Referenced by AddLiteral(), CSeqportUtil_implementation::AppendNcbi2na(), BOOST_AUTO_TEST_CASE(), ConvertRawToDeltaByNs(), CountNucleotides(), CValidError_bioseq::GetDataLen(), CBlobSplitterImpl::GetLength(), CSeqportUtil_implementation::GetNcbi2naCopy(), CSeqportUtil_implementation::Pack(), s_FixBioseqDeltas(), s_GetQuerySequence(), CWGSSeqIterator::x_GetSegmentsWithExplicitGaps(), and CWGSSeqIterator::x_GetSegmentsWithRecoveredGaps().

◆ GetNcbi4na()

Get the variant data.

Returns: Reference to the data.

Definition at line 570 of file Seq_data_.hpp.

References CSeq_data_Base::CheckSelected(), CSeq_data_Base::e_Ncbi4na, and CSeq_data_Base::m_Ncbi4na.

Referenced by AddLiteral(), CSeqportUtil_implementation::AppendNcbi4na(), BOOST_AUTO_TEST_CASE(), ConvertRawToDeltaByNs(), CountNs(), CountNucleotides(), CSeqportUtil_implementation::GetAmbigs_ncbi4na_ncbi2na(), CValidError_bioseq::GetDataLen(), CBlobSplitterImpl::GetLength(), CSeqportUtil_implementation::GetNcbi4naCopy(), CSeqportUtil_implementation::MapNcbi4naToNcbi2na(), s_FixBioseqDeltas(), s_GetQuerySequence(), WriteDB_Ncbi4naToBinary(), CWGSSeqIterator::x_GetSegmentsWithExplicitGaps(), CWGSSeqIterator::x_GetSegmentsWithRecoveredGaps(), and CSequenceDataTester::x_TestSingleNucleotide_Remote().

◆ GetNcbi8aa() ◆ GetNcbi8na() ◆ GetNcbieaa()

Get the variant data.

Returns: Reference to the data.

Definition at line 650 of file Seq_data_.hpp.

References CSeq_data_Base::CheckSelected(), CSeq_data_Base::e_Ncbieaa, and CSeq_data_Base::m_Ncbieaa.

Referenced by CSeqportUtil_implementation::AppendNcbieaa(), BOOST_AUTO_TEST_CASE(), CheckTranslatedBioseq(), CSeqportUtil_implementation::FastValidateNcbieaa(), CValidError_bioseq::GetDataLen(), CBlobSplitterImpl::GetLength(), CSeqportUtil_implementation::GetNcbieaaCopy(), GetNcbieaaString(), GetNcbistdSeq(), GetRawSequenceString(), GetSeqLength(), CSeqportUtil_implementation::Pack(), SetNewProteinSequence(), CSeqportUtil_implementation::ValidateNcbieaa(), variation::CHgvsParser::x_PlacementCoordsToStr(), variation_ref::CHgvsParser::x_prot_pos(), variation::CHgvsParser::x_prot_pos(), CVectorTrimPanel::x_RetranslateCDS(), and variation::CHgvsParser::x_SeqLiteralToStr().

◆ GetNcbipaa() ◆ GetNcbipna() ◆ GetNcbistdaa()

Get the variant data.

Returns: Reference to the data.

Definition at line 690 of file Seq_data_.hpp.

References CSeq_data_Base::CheckSelected(), CSeq_data_Base::e_Ncbistdaa, and CSeq_data_Base::m_Ncbistdaa.

Referenced by CSeqportUtil_implementation::AppendNcbistdaa(), CSeqportUtil_implementation::FastValidateNcbistdaa(), FindGeneticCode(), CValidError_bioseq::GetDataLen(), GetNcbieaaString(), CSeqportUtil_implementation::GetNcbistdaaCopy(), GetNcbistdSeq(), CPssm::GetQuerySequenceData(), GetRawSequenceString(), GetSeqLength(), CSeqportUtil_implementation::Pack(), PackSeqData(), s_GetQuerySequenceData(), s_GetRnaRefLabel(), CSeqportUtil_implementation::ValidateNcbistdaa(), and CSequenceDataTester::x_TestSingleProtein_Remote().

◆ GetNum() [1/3] ◆ GetNum() [2/3] ◆ GetNum() [3/3] ◆ GetNumexc() ◆ GetOrg()

Get the variant data.

Returns: Reference to the data.

Definition at line 240 of file Seqdesc_.cpp.

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

Referenced by GetOrg_refOrNull(), CBioseq::GetTaxId(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), GetTitle(), s_GetContentLabel(), s_GetTaxId(), CValidError_bioseq::ValidateSeqDescContext(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CNewCleanup_imp::x_CopyGBBlockDivToOrgnameDiv(), CDumpASNIndex::x_GetTaxId(), and CBlastTabularInfo::x_SetTaxInfoAll().

◆ GetOther() ◆ GetPdb() ◆ GetPir() ◆ GetPoly_a() ◆ GetPrf() ◆ GetPub() [1/3] ◆ GetPub() [2/3]

Get the Pub member data.

Returns: Reference to the member data.

Definition at line 605 of file Pubdesc_.hpp.

References CPubdesc_Base::m_Pub, and CPubdesc_Base::ResetPub().

Referenced by AddBioseqToTable(), CDiscrepancyContext::CParseNode::AddDescriptor(), CDiscrepancyContext::CParseNode::AddFeature(), CGlobalPubmedIdLookup::apply(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CCleanupPub::CleanPubdesc(), CCitationsPanel::CreateControls(), descr_cmp(), CSubmissionWizard::ExportTemplate(), fta_strip_er_remarks(), GetAuthList(), CValidErrorFormat::GetDescriptorContent(), GetDocSumLabel(), CGetDOIFromCitGen::GetDOI(), CGetDOIFromCitArt::GetDOI(), CEditObjectSeq_desc::GetEditCommand(), CValidErrorFormat::GetFeatureContentLabel(), CPubField::GetJournal(), CCleanup::GetPubdescLabels(), CPubField::GetPubTitle(), GetPubTitleAndAuthors(), GetSeqEntryForPubdesc(), GetTextObjectDescription(), CDiscrepancyObject::GetTextObjectDescription(), CPubField::GetVals(), HasAuthor(), HasUnpubWithoutTitle(), IsCitSubMissingAffiliation(), CCleanup::IsMinPub(), IsSeqDescInList(), IEditingActionDesc::Modify(), CEditingActionDescPubTitle::Modify(), CEditingActionDescPubPmid::Modify(), IEditingActionDescAffil::Modify(), IEditingActionDescAuthors::Modify(), IEditingActionDescJournal::Modify(), CEditingActionDescAuthorNameList::Modify(), PrintBioseqXML(), CCleanup::PubAlreadyInSet(), CFindASN1Dlg::ReplaceInPubdesc(), s_FirstPubMatchesSecond(), s_GatherExistingDOIs(), s_GatherExistingPMIDs(), s_GetContentLabel(), CMacroFunction_PubFields::s_GetStatus(), s_IsCitSub(), s_IsJustUids(), s_UpdateGlobalInfo(), CRelaxedLookupDlg::SetPubdesc(), CMacroFunction_PubFields::TheFunction(), CMacroFunction_ISOJTALookup::TheFunction(), CMacroFunction_LookupPub::TheFunction(), CRemarksAndSerialNumberPanel::TransferDataFromWindow(), CRemarksAndSerialNumberPanel::TransferDataToWindow(), CValidError_imp::ValidatePubdesc(), IRemovePubs::x_ApplyToDescriptors(), IRemovePubs::x_ApplyToSeqAndFeat(), CAutogeneratedCleanup::x_BasicCleanupSeqfeatPub(), CReferenceItem::x_CreateUniqueStr(), CFlatGatherer::x_GatherCDSReferences(), CReferenceItem::x_GatherInfo(), CFlatGatherer::x_GatherReferences(), CReferenceItem::x_GatherRemark(), CPubField::x_GetImprintField(), CRelaxedLookupDlg::x_GetPubIdsEutils(), CValidError_bioseq::x_HasCitSub(), CNewCleanup_imp::x_IsPubContentBad(), and CSrcWriter::xGather().

◆ GetPub() [3/3]

Get the variant data.

Returns: Reference to the data.

Definition at line 356 of file Seqdesc_.cpp.

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

Referenced by AddBioseqToTable(), CDiscrepancyContext::CParseNode::AddDescriptor(), CGlobalPubmedIdLookup::apply(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CCleanup::ConvertPubFeatsToPubDescs(), CCitationsPanel::CreateControls(), CReferenceItem::CReferenceItem(), descr_cmp(), CSubmissionWizard::ExtractDescriptor(), GetAuthList(), CCleanup::GetCitationList(), CReplaceSectionPanel::GetCommand(), CReplaceEntirePubPanel::GetCommand(), CValidErrorFormat::GetDescriptorContent(), CEditObjectSeq_desc::GetEditCommand(), GetPubTitle(), CPubField::GetStatus(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), CPubField::GetVal(), CPubField::GetVals(), IsSeqDescInList(), IEditingActionDesc::Modify(), CEditingActionDescPubTitle::Modify(), CEditingActionDescPubPmid::Modify(), IEditingActionDescAffil::Modify(), IEditingActionDescAuthors::Modify(), IEditingActionDescJournal::Modify(), CEditingActionDescAuthorNameList::Modify(), CCleanup::MoveOneFeatToPubdesc(), CMacroBioData_PubdescIter::Next(), SPubMatch::operator()(), PrintBioseqXML(), s_GetContentLabel(), s_IsCitSub(), CValidError_desc::ValidateSeqDesc(), CRelaxedLookupDlg::x_GetPubIdsEutils(), and CValidError_bioseq::x_HasCitSub().

◆ GetReal() ◆ GetRef() [1/2] ◆ GetRef() [2/2] ◆ GetRefnum() ◆ GetReftype() ◆ GetRegion() [1/2] ◆ GetRegion() [2/2] ◆ GetRelease() ◆ GetReplaced_by()

Get the Replaced_by member data.

Returns: Reference to the member data.

Definition at line 558 of file Seq_hist_.hpp.

References CSeq_hist_Base::CanGetReplaced_by(), CSeq_hist_Base::m_Replaced_by, and CSerialObject::ThrowUnassigned().

Referenced by CBlobSplitterImpl::CopySequence(), CEditHistory::CreateControls(), CModifySeqId::GetCommand(), s_CheckDataStatus(), CValidError_bioseq::ValidateHistory(), x_FindLatestSequence(), CHistComment::x_GatherInfo(), CFlatGatherer::x_HistoryComments(), and CGenbankFormatter::x_LocusHtmlPrefix().

◆ GetReplaces()

Get the Replaces member data.

Returns: Reference to the member data.

Definition at line 537 of file Seq_hist_.hpp.

References CSeq_hist_Base::CanGetReplaces(), CSeq_hist_Base::m_Replaces, and CSerialObject::ThrowUnassigned().

Referenced by CLoadSecondaryAccessions::apply(), CBlobSplitterImpl::CopySequence(), CEditHistory::CreateControls(), CAddSecondary::GetCommand(), CModifySeqId::GetCommand(), CValidError_bioseq::ValidateHistory(), CHistComment::x_GatherInfo(), CFlatGatherer::x_HistoryComments(), and CGenbankFormatter::x_LocusHtmlPrefix().

◆ GetRepr()

Get the Repr member data.

Returns: Copy of the member data.

Definition at line 565 of file Seq_inst_.hpp.

References CSeq_inst_Base::CanGetRepr(), CSeq_inst_Base::m_Repr, and CSerialObject::ThrowUnassigned().

◆ GetSeg()

Get the variant data.

Returns: Reference to the data.

Definition at line 114 of file Seq_ext_.cpp.

References CSeq_ext_Base::CheckSelected(), CSeq_ext_Base::e_Seg, and CSeq_ext_Base::m_object.

Referenced by CSeqMap::CSeqMap(), CModifySeqId::GetCommand(), CValidError_bioseq::GetLocFromSeq(), CMasterContext::GetPartNumber(), s_AddPartToSegmentedBioseq(), s_TitleFromSegment(), CValidError_bioseq::ValidateSegRef(), CValidError_bioseq::ValidateSeqParts(), CBioseq_Info::x_CalcBioseqLength(), CContigItem::x_GatherInfo(), x_GetSegSeqInfoViaCDS(), and CMasterContext::x_SetNumParts().

◆ GetSeq_data() [1/2]

Get the Seq_data member data.

Returns: Reference to the member data.

Definition at line 817 of file Seq_inst_.hpp.

References CSeq_inst_Base::CanGetSeq_data(), CSeq_inst_Base::m_Seq_data, and CSerialObject::ThrowUnassigned().

Referenced by BOOST_AUTO_TEST_CASE(), CheckTranslatedBioseq(), CkNonTerSP(), CGapsEditor::ConvertNs2Gaps(), ConvertRawToDeltaByNs(), CBlobSplitterImpl::CopySequence(), CSeqMap::CSeqMap(), GapsToDelta(), CValidError_bioseq::GetDataLen(), CBlobSplitterImpl::GetLength(), GetNcbieaaString(), GetNcbistdSeq(), CPssm::GetQuerySequenceData(), GetRawSequenceString(), GetSeqLength(), InsertStop(), MakeSeqLong(), MakeSeqVectorForResidueCounting(), CBioseq::PackAsDeltaSeq(), RawBioseqPack(), RevComp(), CWinMaskDemoApplication::Run(), s_AddSeqDataToPssm(), s_GetQuerySequence(), s_GetQuerySequenceData(), SeqToDelta(), SeqToDeltaSP(), SetNewProteinSequence(), SetSequenceEnd(), SetSequenceStart(), CBioseq_Info::sx_ShallowCopy(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateRepr(), CCleanup::WGSCleanup(), WriteDB_Ncbi4naToBinary(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), CVectorTrimPanel::x_RetranslateCDS(), CSequenceDataTester::x_TestSingleNucleotide_Remote(), CSequenceDataTester::x_TestSingleProtein_Remote(), and CForeignContaminationScreenReportReader::xTrimData().

◆ GetSeq_data() [2/2]

Get the Seq_data member data.

Returns: Reference to the member data.

Definition at line 322 of file Seq_literal_.hpp.

References CSeq_literal_Base::CanGetSeq_data(), CSeq_literal_Base::m_Seq_data, and CSerialObject::ThrowUnassigned().

Referenced by AddLiteral(), variation::CVariationUtil::AttachSeq(), CheckTranslatedBioseq(), CSeq_inst::ConvertDeltaToRaw(), CGapsEditor::ConvertNs2Gaps(), CBlobSplitterImpl::CopySequence(), CSeq_literal::GetBridgeability(), NSNPVariationHelper::GetDeltas(), GetDeltaSeqSummary(), CGuiObjectInfoVariant::GetToolTip(), NSnpGui::GetVcfType(), HasAssemblyOrNullGap(), CValidError_bioseq::HasBadWGSGap(), CVariationUtilities::IsReferenceCorrect(), variation::CVariationUtil::Remap(), CValidError_bioseq::ReportBadAssemblyGap(), ReverseComplement(), s_CheckSeg(), s_ContainsSeqDataIupacna(), s_FixBioseqDeltas(), s_GetAltRefFromInst(), s_GetFlankingGapTypes(), s_IntervalsMatchGaps(), s_IsConWithGaps(), CUpdateSeq_Input::s_IsGoodLiteral(), s_SubtractTail(), variation::CVariationUtil::TranslateNAtoAA(), CValidError_bioseq::ValidateDelta(), CSeqMap::x_Add(), CFeatureItem::x_AddQualsVariation(), CValidError_bioseq::x_CountAdjacentNs(), CValidError_graph::x_GetLitLength(), CWGSSeqIterator::x_GetSegmentsWithExplicitGaps(), CWGSSeqIterator::x_GetSegmentsWithRecoveredGaps(), variation::CHgvsParser::x_PlacementCoordsToStr(), variation_ref::CHgvsParser::x_prot_pos(), variation::CHgvsParser::x_prot_pos(), CGapsEditor::x_SetGapParameters(), CVariationNormalization_base< T >::x_Shift(), CUnorderedSplitter::x_SplitDeltaExt(), CValidError_graph::x_ValidateGraphOnDeltaBioseq(), and CForeignContaminationScreenReportReader::xTrimLiteral().

◆ GetSeq_raw() ◆ GetSeq_table()

Get the variant data.

Returns: Reference to the data.

Definition at line 153 of file Seq_annot_.cpp.

Referenced by CBlobSplitterImpl::CopyAnnot(), CTableDataSeq_annot::CreateObject(), CDataTrackUtils::GetColumnHeader(), CNAUtils::GetNATrackInfo(), CSeq_annot_Handle::GetSeq_tableNumRows(), ReadTabDelimitedTable(), s_GetAnnotId(), CSeq_annot_SplitInfo::SetSeq_annot(), CSGSegmentSmearJob::x_LoadFromNA(), CModifySeqId::x_UpdateSeqAnnot(), CBedGraphWriter::xWriteAnnotSeqTable(), and CWiggleWriter::xWriteAnnotTable().

◆ GetSource()

Get the variant data.

Returns: Reference to the data.

Definition at line 566 of file Seqdesc_.cpp.

References CSeqdesc_Base::CheckSelected(), CSeqdesc_Base::e_Source, and CSeqdesc_Base::m_object.

◆ GetSp() ◆ GetSrc() ◆ GetStrand()

Get the Strand member data.

Returns: Copy of the member data.

Definition at line 777 of file Seq_inst_.hpp.

References CSeq_inst_Base::CanGetStrand(), CSeq_inst_Base::m_Strand, and CSerialObject::ThrowUnassigned().

Referenced by CMolInfoEditDlg::ApplyToInst(), CBlobSplitterImpl::CopySequence(), CMolinfo_field::GetSequenceQualFromBioseq(), CMolInfoField::GetVal(), CEditingActionMolInfoStrand::GetValue(), IsBadSeqInstStrand(), s_ReplaceAllMolinfo(), CBioseq_Info::sx_ShallowCopy(), CValidError_bioseq::ValidateInst(), and CValidError_bioseq::ValidateMolInfoContext().

◆ GetTech()

Get the Tech member data.

Returns: Copy of the member data.

Definition at line 497 of file MolInfo_.hpp.

References CMolInfo_Base::m_Tech.

◆ GetTechexp() ◆ GetTitle() [1/2] ◆ GetTitle() [2/2]

Get the variant data.

Returns: Reference to the data.

Definition at line 1032 of file Seqdesc_.hpp.

References CSeqdesc_Base::CheckSelected(), CSeqdesc_Base::e_Title, and CSeqdesc_Base::m_string.

Referenced by CExportTableDlg::AddDeflinesToTable(), AddModToDefline(), AddModVectorToDefline(), AddOrgToDefline(), CCleanup::AddPartialToProteinTitle(), BOOST_AUTO_TEST_CASE(), CheckDeflineMatches(), CountDefLineConflicts(), CChangeSeqdescTitleCommand::Execute(), CSourceModParserWrapper::ExtractTitleAndApplyAllMods(), CEditObjectSeq_desc::GetEditCommand(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), GetTitle(), CAlignFormatUtil::GetTitle(), CDefinitionLineField::GetVal(), CEditingActionDescDefline::GetValue(), CDefinitionLineField::IsEmpty(), CSGTraceGraphDS::LoadData(), CApplyMods::operator()(), STitleMatchString::operator()(), CFindASN1Dlg::ReplaceInDesc(), s_GetContentLabel(), CDefinitionLineField::SetVal(), CReadInSkipObjectHook< Object >::SkipObject(), UpdateOneDefLine(), CValidError_imp::ValidateBioSourceForSeq(), CValidError_bioseq::ValidateCompleteGenome(), CValidError_desc::ValidateSeqDesc(), CValidError_bioseq::ValidateSeqDescContext(), CVdbFastaExtractor::Write(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CMacroFunction_ParsedText::x_GetSpecialField(), CBioseqIndex::x_InitDescs(), CValidError_bioseq::x_ShowBioProjectWarning(), CMakeProfileDBApp::x_UpdateCobalt(), and CValidError_bioseq::x_ValidateCompletness().

◆ GetTopology()

Get the Topology member data.

Returns: Copy of the member data.

Definition at line 733 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_Topology.

Referenced by CMolInfoEditDlg::ApplyToInst(), CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CBlobSplitterImpl::CopySequence(), FindGene(), fta_set_molinfo_completeness(), CMolinfo_field::GetSequenceQualFromBioseq(), CMolInfoField::GetVal(), CEditingActionMolInfoTopology::GetValue(), IsExtendableLeft(), IsExtendableRight(), CMolInfoSubpanel::OnSelectButton(), s_GetEmblInst(), s_ReplaceAllMolinfo(), CMolInfoSubpanel::SetClusters(), CBioseq_Info::sx_ShallowCopy(), CValidError_bioseq::ValidateInst(), CValidError_imp::ValidateSeqLoc(), CValidError_bioseq::x_BadMetazoanMitochondrialLength(), CValidError_bioseq::x_IgnoreEndGap(), and CValidError_bioseq::x_ValidateCompletness().

◆ GetType() [1/3] ◆ GetType() [2/3] ◆ GetType() [3/3]

Get the Type member data.

Returns: Copy of the member data.

Definition at line 282 of file Seq_gap_.hpp.

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

Referenced by CSeq_gap::AddLinkageEvidence(), BOOST_AUTO_TEST_CASE(), CSeq_literal::GetBridgeability(), CFastaOstream::GetGapModText(), CValidError_bioseq::HasBadWGSGap(), CValidError_bioseq::ReportBadAssemblyGap(), ResetLinkageEvidence(), s_GetFlankingGapTypes(), CUpdateSeq_Input::s_IsGoodLiteral(), s_SubtractTail(), CValidError_bioseq::ValidateDelta(), and CValidError_bioseq::ValidateSeqGap().

◆ GetUnits() ◆ GetUpdate_date() [1/2] ◆ GetUpdate_date() [2/2]

Get the variant data.

Returns: Reference to the data.

Definition at line 494 of file Seqdesc_.cpp.

References CSeqdesc_Base::CheckSelected(), CSeqdesc_Base::e_Update_date, and CSeqdesc_Base::m_object.

◆ GetUser() [1/2]

Get the variant data.

Returns: Reference to the data.

Definition at line 184 of file Annotdesc_.cpp.

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

Referenced by CSeq_annot_SplitInfo::GetName(), CReadUtil::GetTrackValue(), MakeCompartments(), CProjectItemExtra::SetStr(), CBedWriter::WriteAnnot(), CBioseqContext::x_CheckForShowComments(), CAlignmentSmear::x_GetAnnotName(), CSeq_annot_Info::x_UpdateName(), and CVcfReader::xAssignVcfMeta().

◆ GetUser() [2/2]

Get the variant data.

Returns: Reference to the data.

Definition at line 384 of file Seqdesc_.cpp.

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

Referenced by AddBioseqToTable(), AddUserObjectFieldItems(), CUnreviewedPanel::ChangeSeqdesc(), CValidError_bioseq::CheckForMultipleStructuredComments(), descr_cmp(), CSubmissionWizard::ExtractDescriptor(), CDeflineGenerator::GenerateDefline(), CDBLinkField::GetApplyObjects(), CStructuredCommentField::GetApplyObjects(), CLocalIDField::GetApplyObjects(), CStructCommFieldValuePair::GetApplyObjects(), GetBioseqDiffs(), GetDBLinkIDs(), CValidErrorFormat::GetDescriptorContent(), CEditObjectSeq_desc::GetDescriptorType(), CEditObjectSeq_desc::GetEditCommand(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CStructCommentSubpanel::GetLabelsFromSeq(), CApplyStructCommentTreeItemData::GetMacroDescription(), CWGSDb::GetMasterDescrType(), CDBLinkField::GetObjects(), CStructuredCommentField::GetObjects(), GetOptionsForSet(), CStructuredCommentsReader::CStructComment::GetPrefix(), CDBLinkField::GetRelatedObjects(), CStructuredCommentField::GetRelatedObjects(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), CSequenceTrack::GetTooltip(), CGenomeProjectField::GetVal(), CDBLinkField::GetVals(), CLocalIDField::GetVals(), CStructuredCommentField::GetVals(), CEditingActionDescGenomeProjectId::GetValue(), CEditingActionDescStructCommDbName::GetValue(), CDiscrepancyContext::IsBGPipe(), CTable2AsnContext::IsDBLink(), CDBLinkField::IsEmpty(), CGenomeProjectField::IsEmpty(), CLocalIDField::IsEmpty(), CStructuredCommentField::IsEmpty(), CEditingActionDescGenomeProjectId::IsSetValue(), CEditingActionDescStructCommDbName::IsSetValue(), CValidError_align::IsTpaAlignment(), CSeqEntrySource::IsUnverified(), CValidError_desc::IsValidStructuredComment(), isVersionsObject(), CMultiReader::LoadTemplate(), CEditingActionDescUserObject::Modify(), CEditingActionDescStructCommFieldName::Modify(), PrintBioseqXML(), CAutoDef::RegenerateDefLine(), CAutoDef::RegenerateSequenceDefLines(), CReorderStructuredComment::reorder_comment_by_rule(), CEditingActionDescGenomeProjectId::ResetValue(), CEditingActionDescStructCommDbName::ResetValue(), s_FastaGetOriginalID(), s_GetContentLabel(), s_GetOptionsForSet(), s_GetOriginalID(), s_GetUserObjectType(), s_HasRefSeqPGAPStructuredComment(), s_IsBioSample(), s_IsCleanupObject(), s_IsDBLink(), s_IsGoodDescr(), s_IsReportableStructuredComment(), s_IsTpa(), CMacroFunction_RefreshDefline::s_RefreshDeflineCommand(), s_SeqDescCompare(), CDescrCache::SetDBLink(), CDescrCache::SetFileTrack(), CDescrCache::SetGenomeProjects(), CDescrCache::SetTpaAssembly(), CEditingActionDescUserObject::SetValue(), CEditingActionDescStructCommDbName::SetValue(), CValidError_bioseqset::ShouldHaveNoDblink(), CPropagateDescriptors::ShouldStayInPlace(), CMacroFunction_AddDBLink::TheFunction(), CMacroFunction_ParseToStructComm::TheFunction(), CMacroFunction_SetStructCommDb::TheFunction(), CValidError_bioseq::ValidateDelta(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_desc::ValidateSeqDesc(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_desc::ValidateStructuredCommentInternal(), CValidError_bioseq::ValidateWGSMaster(), CSubmissionWizard::x_ApplyDescriptorToRecord(), CCommentItem::x_GatherDescInfo(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CAutoDef::x_GetFeatureClauses(), CStructCommFieldValuePair::x_GetUser_Object(), CCommonComponentScorer::x_GetUserCompList(), CValidError_bioseq::x_HasPGAPStructuredComment(), CBioseqIndex::x_InitDescs(), CNewCleanup_imp::x_IsDBLinkUserObj(), CGenbankFormatter::x_LocusHtmlPrefix(), CValidError_bioseq::x_ShowBioProjectWarning(), CFlatGatherer::x_StructuredComments(), CValidError_desc::x_ValidateStructuredCommentPrefix(), CValidError_desc::x_ValidateStructuredCommentUsingRule(), and CSrcWriter::xGetOriginalId().

◆ GetVersion() ◆ IsAlign() [1/2] bool CAnnotdesc_Base::IsAlign ( void ) const inline ◆ IsAlign() [2/2] bool CSeq_annot_Base::C_Data::IsAlign ( void ) const inline

Check if variant Align is selected.

Align type is defined as 'typedef list< CRef< CSeq_align > > TAlign'.

Returns

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

Definition at line 635 of file Seq_annot_.hpp.

Referenced by AlignmentCollection::addPendingAlignment(), CTestBlastp::CanTest(), Convert_Seq_annot_Seq_align(), EraseRow(), GetDenDiagSet(), CCdCore::GetNumRows(), CSeq_annot::IsAlign(), CSeq_annot_Handle::IsAlign(), UpdateViewer::SaveAlignments(), CRemoveSeqFromAlignDlg::SearchSeq_entry(), SetDenDiagSet(), CSplitDataLoader::x_SplitAligns(), and CGff2Reader::xAssignAnnotId().

◆ IsBool() bool CSeq_hist_Base::C_Deleted::IsBool ( void ) const inline ◆ IsComment() [1/2] bool CAnnotdesc_Base::IsComment ( void ) const inline ◆ IsComment() [2/2] bool CSeqdesc_Base::IsComment ( void ) const inline

Check if variant Comment is selected.

Comment type is defined as 'typedef string TComment'.

Returns

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

Definition at line 1052 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Comment, and CSeqdesc_Base::m_choice.

Referenced by CCommentDescField::GetVal(), CEditingActionDescComment::GetValue(), CCommentDescField::IsEmpty(), CEditingActionDescCommentDescriptor::IsSetValue(), CEditingActionDescComment::IsSetValue(), CEditingActionDescComment::Modify(), CFindASN1Dlg::ReplaceInDesc(), CDescrCache::SetComment(), and CCommentDescField::SetVal().

◆ IsCont() bool CNumbering_Base::IsCont ( void ) const inline ◆ IsCreate_date() [1/2] bool CAnnotdesc_Base::IsCreate_date ( void ) const inline ◆ IsCreate_date() [2/2] bool CSeqdesc_Base::IsCreate_date ( void ) const inline ◆ IsDate() bool CSeq_hist_Base::C_Deleted::IsDate ( void ) const inline ◆ IsDbxref() bool CSeqdesc_Base::IsDbxref ( void ) const inline ◆ IsDelta() bool CSeq_ext_Base::IsDelta ( void ) const inline

Check if variant Delta is selected.

Delta type is defined as 'typedef CDelta_ext TDelta'.

Returns

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

Definition at line 336 of file Seq_ext_.hpp.

References CSeq_ext_Base::e_Delta, and CSeq_ext_Base::m_choice.

◆ IsEmbl() bool CSeqdesc_Base::IsEmbl ( void ) const inline ◆ IsEnum() bool CNumbering_Base::IsEnum ( void ) const inline ◆ IsFtable() bool CSeq_annot_Base::C_Data::IsFtable ( void ) const inline

Check if variant Ftable is selected.

Ftable type is defined as 'typedef list< CRef< CSeq_feat > > TFtable'.

Returns

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

Definition at line 615 of file Seq_annot_.hpp.

Referenced by Convert_Seq_annot_Seq_feat(), CVariationUtilities::CorrectRefAllele(), CDataTrackUtils::GetFeatSubtypes(), GetInteractionDataFromIbis(), CSeq_annot::IsFtable(), CSeq_annot_Handle::IsFtable(), CMakeCdrProds::MakeCdrProds(), CBlobSplitterImpl::MakeID2Chunk(), CPromote::PromoteFeatures(), SrchCdRegion(), CMytestApplication::TestFeatureGeneOverlap(), CUCSCRegionWriter::WriteAnnot(), CSequenceEditingEventHandler::x_CacheSelectedLocations(), CVariationNormalization_base< T >::x_Shift(), CSplitDataLoader::x_SplitFeats(), CFormatGuessEx::x_TryBed15(), CFormatGuessEx::x_TryWiggle(), and CMultiReaderApp::xPostProcessAnnot().

◆ IsGap() bool CSeq_data_Base::IsGap ( void ) const inline

Check if variant Gap is selected.

Gap type is defined as 'typedef CSeq_gap TGap'.

Returns

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

Definition at line 704 of file Seq_data_.hpp.

References CSeq_data_Base::e_Gap, and CSeq_data_Base::m_choice.

Referenced by BOOST_AUTO_TEST_CASE(), CSeq_inst::ConvertDeltaToRaw(), CGapsEditor::ConvertNs2Gaps(), CBlobSplitterImpl::CopySequence(), CSeqMap::CSeqMap(), HasAssemblyOrNullGap(), RawBioseqPack(), ReverseComplement(), s_CheckSeg(), s_FixBioseqDeltas(), s_GetFlankingGapTypes(), s_IntervalsMatchGaps(), s_IsConWithGaps(), s_NewGapItem(), CValidError_bioseq::ValidateDelta(), CValidError_bioseq::ValidateRawConst(), CSeqMap::x_Add(), CValidError_graph::x_GetLitLength(), CBioseqIndex::x_InitGaps(), CGapsEditor::x_SetGapParameters(), CSeqMap::x_SetSegmentGap(), CUnorderedSplitter::x_SplitDeltaExt(), CValidError_graph::x_ValidateGraphOnDeltaBioseq(), and CForeignContaminationScreenReportReader::xTrimLiteral().

◆ IsGenbank() bool CSeqdesc_Base::IsGenbank ( void ) const inline

Check if variant Genbank is selected.

Genbank type is defined as 'typedef CGB_block TGenbank'.

Returns

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

Definition at line 1090 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Genbank, and CSeqdesc_Base::m_choice.

Referenced by CGenbankKeywordField::ClearVal(), CGBBlockField::ClearVal(), CGenbankKeywordField::GetVals(), CGBBlockField::GetVals(), CGenbankKeywordField::IsEmpty(), CGBBlockField::IsEmpty(), variation::IsRefSeqGene(), CFindASN1Dlg::ReplaceInDesc(), CMacroFunction_RemoveQual::s_RemoveFields(), CDescrCache::SetGBblock(), CGBBlockField::SetVal(), and CGenbankKeywordField::SetVal().

◆ IsGeneral() bool CAnnot_id_Base::IsGeneral ( void ) const inline ◆ IsGraph() bool CSeq_annot_Base::C_Data::IsGraph ( void ) const inline ◆ IsHet() bool CSeqdesc_Base::IsHet ( void ) const inline ◆ IsIds() bool CSeq_annot_Base::C_Data::IsIds ( void ) const inline ◆ IsIupacaa() bool CSeq_data_Base::IsIupacaa ( void ) const inline

Check if variant Iupacaa is selected.

Iupacaa type is defined as 'typedef CIUPACaa TIupacaa'.

Returns

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

Definition at line 524 of file Seq_data_.hpp.

References CSeq_data_Base::e_Iupacaa, and CSeq_data_Base::m_choice.

Referenced by CheckTranslatedBioseq(), NSNPVariationHelper::GetDeltas(), GetNcbieaaString(), GetNcbistdSeq(), GetRawSequenceString(), GetSeqLength(), CGuiObjectInfoVariant::GetToolTip(), NSnpGui::GetVcfType(), MakeSeqLong(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), SetNewProteinSequence(), TrimStopsFromCompleteCDS(), CCleanup::WGSCleanup(), CVectorTrimPanel::x_RetranslateCDS(), variation_ref::CHgvsParser::x_SeqLiteralToStr(), and variation::CHgvsParser::x_SeqLiteralToStr().

◆ IsIupacna() bool CSeq_data_Base::IsIupacna ( void ) const inline

Check if variant Iupacna is selected.

Iupacna type is defined as 'typedef CIUPACna TIupacna'.

Returns

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

Definition at line 504 of file Seq_data_.hpp.

References CSeq_data_Base::e_Iupacna, and CSeq_data_Base::m_choice.

Referenced by BOOST_AUTO_TEST_CASE(), variation::ContainsIupacNaAmbiguities(), NSNPVariationHelper::GetDeltas(), CGuiObjectInfoVariant::GetToolTip(), NSnpGui::GetVcfType(), MakeSeqLong(), RevComp(), s_ContainsSeqDataIupacna(), CVdbFastaExtractor::Write(), CValidError_bioseq::x_CountAdjacentNs(), variation_ref::CHgvsParser::x_SeqLiteralToStr(), and variation::CHgvsParser::x_SeqLiteralToStr().

◆ IsLiteral() bool CDelta_seq_Base::IsLiteral ( void ) const inline

Check if variant Literal is selected.

Literal type is defined as 'typedef CSeq_literal TLiteral'.

Returns

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

Definition at line 263 of file Delta_seq_.hpp.

References CDelta_seq_Base::e_Literal, and CDelta_seq_Base::m_choice.

Referenced by AddLiteral(), CConvertSelectedGaps::apply_impl(), CExpandGaps::IsSkipGap(), s_CheckSeg(), s_GetDeltaLen(), s_GetUngapLoc(), s_NsAreGaps(), CGencollIdMapper::x_IsLoc_Int_InAGap(), CUnorderedSplitter::x_SplitDeltaExt(), and CForeignContaminationScreenReportReader::xCheckLen().

◆ IsLoc() bool CDelta_seq_Base::IsLoc ( void ) const inline ◆ IsLocal() bool CAnnot_id_Base::IsLocal ( void ) const inline ◆ IsLocs() bool CSeq_annot_Base::C_Data::IsLocs ( void ) const inline ◆ IsMap() bool CSeq_ext_Base::IsMap ( void ) const inline ◆ IsMaploc() bool CSeqdesc_Base::IsMaploc ( void ) const inline ◆ IsMethod() bool CSeqdesc_Base::IsMethod ( void ) const inline ◆ IsModelev() bool CSeqdesc_Base::IsModelev ( void ) const inline ◆ IsModif() bool CSeqdesc_Base::IsModif ( void ) const inline ◆ IsMol_type() bool CSeqdesc_Base::IsMol_type ( void ) const inline ◆ IsMolinfo() bool CSeqdesc_Base::IsMolinfo ( void ) const inline

Check if variant Molinfo is selected.

Molinfo type is defined as 'typedef CMolInfo TMolinfo'.

Returns

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

Definition at line 1196 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Molinfo, and CSeqdesc_Base::m_choice.

Referenced by CMolInfoField::ClearVal(), CEditObjectSeq_desc::CreateWindow(), CEditObjectSeq_desc::GetEditCommand(), CMolInfoField::GetVal(), variation::IsRightPartial(), CDescrCache::SetMolInfo(), CMolInfoField::SetVal(), CPropagateDescriptors::ShouldStayInPlace(), CReadInSkipObjectHook< Object >::SkipObject(), sReportInvalidDescriptor(), CValidError_imp::ValidateBioSourceForSeq(), CSubmissionWizard::x_ApplyDescriptorToRecord(), CSubmissionWizard::x_ApplyMolinfoToRecords(), and CGffFeatureContext::xAssignSequenceIsGenomicRecord().

◆ IsName() [1/2] bool CAnnotdesc_Base::IsName ( void ) const inline ◆ IsName() [2/2] bool CSeqdesc_Base::IsName ( void ) const inline ◆ IsNcbi() bool CAnnot_id_Base::IsNcbi ( void ) const inline ◆ IsNcbi2na() bool CSeq_data_Base::IsNcbi2na ( void ) const inline ◆ IsNcbi4na() bool CSeq_data_Base::IsNcbi4na ( void ) const inline ◆ IsNcbi8aa() bool CSeq_data_Base::IsNcbi8aa ( void ) const inline ◆ IsNcbi8na() bool CSeq_data_Base::IsNcbi8na ( void ) const inline ◆ IsNcbieaa() bool CSeq_data_Base::IsNcbieaa ( void ) const inline

Check if variant Ncbieaa is selected.

Ncbieaa type is defined as 'typedef CNCBIeaa TNcbieaa'.

Returns

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

Definition at line 644 of file Seq_data_.hpp.

References CSeq_data_Base::e_Ncbieaa, and CSeq_data_Base::m_choice.

Referenced by BOOST_AUTO_TEST_CASE(), CheckTranslatedBioseq(), GetNcbieaaString(), GetNcbistdSeq(), GetRawSequenceString(), GetSeqLength(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), SetNewProteinSequence(), TrimStopsFromCompleteCDS(), CVectorTrimPanel::x_RetranslateCDS(), variation_ref::CHgvsParser::x_SeqLiteralToStr(), and variation::CHgvsParser::x_SeqLiteralToStr().

◆ IsNcbipaa() bool CSeq_data_Base::IsNcbipaa ( void ) const inline ◆ IsNcbipna() bool CSeq_data_Base::IsNcbipna ( void ) const inline ◆ IsNcbistdaa() bool CSeq_data_Base::IsNcbistdaa ( void ) const inline

Check if variant Ncbistdaa is selected.

Ncbistdaa type is defined as 'typedef CNCBIstdaa TNcbistdaa'.

Returns

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

Definition at line 684 of file Seq_data_.hpp.

References CSeq_data_Base::e_Ncbistdaa, and CSeq_data_Base::m_choice.

Referenced by FindGeneticCode(), GetNcbieaaString(), GetNcbistdSeq(), CPssm::GetQuerySequenceData(), GetRawSequenceString(), GetSeqLength(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), s_GetQuerySequenceData(), variation_ref::CHgvsParser::x_SeqLiteralToStr(), variation::CHgvsParser::x_SeqLiteralToStr(), and CSequenceDataTester::x_TestSingleProtein_Remote().

◆ IsNum() bool CSeqdesc_Base::IsNum ( void ) const inline ◆ IsOrg() bool CSeqdesc_Base::IsOrg ( void ) const inline ◆ IsOther() bool CAnnot_id_Base::IsOther ( void ) const inline ◆ IsPdb() bool CSeqdesc_Base::IsPdb ( void ) const inline ◆ IsPir() bool CSeqdesc_Base::IsPir ( void ) const inline ◆ IsPrf() bool CSeqdesc_Base::IsPrf ( void ) const inline ◆ IsPub() [1/2] bool CAnnotdesc_Base::IsPub ( void ) const inline ◆ IsPub() [2/2] bool CSeqdesc_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 1096 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Pub, and CSeqdesc_Base::m_choice.

Referenced by CDiscrepancyContext::CParseNode::AddDescriptor(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CPubField::ClearVal(), CReferenceItem::CReferenceItem(), descr_cmp(), GetAuthList(), CReplaceSectionPanel::GetCommand(), CReplaceEntirePubPanel::GetCommand(), CEditObjectSeq_desc::GetEditCommand(), CFlatFileViewContext::GetEditObject(), GetPubTitle(), CPubField::GetRelatedObjects(), CEditPubDlg::GetSelectedPub(), CPubField::GetStatus(), CPubField::GetVal(), CPubField::GetVals(), CSubmissionWizard::ImportTemplate(), IsSeqDescInList(), SPubMatch::operator()(), CFindASN1Dlg::ReplaceInDesc(), s_EmptyAfterRemovingPMID(), s_IsCitSub(), and CFlatGatherer::x_GatherReferencesIdx().

◆ IsReal() bool CNumbering_Base::IsReal ( void ) const inline ◆ IsRef() [1/2] bool CNumbering_Base::IsRef ( void ) const inline ◆ IsRef() [2/2] bool CSeq_ext_Base::IsRef ( void ) const inline ◆ IsRegion() [1/2] bool CAnnotdesc_Base::IsRegion ( void ) const inline ◆ IsRegion() [2/2] bool CSeqdesc_Base::IsRegion ( void ) const inline ◆ IsSeg() bool CSeq_ext_Base::IsSeg ( void ) const inline ◆ IsSeq_table() bool CSeq_annot_Base::C_Data::IsSeq_table ( void ) const inline

Check if variant Seq_table is selected.

Seq_table type is defined as 'typedef CSeq_table TSeq_table'.

Returns

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

Definition at line 715 of file Seq_annot_.hpp.

Referenced by CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), CTableAnnotDataSource::CreateFeature(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CTableAnnotDataSource::FindLocations(), CSeq_annot::IsSeq_table(), CSeq_annot_Handle::IsSeq_table(), CTableAnnotDataSource::RemoveSeqLocs(), and CModifySeqId::x_UpdateSeqAnnot().

◆ IsSet() [1/5] bool CAnnot_descr_Base::IsSet ( void ) const inline ◆ IsSet() [2/5] bool CDelta_ext_Base::IsSet ( void ) const inline ◆ IsSet() [3/5] bool CMap_ext_Base::IsSet ( void ) const inline ◆ IsSet() [4/5] bool CSeg_ext_Base::IsSet ( void ) const inline ◆ IsSet() [5/5] bool CSeq_descr_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< CSeqdesc > > Tdata'

Returns

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

Definition at line 154 of file Seq_descr_.hpp.

References CSeq_descr_Base::m_set_State.

Referenced by CCleanup::AddNcbiCleanupObject(), TaxTreeData::addTaxToBioseq(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CSequesterSets::BioseqSetDescriptorPropagateDown(), BioseqSetDescriptorPropagateUp(), CSequesterSets::BioseqSetDescriptorPropagateUp(), seqsubmit_split::NeedToInclude(), CApplyMods::operator()(), CDUpdater::reformatBioseq(), CDUpdater::reformatBioseqByBlastDefline(), CCleanup::RemoveNcbiCleanupObject(), s_CheckForSegments(), s_GetDescriptor(), s_GetInfluenzaLabel(), s_GetMolInfoAndSrcDescriptors(), SimplifyBioseqForCD(), CTable2AsnContext::UpdateTaxonFromTable(), CVdbFastaExtractor::Write(), CCleanupHugeAsnReader::x_AddTopLevelDescriptors(), CAutogeneratedCleanup::x_BasicCleanupBioseqDescr(), CAutogeneratedCleanup::x_BasicCleanupBioseqSet_descr_ETC(), CNewCleanup_imp::x_CleanupGenbankBlock(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqdescr(), CSubmissionWizard::x_ExtractDescriptors(), CNewCleanup_imp::x_FixStructuredCommentKeywords(), CDumpASNIndex::x_GetTaxId(), CNewCleanup_imp::x_RemoveUnseenTitles(), seqsubmit_split::CSeqSubSplitter::xFlattenSeqEntry(), and seqsubmit_split::CSeqSubSplitter::xMergeSeqDescr().

◆ IsSetA() bool CNum_real_Base::IsSetA ( void ) const inline ◆ IsSetAccession() bool CTextannot_id_Base::IsSetAccession ( void ) const inline ◆ IsSetAlign_group() bool CPubdesc_Base::IsSetAlign_group ( void ) const inline ◆ IsSetAlign_type() bool CAlign_def_Base::IsSetAlign_type ( void ) const inline ◆ IsSetAligns() bool CNum_ref_Base::IsSetAligns ( void ) const inline ◆ IsSetAnnot() bool CBioseq_Base::IsSetAnnot ( void ) const inline

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

Data member Annot is optional; its type is defined as 'typedef list< CRef< CSeq_annot > > TAnnot'

Returns

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

Definition at line 354 of file Bioseq_.hpp.

References CBioseq_Base::m_set_State.

Referenced by AddFeat(), AddFeatureToBioseq(), CReadBlastApp::addLocation(), CFeatGapInfo::AdjustProteinSeq(), CSourceModParser::ApplyAllMods(), CDiscrepancyContext::AutofixBioseq(), ChangeId(), ChangeNucId(), CkCdRegion(), CAutogeneratedExtendedCleanup::ExtendedCleanupBioseq(), FindGene(), fta_fix_labels(), GetEmblDescr(), GetMMDBId(), CCleanup::MoveFeatToProtein(), CFeatureTableReader::MoveRegionsToProteins(), CDiscrepancyContext::PopulateBioseq(), CFeatureTableReader::RemoveEmptyFtable(), CReadBlastApp::RemoveProblems(), RevComp(), s_GetQualityString(), s_HasUnprocessedCdregions(), s_RemoveAnnotsFromEntry(), s_UpdateFeatureIds(), CBioseq_Info::sx_ShallowCopy(), CMytestApplication::TestFeatureGeneOverlap(), CdBlaster::truncateBioseq(), CValidError_graph::ValidateGraphsOnBioseq(), objects::VisitAllFeatures(), CQualScoreWriter::Write(), CAsnCacheTestApplication::x_FindAnnotated(), CFeatModApply::x_FindSeqfeat(), x_InferenceInSeqs(), CSeqMasterIndex::x_InitSeqs(), CNewCleanup_imp::x_IsCommentRedundantWithEC(), CNewCleanup_imp::x_MergeAdjacentFeatureTables(), CNewCleanup_imp::x_MoveCdregionXrefsToProt(), CNewCleanup_imp::x_RemoveEmptyFeatureTables(), CNewCleanup_imp::x_SeqFeatCDSGBQualBC(), CBioseq_Info::x_SetObject(), CSplitDataLoader::x_SplitSeq(), CQualScoreWriter::x_WriteHeader(), CEmbl2Asn::xGetEntry(), CGenbank2Asn::xGetEntry(), CXml2Asn::xGetEntry(), and CMultiReader::xReadFlatfile().

◆ IsSetAscending() bool CNum_cont_Base::IsSetAscending ( void ) const inline ◆ IsSetAssembly() bool CSeq_hist_Base::IsSetAssembly ( void ) const inline

how was this assembled? Check if a value has been assigned to Assembly data member.

Data member Assembly is optional; its type is defined as 'typedef list< CRef< CSeq_align > > TAssembly'

Returns

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

Definition at line 500 of file Seq_hist_.hpp.

References CSeq_hist_Base::m_set_State.

Referenced by CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CBlobSplitterImpl::CopyHist(), CSeq_hist_SplitInfo::CSeq_hist_SplitInfo(), CRemoveSeqHistAssembly::GetCommand(), CModifySeqId::GetCommand(), CCommentItem::GetStringForTPA(), CValidError_bioseq::IsHistAssemblyMissing(), CSplitCacheApp::TestSplitBlob(), CCreateSeqHistForTpa::ValidateAlignments(), CAutogeneratedCleanup::x_BasicCleanupSeqHist(), and CSGSwitchPointJob::x_Execute().

◆ IsSetB() bool CNum_real_Base::IsSetB ( void ) const inline ◆ IsSetBiomol() bool CMolInfo_Base::IsSetBiomol ( void ) const inline

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

Data member Biomol is optional with default eBiomol_unknown; its type is defined as 'typedef int TBiomol'

Returns

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

Definition at line 422 of file MolInfo_.hpp.

References CMolInfo_Base::m_set_State.

Referenced by AdjustProteinMolInfoToMatchCDS(), CMolInfoEditDlg::ApplyToMolInfo(), CFastaReaderEx::AssembleSeq(), FinalCleanup(), CWriteUtil::GetBiomol(), CMolInfo::GetLabel(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CMolInfoField::GetVal(), IsEmptyMolInfo(), CValidError_bioseq::IsMrna(), CEditingActionMolInfoMolecule::IsSetValue(), CNewCleanup_imp::MolInfoBC(), CMolInfoSubpanel::OnSelectButton(), CAdjustForConsensusSpliceSite::s_IsBioseqGood_AdjustEnds(), s_UpdateGlobalInfo(), CMolInfo_Base::SetBiomol(), CMolInfoSubpanel::SetClusters(), CReadInSkipObjectHook< Object >::SkipObject(), CValidError_imp::ValidateBioSourceForSeq(), CValidError_desc::ValidateMolInfo(), CValidError_bioseq::ValidateMolInfoContext(), CSubmissionWizard::x_ApplyMolinfoToRecords(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CNewCleanup_imp::x_ExtendSingleGeneOnMrna(), CAutoDef::x_GetOneNonFeatureClause(), CPrimeCacheApplication::x_Process_Fasta(), CAutoDefFeatureClause::x_SetBiomol(), CValidError_bioseq::x_ValidateAbuttingRNA(), CValidError_bioseq::x_ValidateAbuttingUTR(), CValidError_bioseq::x_ValidateCompletness(), CValidError_bioseq::x_ValidateMolInfoForBioSource(), CGffFeatureContext::xAssignSequenceIsGenomicRecord(), and CFeatureTableReader::xConvertSeqIntoSeqSet().

◆ IsSetComment() bool CPubdesc_Base::IsSetComment ( void ) const inline

any comment on this pub in context 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 973 of file Pubdesc_.hpp.

References CPubdesc_Base::m_set_State.

Referenced by CPubdesc_Base::CanGetComment(), CCleanupPub::CleanPubdesc(), CCleanup::ConvertPubFeatsToPubDescs(), fta_strip_er_remarks(), CCleanup::OkToPromoteNpPub(), CFindASN1Dlg::ReplaceInPubdesc(), CPubdesc_Base::SetComment(), CRemarksAndSerialNumberPanel::TransferDataToWindow(), CValidError_imp::ValidatePubdesc(), CAutogeneratedCleanup::x_BasicCleanupSeqfeatPub(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupPubDesc(), and CReferenceItem::x_GatherRemark().

◆ IsSetCompleteness() bool CMolInfo_Base::IsSetCompleteness ( void ) const inline

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

Data member Completeness is optional with default eCompleteness_unknown; its type is defined as 'typedef int TCompleteness'

Returns

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

Definition at line 569 of file MolInfo_.hpp.

References CMolInfo_Base::m_set_State.

Referenced by AdjustProteinMolInfoToMatchCDS(), CMolInfoEditDlg::ApplyToMolInfo(), CMolInfo::GetLabel(), CMolInfoField::GetVal(), IsEmptyMolInfo(), CValidError_bioseq::IsPartial(), variation::IsRightPartial(), CEditingActionMolInfoCompletedness::IsSetValue(), CNewCleanup_imp::MolInfoBC(), s_IsBioseqPartial(), s_IsPartial(), SeqLocPartialCheck(), CMolInfo_Base::SetCompleteness(), SetMolinfoCompleteness(), SetMolInfoCompleteness(), CReadInSkipObjectHook< Object >::SkipObject(), CValidError_imp::ValidateBioSourceForSeq(), CValidError_bioseq::ValidateMolInfoContext(), CMacroFunction_AutodefComplete::x_IsComplete(), CPrimeCacheApplication::x_Process_Fasta(), CValidError_bioseq::x_ValidateCompletness(), and CProtValidator::x_ValidateMolinfoPartials().

◆ IsSetData() bool CSeq_annot_Base::IsSetData ( void ) const inline

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

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

Returns

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

Definition at line 861 of file Seq_annot_.hpp.

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

Referenced by CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), subfuse::CSubmissionCollector::AdjustLocalIds(), CRemoveSeqAnnot::ApplyToSeqAnot(), CAutogeneratedCleanup::BasicCleanupSeqAnnot(), Convert_Seq_annot_Seq_align(), Convert_Seq_annot_Seq_feat(), Convert_Seq_annot_Seq_graph(), CVariationUtilities::CorrectRefAllele(), CTableAnnotDataSource::CreateFeature(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CTableAnnotDataSource::FindLocations(), CVDBGraphSeqIterator::GetAnnot(), AnnotObjTrait< CSeq_feat >::GetCont(), AnnotObjTrait< CSeq_align >::GetCont(), AnnotObjTrait< CSeq_graph >::GetCont(), CDesktopAnnotItem::GetDescription(), CSeq_annot::IsAlign(), CSeq_annot::IsFtable(), CSeq_annot::IsGraph(), CSeq_annot::IsIds(), CSeq_annot::IsLocs(), CSeq_annot::IsSeq_table(), CTableAnnotDataSource::RemoveSeqLocs(), s_GetSeqAnnotChoiceMask(), s_LoadSeqAnnot(), s_SetSearchParam(), CRemoveSeqFromAlignDlg::SearchSeq_entry(), CNewCleanup_imp::ShouldRemoveAnnot(), SrchCdRegion(), CMytestApplication::TestFeatureGeneOverlap(), CUCSCRegionWriter::WriteAnnot(), CSequenceEditingEventHandler::x_CacheSelectedLocations(), CCreateGeneModelTask::x_GetCommand(), CVariationNormalization_base< T >::x_Shift(), and CModifySeqId::x_UpdateSeqAnnot().

◆ IsSetDate() bool CSeq_hist_rec_Base::IsSetDate ( void ) const inline ◆ IsSetDb() bool CSeq_annot_Base::IsSetDb ( void ) const inline ◆ IsSetDeleted() bool CSeq_hist_Base::IsSetDeleted ( void ) const inline ◆ IsSetDesc() bool CSeq_annot_Base::IsSetDesc ( void ) const inline

used only for stand alone Seq-annots Check if a value has been assigned to Desc data member.

Data member Desc is optional; its type is defined as 'typedef CAnnot_descr TDesc'

Returns

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

Definition at line 840 of file Seq_annot_.hpp.

References CSeq_annot_Base::m_Desc.

Referenced by CBedTrackRecord::Assign(), CAutogeneratedCleanup::BasicCleanupSeqAnnot(), CSeq_annot_Base::CanGetDesc(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqAnnot(), CSeq_annot_Finder::Find(), CSeqUtils::GetAnnotUserField(), CBamUtils::GetCoverageGraphInfo(), CWriteUtil::GetDescriptor(), CAnnotObject_Info::GetLocsTypes(), CAnnotObject_Info::GetMaps(), CSeq_annot_SplitInfo::GetName(), CReadUtil::GetTrackValue(), CBlobSplitterImpl::MakeSeq_annot(), s_GetAnnotContent(), s_GetAnnotName(), s_GetVcfMetaInfo(), s_IsMergeableFeatureTable(), s_RetainEmptyAnnot(), s_SetSearchParam(), CSeq_annot_Handle::Seq_annot_IsSetDesc(), CBamUtils::UpdateCoverageGraphInfo(), CValidError_annot::ValidateSeqAnnot(), CGvfWriter::WriteHeader(), CAnnotGetter::x_GetCompleteSeqAnnot(), CSeq_annot_Info::x_UpdateName(), CVcfWriter::x_WriteMetaCreateNew(), and CVcfReader::xAssignVcfMeta().

◆ IsSetDescr() bool CBioseq_Base::IsSetDescr ( void ) const inline

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

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

Returns

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

Definition at line 303 of file Bioseq_.hpp.

References CBioseq_Base::m_Descr.

Referenced by AddCommentToBioseq(), AddLocalIdUserObjects(), CWGSDb_Impl::AddMasterDescr(), CCleanup::AddMissingMolInfo(), CNewCleanup_imp::AddProteinTitles(), AddSeqdescToBioseq(), AddTitle(), CFeatGapInfo::AdjustProteinSeq(), BOOST_AUTO_TEST_CASE(), CBioseq_Base::CanGetDescr(), CheckHost(), CheckLocalId(), CollectDescriptors(), CompareDescrFeatSources(), CBlobSplitterImpl::CopySkeleton(), CChangeSeqdescTitleCommand::Execute(), CAutogeneratedExtendedCleanup::ExtendedCleanupBioseq(), extractBioseqInfo(), FindUnverified(), fta_remove_cleanup_user_object(), CDUpdater::GetBlastDefline(), AlignmentCollection::GetDefline(), CAlignFormatUtil::GetSeqDescrString(), GetSpeciesFromBioseq(), CBioseq::GetTaxId(), TaxClient::GetTaxIDFromBioseq(), GetTaxIdInBioseq(), HasRepairedIDs(), CCdFromFasta::ImportAlignmentData(), IsUnverifiedContaminant(), IsUnverifiedFeature(), IsUnverifiedMisassembled(), IsUnverifiedOrganism(), CValidError_bioseq::IsWGS(), CApplyMods::operator()(), PrintASN1(), PropagateSuppliedLineage(), CNewCleanup_imp::RemoveBadProteinTitle(), CDUpdater::RemoveBlastDefline(), RemoveUserObjectType(), s_AddSeqTitleToPssm(), s_AutoDefUserObjectFromBioseq(), s_GetFastaDefline(), s_GetQualityString(), s_GetSequenceId(), s_HasDescriptorOfType(), s_HasWGSTech(), CSequenceEditingEventHandler::SaveDescriptors(), CValidErrorSuppress::SetSuppressedCodes(), SetTargetedLocusName(), ShowOrgRef(), CBioseq_Info::sx_ShallowCopy(), CChangeSeqdescTitleCommand::Unexecute(), CTable2AsnContext::UpdateTaxonFromTable(), CValidError_bioseq::ValidateBioseq(), CValidError_bioseqset::ValidateBioseqSet(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_bioseq::ValidateSeqGap(), CValidError_bioseqset::ValidateSetElements(), CVdbFastaExtractor::Write(), CNewCleanup_imp::x_CleanupGenbankBlock(), CNewCleanup_imp::x_ClearEmptyDescr(), CSubmissionWizard::x_ExtractDescriptorsFromSeqEntry(), CDumpASNIndex::x_GetTaxId(), CSeqMasterIndex::x_InitSeqs(), CMakeProfileDBApp::x_MakeVol(), CNewCleanup_imp::x_RemovePub(), CNewCleanup_imp::x_RescueMolInfo(), CNewCleanup_imp::x_SetPartialsForProtein(), CSplitDataLoader::x_SplitSeq(), and CMakeProfileDBApp::x_UpdateCobalt().

◆ IsSetExt() bool CSeq_inst_Base::IsSetExt ( void ) const inline

extensions for special types Check if a value has been assigned to Ext data member.

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

Returns

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

Definition at line 826 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_Ext.

◆ IsSetFig() bool CPubdesc_Base::IsSetFig ( void ) const inline ◆ IsSetFuzz() [1/2] bool CSeq_inst_Base::IsSetFuzz ( void ) const inline ◆ IsSetFuzz() [2/2] bool CSeq_literal_Base::IsSetFuzz ( void ) const inline ◆ IsSetGbmoltype() bool CMolInfo_Base::IsSetGbmoltype ( void ) const inline ◆ IsSetHas_zero() bool CNum_cont_Base::IsSetHas_zero ( void ) const inline ◆ IsSetHist() bool CSeq_inst_Base::IsSetHist ( void ) const inline

sequence history Check if a value has been assigned to Hist data member.

Data member Hist is optional; its type is defined as 'typedef CSeq_hist THist'

Returns

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

Definition at line 847 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_Hist.

Referenced by CLoadSecondaryAccessions::apply(), CSourceModParser::ApplyAllMods(), BOOST_AUTO_TEST_CASE(), CSeq_inst_Base::CanGetHist(), CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CBlobSplitterImpl::CopySequence(), CAddSecondary::GetCommand(), CRemoveSeqHistAssembly::GetCommand(), CModifySeqId::GetCommand(), CValidError_bioseq::IsHistAssemblyMissing(), CBioseq_Info::sx_ShallowCopy(), CValidError_bioseq::ValidateHistory(), CSGSwitchPointJob::x_Execute(), and x_FindLatestSequence().

◆ IsSetId() [1/2] bool CBioseq_Base::IsSetId ( void ) const inline

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

Data member Id is mandatory; its type is defined as 'typedef list< CRef< CSeq_id > > TId'

Returns

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

Definition at line 278 of file Bioseq_.hpp.

References CBioseq_Base::m_set_State.

Referenced by CGBProjectHelper::AddProjectItemsFromRID(), AllowOrphanedProtein(), CTrimN::apply(), CRemoveSequencesDlg::CollectLabels(), CRBSubpanel::CollectLabels(), CRemoveSequencesDlg::CollectLabelsAll(), CRBSubpanel::CollectLabelsAll(), seqsubmit_split::SIdCompare::compare_seq(), CSeqIdField::GetVal(), CFileIDField::GetVal(), CGeneralIDField::GetVal(), CLocalIDField::GetVals(), HasRepairedIDs(), CLocalIDField::IsEmpty(), CValidError_bioseq::IsMaster(), CDiscrepancyContext::IsRefseq(), CValidError_bioseq::IsTSAAccession(), CValidError_bioseq::IsWGSAccession(), CEditingActionDescLocalId::Modify(), CFileSubpanel::OnSelectButton(), QSbuf_To_Single_Qscore_SeqGraph(), s_GetMatchingSequence(), s_HasUnprocessedCdregions(), s_ReportUndefinedSpeciesId(), CLengthSubpanel::SetClusters(), CFileSubpanel::SetClusters(), CBioseq_Info::sx_ShallowCopy(), CMacroFunction_TrimTerminalNs::TheFunction(), TranslateCDSCommand(), CValidError_bioseq::ValidateBioseqContext(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_annot::ValidateSeqAnnotContext(), CValidError_bioseq::ValidateSeqIds(), CEditObjectSeq_feat::x_HandleCdsProduct(), x_IsEmblOrDdbjOnSet(), CFeatureItem::x_SeqIdWriteForTable(), CBioseq_Info::x_SetObject(), CModifySeqId::x_UpdateBioseq(), and CRemoveSeqId::x_UpdateBioseq().

◆ IsSetId() [2/2] bool CSeq_annot_Base::IsSetId ( void ) const inline ◆ IsSetIds() [1/2] bool CAlign_def_Base::IsSetIds ( void ) const inline ◆ IsSetIds() [2/2] bool CSeq_hist_rec_Base::IsSetIds ( void ) const inline ◆ IsSetInst() bool CBioseq_Base::IsSetInst ( void ) const inline

the sequence data Check if a value has been assigned to Inst data member.

Data member Inst is mandatory; its type is defined as 'typedef CSeq_inst TInst'

Returns

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

Definition at line 324 of file Bioseq_.hpp.

References CBioseq_Base::m_Inst.

◆ IsSetLength() [1/2] bool CSeq_inst_Base::IsSetLength ( void ) const inline

length of sequence in residues Check if a value has been assigned to Length data member.

Data member Length is optional; its type is defined as 'typedef TSeqPos TLength'

Returns

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

Definition at line 640 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_set_State.

Referenced by AppendBioseqLabel(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), CSeq_inst_Base::CanGetLength(), CValidError_bioseq::CheckSourceDescriptor(), seqsubmit_split::SLongestFirstCompare::compare_seq(), seqsubmit_split::SShortestFirstCompare::compare_seq(), CSeqMap::CSeqMap(), CBlobSplitterImpl::GetLength(), GetSeqLength(), CBioseq::IsSetLength(), PatchTargetSequence(), s_WillReportTerminalGap(), CSeq_inst_Base::SetLength(), CBioseq_Info::sx_ShallowCopy(), CValidError_bioseq::ValidateNsAndGaps(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateSegRef(), CValidError_bioseq::ValidateSeqFeatContext(), CValidError_bioseq::ValidateSeqLen(), CValidError_bioseq::x_BadMetazoanMitochondrialLength(), CASN1InputSourceOMF::x_ReadOneSeq(), and CSplitDataLoader::x_SplitSeqData().

◆ IsSetLength() [2/2] bool CSeq_literal_Base::IsSetLength ( void ) const inline ◆ IsSetLinkage() bool CSeq_gap_Base::IsSetLinkage ( void ) const inline

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

Data member Linkage is optional; its type is defined as 'typedef int TLinkage'

Returns

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

Definition at line 310 of file Seq_gap_.hpp.

References CSeq_gap_Base::m_set_State.

Referenced by CSeq_gap::AddLinkageEvidence(), BOOST_AUTO_TEST_CASE(), CSeq_gap_Base::CanGetLinkage(), CSeq_gap::ChangeType(), CSeq_literal::GetBridgeability(), CUpdateSeq_Input::s_IsGoodLiteral(), CSeq_gap_Base::SetLinkage(), CValidError_bioseq::ValidateDelta(), and CValidError_bioseq::ValidateSeqGap().

◆ IsSetLinkage_evidence() bool CSeq_gap_Base::IsSetLinkage_evidence ( void ) const inline ◆ IsSetMaploc() bool CPubdesc_Base::IsSetMaploc ( void ) const inline ◆ IsSetMol() bool CSeq_inst_Base::IsSetMol ( void ) const inline

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

Data member Mol is mandatory; its type is defined as 'typedef EMol TMol'

Returns

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

Definition at line 593 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_set_State.

Referenced by CCleanup::AddMissingMolInfo(), CCleanup::AddProteinTitle(), CClearKeywords::ApplyToCSeq_entry(), CMolInfoEditDlg::ApplyToInst(), CMolInfoEditDlg::ApplyToMolInfo(), CFastaReaderEx::AssignMolType(), CSeq_inst_Base::CanGetMol(), CSequenceEditingEventHandler::ChangeToGenomicDna(), CFastaReader::CheckDataLine(), CSeq_inst::ConvertDeltaToRaw(), CNewCleanup_imp::CreateMissingMolInfo(), CMolInfoEditDlg::CreateNewMolInfo(), CSeqMap::CSeqMap(), sequpd::FindMatches(), CValidError_bioseq::GapByGapInst(), CBioseq_set::GetGenomicFromGenProdSet(), CMolInfoField::GetVal(), CDeflineProcess::IndexedProcess(), IsBadSeqInstStrand(), CEditingActionMolInfoClass::IsSetValue(), CMolInfoSubpanel::OnSelectButton(), RawBioseqPack(), CNewCleanup_imp::RemoveBadProteinTitle(), CNewCleanup_imp::ResynchPeptidePartials(), s_ReplaceAllMolinfo(), s_WillReportTerminalGap(), CFlatfileProcess::SeqEntryProcess(), CGeneOverlapProcess::SeqEntryProcess(), CGeneFeatTreeProcess::SeqEntryProcess(), CMolInfoSubpanel::SetClusters(), CSeq_inst_Base::SetMol(), CCleanup::SetMolinfoTech(), CBioseq_Info::sx_ShallowCopy(), CValidError_imp::ValidateBioSourceForSeq(), CValidError_bioseq::ValidateInst(), CValidError_bioseq::ValidateNsAndGaps(), CFastaReader::x_NucOrProt(), CValidError_bioseq::x_ValidateAbuttingRNA(), and CFeatureTableReader::xConvertSeqIntoSeqSet().

◆ IsSetName() [1/3] bool CPubdesc_Base::IsSetName ( void ) const inline ◆ IsSetName() [2/3] bool CSeq_annot_Base::IsSetName ( void ) const inline ◆ IsSetName() [3/3] bool CTextannot_id_Base::IsSetName ( void ) const inline ◆ IsSetNames() bool CNum_enum_Base::IsSetNames ( void ) const inline

the tags Check if a value has been assigned to Names data member.

Data member Names is mandatory; its type is defined as 'typedef list< string > TNames'

Returns

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

Definition at line 243 of file Num_enum_.hpp.

References CNum_enum_Base::m_set_State.

◆ IsSetNum() [1/2] bool CNum_enum_Base::IsSetNum ( void ) const inline ◆ IsSetNum() [2/2] bool CPubdesc_Base::IsSetNum ( void ) const inline ◆ IsSetNumexc() bool CPubdesc_Base::IsSetNumexc ( void ) const inline ◆ IsSetPoly_a() bool CPubdesc_Base::IsSetPoly_a ( void ) const inline ◆ IsSetPub() bool CPubdesc_Base::IsSetPub ( void ) const inline

the citation(s) Check if a value has been assigned to Pub data member.

Data member Pub is mandatory; its type is defined as 'typedef CPub_equiv TPub'

Returns

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

Definition at line 593 of file Pubdesc_.hpp.

References CPubdesc_Base::m_Pub.

Referenced by CDiscrepancyContext::CParseNode::AddDescriptor(), CDiscrepancyContext::CParseNode::AddFeature(), CGlobalPubmedIdLookup::apply(), CCleanupPub::CleanPubdesc(), CSubmissionWizard::ExportTemplate(), GetAuthList(), GetDocSumLabel(), CCleanup::GetPubdescLabels(), CPubField::GetPubTitle(), GetPubTitleAndAuthors(), CPubField::GetVals(), HasAuthor(), HasUnpubWithoutTitle(), IsCitSubMissingAffiliation(), CCleanup::IsMinPub(), CEditingActionDescPubTitle::Modify(), CEditingActionDescPubPmid::Modify(), IEditingActionDescAffil::Modify(), IEditingActionDescAuthors::Modify(), IEditingActionDescJournal::Modify(), CEditingActionDescAuthorNameList::Modify(), CPubmedUpdater::PostProcessPubs(), PrintBioseqXML(), CNewCleanup_imp::PubdescBC(), CFindASN1Dlg::ReplaceInPubdesc(), s_FirstPubMatchesSecond(), CMacroFunction_PubFields::s_GetStatus(), s_IsCitSub(), s_UpdateGlobalInfo(), SetAuthList(), SetAuthorNames(), CRelaxedLookupDlg::SetPubdesc(), CPubField::SetPubTitle(), CMacroFunction_ISOJTALookup::TheFunction(), CMacroFunction_LookupPub::TheFunction(), CRemarksAndSerialNumberPanel::TransferDataFromWindow(), CRemarksAndSerialNumberPanel::TransferDataToWindow(), CValidError_imp::ValidatePubdesc(), IAuthorEditor::x_ApplyToPubdesc(), CAutogeneratedCleanup::x_BasicCleanupSeqfeatPub(), CReferenceItem::x_GatherInfo(), CValidError_bioseq::x_HasCitSub(), CNewCleanup_imp::x_IsPubContentBad(), and CSrcWriter::xGather().

◆ IsSetRefnum() bool CNum_cont_Base::IsSetRefnum ( void ) const inline

number assigned to first residue Check if a value has been assigned to Refnum data member.

Data member Refnum is optional with default 1; its type is defined as 'typedef TSignedSeqPos TRefnum'

Returns

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

Definition at line 247 of file Num_cont_.hpp.

References CNum_cont_Base::m_set_State.

Referenced by CNum_cont_Base::SetRefnum().

◆ IsSetReftype() bool CPubdesc_Base::IsSetReftype ( void ) const inline ◆ IsSetRelease() bool CTextannot_id_Base::IsSetRelease ( void ) const inline ◆ IsSetReplaced_by() bool CSeq_hist_Base::IsSetReplaced_by ( void ) const inline

these seqs make this one obsolete Check if a value has been assigned to Replaced_by data member.

Data member Replaced_by is optional; its type is defined as 'typedef CSeq_hist_rec TReplaced_by'

Returns

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

Definition at line 546 of file Seq_hist_.hpp.

References CSeq_hist_Base::m_Replaced_by.

Referenced by CSeq_hist_Base::CanGetReplaced_by(), CBlobSplitterImpl::CopySequence(), CEditHistory::CreateControls(), CRemoveSeqHistAssembly::GetCommand(), CModifySeqId::GetCommand(), s_CheckDataStatus(), CValidError_bioseq::ValidateHistory(), CAutogeneratedCleanup::x_BasicCleanupSeqHist(), and x_FindLatestSequence().

◆ IsSetReplaces() bool CSeq_hist_Base::IsSetReplaces ( void ) const inline

seq makes these seqs obsolete Check if a value has been assigned to Replaces data member.

Data member Replaces is optional; its type is defined as 'typedef CSeq_hist_rec TReplaces'

Returns

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

Definition at line 525 of file Seq_hist_.hpp.

References CSeq_hist_Base::m_Replaces.

Referenced by CLoadSecondaryAccessions::apply(), CSeq_hist_Base::CanGetReplaces(), CBlobSplitterImpl::CopySequence(), CEditHistory::CreateControls(), CAddSecondary::GetCommand(), CRemoveSeqHistAssembly::GetCommand(), CModifySeqId::GetCommand(), CValidError_bioseq::ValidateHistory(), CAutogeneratedCleanup::x_BasicCleanupSeqHist(), CFlatGatherer::x_HistoryComments(), and CGenbankFormatter::x_LocusHtmlPrefix().

◆ IsSetRepr() bool CSeq_inst_Base::IsSetRepr ( void ) const inline

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

Data member Repr is mandatory; its type is defined as 'typedef ERepr TRepr'

Returns

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

Definition at line 546 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_set_State.

Referenced by CSeq_inst_Base::CanGetRepr(), CFeatureTableReader::ChangeDeltaProteinToRawProtein(), CSeq_inst::ConvertDeltaToRaw(), ConvertRawToDeltaByNs(), CRawSeqToDeltaByN::DeltaSeqToRaw(), CValidError_bioseq::GapByGapInst(), CDeflineProcess::IndexedProcess(), CConvertBadCdsAndRnaToMiscFeat::IsExtendableLeft(), IsExtendableLeft(), CConvertBadCdsAndRnaToMiscFeat::IsExtendableRight(), IsExtendableRight(), CValidError_bioseq::IsMaster(), NormalizeUnknownLengthGaps(), CUpdateSeq_Input::s_IsDeltaWithFarPointers(), CUpdateSeq_Input::s_IsDeltaWithNoGaps(), s_WillReportTerminalGap(), CFlatfileProcess::SeqEntryProcess(), CSeq_inst_Base::SetRepr(), CBioseq_Info::sx_ShallowCopy(), CDeflineProcess::UnindexedProcess(), CValidError_bioseq::ValidateCompleteGenome(), CValidError_bioseq::ValidateNsAndGaps(), CValidError_bioseq::ValidateSegRef(), CEditObjectSeq_feat::x_HandleCdsProduct(), CValidError_bioseq::x_IsRangeGap(), CValidError_bioseq::x_ParentAndComponentLocationsDiffer(), and CCdregionValidator::x_ValidateParentPartialness().

◆ IsSetSeq_data() [1/2] bool CSeq_inst_Base::IsSetSeq_data ( void ) const inline

the sequence Check if a value has been assigned to Seq_data data member.

Data member Seq_data is optional; its type is defined as 'typedef CSeq_data TSeq_data'

Returns

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

Definition at line 805 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_Seq_data.

Referenced by CBlobSplitterImpl::AttachToSkeleton(), BOOST_AUTO_TEST_CASE(), CSeq_inst_Base::CanGetSeq_data(), CheckTranslatedBioseq(), CkNonTerSP(), CGapsEditor::ConvertNs2Gaps(), ConvertRawToDeltaByNs(), CBlobSplitterImpl::CopySequence(), CBlobSplitterImpl::CopySkeleton(), CSeqMap::CSeqMap(), GapsToDelta(), CValidError_bioseq::GetDataLen(), CBlobSplitterImpl::GetLength(), GetNcbieaaString(), GetNcbistdSeq(), GetRawSequenceString(), GetResidueAtPosition(), GetRetranslateCDSCommand(), GetSeqLength(), MakeSeqVectorForResidueCounting(), CBioseq::PackAsDeltaSeq(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), RawBioseqPack(), RevComp(), s_AddSeqDataToPssm(), SeqToDelta(), SeqToDeltaSP(), SetNewProteinSequence(), CBioseq_Info::sx_ShallowCopy(), TrimStopsFromCompleteCDS(), CValidError_bioseq::ValidateRawConst(), CValidError_bioseq::ValidateRepr(), CCleanup::WGSCleanup(), CVdbFastaExtractor::Write(), CVectorTrimPanel::x_RetranslateCDS(), CSplitDataLoader::x_SplitSeqData(), and CForeignContaminationScreenReportReader::xTrimData().

◆ IsSetSeq_data() [2/2] bool CSeq_literal_Base::IsSetSeq_data ( void ) const inline

may have the data Check if a value has been assigned to Seq_data data member.

Data member Seq_data is optional; its type is defined as 'typedef CSeq_data TSeq_data'

Returns

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

Definition at line 310 of file Seq_literal_.hpp.

References CSeq_literal_Base::m_Seq_data.

Referenced by AddLiteral(), variation::CVariationUtil::AttachSeq(), CBlobSplitterImpl::AttachToSkeleton(), CSeq_literal_Base::CanGetSeq_data(), CSeq_inst::ConvertDeltaToRaw(), CGapsEditor::ConvertNs2Gaps(), CBlobSplitterImpl::CopySequence(), variation::CVariationUtil::FlipStrand(), g_CreateIdentity(), g_CreateVarref(), CSeq_literal::GetBridgeability(), HasAssemblyOrNullGap(), CValidError_bioseq::HasBadWGSGap(), variation::CVariationUtil::Remap(), CValidError_bioseq::ReportBadAssemblyGap(), s_ContainsSeqDataIupacna(), s_GetFlankingGapTypes(), s_IntervalsMatchGaps(), s_IsConWithGaps(), CUpdateSeq_Input::s_IsGoodLiteral(), CVariation_ref::SetIdentity(), variation::CVariationUtil::TranslateNAtoAA(), CValidError_bioseq::ValidateDelta(), CSeqMap::x_Add(), CValidError_graph::x_GetLitLength(), variation::CHgvsParser::x_PlacementCoordsToStr(), CGapsEditor::x_SetGapParameters(), CValidError_graph::x_ValidateGraphOnDeltaBioseq(), CForeignContaminationScreenReportReader::xCheckLen(), and CForeignContaminationScreenReportReader::xTrimLiteral().

◆ IsSetSeq_raw() bool CPubdesc_Base::IsSetSeq_raw ( void ) const inline ◆ IsSetStrand() bool CSeq_inst_Base::IsSetStrand ( void ) const inline

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

Data member Strand is optional; its type is defined as 'typedef EStrand TStrand'

Returns

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

Definition at line 758 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_set_State.

Referenced by CMolInfoEditDlg::ApplyToInst(), CSeq_inst_Base::CanGetStrand(), CBlobSplitterImpl::CopySequence(), CMolInfoField::GetVal(), IsBadSeqInstStrand(), CEditingActionMolInfoStrand::IsSetValue(), s_ReplaceAllMolinfo(), CSeq_inst_Base::SetStrand(), CBioseq_Info::sx_ShallowCopy(), CValidError_bioseq::ValidateInst(), and CValidError_bioseq::ValidateMolInfoContext().

◆ IsSetTech() bool CMolInfo_Base::IsSetTech ( void ) const inline

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

Data member Tech is optional with default eTech_unknown; its type is defined as 'typedef int TTech'

Returns

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

Definition at line 472 of file MolInfo_.hpp.

References CMolInfo_Base::m_set_State.

Referenced by CMolInfoEditDlg::ApplyToMolInfo(), CAlignCollapser::GetCollapsedAlgnments(), GetDescrEmblBlock(), GetGBBlock(), CAutoDef::GetKeywordPrefix(), CMolInfo::GetLabel(), CAlignCollapser::GetOnlyOtherAlignments(), CValidError_feat::GetTSACDSOnMinusStrandErrors(), CMolInfoField::GetVal(), IsBioseqTSA(), IsEmptyMolInfo(), CEditingActionMolInfoTechnique::IsSetValue(), CValidError_bioseq::IsWGS(), MakeMailReportPreReport(), CNewCleanup_imp::MolInfoBC(), CTabularFormatter_Tech::Print(), CCleanup::SetMolinfoBiomol(), CCleanup::SetMolinfoTech(), CMolInfo_Base::SetTech(), CReadInSkipObjectHook< Object >::SkipObject(), CValidError_bioseq::ValidateBioseqContext(), CValidError_bioseq::ValidateDupOrOverlapFeats(), CValidError_desc::ValidateMolInfo(), CValidError_bioseq::ValidateMolInfoContext(), CNewCleanup_imp::x_CleanupGenbankBlock(), CSGSegmentsSeqIDJob::x_Execute(), CDeflineGenerator::x_GetModifiers(), CSGSegmentSmearJob::x_LoadFromDeltaSeqs(), CValidError_bioseq::x_SetupCommonFlags(), CValidError_bioseq::x_ValidateBarcode(), XMLGetEMBLBlock(), and XMLGetGBBlock().

◆ IsSetTechexp() bool CMolInfo_Base::IsSetTechexp ( void ) const inline ◆ IsSetTopology() bool CSeq_inst_Base::IsSetTopology ( void ) const inline

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

Data member Topology is optional with default eTopology_linear; its type is defined as 'typedef ETopology TTopology'

Returns

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

Definition at line 708 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_set_State.

Referenced by CMolInfoEditDlg::ApplyToInst(), CBlobSplitterImpl::CopySequence(), CMolInfoField::GetVal(), CEditingActionMolInfoTopology::IsSetValue(), CMolInfoSubpanel::OnSelectButton(), s_ReplaceAllMolinfo(), CMolInfoSubpanel::SetClusters(), CSeq_inst_Base::SetTopology(), CBioseq_Info::sx_ShallowCopy(), CValidError_bioseq::ValidateInst(), CValidError_imp::ValidateSeqLoc(), CValidError_bioseq::x_BadMetazoanMitochondrialLength(), CValidError_bioseq::x_IgnoreEndGap(), and CValidError_bioseq::x_ValidateCompletness().

◆ IsSetType() [1/3] bool CLinkage_evidence_Base::IsSetType ( void ) const inline ◆ IsSetType() [2/3] bool CNum_ref_Base::IsSetType ( void ) const inline ◆ IsSetType() [3/3] bool CSeq_gap_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 263 of file Seq_gap_.hpp.

References CSeq_gap_Base::m_set_State.

Referenced by CSeq_gap::AddLinkageEvidence(), CSeq_gap_Base::CanGetType(), CValidError_bioseq::HasBadWGSGap(), CValidError_bioseq::ReportBadAssemblyGap(), ResetLinkageEvidence(), s_GetFlankingGapTypes(), CUpdateSeq_Input::s_IsGoodLiteral(), CSeq_gap_Base::SetType(), CValidError_bioseq::ValidateDelta(), and CValidError_bioseq::ValidateSeqGap().

◆ IsSetUnits() bool CNum_real_Base::IsSetUnits ( void ) const inline ◆ IsSetVersion() bool CTextannot_id_Base::IsSetVersion ( void ) const inline ◆ IsSource() bool CSeqdesc_Base::IsSource ( void ) const inline

Check if variant Source is selected.

Source type is defined as 'typedef CBioSource TSource'.

Returns

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

Definition at line 1190 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Source, and CSeqdesc_Base::m_choice.

Referenced by CQualLookupMap::AddDesc(), CDiscrepancyContext::CParseNode::AddDescriptor(), CClickableSortUniqueCount::AddToBulkEditList(), BOOST_AUTO_TEST_CASE(), CFlatFileTextItem::CFlatFileTextItem(), CSrcTableColumnBase::ClearVal(), CBioseqEditor::EditSelection(), CStrainRequest::ExploreStrainsByTaxname(), GenerateDiffListFromBioSource(), GenerateDiffListFromDescriptors(), IEditingAction::GetActionCommand(), GetBioSourceFromContext(), CLowerQuals::GetCommand(), CFlatFileViewContext::GetEditObject(), variation::CVariationUtil::GetMolType(), CCleanup::GetNormalizableGeneQualPairs(), GetOrg_refOrNull(), CMiscSeqTableColumn::GetRelatedApplyObjects(), CBioseq::GetTaxId(), CSrcTableColumnBase::GetVal(), CSrcTableColumnBase::GetVals(), CDiscrepancyPanel::OnDblClk(), CBioseqEditor::OnDeleteSelection(), SMatchSrc::operator()(), CFindASN1Dlg::ReplaceInDesc(), s_GetTaxId(), CDescrCache::SetBioSource(), CMiscSeqTableColumn::SetVal(), CPropagateDescriptors::ShouldStayInPlace(), CReadInSkipObjectHook< Object >::SkipObject(), sReportInvalidDescriptor(), TestOneStrain(), TestOneStrainNew(), CTaxonomyUpdater::UpdateOrgFromTaxon(), CValidError_imp::ValidateSubSource(), CSubmissionWizard::x_ApplyDescriptorToRecord(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), CValidErrorFormat::x_FormatBadInstCodeForSubmitterReport(), CValidErrorFormat::x_FormatBadSpecificHostForSubmitterReport(), variation_ref::CHgvsParser::x_SeqIdToHgvsHeader(), CBioseqContext::x_SetTaxname(), and CGffFeatureContext::xAssignSequenceHasBioSource().

◆ IsSp() bool CSeqdesc_Base::IsSp ( void ) const inline ◆ IsSrc() bool CAnnotdesc_Base::IsSrc ( void ) const inline ◆ IsTitle() [1/2] bool CAnnotdesc_Base::IsTitle ( void ) const inline ◆ IsTitle() [2/2] bool CSeqdesc_Base::IsTitle ( void ) const inline

Check if variant Title is selected.

Title type is defined as 'typedef string TTitle'.

Returns

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

Definition at line 1026 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Title, and CSeqdesc_Base::m_choice.

Referenced by BOOST_AUTO_TEST_CASE(), CDefinitionLineField::GetVal(), CDefinitionLineField::IsEmpty(), CEditingActionDescDefline::IsSetValue(), STitleMatchString::operator()(), CFindASN1Dlg::ReplaceInDesc(), s_HasTitle(), CDefinitionLineField::SetVal(), CPropagateDescriptors::ShouldStayInPlace(), CReadInSkipObjectHook< Object >::SkipObject(), CWriteDB_Impl::x_BuildDeflinesFromBioseq(), and CMakeProfileDBApp::x_UpdateCobalt().

◆ IsUpdate_date() [1/2] bool CAnnotdesc_Base::IsUpdate_date ( void ) const inline ◆ IsUpdate_date() [2/2] bool CSeqdesc_Base::IsUpdate_date ( void ) const inline ◆ IsUser() [1/2] bool CAnnotdesc_Base::IsUser ( void ) const inline ◆ IsUser() [2/2] bool CSeqdesc_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 1122 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_User, and CSeqdesc_Base::m_choice.

Referenced by CDBLinkField::ClearVal(), CGenomeProjectField::ClearVal(), CStructuredCommentField::ClearVal(), descr_cmp(), GetDBLinkIDs(), CEditObjectSeq_desc::GetEditCommand(), CSGUtils::GetFeatFetchDepth(), CBioseq_Info::GetFeatureFetchPolicy(), CApplyStructCommentTreeItemData::GetMacroDescription(), CStructuredCommentsReader::CStructComment::GetPrefix(), CDBLinkField::GetRelatedObjects(), CStructuredCommentField::GetRelatedObjects(), CGenomeProjectField::GetVal(), CDBLinkField::GetVals(), CLocalIDField::GetVals(), CStructuredCommentField::GetVals(), CTable2AsnContext::IsDBLink(), CDBLinkField::IsEmpty(), CGenomeProjectField::IsEmpty(), CLocalIDField::IsEmpty(), CStructuredCommentField::IsEmpty(), CEditingActionDescGenomeProjectId::IsSetValue(), CEditingActionDescStructCommDbName::IsSetValue(), CSeqEntrySource::IsUnverified(), CValidError_desc::IsValidStructuredComment(), CValidator::IsValidStructuredComment(), isVersionsObject(), CMultiReader::LoadTemplate(), CEditingActionDescStructCommFieldName::Modify(), CEditingActionDescComment::Modify(), s_FastaGetOriginalID(), s_GetOriginalID(), s_GetUserObjectType(), s_IsCleanupObject(), s_IsDBLink(), s_IsReportableStructuredComment(), s_IsTpa(), CDescrCache::SetDBLink(), CDescrCache::SetFileTrack(), CDescrCache::SetGenomeProjects(), CDescrCache::SetTpaAssembly(), CDBLinkField::SetVal(), CStructuredCommentField::SetVal(), CGenomeProjectField::SetVal(), CEditingActionDescGenomeProjectId::SetValue(), CEditingActionDescStructCommDbName::SetValue(), CEditingActionDescStructCommFieldName::SetValue(), CValidError_bioseqset::ShouldHaveNoDblink(), CPropagateDescriptors::ShouldStayInPlace(), CSubmissionWizard::x_ApplyDescriptorToRecord(), CWriteDB_Impl::x_GetFastaReaderDeflines(), CStructCommFieldValuePair::x_GetUser_Object(), CCommonComponentScorer::x_GetUserCompList(), CNewCleanup_imp::x_IsDBLinkUserObj(), CFlatGatherer::x_StructuredComments(), and CSrcWriter::xGetOriginalId().

◆ operator const Tdata &() [1/5] ◆ operator const Tdata &() [2/5]

Conversion operator to 'const Tdata' type.

Definition at line 177 of file Delta_ext_.hpp.

◆ operator const Tdata &() [3/5]

Conversion operator to 'const Tdata' type.

Definition at line 177 of file Map_ext_.hpp.

◆ operator const Tdata &() [4/5]

Conversion operator to 'const Tdata' type.

Definition at line 177 of file Seg_ext_.hpp.

◆ operator const Tdata &() [5/5]

Conversion operator to 'const Tdata' type.

Definition at line 179 of file Seq_descr_.hpp.

◆ operator Tdata &() [1/5] ◆ operator Tdata &() [2/5] ◆ operator Tdata &() [3/5]

Conversion operator to 'Tdata' type.

Definition at line 183 of file Map_ext_.hpp.

◆ operator Tdata &() [4/5]

Conversion operator to 'Tdata' type.

Definition at line 183 of file Seg_ext_.hpp.

◆ operator Tdata &() [5/5] ◆ operator<<() [1/11] ◆ operator<<() [2/11] ◆ operator<<() [3/11] ◆ operator<<() [4/11] ◆ operator<<() [5/11] ◆ operator<<() [6/11] ◆ operator<<() [7/11] ◆ operator<<() [8/11] ◆ operator<<() [9/11] ◆ operator<<() [10/11] ◆ operator<<() [11/11] ◆ operator=() [1/46] ◆ operator=() [2/46] ◆ operator=() [3/46] ◆ operator=() [4/46] ◆ operator=() [5/46] ◆ operator=() [6/46] ◆ operator=() [7/46] ◆ operator=() [8/46] ◆ operator=() [9/46] ◆ operator=() [10/46] ◆ operator=() [11/46] ◆ operator=() [12/46] ◆ operator=() [13/46] ◆ operator=() [14/46] ◆ operator=() [15/46] ◆ operator=() [16/46] ◆ operator=() [17/46] ◆ operator=() [18/46] ◆ operator=() [19/46] ◆ operator=() [20/46] ◆ operator=() [21/46] ◆ operator=() [22/46] ◆ operator=() [23/46] ◆ operator=() [24/46] ◆ operator=() [25/46] ◆ operator=() [26/46] ◆ operator=() [27/46] ◆ operator=() [28/46] ◆ operator=() [29/46] ◆ operator=() [30/46] ◆ operator=() [31/46] ◆ operator=() [32/46] ◆ operator=() [33/46] ◆ operator=() [34/46] ◆ operator=() [35/46] ◆ operator=() [36/46] ◆ operator=() [37/46] ◆ operator=() [38/46] ◆ operator=() [39/46] ◆ operator=() [40/46] ◆ operator=() [41/46] ◆ operator=() [42/46] ◆ operator=() [43/46] ◆ operator=() [44/46] ◆ operator=() [45/46] ◆ operator=() [46/46] ◆ operator>>() [1/11] ◆ operator>>() [2/11] ◆ operator>>() [3/11] ◆ operator>>() [4/11] ◆ operator>>() [5/11] ◆ operator>>() [6/11] ◆ operator>>() [7/11] ◆ operator>>() [8/11] ◆ operator>>() [9/11] ◆ operator>>() [10/11] ◆ operator>>() [11/11] ◆ Reset() [1/30] void CAlign_def_Base::Reset ( void ) virtual ◆ Reset() [2/30] void CAnnot_descr_Base::Reset ( void ) ◆ Reset() [3/30] void CAnnot_id_Base::Reset ( void ) virtual ◆ Reset() [4/30] void CAnnotdesc_Base::Reset ( void ) virtual ◆ Reset() [5/30] void CBioseq_Base::Reset ( void ) virtual ◆ Reset() [6/30] void CDelta_ext_Base::Reset ( void ) ◆ Reset() [7/30] void CDelta_seq_Base::Reset ( void ) virtual ◆ Reset() [8/30] ◆ Reset() [9/30] void CMap_ext_Base::Reset ( void ) ◆ Reset() [10/30] void CMolInfo_Base::Reset ( void ) virtual ◆ Reset() [11/30] void CNum_cont_Base::Reset ( void ) virtual ◆ Reset() [12/30] void CNum_enum_Base::Reset ( void ) virtual ◆ Reset() [13/30] void CNum_real_Base::Reset ( void ) virtual ◆ Reset() [14/30] void CNum_ref_Base::Reset ( void ) virtual ◆ Reset() [15/30] void CNumbering_Base::Reset ( void ) virtual ◆ Reset() [16/30] void CPubdesc_Base::Reset ( void ) virtual

Reset the whole object.

Definition at line 124 of file Pubdesc_.cpp.

References CPubdesc_Base::ResetAlign_group(), CPubdesc_Base::ResetComment(), CPubdesc_Base::ResetFig(), CPubdesc_Base::ResetMaploc(), CPubdesc_Base::ResetName(), CPubdesc_Base::ResetNum(), CPubdesc_Base::ResetNumexc(), CPubdesc_Base::ResetPoly_a(), CPubdesc_Base::ResetPub(), CPubdesc_Base::ResetReftype(), and CPubdesc_Base::ResetSeq_raw().

Referenced by CMacroFunction_LookupPub::TheFunction(), and CMacroFunction_DOILookupBase::TheFunction().

◆ Reset() [17/30] void CSeg_ext_Base::Reset ( void ) ◆ Reset() [18/30] ◆ Reset() [19/30] void CSeq_annot_Base::Reset ( void ) virtual ◆ Reset() [20/30] void CSeq_data_Base::Reset ( void ) virtual

Reset the whole object.

Definition at line 51 of file Seq_data_.cpp.

References CSeq_data_Base::e_not_set, CSeq_data_Base::m_choice, and CSeq_data_Base::ResetSelection().

◆ Reset() [21/30] void CSeq_descr_Base::Reset ( void ) ◆ Reset() [22/30] void CSeq_ext_Base::Reset ( void ) virtual ◆ Reset() [23/30] void CSeq_gap_Base::Reset ( void ) virtual ◆ Reset() [24/30] void CSeq_hist_Base::C_Deleted::Reset ( void ) ◆ Reset() [25/30] void CSeq_hist_Base::Reset ( void ) virtual ◆ Reset() [26/30] void CSeq_hist_rec_Base::Reset ( void ) virtual ◆ Reset() [27/30] void CSeq_inst_Base::Reset ( void ) virtual ◆ Reset() [28/30] void CSeq_literal_Base::Reset ( void ) virtual ◆ Reset() [29/30] void CSeqdesc_Base::Reset ( void ) virtual ◆ Reset() [30/30] void CTextannot_id_Base::Reset ( void ) virtual ◆ ResetA() void CNum_real_Base::ResetA ( void ) inline ◆ ResetAccession() void CTextannot_id_Base::ResetAccession ( void ) ◆ ResetAlign_group() void CPubdesc_Base::ResetAlign_group ( void ) inline ◆ ResetAlign_type() void CAlign_def_Base::ResetAlign_type ( void ) inline ◆ ResetAligns() ◆ ResetAnnot() void CBioseq_Base::ResetAnnot ( void )

Reset Annot data member.

Definition at line 91 of file Bioseq_.cpp.

References CBioseq_Base::m_Annot, and CBioseq_Base::m_set_State.

Referenced by BOOST_AUTO_TEST_CASE(), CFeatureTableReader::MoveRegionsToProteins(), CDUpdater::reformatBioseq(), CFeatureTableReader::RemoveEmptyFtable(), CCdsToMatPeptide::RemoveFeature(), CReadBlastApp::RemoveProblems(), CBioseq_Base::Reset(), CAgpconvertApplication::Run(), s_RemoveAnnotsFromEntry(), SimplifyBioseqForCD(), TestOneMiscPartial(), CSequenceUpdater::x_PrepareNewEntry(), CNewCleanup_imp::x_RemoveEmptyFeatureTables(), CPrimeCacheApplication::x_StripSeqEntry(), and CFeatureTableReader::xParseCdregions().

◆ ResetAscending() void CNum_cont_Base::ResetAscending ( void ) inline ◆ ResetAssembly() void CSeq_hist_Base::ResetAssembly ( void ) ◆ ResetB() void CNum_real_Base::ResetB ( void ) inline ◆ ResetBiomol() void CMolInfo_Base::ResetBiomol ( void ) inline ◆ ResetComment() void CPubdesc_Base::ResetComment ( void ) ◆ ResetCompleteness() void CMolInfo_Base::ResetCompleteness ( void ) inline ◆ ResetData() void CSeq_annot_Base::ResetData ( void ) ◆ ResetDate() void CSeq_hist_rec_Base::ResetDate ( void ) ◆ ResetDb() void CSeq_annot_Base::ResetDb ( void ) inline ◆ ResetDeleted() void CSeq_hist_Base::ResetDeleted ( void ) ◆ ResetDesc() void CSeq_annot_Base::ResetDesc ( void ) ◆ ResetDescr() void CBioseq_Base::ResetDescr ( void )

Reset Descr data member.

Definition at line 60 of file Bioseq_.cpp.

References CBioseq_Base::m_Descr.

Referenced by BOOST_AUTO_TEST_CASE(), CCdFromFasta::ImportAlignmentData(), CTable2AsnContext::MergeSeqDescr(), CApplyMods::operator()(), CCleanup::RemoveNcbiCleanupObject(), RemoveUserObjectType(), CBioseq_Base::Reset(), SimplifyBioseqForCD(), CChangeSeqdescTitleCommand::Unexecute(), CNewCleanup_imp::x_ClearEmptyDescr(), CPrimeCacheApplication::x_Process_Fasta(), CSplitDataLoader::x_SplitSeq(), and CPrimeCacheApplication::x_StripSeqEntry().

◆ ResetExt() void CSeq_inst_Base::ResetExt ( void )

Reset Ext data member.

Definition at line 142 of file Seq_inst_.cpp.

References CSeq_inst_Base::m_Ext.

Referenced by CExpandGaps::apply(), CFastaReader::AssembleSeq(), CSeq_inst::ConvertDeltaToRaw(), CGapsEditor::ConvertNs2Gaps(), CRawSeqToDeltaByN::DeltaSeqToRaw(), CBioseq::PackAsDeltaSeq(), CSeq_inst_Base::Reset(), CSequenceUpdater::s_UpdateSeqInst(), TrimSeqData(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CSeqMap::x_DoUpdateSeq_inst(), CUpdateSeq_Input::x_ReadAccession(), CSequenceUpdater::x_ReplaceSequence(), CWGSSeqIterator::x_SetDeltaOrData(), CVectorTrimPanel::x_SetSeqData(), CSequenceAmbigTrimmer::x_SliceBioseq(), and CSequenceAmbigTrimmer::x_TrimToNothing().

◆ ResetFig() void CPubdesc_Base::ResetFig ( void ) ◆ ResetFuzz() [1/2] ◆ ResetFuzz() [2/2] void CSeq_literal_Base::ResetFuzz ( void ) ◆ ResetGbmoltype() void CMolInfo_Base::ResetGbmoltype ( void ) ◆ ResetHas_zero() void CNum_cont_Base::ResetHas_zero ( void ) inline ◆ ResetHist() void CSeq_inst_Base::ResetHist ( void ) ◆ ResetId() [1/2] void CBioseq_Base::ResetId ( void )

Reset Id data member.

Definition at line 54 of file Bioseq_.cpp.

References CBioseq_Base::m_Id, and CBioseq_Base::m_set_State.

Referenced by BOOST_FIXTURE_TEST_CASE(), CAddBioseqChecker::Do(), sequpd::FixCollidingIDs_Bioseq(), PssmMaker::modifyQuery(), CBioseq_Base::Reset(), CSequenceUpdater::x_AdjustProteinFeature(), CSequenceUpdater::x_FixIDInNewEntry(), CAgpConverter::x_InitializeCopyOfTemplate(), CSequenceUpdater::x_PrepareNewEntry(), CCDSTranslationPanel::x_SetProtein(), CSequenceUpdater::x_UpdateProteinID(), and CFeatureTableReader::xAddProteinToSeqEntry().

◆ ResetId() [2/2] void CSeq_annot_Base::ResetId ( void ) ◆ ResetIds() [1/2] ◆ ResetIds() [2/2] void CSeq_hist_rec_Base::ResetIds ( void ) ◆ ResetInst() void CBioseq_Base::ResetInst ( void ) ◆ ResetLength() [1/2] void CSeq_inst_Base::ResetLength ( void ) inline ◆ ResetLength() [2/2] void CSeq_literal_Base::ResetLength ( void ) inline ◆ ResetLinkage() void CSeq_gap_Base::ResetLinkage ( void ) inline ◆ ResetLinkage_evidence() ◆ ResetMaploc() void CPubdesc_Base::ResetMaploc ( void ) ◆ ResetMol() void CSeq_inst_Base::ResetMol ( void ) inline ◆ ResetName() [1/3] void CPubdesc_Base::ResetName ( void ) ◆ ResetName() [2/3] void CSeq_annot_Base::ResetName ( void ) ◆ ResetName() [3/3] void CTextannot_id_Base::ResetName ( void ) ◆ ResetNames() void CNum_enum_Base::ResetNames ( void ) ◆ ResetNum() [1/2] void CNum_enum_Base::ResetNum ( void ) inline ◆ ResetNum() [2/2] void CPubdesc_Base::ResetNum ( void ) ◆ ResetNumexc() void CPubdesc_Base::ResetNumexc ( void ) inline ◆ ResetPoly_a() void CPubdesc_Base::ResetPoly_a ( void ) inline ◆ ResetPub() ◆ ResetRefnum() void CNum_cont_Base::ResetRefnum ( void ) inline ◆ ResetReftype() void CPubdesc_Base::ResetReftype ( void ) inline ◆ ResetRelease() void CTextannot_id_Base::ResetRelease ( void ) ◆ ResetReplaced_by() void CSeq_hist_Base::ResetReplaced_by ( void ) ◆ ResetReplaces() void CSeq_hist_Base::ResetReplaces ( void ) ◆ ResetRepr() void CSeq_inst_Base::ResetRepr ( void ) inline ◆ ResetSelection() [1/9] void CAnnot_id_Base::ResetSelection ( void ) virtual ◆ ResetSelection() [2/9] void CAnnotdesc_Base::ResetSelection ( void ) virtual

Reset the selection (set it to e_not_set).

Definition at line 62 of file Annotdesc_.cpp.

References CAnnotdesc_Base::e_Align, CAnnotdesc_Base::e_Comment, CAnnotdesc_Base::e_Create_date, CAnnotdesc_Base::e_Name, CAnnotdesc_Base::e_not_set, CAnnotdesc_Base::e_Pub, CAnnotdesc_Base::e_Region, CAnnotdesc_Base::e_Src, CAnnotdesc_Base::e_Title, CAnnotdesc_Base::e_Update_date, CAnnotdesc_Base::e_User, CAnnotdesc_Base::m_choice, CAnnotdesc_Base::m_object, and CAnnotdesc_Base::m_string.

Referenced by CAnnotdesc_Base::Reset(), CAnnotdesc_Base::SetAlign(), CAnnotdesc_Base::SetCreate_date(), CAnnotdesc_Base::SetPub(), CAnnotdesc_Base::SetRegion(), CAnnotdesc_Base::SetSrc(), CAnnotdesc_Base::SetUpdate_date(), and CAnnotdesc_Base::SetUser().

◆ ResetSelection() [3/9] void CDelta_seq_Base::ResetSelection ( void ) virtual ◆ ResetSelection() [4/9] void CNumbering_Base::ResetSelection ( void ) virtual

Reset the selection (set it to e_not_set).

Definition at line 60 of file Numbering_.cpp.

References CNumbering_Base::e_Cont, CNumbering_Base::e_Enum, CNumbering_Base::e_not_set, CNumbering_Base::e_Real, CNumbering_Base::e_Ref, CNumbering_Base::m_choice, and CNumbering_Base::m_object.

Referenced by CNumbering_Base::Reset(), CNumbering_Base::SetCont(), CNumbering_Base::SetEnum(), CNumbering_Base::SetReal(), and CNumbering_Base::SetRef().

◆ ResetSelection() [5/9] void CSeq_annot_Base::C_Data::ResetSelection ( void ) ◆ ResetSelection() [6/9] void CSeq_data_Base::ResetSelection ( void ) virtual

Reset the selection (set it to e_not_set).

Definition at line 57 of file Seq_data_.cpp.

Referenced by CSeq_data_Base::Reset(), and CSeq_data_Base::SetGap().

◆ ResetSelection() [7/9] void CSeq_ext_Base::ResetSelection ( void ) virtual

Reset the selection (set it to e_not_set).

Definition at line 60 of file Seq_ext_.cpp.

References CSeq_ext_Base::e_Delta, CSeq_ext_Base::e_Map, CSeq_ext_Base::e_not_set, CSeq_ext_Base::e_Ref, CSeq_ext_Base::e_Seg, CSeq_ext_Base::m_choice, and CSeq_ext_Base::m_object.

Referenced by CSeq_ext_Base::Reset(), CSeq_ext_Base::SetDelta(), CSeq_ext_Base::SetMap(), CSeq_ext_Base::SetRef(), and CSeq_ext_Base::SetSeg().

◆ ResetSelection() [8/9] void CSeq_hist_Base::C_Deleted::ResetSelection ( void ) ◆ ResetSelection() [9/9] void CSeqdesc_Base::ResetSelection ( void ) virtual

Reset the selection (set it to e_not_set).

Definition at line 71 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Comment, CSeqdesc_Base::e_Create_date, CSeqdesc_Base::e_Dbxref, CSeqdesc_Base::e_Embl, CSeqdesc_Base::e_Genbank, CSeqdesc_Base::e_Het, CSeqdesc_Base::e_Maploc, CSeqdesc_Base::e_Modelev, CSeqdesc_Base::e_Modif, CSeqdesc_Base::e_Molinfo, CSeqdesc_Base::e_Name, CSeqdesc_Base::e_not_set, CSeqdesc_Base::e_Num, CSeqdesc_Base::e_Org, CSeqdesc_Base::e_Pdb, CSeqdesc_Base::e_Pir, CSeqdesc_Base::e_Prf, CSeqdesc_Base::e_Pub, CSeqdesc_Base::e_Region, CSeqdesc_Base::e_Source, CSeqdesc_Base::e_Sp, CSeqdesc_Base::e_Title, CSeqdesc_Base::e_Update_date, CSeqdesc_Base::e_User, CSeqdesc_Base::m_choice, CSeqdesc_Base::m_Het, CSeqdesc_Base::m_Modif, CSeqdesc_Base::m_object, and CSeqdesc_Base::m_string.

◆ ResetSeq_data() [1/2] void CSeq_inst_Base::ResetSeq_data ( void )

Reset Seq_data data member.

Definition at line 125 of file Seq_inst_.cpp.

References CSeq_inst_Base::m_Seq_data.

Referenced by CGapsEditor::ConvertNs2Gaps(), ConvertRawToDeltaByNs(), PssmMaker::getTrunctMaster(), CBioseq::PackAsDeltaSeq(), CSeq_inst_Base::Reset(), TrimSeqData(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), CSeqMap::x_DoUpdateSeq_inst(), CVectorTrimPanel::x_SetSeqData(), CSequenceAmbigTrimmer::x_SliceBioseq(), and CSequenceAmbigTrimmer::x_TrimToNothing().

◆ ResetSeq_data() [2/2] void CSeq_literal_Base::ResetSeq_data ( void ) ◆ ResetSeq_raw() void CPubdesc_Base::ResetSeq_raw ( void ) ◆ ResetStrand() void CSeq_inst_Base::ResetStrand ( void ) inline ◆ ResetTech() void CMolInfo_Base::ResetTech ( void ) inline

Reset Tech data member.

Definition at line 484 of file MolInfo_.hpp.

References CMolInfo_Base::eTech_unknown, CMolInfo_Base::m_set_State, and CMolInfo_Base::m_Tech.

Referenced by CMolInfoField::ClearVal(), GetDescrEmblBlock(), GetGBBlock(), CNewCleanup_imp::MolInfoBC(), CMolInfo_Base::Reset(), CEditingActionMolInfoTechnique::ResetValue(), CMolInfo_Base::SetDefaultTech(), XMLGetEMBLBlock(), and XMLGetGBBlock().

◆ ResetTechexp() ◆ ResetTopology() void CSeq_inst_Base::ResetTopology ( void ) inline ◆ ResetType() [1/3] void CLinkage_evidence_Base::ResetType ( void ) inline ◆ ResetType() [2/3] void CNum_ref_Base::ResetType ( void ) inline ◆ ResetType() [3/3] void CSeq_gap_Base::ResetType ( void ) inline ◆ ResetUnits() void CNum_real_Base::ResetUnits ( void ) ◆ ResetVersion() void CTextannot_id_Base::ResetVersion ( void ) inline ◆ Select() [1/18]

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

◆ Select() [2/18]

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

◆ Select() [3/18]

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

◆ Select() [4/18]

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

◆ Select() [5/18]

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

◆ Select() [6/18]

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

◆ Select() [7/18]

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

◆ Select() [8/18]

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

◆ Select() [9/18]

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

◆ Select() [10/18] ◆ Select() [11/18]

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 CAnnotdesc_Base::SetAlign(), CAnnotdesc_Base::SetComment(), CAnnotdesc_Base::SetCreate_date(), CAnnotdesc_Base::SetName(), CAnnotdesc_Base::SetPub(), CAnnotdesc_Base::SetRegion(), CAnnotdesc_Base::SetSrc(), CAnnotdesc_Base::SetTitle(), CAnnotdesc_Base::SetUpdate_date(), and CAnnotdesc_Base::SetUser().

◆ Select() [12/18]

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 CDelta_seq_Base::SetLiteral(), and CDelta_seq_Base::SetLoc().

◆ Select() [13/18] ◆ Select() [14/18]

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() [15/18]

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 CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), CSeq_data_Base::SetGap(), CSeq_data_Base::SetIupacaa(), CSeq_data_Base::SetIupacna(), CSeq_data_Base::SetNcbi2na(), CSeq_data_Base::SetNcbi4na(), CSeq_data_Base::SetNcbi8aa(), CSeq_data_Base::SetNcbi8na(), CSeq_data_Base::SetNcbieaa(), CSeq_data_Base::SetNcbipaa(), CSeq_data_Base::SetNcbipna(), and CSeq_data_Base::SetNcbistdaa().

◆ Select() [16/18] ◆ Select() [17/18]

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() [18/18]

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.

◆ SelectionName() [1/9] ◆ SelectionName() [2/9] ◆ SelectionName() [3/9] ◆ SelectionName() [4/9] ◆ SelectionName() [5/9] ◆ SelectionName() [6/9] ◆ SelectionName() [7/9] ◆ SelectionName() [8/9]

Retrieve selection name (for diagnostic purposes).

Parameters: index One of possible selection states.

Returns: Name string.

Definition at line 92 of file Seq_hist_.cpp.

◆ SelectionName() [9/9] ◆ Set() [1/6]

Assign a value to data member.

Returns: Reference to the data value.

Definition at line 170 of file Annot_descr_.hpp.

References CAnnot_descr_Base::m_data, and CAnnot_descr_Base::m_set_State.

Referenced by CSeq_annot::AddComment(), CSeq_annot::AddUserObject(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqAnnotDescr(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), CSeq_annot::SetCreateDate(), CSeq_annot::SetNameDesc(), CSeq_annot::SetTitleDesc(), CSeq_annot::SetUpdateDate(), CTrackData::WriteToAnnot(), CAutogeneratedCleanup::x_BasicCleanupAnnotDescr(), CTableAnnotDataSource::x_GetColumnMetaInfo(), and CReaderBase::xSetBrowserRegion().

◆ Set() [2/6]

Assign a value to data member.

Returns: Reference to the data value.

Definition at line 170 of file Delta_ext_.hpp.

References CDelta_ext_Base::m_data, and CDelta_ext_Base::m_set_State.

Referenced by CDelta_ext::AddAndSplit(), AddLinkageEvidence(), CDelta_ext::AddLiteral(), CDelta_ext::AddSeqRange(), CFastaReader::AssembleSeq(), CGapsEditor::ConvertBioseqToDelta(), CGapsEditor::ConvertNs2Gaps(), CBlobSplitterImpl::CopySequence(), CModifySeqId::GetCommand(), CDelta_ext_PackTarget::NewSegment(), CNewCleanup_imp::RemoveZeroLengthLiterals(), ResetLinkageEvidence(), SeqToDeltaSP(), SetLinkageType(), SetLinkageTypeLinkedRepeat(), SetLinkageTypeScaffold(), CAutogeneratedCleanup::x_BasicCleanupDeltaExt(), CContigItem::x_GatherInfo(), and CBioseq::x_SeqLoc_To_DeltaExt().

◆ Set() [3/6] ◆ Set() [4/6] ◆ Set() [5/6] ◆ Set() [6/6]

Assign a value to data member.

Returns: Reference to the data value.

Definition at line 172 of file Seq_descr_.hpp.

References CSeq_descr_Base::m_data, and CSeq_descr_Base::m_set_State.

Referenced by AddCommentToBioseq(), AddMasterDescr(), CWGSDb_Impl::AddMasterDescr(), CCleanup::AddNcbiCleanupObject(), CBioseq_Base_Info::AddSeq_descr(), CBioseq_Base_Info::AddSeqdesc(), AddSeqdescToSeqDescr(), TaxTreeData::addTaxToBioseq(), CBlobSplitterImpl::AttachToSkeleton(), CDiscrepancyVisitorImpl< _Name >::Autofix(), CCleanup::BasicCleanup(), BioseqSetDescriptorPropagateDown(), CSequesterSets::BioseqSetDescriptorPropagateDown(), BioseqSetDescriptorPropagateUp(), CSequesterSets::BioseqSetDescriptorPropagateUp(), CBlobSplitterImpl::CollectPieces(), CPhrap_Seq::CreateComplementedDescr(), CAlnVec::CreateConsensus(), CAutoAddDesc::Erase(), CAutoAddDesc::EraseDesc(), CSeqDBVol::GetBioseq(), CSeqEntrySource::GetNext(), CTable2AsnContext::GetOrgRef(), CWGSProteinIterator::GetSeq_descr(), GetSprotDescr(), CMultiReader::LoadDescriptors(), CWGSMasterDescrSetter::Loaded(), CBlobSplitterImpl::MakeID2Chunk(), CCleanup::MergeDupBioSources(), CCleanup::NormalizeDescriptorOrder(), CBiosampleChkApp::ProcessBioseqForUpdate(), CDUpdater::reformatBioseq(), CDUpdater::reformatBioseqByBlastDefline(), CDUpdater::RemoveBlastDefline(), RemoveDatesAfterFirst(), CCleanup::RemoveDupBioSource(), CCleanup::RemoveDuplicatePubs(), RemoveEarlierDates(), CCleanup::RemoveNcbiCleanupObject(), CBioseq_Base_Info::RemoveSeqdesc(), CBioseq_Base_Info::ReplaceSeqdesc(), s_RemoveSourceDescriptors(), s_SetDBLinkDesc(), CAutoAddDesc::Set(), CDescrCache::SetComment(), CDescrCache::SetPubdesc(), CTable2AsnContext::SetUserObject(), SimplifyBioseqForCD(), SortSeqDescr(), sx_AddDescrBytes(), CAutogeneratedCleanup::x_BasicCleanupBioseqSet_descr_ETC(), CPhrap_Read::x_CreateDesc(), CPhrapReader::x_CreateDesc(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqdescr(), CNewCleanup_imp::x_FixStructuredCommentKeywords(), CHugeAsnReader::x_GetTopLevelDescriptors(), CNewCleanup_imp::x_MoveNpPub(), CNewCleanup_imp::x_MoveNpSrc(), CPromote::x_PromoteCdregion(), CPromote::x_PromoteRna(), CBioseq_Base_Info::x_RealLoadDescr(), CNewCleanup_imp::x_RemoveUnseenTitles(), CDescrCache::x_SetDescriptor(), CNewCleanup_imp::x_SetMolInfoTechFromGenBankBlock(), seqsubmit_split::CSeqSubSplitter::xFlattenSeqEntry(), seqsubmit_split::CSeqSubSplitter::xMergeSeqDescr(), and CPubmedUpdater::xUpdatePubReferences().

◆ SetA() [1/2] ◆ SetA() [2/2] ◆ SetAccession() [1/3] ◆ SetAccession() [2/3] ◆ SetAccession() [3/3] ◆ SetAlign() [1/3] ◆ SetAlign() [2/3] ◆ SetAlign() [3/3] ◆ SetAlign_group() [1/2] ◆ SetAlign_group() [2/2] ◆ SetAlign_type() [1/2] ◆ SetAlign_type() [2/2] ◆ SetAligns() [1/2] ◆ SetAligns() [2/2] ◆ SetAnnot()

Assign a value to Annot data member.

Returns: Reference to the data value.

Definition at line 372 of file Bioseq_.hpp.

References CBioseq_Base::m_Annot, and CBioseq_Base::m_set_State.

Referenced by AddFeat(), AddFeatAnnotToSeqEntry(), CReadBlastApp::addLocation(), CFeatGapInfo::AdjustProteinSeq(), AdjustProtFeatForNucProtSet(), CForeignContaminationScreenReportReader::AnnotateOrRemove(), CSourceModParser::ApplyAllMods(), CAttachedHandles::Attach(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildGoodSpliceNucProtSet(), ChangeId(), ChangeNucId(), CheckGene(), CBlobSplitterImpl::CopySkeleton(), CAutogeneratedExtendedCleanup::ExtendedCleanupBioseq(), FindGene(), CFeatureTableReader::FindOpenReadingFrame(), sequpd::FixCollidingIDs_Bioseq(), fta_create_imgt_misc_feat(), fta_fix_labels(), GetBioseqWithFootprintForNthRow(), GetCDSFromGenProdSet(), GetEmblDescr(), GetMasterBioseqWithFootprintOld(), GetmRNAFromGenProdSet(), GetProtFeatFromGoodNucProtSet(), GetProtRefAnnot(), CCSraShortReadIterator::GetShortBioseq(), GetSPAnnot(), CSraRun::GetSpotEntry(), LoadFeat(), CFastaObjectLoader::LoadFromStream(), MakeEntryForDeltaConversion(), MakeNucProtSet3Partial(), CBam2Seq_graph::MakeSeq_entry(), CFeatureTableReader::MoveRegionsToProteins(), CConversionApp::Read(), CGff2Reader::ReadSeqEntry(), CFeature_table_reader::ReadSequinFeatureTables(), CDUpdater::reformatBioseq(), CFeatureTableReader::RemoveEmptyFtable(), CReadBlastApp::RemoveProblems(), RevComp(), CLocalFinderApp::Run(), s_AddGeneralAndLocal(), s_FixBioseqDeltas(), s_MakeNewMasterSeq(), s_UpdateFeatureIds(), SetNucProtSetProductName(), CReadBlastApp::StoreBlast(), CMytestApplication::TestFeatureGeneOverlap(), TestOneGapSeq(), objects::VisitAllFeatures(), CAnnotGetter::x_AddAnnotations(), SWGSCreateInfo::x_AddFeaturesDirect(), CPhrap_Read::x_CreateFeat(), CPhrap_Contig::x_CreateFeat(), CPhrap_Contig::x_CreateGraph(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatModApply::x_CreateSeqfeat(), CFeatModApply::x_FindSeqfeat(), CCSraAlignIterator::x_GetMatchEntry(), CNewCleanup_imp::x_MergeAdjacentFeatureTables(), CGFFReader::x_PlaceAlignment(), CGFFReader::x_PlaceFeature(), CSraInputSource::x_ReadOneSeq(), CNewCleanup_imp::x_RemoveEmptyFeatureTables(), CSplitDataLoader::x_SplitSeq(), XMLGetDescr(), CFeatureTableReader::xParseCdregions(), CMultiReader::xReadASN1Text(), and CMultiReader::xReadFlatfile().

◆ SetAscending() [1/2] ◆ SetAscending() [2/2] ◆ SetAssembly() ◆ SetB() [1/2] ◆ SetB() [2/2] ◆ SetBiomol() [1/2]

Assign a value to Biomol data member.

Parameters

Definition at line 453 of file MolInfo_.hpp.

References CMolInfo_Base::m_Biomol, CMolInfo_Base::m_set_State, and rapidjson::value.

Referenced by CCleanup::AddMissingMolInfo(), CCleanup::AddProtein(), AdjustProteinMolInfoToMatchCDS(), CMolInfoEditDlg::ApplyToMolInfo(), CFastaReaderEx::AssembleSeq(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildBigGoodNucProtSet(), BuildGoodNucProtSet(), BuildGoodSeq(), BuildNucProtSet(), BuildSequence(), CSequenceEditingEventHandler::ChangeToGenomicDna(), CCmdAddCDS::Execute(), GetGoodSeqEntryWithFeatureIds(), GetSprotDescr(), GetSynchronizeProductMolInfoCommand(), MakeProteinForGoodNucProtSet(), MakeProteinForNucProtSet(), RetranslateCdregion(), CEditingBtnsPanel::rRNAtoDNA(), CPrimeCacheApplication::Run(), SetBiomol(), SetCompleteness(), CCleanup::SetMolinfoBiomol(), CCleanup::SetMolinfoTech(), CMolInfoField::SetVal(), CEditingActionMolInfoMolecule::SetValue(), CCmdCreateCDS::x_AddMolinfoDescriptorToProtein(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CPromote::x_MakeMolinfoDesc(), CNewCleanup_imp::x_SetPartialsForProtein(), CFeatureTableReader::xConvertSeqIntoSeqSet(), CFeatTableEdit::xGenerate_mRNA_Product(), and CFeatureTableReader::xTranslateProtein().

◆ SetBiomol() [2/2] ◆ SetBool() [1/2] void CSeq_hist_Base::C_Deleted::SetBool ( TBool value ) inline ◆ SetBool() [2/2] ◆ SetComment() [1/7] ◆ SetComment() [2/7] ◆ SetComment() [3/7] ◆ SetComment() [4/7] ◆ SetComment() [5/7] ◆ SetComment() [6/7] ◆ SetComment() [7/7]

Select the variant.

Returns: Reference to the variant data.

Definition at line 1065 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Comment, eDoNotResetVariant, CSeqdesc_Base::m_string, and CSeqdesc_Base::Select().

Referenced by AddCommentToBioseq(), CEditingBtnsPanel::AnnotateDescriptorComment(), CConvertFeatToDescComment::apply(), CTable2AsnContext::ApplyComments(), CSourceModParser::ApplyMods(), CConvertComment::ApplyToCSeq_entry(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CCommentDescField::ClearVal(), CPhrap_Seq::CreateComplementedDescr(), CAlnVec::CreateConsensus(), CSequenceEditingEventHandler::CreateDescriptor(), CApplyIndexerComments::CreateNewComment(), CAddFluComments::CreateNewComment(), GetEmblDescr(), GetGenBankDescr(), CBioseqEditor::OnCreateDescriptor(), ParseSpComment(), CFindASN1Dlg::ReplaceInDesc(), CCommentDescField::SetVal(), CEditingActionDescCommentDescriptor::SetValue(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CPhrap_Read::x_CreateDesc(), CPhrapReader::x_CreateDesc(), CPrimeCacheApplication::x_Process_Fasta(), and XMLGetDescr().

◆ SetCompleteness() [1/2]

Assign a value to Completeness data member.

Parameters

Definition at line 600 of file MolInfo_.hpp.

References CMolInfo_Base::m_Completeness, CMolInfo_Base::m_set_State, and rapidjson::value.

Referenced by AdjustProteinMolInfoToMatchCDS(), CMolInfoEditDlg::ApplyToMolInfo(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), CkNonTerSP(), CCmdAddCDS::Execute(), fta_set_molinfo_completeness(), GetSprotDescr(), MakeProteinForGoodNucProtSet(), RetranslateCdregion(), SetCompleteness(), SetMolinfoCompleteness(), SetMolInfoCompleteness(), SetMolinfoFromGIBBMod(), CMolInfoField::SetVal(), CEditingActionMolInfoCompletedness::SetValue(), CCmdCreateCDS::x_AddMolinfoDescriptorToProtein(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), and CNewCleanup_imp::x_SetPartialsForProtein().

◆ SetCompleteness() [2/2] ◆ SetCont() [1/2] ◆ SetCont() [2/2] ◆ SetCreate_date() [1/4] ◆ SetCreate_date() [2/4] ◆ SetCreate_date() [3/4] ◆ SetCreate_date() [4/4]

Select the variant.

Returns: Reference to the variant data.

Definition at line 478 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Create_date, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

Referenced by CFastaReaderEx::AssembleSeq(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), CSourceModParserWrapper::ExtractTitleAndApplyAllMods(), GetEmblDescr(), GetSprotDescr(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CPhrap_Read::x_CreateDesc(), CAgpConverter::x_SetCreateAndUpdateDatesToToday(), and XMLGetDescr().

◆ SetData() [1/2]

Assign a value to Data data member.

Parameters: value Reference to value.

Definition at line 244 of file Seq_annot_.cpp.

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

Referenced by SSeqTableConverter::Add(), AddFeat(), AddFeatureToBioseq(), AddGoodSourceFeature(), Sequence::AddMMDBAnnotTag(), AlignmentCollection::addPendingAlignment(), CGBProjectHelper::AddProjectItemsFromRID(), CTableAnnotDataSource::AddSeqLoc(), CTableAnnotDataSource::AddSnpSeqLoc(), AddSpanningSentinelFeat(), subfuse::CSubmissionCollector::AdjustLocalIds(), CVariationNormalization::AlterToDelIns(), CForeignContaminationScreenReportReader::AnnotateOrRemove(), CUpdateAlign::apply(), CApplyObject::ApplyChange(), CAttachedHandles::Attach(), CAutogeneratedCleanup::BasicCleanupSeqAnnot(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildAlignmentWithInternalGap(), BuildGoodEcoSetWithAlign(), BuildGoodGraphAnnot(), BuildProtBioseqSet(), ChangeId(), ChangeProductId(), CheckGene(), CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CTableImportDataSource::ConvertToSeqAnnot(), CVariationUtilities::CorrectRefAllele(), CEntrezDB::CreateAnnot_Nuc_Prot(), CTableAnnotDataSource::CreateFeature(), AlignmentSet::CreateFromMultiple(), CPhrap_Seq::CreatePadsFeat(), CBlastFormatUtil::CreateSeqAnnotFromSeqAlignSet(), CTableAnnotDataSource::CreateSnpFeature(), CTableAnnotDataSource::CreateSnps(), CSourceFeatureItem::CSourceFeatureItem(), DemoteCDSToNucSeq(), CAddFeatChecker::Do(), CMAViewManager::DoTransition(), CWig2tableApplication::DumpChromValues(), CAnnotationASN1::CImplementationData::DumpEvidence(), CCdCore::EraseOtherRows(), EraseRow(), CCmdPromoteCDS::Execute(), CCreateCoverageTask::Execute(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqAnnot(), CGff3AnnotAssembler::FinalizeAnnot(), CTableAnnotDataSource::FindLocations(), fta_create_imgt_misc_feat(), CFileLoadAligner::GenerateAlignments(), CSnpTrack::GenerateAsn1(), CFeatureTrack::GenerateAsn1(), CGeneModelTrack::GenerateAsn1(), SSeqTableContent::GetAnnot(), CVDBGraphSeqIterator::GetAnnot(), GetBioseqWithFootprintForNthRow(), CLDS2_DataLoader::GetChunk(), CSNPDbSeqIterator::GetCoverageAnnot(), CCSraRefSeqIterator::GetCoverageAnnot(), CSNPDbSeqIterator::GetFeatAnnot(), GetMasterBioseqWithFootprintOld(), CSNPDbSeqIterator::GetOverviewAnnot(), GetPackedFeatAnnot(), GetProtRefAnnot(), CAlnReader::GetSeqEntry(), GetSPAnnot(), CSraRun::GetSpotEntry(), CAlignGroup::GroupByLikeTaxIds(), CAlignGroup::GroupBySeqIds(), CAlignGroup::GroupBySequenceType(), CAlignGroup::GroupByStrand(), CAlignGroup::GroupByTaxIds(), CFeatAnnotAssembler::InitializeAnnot(), CBamRefSeqInfo::LoadAlignChunk(), CFastaObjectLoader::LoadAlignsFromStream(), CCSRARefSeqInfo::LoadAnnotMainChunk(), LoadFeat(), CFastaObjectLoader::LoadFromStream(), CAsnObjectLoader::LoadFromStream(), CTextAlignObjectLoader::LoadFromStream(), CBamRefSeqInfo::LoadPileupChunk(), CCSRAFileInfo::LoadReadsBlob(), CSeqAnnotFromFasta::MakeAsIsSeqAnnot(), CMakeCdrProds::MakeCdrProds(), COrf::MakeCDSAnnot(), MakeEntryForDeltaConversion(), CBamIndex::MakeEstimatedCoverageAnnot(), CWig2tableApplication::MakeGraphAnnot(), CSeqAnnotFromFasta::MakeIBMSeqAnnot(), CBlobSplitterImpl::MakeSeq_annot(), CCSraRefSeqIterator::MakeSeq_annot(), CBam2Seq_graph::MakeSeq_annot(), CSeqAnnotFromFasta::MakeSeqAnnotFromFasta(), CWig2tableApplication::MakeTableAnnot(), CSeq_loc_Mapper_Base::Map(), CCdsToMatPeptide::MergeConvert(), CFeatTableEdit::MergeFeatures(), CFeatureTableReader::MoveRegionsToProteins(), C5ColAnnotAssembler::ProcessRecord(), CBedAnnotAssembler::ProcessRecord(), CAlignProjectItemExtension::ProjectItemAttached(), PromoteCDSToNucProtSet(), CGlimmerReader::Read(), CGFFReader::Read(), CHgvsReader::ReadSeqAnnot(), CUCSCRegionReader::ReadSeqAnnot(), CRepeatMaskerReader::ReadSeqAnnot(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), CDUpdater::reformatBioseq(), CTableAnnotDataSource::RemoveSeqLocs(), CDiscrepancyContext::ReplaceSeq_feat(), CAnnotationASN1::CImplementationData::ResetASN1(), CGffExportJob::Run(), CGtfExportJob::Run(), CDemoContigAssemblyApp::Run(), CTestCompartApplication::Run(), CLocalFinderApp::Run(), CDemoApp::Run(), s_AddSitesToAnnot(), s_Align2Annot(), CUpdateSeq_Input::s_Align2IdenticalSeq(), s_AlignSet2Annot(), s_DivvyUpAlignments_ProcessAnnot(), s_GetMappedFeat(), s_MakeNewMasterSeq(), s_UpdateFeatureIds(), UpdateViewer::SaveAlignments(), SetDenDiagSet(), SrchCdRegion(), CReadBlastApp::StoreBlast(), TestFeatInsideGap(), CMytestApplication::TestFeatureGeneOverlap(), TestOneGapSeq(), CCmdPromoteCDS::Unexecute(), CPhrap_Contig::x_AddBaseSegFeats(), SWGSCreateInfo::x_AddFeatures(), SWGSCreateInfo::x_AddFeaturesDirect(), CFastaReader::x_AddMultiwayAlignment(), CFastaReader::x_AddPairwiseAlignments(), CPromote::x_AddProtFeature(), CPhrap_Read::x_AddQualityFeat(), CPhrap_Contig::x_AddReadLocFeats(), CPhrap_Read::x_AddTagFeats(), CPhrap_Contig::x_AddTagFeats(), CSequenceUpdater::x_AttachFeaturesToNewSeq(), CFeatureGenerator::SImplementation::x_CopyAdditionalFeatures(), CPromote::x_CopyCdregionToRNA(), CPhrap_Contig::x_CreateAlignAll(), CPhrap_Contig::x_CreateAlignOptimized(), CPhrap_Contig::x_CreateAlignPairs(), CWGSSeqIterator::x_CreateFeaturesChunk(), CGFFReader::x_CreateGeneFeatures(), CFeatureTableReader_Imp::x_CreateGenesFromCDSs(), CPhrap_Contig::x_CreateGraph(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CProSplignJob::x_CreateOneProjectItem(), CGBankLoadingJob::x_CreateProjectItems(), CBLASTSeqToolJob::x_CreateProjectItems(), CGroupAlignmentsJob::x_CreateProjectItems(), CMSAToolJob::x_CreateProjectItems(), CNGAlignJob::x_CreateProjectItems(), CAdvancedCleanupJob::x_CreateProjectItems(), CCreateNeedlemanWunschJob::x_CreateProjectItems(), CFindOverlapJob::x_CreateProjectItems(), CSplignJob::x_CreateProjectItems(), CWindowMaskerJob::x_CreateProjectItems(), CCpgSearchJob::x_DoSearch(), CAppHitFilter::x_DumpOutput(), CSequenceUpdater::x_FuseProtFeatsForCDS(), CCreateGeneModelTask::x_GetCommand(), CAnnotGetter::x_GetCompleteSeqAnnot(), CCSraAlignIterator::x_GetMatchAnnot(), CBamAlignIterator::x_GetMatchEntry(), CWGSSeqIterator::x_GetQualityAnnot(), CCSraAlignIterator::x_GetQualityGraphAnnot(), CCSraShortReadIterator::x_GetQualityGraphAnnot(), CBamAlignIterator::x_GetSeq_annot(), CCSraRefSeqIterator::x_GetSeq_annot(), CCSraShortReadIterator::x_GetSeq_annot(), CSequenceUpdater::x_GetSeqAnnot_WithoutCDS(), CCreateGeneModelTask::x_Group_By_GeneID(), CIdMapperTestApp::x_HandleFeatures(), CAppHitFilter::x_LoadConstraints(), CMultiAlignView::x_MergeObjects(), CGFFReader::x_PlaceAlignment(), CGFFReader::x_PlaceFeature(), CMultiReader::x_PostProcessAnnots(), CGff2Reader::x_ProcessAlignmentsGff(), CXcompareAnnotsApplication::x_ProcessSeqAlignSetFromFile(), CPromote::x_PromoteFeatures(), CNewCleanup_imp::x_RemoveEmptyFeatures(), CVariationNormalization_base< T >::x_Shift(), CGff2Reader::x_UpdateAnnotAlignment(), CModifySeqId::x_UpdateSeqAnnot(), CGff2Reader::xAddFeatureToAnnot(), CGff3Reader::xAddFeatureToAnnot(), CGtfAnnotAssembler::xAnnotAddFeature(), CBedReader::xAppendFeatureBlock(), CBedReader::xAppendFeatureCds(), CBedReader::xAppendFeatureChrom(), CBedReader::xAppendFeatureGene(), CBedReader::xAppendFeatureRna(), CBedReader::xAppendFeatureThick(), CMicroArrayReader::xCreateSeqAnnot(), CVcfReader::xCreateSeqAnnot(), CWiggleReader::xDumpChromValues(), CGff2Reader::xGenerateParentChildXrefs(), CGvfReader::xMergeRecord(), CFeatureTableReader::xParseCdregions(), CUCSCRegionReader::xParseFeature(), CBedReader::xParseFeatureAutoSql(), CBedReader::xParseFeatureUserFormat(), CWiggleReader::xPostProcessAnnot(), CGff3Reader::xProcessAlignmentData(), CPslReader::xProcessData(), CVcfReader::xProcessDataLine(), CMicroArrayReader::xProcessFeature(), CGff3AnnotAssembler::xProcessFeatureCds(), CGff3AnnotAssembler::xProcessFeatureDefault(), CGff3AnnotAssembler::xProcessFeatureRna(), and CNewCleanup_imp::xUpdateSeqfeatCitPub().

◆ SetData() [2/2] ◆ SetDate() [1/4] void CSeq_hist_Base::C_Deleted::SetDate ( TDate & value ) ◆ SetDate() [2/4] ◆ SetDate() [3/4] ◆ SetDate() [4/4] ◆ SetDb() [1/2] ◆ SetDb() [2/2] ◆ SetDbxref() [1/2] ◆ SetDbxref() [2/2] ◆ SetDefaultAscending() void CNum_cont_Base::SetDefaultAscending ( void ) inline ◆ SetDefaultBiomol() void CMolInfo_Base::SetDefaultBiomol ( void ) inline ◆ SetDefaultCompleteness() void CMolInfo_Base::SetDefaultCompleteness ( void ) inline ◆ SetDefaultHas_zero() void CNum_cont_Base::SetDefaultHas_zero ( void ) inline ◆ SetDefaultRefnum() void CNum_cont_Base::SetDefaultRefnum ( void ) inline ◆ SetDefaultReftype() void CPubdesc_Base::SetDefaultReftype ( void ) inline ◆ SetDefaultTech() void CMolInfo_Base::SetDefaultTech ( void ) inline ◆ SetDefaultTopology() void CSeq_inst_Base::SetDefaultTopology ( void ) inline ◆ SetDeleted() [1/2] ◆ SetDeleted() [2/2] ◆ SetDelta() [1/2] ◆ SetDelta() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 186 of file Seq_ext_.cpp.

References CSeq_ext_Base::e_Delta, eDoNotResetVariant, CSeq_ext_Base::m_object, and CSeq_ext_Base::Select().

Referenced by AddLinkageEvidence(), CModifySeqId::GetCommand(), ResetLinkageEvidence(), SetLinkageType(), SetLinkageTypeLinkedRepeat(), SetLinkageTypeScaffold(), CAutogeneratedCleanup::x_BasicCleanupSeqExt(), and CContigItem::x_GatherInfo().

◆ SetDesc() [1/2]

Assign a value to Desc data member.

Parameters: value Reference to value.

Definition at line 223 of file Seq_annot_.cpp.

References CSeq_annot_Base::m_Desc, and rapidjson::value.

Referenced by CGBDocument::AddItems(), CAutogeneratedCleanup::BasicCleanupSeqAnnot(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), CTableImportDataSource::ConvertToSeqAnnot(), CTableAnnotDataSource::CreateSnps(), CAutogeneratedExtendedCleanup::ExtendedCleanupSeqAnnot(), CBedAnnotAssembler::FinalizeAnnot(), FormatAsAsn(), CVDBGraphSeqIterator::GetAnnot(), CFindRSites::GetAnnot(), CCSRARefSeqInfo::LoadAnnotMainChunk(), CBamRefSeqInfo::LoadPileupChunk(), CWig2tableApplication::MakeAnnot(), CCSraAlignIterator::MakeEmptyMatchAnnot(), CBlobSplitterImpl::MakeSeq_annot(), CCSraRefSeqIterator::MakeSeq_annot(), CBam2Seq_graph::MakeSeq_annot(), CMicroArrayReader::ReadSeqAnnot(), CUCSCRegionReader::ReadSeqAnnot(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), CAnnotationASN1::CImplementationData::ResetASN1(), CDemoContigAssemblyApp::Run(), CUpdateSeq_Input::s_Align2IdenticalSeq(), CReadBlastApp::StoreBlast(), sx_SetTitle(), sx_SetZoomLevel(), CBamUtils::UpdateCoverageGraphInfo(), CTrackData::WriteToAnnot(), CGBankLoadingJob::x_CreateProjectItems(), CCreateNeedlemanWunschJob::x_CreateProjectItems(), CTableAnnotDataSource::x_GetColumnMetaInfo(), CAnnotGetter::x_GetCompleteSeqAnnot(), CCSraAlignIterator::x_GetEmptyMatchAnnot(), CWGSSeqIterator::x_GetQualityAnnot(), CBamAlignIterator::x_GetSeq_annot(), CCSraRefSeqIterator::x_GetSeq_annot(), CCSraShortReadIterator::x_GetSeq_annot(), CGff2Reader::x_ProcessAlignmentsGff(), CReaderBase::xAddConversionInfo(), CBedReader::xAssignBedColumnCount(), CVcfReader::xAssignVcfMeta(), CBedReader::xCreateSeqAnnot(), CMicroArrayReader::xCreateSeqAnnot(), CReaderBase::xParseBrowserLine(), CGvfReader::xPostProcessAnnot(), and CGff3Reader::xProcessAlignmentData().

◆ SetDesc() [2/2] ◆ SetDescr() [1/2]

Assign a value to Descr data member.

Parameters: value Reference to value.

Definition at line 65 of file Bioseq_.cpp.

References CBioseq_Base::m_Descr, and rapidjson::value.

Referenced by AddCommentToBioseq(), CWGSAsnBinData::AddDescr(), AddGenbankKeyword(), AddGoodPub(), AddGoodSource(), AddLocalIdUserObjects(), CCleanup::AddMissingMolInfo(), CNewCleanup_imp::AddMolInfo(), CCleanup::AddProtein(), AddRefGeneTrackingUserObject(), AddSeqdescToBioseq(), AddSource(), TaxTreeData::addTaxToBioseq(), AddTitle(), AddTpaAssemblyUserObject(), CFeatGapInfo::AdjustProteinSeq(), CSourceModParser::ApplyAllMods(), CSourceModParser::ApplyMods(), BldProtRefSeqEntry(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildBigGoodNucProtSet(), BuildGoodNucProtSet(), BuildGoodProtSeq(), BuildGoodSeq(), BuildNucProtSet(), BuildSequence(), CkNonTerSP(), ClearFocus(), CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CopyOrg(), CBlobSplitterImpl::CopySkeleton(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CAlnVec::CreateConsensus(), CChangeSeqdescTitleCommand::Execute(), CAutogeneratedExtendedCleanup::ExtendedCleanupBioseq(), FakeEmblBioSources(), FakeGenBankBioSources(), fta_create_far_fetch_policy_user_object(), fta_get_user_object(), fta_remove_cleanup_user_object(), fta_set_molinfo_completeness(), CAutoAddDBLink::Get(), CSeqDBVol::GetBioseq(), GetDescrSPBlock(), GetEmblDescr(), GetGenBankDescr(), GetGoodSeqEntryWithFeatureIds(), CWGSDb_Impl::GetMasterSeq_entry(), CSeqEntrySource::GetNext(), CCSraRefSeqIterator::GetRefBioseq(), CCSraShortReadIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), CSraRun::GetSpotEntry(), GetSprotDescr(), GetSPSegLocInfo(), CCdFromFasta::ImportAlignmentData(), LoadFeat(), CMakeCdrProds::MakeCdrProds(), MakeProteinForGoodNucProtSet(), MakeProteinForNucProtSet(), PssmMaker::modifyQuery(), CReadBlastApp::NormalizeSeqentry(), CApplyMods::operator()(), CFastaReader::ParseDefLine(), CPubmedUpdater::PostProcessPubs(), CDUpdater::reformatBioseq(), CDUpdater::reformatBioseqByBlastDefline(), CNewCleanup_imp::RemoveBadProteinTitle(), CDUpdater::RemoveBlastDefline(), RemoveDbxref(), ResetOrgname(), CAgpconvertApplication::Run(), s_AddBiomol(), s_AddSeqTitleToPssm(), s_ApplyPubMods(), s_ArePrimersUnique(), s_FixBioseqDeltas(), s_ReplaceCtrlAsInTitle(), s_SetDBLinkDesc(), s_SetSeqdescUser(), SeqLocToBioseq(), CSeqUtils::SeqLocToBioseq(), SetBiomol(), SetChromosome(), SetCommon(), SetCompleteness(), SetDbxref(), CSeq_entry::SetDescr(), SetDiv(), SetFocus(), SetGcode(), SetGenome(), SetLineage(), SetMGcode(), SetOrgMod(), SetOrigin(), SetPGcode(), SetRefGeneTrackingStatus(), SetSubSource(), SetTaxname(), SetTaxon(), SetTech(), SetTitle(), SetTransgenic(), SimplifyBioseqForCD(), TestOneReplicon(), TestOneStrain(), TestOneStrainNew(), CChangeSeqdescTitleCommand::Unexecute(), CTable2AsnContext::UpdateTaxonFromTable(), SWGSCreateInfo::x_AddDescr(), CAlnReader::x_AddTitle(), CFastaReader::x_ApplyMods(), CNewCleanup_imp::x_CleanupGenbankBlock(), CPhrap_Read::x_CreateDesc(), CPhrap_Contig::x_CreateDesc(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CAgpconvertApplication::x_LoadTemplate(), CMacroFunction_SetStructCommDb::x_MakeNewStructuredComment(), CPrimeCacheApplication::x_Process_Fasta(), CShortReadFastaInputSource::x_ReadFastaOneSeq(), CGFFReader::x_ReadFastaSequences(), CShortReadFastaInputSource::x_ReadFastc(), CShortReadFastaInputSource::x_ReadFastqOneSeq(), CASN1InputSourceOMF::x_ReadFromSingleFile(), CASN1InputSourceOMF::x_ReadFromTwoFiles(), CSraInputSource::x_ReadPairs(), CNewCleanup_imp::x_RemovePopPhyBioSource(), CNewCleanup_imp::x_RemovePub(), CNewCleanup_imp::x_RescueMolInfo(), CAgpConverter::x_SetCreateAndUpdateDatesToToday(), CNewCleanup_imp::x_SetPartialsForProtein(), CSplitDataLoader::x_SplitSeq(), CFeatureTableReader::xConvertSeqIntoSeqSet(), seqsubmit_split::CSeqSubSplitter::xFlattenSeqEntry(), CFeatTableEdit::xGenerate_mRNA_Product(), XMLFakeBioSources(), XMLGetDescr(), and CFeatureTableReader::xTranslateProtein().

◆ SetDescr() [2/2] ◆ SetEmbl() [1/2] ◆ SetEmbl() [2/2] ◆ SetEnum() [1/2] ◆ SetEnum() [2/2] ◆ SetExt() [1/2]

Assign a value to Ext data member.

Parameters: value Reference to value.

Definition at line 147 of file Seq_inst_.cpp.

References CSeq_inst_Base::m_Ext, and rapidjson::value.

Referenced by AddLiteral(), AgpRead(), CExpandGaps::apply(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), CFastaReader::AssembleSeq(), CBlobSplitterImpl::AttachToSkeleton(), BOOST_AUTO_TEST_CASE(), CBioseq::CBioseq(), CGapsEditor::ConvertNs2Gaps(), CBlobSplitterImpl::CopySequence(), CRawSeqToDeltaByN::DeltaSeqToRaw(), CAddLinkageToGaps::GetCommand(), CCSraRefSeqIterator::GetRefBioseq(), CWGSScaffoldIterator::GetSeq_inst(), LoadSequencesToScope(), MakeMaskingBioseq(), NormalizeUnknownLengthGaps(), CAgpToSeqEntry::OnGapOrComponent(), CBioseq::PackAsDeltaSeq(), PatchTargetSequence(), CBam2GraphApp::ProcessFile(), ReverseComplement(), s_AddGap(), s_AddLiteral(), SeqLocToBioseq(), CCachedSequence::SplitSeqData(), TrimSeqData(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CSeqMap::x_DoUpdateSeq_inst(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupBioseq_inst(), CWGSSeqIterator::x_SetDelta(), CVectorTrimPanel::x_SetSeqData(), CSequenceAmbigTrimmer::x_SliceBioseq(), and CForeignContaminationScreenReportReader::xTrimExt().

◆ SetExt() [2/2] ◆ SetFig() [1/3] void CPubdesc_Base::SetFig ( const TFig & value ) inline ◆ SetFig() [2/3] ◆ SetFig() [3/3] ◆ SetFtable() ◆ SetFuzz() [1/4] ◆ SetFuzz() [2/4] ◆ SetFuzz() [3/4] ◆ SetFuzz() [4/4] ◆ SetGap() [1/2] ◆ SetGap() [2/2] ◆ SetGbmoltype() [1/3] ◆ SetGbmoltype() [2/3] ◆ SetGbmoltype() [3/3] ◆ SetGenbank() [1/2] ◆ SetGenbank() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 340 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Genbank, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

Referenced by AddGenbankKeyword(), CAddStructuredCommentKeyword::ApplyToCSeq_entry_genbank(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), CGenbankKeywordField::ClearVal(), CGBBlockField::ClearVal(), CSequenceEditingEventHandler::CreateDescriptor(), CEditHistory::GetCommand(), GetEmblDescr(), GetGenBankDescr(), CEditingActionDescKeyword::Modify(), CBarcodeTool::OnAddKeyword(), CBarcodeTool::OnRemoveKeyword(), CFindASN1Dlg::ReplaceInDesc(), CGBBlockField::SetVal(), CGenbankKeywordField::SetVal(), CEditingActionDescKeyword::SetValue(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CNewCleanup_imp::x_CleanupGenbankBlock(), CNewCleanup_imp::x_CopyGBBlockDivToOrgnameDiv(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqdesc(), CNewCleanup_imp::x_FixStructuredCommentKeywords(), and XMLGetDescr().

◆ SetGeneral() [1/2] ◆ SetGeneral() [2/2] ◆ SetGraph() ◆ SetHas_zero() [1/2] ◆ SetHas_zero() [2/2] ◆ SetHet() [1/2] void CSeqdesc_Base::SetHet ( const THet & value ) ◆ SetHet() [2/2] ◆ SetHist() [1/2] ◆ SetHist() [2/2] ◆ SetId() [1/2]

Assign a value to Id data member.

Returns: Reference to the data value.

Definition at line 296 of file Bioseq_.hpp.

References CBioseq_Base::m_Id, and CBioseq_Base::m_set_State.

Referenced by AddNIDSeqId(), CCleanup::AddProtein(), AddSentinelRNASeq(), SequenceTable::addSequence(), CBuildDatabase::AddSequences(), CFeatGapInfo::AdjustProteinSeq(), AgpRead(), CForeignContaminationScreenReportReader::AnnotateOrRemove(), CTable2AsnContext::ApplyAccession(), CDUpdater::blast(), BldProtRefSeqEntry(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildBigGoodNucProtSet(), BuildGoodNucProtSet(), BuildGoodSegSet(), BuildGoodSeq(), BuildGoodSpliceNucProtSet(), BuildNucProtSet(), BuildSegSetPart(), BuildSequence(), CBioseq::CBioseq(), ChangeGoodNucProtSetIdToGenbankName(), ChangeId(), ChangeNucId(), ChangeNucProtSetNucId(), ChangeNucProtSetProteinId(), ChangeProtId(), CheckLocalId(), CkCdRegion(), CBlobSplitterImpl::CopySkeleton(), CCreateProteinId::create_protein_ids(), CPhrap_Seq::CreateBioseq(), CBlastBioseqMaker::CreateBioseqFromId(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CAlnVec::CreateConsensus(), CreateEntryBioseq(), CreateTruncatedSequence(), CAddBioseqChecker::Do(), CCmdAddCDS::Execute(), CCmdCreateCDS::Execute(), sequpd::FixCollidingIDs_Bioseq(), fta_create_imgt_misc_feat(), fta_create_wgs_dbtag(), get_bioseq(), CSeqDBVol::GetBioseq(), GetBioseqWithFootprintForNthRow(), ConsensusMaker::getConsensusSeqEntry(), GetDescrSPBlock(), GetGoodSeqEntryWithFeatureIds(), GetMasterBioseqWithFootprintOld(), CWGSDb_Impl::GetMasterSeq_entry(), CCSraRefSeqIterator::GetRefBioseq(), GetReleaseInfo(), CCSraShortReadIterator::GetShortBioseq(), CBamAlignIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), CSraRun::GetSpotEntry(), IdFromEntry(), CwxDemoAlignTableFrame::LoadFile(), CwxDemoFeatureTableFrame::LoadFile(), CMultiReader::LoadTemplate(), CMakeCdrProds::MakeCdrProds(), CTable2AsnContext::MakeGenomeCenterId(), MakeMaskingBioseq(), MakeProteinForGoodNucProtSet(), MakeProteinForNucProtSet(), CBam2Seq_graph::MakeSeq_entry(), PssmMaker::modifyQuery(), ProcessForDbxref(), CGlimmerReader::Read(), CConversionApp::Read(), CReadBlastApp::ReadBlast(), CGff2Reader::ReadSeqEntry(), CDUpdater::reformatBioseqByBlastDefline(), CCachedSequence::RegisterIds(), ReplaceWellknownSeqs(), s_AddBioseqToBioseq(), s_AddGeneralAndLocal(), s_CreateBioseq(), s_FixBioseqDeltas(), CClippedScorer::ScoreAlignments(), SeqLocToBioseq(), CSeqUtils::SeqLocToBioseq(), SetEmptyId(), CFastaReader::SetIDs(), CCDSTranslationPanel::SetProtein(), CTable2AsnContext::SetSeqId(), Split_Qscore_SeqGraph_By_DeltaSeq(), CReadBlastApp::StoreBlast(), TestFeatInsideGap(), TestNewAccessionOnNuc(), TestNewAccessionOnStandaloneProt(), TestOneGeneralSeqId(), TestOneLongGeneral(), TestOneOtherAcc(), TranslateCDSCommand(), CIdMapperGCAssembly::x_AddAliasMappings(), CGC_Assembly_Parser::x_AddBioseq(), CSeq_loc_Mapper::x_AddVirtualBioseq(), CSequenceUpdater::x_AdjustProteinFeature(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CImportFeatTable::x_DoImportCDS(), CSequenceUpdater::x_FixIDInNewEntry(), CEditObjectSeq_feat::x_HandleCdsProduct(), CAgpConverter::x_InitializeCopyOfTemplate(), CAgpconvertApplication::x_LoadTemplate(), CPromote::x_MakeNewBioseq(), CSequenceUpdater::x_PrepareNewEntry(), CPrimeCacheApplication::x_Process_Fasta(), CShortReadFastaInputSource::x_ReadFastaOneSeq(), CGFFReader::x_ReadFastaSequences(), CShortReadFastaInputSource::x_ReadFastc(), CShortReadFastaInputSource::x_ReadFastqOneSeq(), CSraInputSource::x_ReadOneSeq(), CGFFReader::x_ResolveNewID(), CCDSTranslationPanel::x_SetProtein(), CUnorderedSplitter::x_SplitDeltaExt(), CUnorderedSplitter::x_SplitSeqData(), CModifySeqId::x_UpdateBioseq(), CRemoveSeqId::x_UpdateBioseq(), CSequenceUpdater::x_UpdateProteinID(), CFeatureTableReader::xAddProteinToSeqEntry(), CFeatTableEdit::xGenerate_mRNA_Product(), CEmbl2Asn::xGetEntry(), CGenbank2Asn::xGetEntry(), and CFeatureTableReader::xTranslateProtein().

◆ SetId() [2/2] ◆ SetIds() [1/3] ◆ SetIds() [2/3] ◆ SetIds() [3/3] ◆ SetInst() [1/2]

Assign a value to Inst data member.

Parameters: value Reference to value.

Definition at line 86 of file Bioseq_.cpp.

References CBioseq_Base::m_Inst, and rapidjson::value.

Referenced by CGapsEditor::AddBioseqAsLiteral(), AddGoodImpFeat(), AddNsToGoodDelta(), AddSentinelRNASeq(), AddToDeltaSeq(), CFeatGapInfo::AdjustProteinSeq(), AdjustProtFeatForNucProtSet(), AdjustSingleFeature(), AgpRead(), CForeignContaminationScreenReportReader::AnnotateOrRemove(), CGapsEditor::AppendGap(), CModAdder::Apply(), CTrimN::apply(), CSourceModParser::ApplyAllMods(), CSourceModParser::ApplyMods(), CFastaReader::AssembleSeq(), AssemblyGapsToDelta(), CFastaReader::AssignMolType(), CFastaReaderEx::AssignMolType(), BldProtRefSeqEntry(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildBigGoodNucProtSet(), BuildGapFuzz100DeltaSeq(), BuildGenProdSetWithBigProduct(), BuildGoodDeltaSeq(), BuildGoodGenProdSet(), BuildGoodNucProtSet(), BuildGoodProtSeq(), BuildGoodSegSet(), BuildGoodSeq(), BuildGoodSpliceNucProtSet(), BuildNucProtSet(), BuildSegSetPart(), BuildSequence(), CCachedSequence::CCachedSequence(), CSeqTranslator::ChangeDeltaProteinToRawProtein(), CSequenceEditingEventHandler::ChangeToGenomicDna(), CheckTranslatedBioseq(), CkInitMetSP(), CMolInfoField::ClearVal(), CGapsEditor::ConvertBioseqToDelta(), CFeatureGenerator::SImplementation::ConvertMixedAlignToAnnot(), CGapsEditor::ConvertNs2Gaps(), CBlobSplitterImpl::CopySkeleton(), CPhrap_Seq::CreateBioseq(), CBlastBioseqMaker::CreateBioseqFromId(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CAlnVec::CreateConsensus(), CPhrap_Contig::CreateContig(), CGapsEditor::CreateGap(), CPhrap_Read::CreateRead(), CreateTruncatedSequence(), DeltaBioseqPack(), CRawSeqToDeltaByN::DeltaSeqToRaw(), CCmdCreateCDS::Execute(), CAutogeneratedExtendedCleanup::ExtendedCleanupBioseq(), fta_add_hist(), fta_parse_tpa_tsa_block(), GapsToDelta(), get_bioseq(), CSeqDBVol::GetBioseq(), CModifySeqId::GetCommand(), ConsensusMaker::getConsensusSeqEntry(), GetEmblInstContig(), GetFlatBiomol(), GetGenBankInst(), GetGenBankInstContig(), GetGoodSeqEntryWithFeatureIds(), CWGSDb_Impl::GetMasterSeq_entry(), CCSraRefSeqIterator::GetRefBioseq(), GetRetranslateCDSCommand(), GetRnaRef(), GetSeqData(), CCSraShortReadIterator::GetShortBioseq(), CBamAlignIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), GetSPInst(), CSraRun::GetSpotEntry(), GetSprotDescr(), PssmMaker::getTrunctMaster(), InsertStop(), LoadSequencesToScope(), CMultiReader::LoadTemplate(), CMakeCdrProds::MakeCdrProds(), MakeEntryForDeltaConversion(), MakeMaskingBioseq(), MakeNucProtSet3Partial(), MakeProteinForGoodNucProtSet(), MakeProteinForNucProtSet(), CBam2Seq_graph::MakeSeq_entry(), MakeSeqLong(), OneTerminalTranslationExceptionTest(), CFastaReader::ParseDefLine(), CFastaReader::PostProcessIDs(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), RawBioseqPack(), CGlimmerReader::Read(), CConversionApp::Read(), CGff2Reader::ReadSeqEntry(), RemoveDeltaSeqGaps(), RetranslateCdsForNucProtSet(), RevComp(), s_AddSeqDataToPssm(), CUpdateSeq_Input::s_ConvertDeltaToRawBioseq(), s_CreateBioseq(), s_FixBioseqDeltas(), s_GetEmblInst(), s_ReplaceAllMolinfo(), CClippedScorer::ScoreAlignments(), SeqLocToBioseq(), CSeqUtils::SeqLocToBioseq(), SeqToDelta(), SeqToDeltaSP(), CMolInfoPanel::SetBioseqValues(), CCDSTranslationPanel::SetProtein(), SetSequenceEnd(), SetSequenceStart(), SetSpliceForMixLoc(), SetUpDelta(), CMolInfoField::SetVal(), SPAppendPIRToHist(), CCachedSequence::SplitSeqData(), sRefineNaMol(), TestCircularTopology(), TestFeatInsideGap(), TestOneGapSeq(), TestStartGapSeg(), CMacroFunction_TrimTerminalNs::TheFunction(), CdBlaster::truncateBioseq(), CIdMapperGCAssembly::x_AddAliasMappings(), CGC_Assembly_Parser::x_AddBioseq(), CCachedSequence::x_AddFullSeq_data(), CSeq_loc_Mapper::x_AddVirtualBioseq(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CImportFeatTable::x_DoImportCDS(), CAdjustFeaturesForGaps::x_DoOne(), CFeatureGenerator::SImplementation::x_HandleCdsExceptions(), CAgpConverter::x_InitializeAndCheckCopyOfTemplate(), CAgpConverter::x_InitializeCopyOfTemplate(), CAgpconvertApplication::x_LoadTemplate(), CSequenceUpdater::x_PrepareNewEntry(), CPrimeCacheApplication::x_Process_Fasta(), CShortReadFastaInputSource::x_ReadFastaOneSeq(), CGFFReader::x_ReadFastaSequences(), CShortReadFastaInputSource::x_ReadFastc(), CShortReadFastaInputSource::x_ReadFastqOneSeq(), CSraInputSource::x_ReadOneSeq(), CGFFReader::x_ResolveNewID(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CBioseqContext::x_SetMapper(), CUnorderedSplitter::x_SplitDeltaExt(), CUnorderedSplitter::x_SplitSeqData(), CSplitDataLoader::x_SplitSeqData(), CFeatureTableReader::xConvertSeqIntoSeqSet(), XMLGetInst(), and XMLGetInstContig().

◆ SetInst() [2/2] ◆ SetIupacaa() [1/2] ◆ SetIupacaa() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 537 of file Seq_data_.hpp.

References CSeq_data_Base::e_Iupacaa, eDoNotResetVariant, CSeq_data_Base::m_Iupacaa, and CSeq_data_Base::Select().

Referenced by CSeqportUtil_implementation::AppendIupacaa(), CSeq_inst::ConvertDeltaToRaw(), CAlnVec::CreateConsensus(), CSeq_data::DoConstruct(), CSeqportUtil_implementation::GetIupacaaCopy(), CSeqportUtil_implementation::KeepIupacaa(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), and s_GetRnaRefLabel().

◆ SetIupacna() [1/2] ◆ SetIupacna() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 517 of file Seq_data_.hpp.

References CSeq_data_Base::e_Iupacna, eDoNotResetVariant, CSeq_data_Base::m_Iupacna, and CSeq_data_Base::Select().

Referenced by CSeqportUtil_implementation::AppendIupacna(), CSeqportUtil_implementation::ComplementIupacna(), CSeq_inst::ConvertDeltaToRaw(), CAlnVec::CreateConsensus(), CSeq_data::DoConstruct(), CSeqportUtil_implementation::GetAmbigs_iupacna_ncbi2na(), CSeqportUtil_implementation::GetIupacnaCopy(), CSeqportUtil_implementation::KeepIupacna(), CSeqportUtil_implementation::ReverseIupacna(), CTestSingleAln_All::RunTest(), s_CountAmbiguities(), UpdateSeqLength(), and CVectorTrimPanel::x_SetSeqData().

◆ SetLength() [1/4]

Assign a value to Length data member.

Parameters

Definition at line 668 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_Length, CSeq_inst_Base::m_set_State, and rapidjson::value.

Referenced by AgpRead(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), CFastaReader::AssembleSeq(), CBlobSplitterImpl::CopySequence(), CPhrap_Seq::CreateBioseq(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CAlnVec::CreateConsensus(), CSeqDBVol::GetBioseq(), CAdjustForConsensusSpliceSite::GetCommandToAdjustCDSEnds(), ConsensusMaker::getConsensusSeqEntry(), CCSraRefSeqIterator::GetRefBioseq(), CWGSScaffoldIterator::GetSeq_inst(), CWGSProteinIterator::GetSeq_inst(), CCSraShortReadIterator::GetShortBioseq(), CBamAlignIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), CSraRun::GetSpotEntry(), PssmMaker::getTrunctMaster(), CMakeCdrProds::MakeCdrProds(), MakeEntryForDeltaConversion(), MakeMaskingBioseq(), CBam2Seq_graph::MakeSeq_entry(), NormalizeUnknownLengthGaps(), CAgpToSeqEntry::OnGapOrComponent(), PatchTargetSequence(), CGlimmerReader::Read(), s_FixBioseqDeltas(), CSequenceUpdater::s_UpdateSeqInst(), SeqLocToBioseq(), SetNewProteinSequence(), TrimSeqData(), TrimStopsFromCompleteCDS(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CSeqMap::x_DoUpdateSeq_inst(), CWGSSeqIterator::x_GetSeq_inst(), CUpdateSeq_Input::x_ReadAccession(), CSequenceUpdater::x_ReplaceSequence(), CVectorTrimPanel::x_RetranslateCDS(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CVectorTrimPanel::x_SetSeqData(), CSequenceAmbigTrimmer::x_SliceBioseq(), CSequenceAmbigTrimmer::x_TrimToNothing(), CForeignContaminationScreenReportReader::xTrimData(), and CForeignContaminationScreenReportReader::xTrimExt().

◆ SetLength() [2/4]

Assign a value to Length data member.

Parameters

Definition at line 270 of file Seq_literal_.hpp.

References CSeq_literal_Base::m_Length, CSeq_literal_Base::m_set_State, and rapidjson::value.

Referenced by CDelta_ext::AddAndSplit(), AddLiteral(), CGapsEditor::AppendGap(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), BOOST_AUTO_TEST_CASE(), CBlobSplitterImpl::CopySequence(), CreateSeqDataChunk(), CRemoteBlastDbDataLoader::GetChunks(), CDelta_ext_PackTarget::NewSegment(), variation_ref::CVariationUtil::s_CatLiterals(), variation::CVariationUtil::s_CatLiterals(), variation::CVariationUtil::s_SpliceLiterals(), s_SubtractTail(), CDelta_item::SetInsertion(), CHgvsNaIrepReader::x_CreateSSRVarref(), CSeqMap::x_DoUpdateSeq_inst(), variation_ref::CHgvsParser::x_expr2(), CWGSSeqIterator::x_GetSegmentsWithExplicitGaps(), CWGSSeqIterator::x_GetSegmentsWithRecoveredGaps(), CVcfReader::xAssignVariantDelins(), CVcfReader::xAssignVariantIns(), and CForeignContaminationScreenReportReader::xTrimLiteral().

◆ SetLength() [3/4] ◆ SetLength() [4/4] ◆ SetLinkage() [1/2] ◆ SetLinkage() [2/2] ◆ SetLinkage_evidence() ◆ SetLiteral() [1/2] ◆ SetLiteral() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 130 of file Delta_seq_.cpp.

References CDelta_seq_Base::e_Literal, eDoNotResetVariant, CDelta_seq_Base::m_object, and CDelta_seq_Base::Select().

Referenced by AddLiteral(), CConvertSelectedGaps::apply_impl(), CEditSelectedGaps::apply_impl(), CCombineAdjacentGaps::apply_impl(), CBlobSplitterImpl::AttachToSkeleton(), CAddLinkageToGaps::GetCommand(), CSeqMap::x_DoUpdateSeq_inst(), CGapsEditor::x_SetGapParameters(), and CForeignContaminationScreenReportReader::xTrimExt().

◆ SetLoc() [1/2] ◆ SetLoc() [2/2] ◆ SetLocal() [1/2] ◆ SetLocal() [2/2] ◆ SetLocs() ◆ SetMap() [1/2] ◆ SetMap() [2/2] ◆ SetMaploc() [1/5] ◆ SetMaploc() [2/5] ◆ SetMaploc() [3/5] ◆ SetMaploc() [4/5] ◆ SetMaploc() [5/5] ◆ SetMethod() [1/2] ◆ SetMethod() [2/2] ◆ SetModelev() [1/2] ◆ SetModelev() [2/2] ◆ SetModif() ◆ SetMol() [1/2]

Assign a value to Mol data member.

Parameters

Definition at line 621 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_Mol, CSeq_inst_Base::m_set_State, and rapidjson::value.

Referenced by AgpRead(), CMolInfoEditDlg::ApplyToInst(), CFastaReaderEx::AssignMolType(), CBioseq::CBioseq(), CBlobSplitterImpl::CopySequence(), CPhrap_Seq::CreateBioseq(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CAlnVec::CreateConsensus(), CSeqDBVol::GetBioseq(), ConsensusMaker::getConsensusSeqEntry(), CWGSDb_Impl::GetMasterSeq_entry(), CCSraRefSeqIterator::GetRefBioseq(), CWGSScaffoldIterator::GetSeq_inst(), CWGSProteinIterator::GetSeq_inst(), CCSraShortReadIterator::GetShortBioseq(), CBamAlignIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), CSraRun::GetSpotEntry(), LoadSequencesToScope(), CMakeCdrProds::MakeCdrProds(), MakeMaskingBioseq(), CBam2Seq_graph::MakeSeq_entry(), CAgpToSeqEntry::OnGapOrComponent(), CBam2GraphApp::ProcessFile(), CGlimmerReader::Read(), CEditingBtnsPanel::rRNAtoDNA(), s_FixBioseqDeltas(), s_SeqDBWriteSeqDataNucl(), s_SeqDBWriteSeqDataProt(), SeqLocToBioseq(), CMolInfoField::SetVal(), CEditingActionMolInfoClass::SetValue(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CWGSSeqIterator::x_GetSeq_inst(), CModAdder::x_SetMolecule(), and CModAdder::x_SetMoleculeFromMolType().

◆ SetMol() [2/2] ◆ SetMol_type() [1/2] ◆ SetMol_type() [2/2] ◆ SetMolinfo() [1/2] ◆ SetMolinfo() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 594 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Molinfo, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

Referenced by CCleanup::AddMissingMolInfo(), CNewCleanup_imp::AddMolInfo(), CCleanup::AddProtein(), AdjustForCDSPartials(), CTruncateCDS::AdjustMolinfo(), CMolInfoEditDlg::ApplyToMolInfo(), CFastaReaderEx::AssembleSeq(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildBigGoodNucProtSet(), BuildGoodNucProtSet(), BuildGoodSeq(), BuildNucProtSet(), BuildSequence(), CSequenceEditingEventHandler::ChangeToGenomicDna(), CMolInfoField::ClearVal(), CSequenceEditingEventHandler::CreateDescriptor(), CMolInfoEditDlg::CreateNewMolInfo(), CEditObjectSeq_desc::CreateWindow(), CCmdAddCDS::Execute(), fta_set_molinfo_completeness(), CMolInfoField::GetApplyObjects(), GetEmblDescr(), GetGenBankDescr(), GetGoodSeqEntryWithFeatureIds(), GetProtRefDescr(), GetSprotDescr(), GetSynchronizeProductMolInfoCommand(), LaunchMolInfoEditor(), MakeProteinForGoodNucProtSet(), MakeProteinForNucProtSet(), CBioseqEditor::OnCreateDescriptor(), CEditingActionMolInfoMolecule::ResetValue(), CEditingActionMolInfoTechnique::ResetValue(), CEditingActionMolInfoCompletedness::ResetValue(), RetranslateCdregion(), CEditingBtnsPanel::rRNAtoDNA(), CPrimeCacheApplication::Run(), CMacroBioData_MolInfoIter::RunEditCommand(), SetBiomol(), SetCompleteness(), CCleanup::SetMolinfoBiomol(), CCleanup::SetMolinfoTech(), SetTech(), CMolInfoField::SetVal(), CEditingActionMolInfoMolecule::SetValue(), CEditingActionMolInfoTechnique::SetValue(), CEditingActionMolInfoCompletedness::SetValue(), CCmdCreateCDS::x_AddMolinfoDescriptorToProtein(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CFeatureGenerator::SImplementation::x_CreateMrnaBioseq(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CPromote::x_MakeMolinfoDesc(), CPromote::x_PromoteCdregion(), CNewCleanup_imp::x_RescueMolInfo(), CNewCleanup_imp::x_SetPartialsForProtein(), CFeatureTableReader::xConvertSeqIntoSeqSet(), CFeatTableEdit::xGenerate_mRNA_Product(), XMLGetDescr(), and CFeatureTableReader::xTranslateProtein().

◆ SetName() [1/13] void CAnnotdesc_Base::SetName ( const TName & value ) ◆ SetName() [2/13] void CPubdesc_Base::SetName ( const TName & value ) inline ◆ SetName() [3/13] void CSeq_annot_Base::SetName ( const TName & value ) inline ◆ SetName() [4/13] void CSeqdesc_Base::SetName ( const TName & value ) ◆ SetName() [5/13] void CTextannot_id_Base::SetName ( const TName & value ) inline ◆ SetName() [6/13] ◆ SetName() [7/13] ◆ SetName() [8/13] ◆ SetName() [9/13]

Select the variant.

Returns: Reference to the variant data.

Definition at line 508 of file Annotdesc_.hpp.

References CAnnotdesc_Base::e_Name, eDoNotResetVariant, CAnnotdesc_Base::m_string, and CAnnotdesc_Base::Select().

Referenced by CTableAnnotDataSource::CreateSnps(), CVDBGraphSeqIterator::GetAnnot(), CCSRARefSeqInfo::LoadAnnotMainChunk(), CBamRefSeqInfo::LoadPileupChunk(), CWig2tableApplication::MakeAnnot(), CCSraRefSeqIterator::MakeSeq_annot(), CFeatureTableReader_Imp::ReadSequinFeatureTable(), CUpdateSeq_Input::s_Align2IdenticalSeq(), CSeq_annot::SetNameDesc(), CReadBlastApp::StoreBlast(), sx_SetTitle(), CGBankLoadingJob::x_CreateProjectItems(), CWGSSeqIterator::x_GetQualityAnnot(), CBamAlignIterator::x_GetSeq_annot(), CCSraRefSeqIterator::x_GetSeq_annot(), and CCSraShortReadIterator::x_GetSeq_annot().

◆ SetName() [10/13] ◆ SetName() [11/13] ◆ SetName() [12/13] ◆ SetName() [13/13] ◆ SetNames() ◆ SetNcbi() [1/2] ◆ SetNcbi() [2/2] ◆ SetNcbi2na()

Select the variant.

Returns: Reference to the variant data.

Definition at line 557 of file Seq_data_.hpp.

References CSeq_data_Base::e_Ncbi2na, eDoNotResetVariant, CSeq_data_Base::m_Ncbi2na, and CSeq_data_Base::Select().

Referenced by CSeqportUtil_implementation::AppendNcbi2na(), CSeqportUtil_implementation::ComplementNcbi2na(), CSeq_data::DoConstruct(), CWGSDb_Impl::SAmbiguityInfo::Get2na(), CSeqportUtil_implementation::GetNcbi2naCopy(), CSeqportUtil_implementation::KeepNcbi2na(), CSeqportUtil_implementation::MapIupacnaToNcbi2na(), CSeqportUtil_implementation::MapNcbi4naToNcbi2na(), CSeqportUtil_implementation::Pack(), and CSeqportUtil_implementation::ReverseNcbi2na().

◆ SetNcbi4na()

Select the variant.

Returns: Reference to the variant data.

Definition at line 577 of file Seq_data_.hpp.

References CSeq_data_Base::e_Ncbi4na, eDoNotResetVariant, CSeq_data_Base::m_Ncbi4na, and CSeq_data_Base::Select().

Referenced by CSeqportUtil_implementation::AppendNcbi4na(), CSeqportUtil_implementation::ComplementNcbi4na(), CSeq_data::DoConstruct(), CWGSDb_Impl::SAmbiguityInfo::Get4na(), CSeqportUtil_implementation::GetAmbigs_ncbi4na_ncbi2na(), CSeqportUtil_implementation::GetNcbi4naCopy(), CSeqDBVol::GetSeqData(), CSeqportUtil_implementation::KeepNcbi4na(), CSeqportUtil_implementation::Pack(), CSeqportUtil_implementation::ReverseNcbi4na(), and s_AssignBufferToSeqData().

◆ SetNcbi8aa() ◆ SetNcbi8na() ◆ SetNcbieaa() [1/2] ◆ SetNcbieaa() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 657 of file Seq_data_.hpp.

References CSeq_data_Base::e_Ncbieaa, eDoNotResetVariant, CSeq_data_Base::m_Ncbieaa, and CSeq_data_Base::Select().

Referenced by CSeqportUtil_implementation::AppendNcbieaa(), CSeq_inst::ConvertDeltaToRaw(), CSeq_data::DoConstruct(), ConsensusMaker::getConsensusSeqEntry(), CSeqportUtil_implementation::GetNcbieaaCopy(), CSeqportUtil_implementation::KeepNcbieaa(), PackSeqData(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), s_GetRnaRefLabel(), and CHgvsProtIrepReader::x_CreateProteinSubstVarref().

◆ SetNcbipaa() ◆ SetNcbipna() ◆ SetNcbistdaa()

Select the variant.

Returns: Reference to the variant data.

Definition at line 697 of file Seq_data_.hpp.

References CSeq_data_Base::e_Ncbistdaa, eDoNotResetVariant, CSeq_data_Base::m_Ncbistdaa, and CSeq_data_Base::Select().

Referenced by CSeqportUtil_implementation::AppendNcbistdaa(), CSeq_data::DoConstruct(), CSeqportUtil_implementation::GetNcbistdaaCopy(), CSeqDBVol::GetSeqData(), CLocalBlastDbAdapter::GetSequence(), CSeqportUtil_implementation::KeepNcbistdaa(), CSeqAnnotFromFasta::PurgeNonAlphaFromSequence(), and s_CreateBioseq().

◆ SetNum() [1/6] ◆ SetNum() [2/6] ◆ SetNum() [3/6] ◆ SetNum() [4/6] ◆ SetNum() [5/6] ◆ SetNum() [6/6] ◆ SetNumexc() [1/2] ◆ SetNumexc() [2/2] ◆ SetOrg() [1/2] ◆ SetOrg() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 246 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Org, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

Referenced by BOOST_AUTO_TEST_CASE(), CopyOrg(), CFindASN1Dlg::ReplaceInDesc(), CTaxonomyUpdater::UpdateOrgFromTaxon(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CNewCleanup_imp::x_CopyGBBlockDivToOrgnameDiv(), and CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqdesc().

◆ SetOther() [1/2] ◆ SetOther() [2/2] ◆ SetPdb() [1/2] ◆ SetPdb() [2/2] ◆ SetPir() [1/2] ◆ SetPir() [2/2] ◆ SetPoly_a() [1/2] ◆ SetPoly_a() [2/2] ◆ SetPrf() [1/2] ◆ SetPrf() [2/2] ◆ SetPub() [1/6] ◆ SetPub() [2/6]

Assign a value to Pub data member.

Parameters: value Reference to value.

Definition at line 72 of file Pubdesc_.cpp.

References CPubdesc_Base::m_Pub, and rapidjson::value.

Referenced by AddGoodPub(), CGlobalPubmedIdLookup::apply(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), BuildGoodPubSeqdesc(), CCleanupPub::CleanPubdesc(), CTable2AsnContext::CreateSeqEntryFromTemplate(), IEditingActionDesc::Find(), IEditingActionDesc::FindRelated(), CReplaceEntirePubPanel::GetCommand(), CAuthorReplacePanel::GetCommand(), handler_eErr_GENERIC_MissingPubRequirement(), CMultiReader::LoadTemplate(), CEditingActionDescPubTitle::Modify(), CEditingActionDescPubPmid::Modify(), IEditingActionDescAffil::Modify(), IEditingActionDescAuthors::Modify(), IEditingActionDescJournal::Modify(), CEditingActionDescAuthorNameList::Modify(), CDesktopViewContext::OnPasteSelection(), CAuthorNamesPanel::OnReplaceAllAuthors(), CAuthorNamesPanel::OnReplaceSameAuthors(), CPubmedUpdater::PostProcessPubs(), CNewCleanup_imp::PubdescBC(), CFindASN1Dlg::ReplaceInPubdesc(), CCleanup::RescueSiteRefPubs(), CTestRemoteUpdaterApplication::Run(), s_ApplyPubMods(), s_EmptyAfterRemovingPMID(), s_GetPubVolIssuePagesDateObjects(), CMacroFunction_SetPubStatus::s_SetStatus(), SeqEntryFromSeqSubmit(), SetAuthList(), SetAuthorNames(), CPubField::SetPubTitle(), CEditingActionDescPubPmid::SetValue(), CCitSubUpdater::sx_GetCitSubForSequence(), CMacroFunction_ApplyPublication::TheFunction(), CMacroFunction_AuthorFix::TheFunction(), CMacroFunction_ISOJTALookup::TheFunction(), CMacroFunction_LookupPub::TheFunction(), CMacroFunction_SetPubAffil::TheFunction(), CMacroFunction_SetPubAuthor::TheFunction(), CMacroFunction_AddAuthorList::TheFunction(), CRemarksAndSerialNumberPanel::TransferDataFromWindow(), CMacroFunction_AddPubAuthor::x_AddAuthorInPubdesc(), CMacroFunction_AddAuthorList::x_AddAuthorListInPubdesc(), IAuthorEditor::x_ApplyToPubdesc(), CRemoveUnpublishedPubs::x_ApplyToPubdesc(), CRemoveInPressPubs::x_ApplyToPubdesc(), CRemovePublishedPubs::x_ApplyToPubdesc(), CRemoveAllPubs::x_ApplyToPubdesc(), CAutogeneratedCleanup::x_BasicCleanupSeqfeatPub(), CRelaxedLookupDlg::x_GetPubIdsEutils(), CSubmissionWizard::x_InitializeDescriptorList(), CAgpconvertApplication::x_LoadTemplate(), CMacroFunction_SetPubJournal::x_RemoveJournalInPubdesc(), CMacroFunction_SetPubAuthor::x_SetAuthorInPubdesc(), CMacroFunction_SetPubJournal::x_SetJournalInPubdesc(), and CMacroFunction_SetPubTitle::x_SetTitleInPubdesc().

◆ SetPub() [3/6] ◆ SetPub() [4/6] ◆ SetPub() [5/6] ◆ SetPub() [6/6]

Select the variant.

Returns: Reference to the variant data.

Definition at line 362 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Pub, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

Referenced by AddGoodPub(), CConvertFeatToDescPub::apply(), CGlobalPubmedIdLookup::apply(), CReverseAuthorNames::ApplyToPubdesc(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), BuildGoodPubSeqdesc(), CPubField::ClearVal(), CCleanup::ConvertPubFeatsToPubDescs(), CSequenceEditingEventHandler::CreateDescriptor(), CTable2AsnContext::CreateSeqEntryFromTemplate(), CEditObjectSeq_desc::CreateWindow(), IEditingActionDesc::Find(), IEditingActionDesc::FindRelated(), CReplaceSectionPanel::GetCommand(), CReplaceEntirePubPanel::GetCommand(), CAuthorReplacePanel::GetCommand(), GetEmblDescr(), GetGenBankDescr(), GetSprotDescr(), handler_eErr_GENERIC_MissingPubRequirement(), handler_eErr_SEQ_DESCR_NoPubFound(), CMultiReader::LoadDescriptors(), CMultiReader::LoadTemplate(), CEditingActionDescPubTitle::Modify(), CEditingActionDescPubPmid::Modify(), IEditingActionDescAffil::Modify(), IEditingActionDescAuthors::Modify(), IEditingActionDescJournal::Modify(), CEditingActionDescAuthorNameList::Modify(), CBioseqEditor::OnCreateDescriptor(), CDesktopViewContext::OnPasteSelection(), CAuthorNamesPanel::OnReplaceAllAuthors(), CAuthorNamesPanel::OnReplaceSameAuthors(), CFindASN1Dlg::ReplaceInDesc(), CCleanup::RescueSiteRefPubs(), CTestRemoteUpdaterApplication::Run(), CMacroBioData_PubdescIter::RunEditCommand(), s_ApplyPubMods(), s_EmptyAfterRemovingPMID(), s_MakeNewPubdesc(), SeqEntryFromSeqSubmit(), CEditingActionDescPubPmid::SetValue(), CCitSubUpdater::sx_GetCitSubForSequence(), CMacroFunction_ApplyPublication::TheFunction(), CMacroFunction_LookupPub::TheFunction(), IPubDescEditor::x_ApplyToDescriptors(), IRemovePubs::x_ApplyToDescriptors(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqdesc(), CFlatGatherer::x_GatherReferences(), CRelaxedLookupDlg::x_GetPubIdsEutils(), CSubmissionWizard::x_InitializeDescriptorList(), CAgpconvertApplication::x_LoadTemplate(), and XMLGetDescr().

◆ SetReal() [1/2] ◆ SetReal() [2/2] ◆ SetRef() [1/4] ◆ SetRef() [2/4] ◆ SetRef() [3/4] ◆ SetRef() [4/4] ◆ SetRefnum() [1/2] ◆ SetRefnum() [2/2] ◆ SetReftype() [1/2] ◆ SetReftype() [2/2] ◆ SetRegion() [1/4] ◆ SetRegion() [2/4] ◆ SetRegion() [3/4] ◆ SetRegion() [4/4] ◆ SetRelease() [1/3] ◆ SetRelease() [2/3] ◆ SetRelease() [3/3] ◆ SetReplaced_by() [1/2] ◆ SetReplaced_by() [2/2] ◆ SetReplaces() [1/2] ◆ SetReplaces() [2/2] ◆ SetRepr() [1/2]

Assign a value to Repr data member.

Parameters

Definition at line 574 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_Repr, CSeq_inst_Base::m_set_State, and rapidjson::value.

Referenced by AgpRead(), CFastaReader::AssembleSeq(), CBioseq::CBioseq(), CGapsEditor::ConvertNs2Gaps(), ConvertRawToDeltaByNs(), CBlobSplitterImpl::CopySequence(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CAlnVec::CreateConsensus(), CRawSeqToDeltaByN::DeltaSeqToRaw(), CSeqDBVol::GetBioseq(), ConsensusMaker::getConsensusSeqEntry(), GetGenBankInst(), CWGSDb_Impl::GetMasterSeq_entry(), CCSraRefSeqIterator::GetRefBioseq(), CWGSScaffoldIterator::GetSeq_inst(), CWGSProteinIterator::GetSeq_inst(), CCSraShortReadIterator::GetShortBioseq(), CBamAlignIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), CSraRun::GetSpotEntry(), LoadSequencesToScope(), CMakeCdrProds::MakeCdrProds(), MakeMaskingBioseq(), CBam2Seq_graph::MakeSeq_entry(), CAgpToSeqEntry::OnGapOrComponent(), CBioseq::PackAsDeltaSeq(), CBam2GraphApp::ProcessFile(), CGlimmerReader::Read(), s_FixBioseqDeltas(), s_GetEmblInst(), CSequenceUpdater::s_UpdateSeqInst(), SeqLocToBioseq(), CCachedSequence::SplitSeqData(), TrimSeqData(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CSeqMap::x_DoUpdateSeq_inst(), CWGSSeqIterator::x_GetSeq_inst(), CUpdateSeq_Input::x_ReadAccession(), CSequenceUpdater::x_ReplaceSequence(), CWGSSeqIterator::x_SetDelta(), CWGSSeqIterator::x_SetDeltaOrData(), CVectorTrimPanel::x_SetSeqData(), CSequenceAmbigTrimmer::x_SliceBioseq(), CSequenceAmbigTrimmer::x_TrimToNothing(), and XMLGetInst().

◆ SetRepr() [2/2] ◆ SetSeg() [1/2] ◆ SetSeg() [2/2] ◆ SetSeq_data() [1/4]

Assign a value to Seq_data data member.

Parameters: value Reference to value.

Definition at line 130 of file Seq_inst_.cpp.

References CSeq_inst_Base::m_Seq_data, and rapidjson::value.

Referenced by AddLiteral(), CFastaReader::AssembleSeq(), CBlobSplitterImpl::AttachToSkeleton(), CPhrap_Seq::CreateBioseq(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CAlnVec::CreateConsensus(), CRawSeqToDeltaByN::DeltaSeqToRaw(), CAdjustForConsensusSpliceSite::GetCommandToAdjustCDSEnds(), ConsensusMaker::getConsensusSeqEntry(), CWGSProteinIterator::GetSeq_inst(), CCSraShortReadIterator::GetShortBioseq(), CBamAlignIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), CSraRun::GetSpotEntry(), PssmMaker::getTrunctMaster(), CMakeCdrProds::MakeCdrProds(), MakeEntryForDeltaConversion(), CGlimmerReader::Read(), ReverseComplement(), s_FixBioseqDeltas(), s_SeqDBWriteSeqDataNucl(), s_SeqDBWriteSeqDataProt(), CSequenceUpdater::s_UpdateSeqInst(), SeqLocToBioseq(), SetNewProteinSequence(), TrimSeqData(), TrimStopsFromCompleteCDS(), CCleanup::WGSCleanup(), CFeatureGenerator::SImplementation::x_CollectMrnaSequence(), CFeatureGenerator::SImplementation::x_CreateProteinBioseq(), CSeqMap::x_DoUpdateSeq_inst(), CWGSSeqIterator::x_GetSeq_inst(), CUpdateSeq_Input::x_ReadAccession(), CSequenceUpdater::x_ReplaceSequence(), CVectorTrimPanel::x_RetranslateCDS(), CSequenceUpdater::x_RetranslateImportedCDSProduct(), CSequenceUpdater::x_RetranslateOldCDSProduct(), CWGSSeqIterator::x_SetDeltaOrData(), CVectorTrimPanel::x_SetSeqData(), CSequenceAmbigTrimmer::x_SliceBioseq(), and CForeignContaminationScreenReportReader::xTrimData().

◆ SetSeq_data() [2/4]

Assign a value to Seq_data data member.

Parameters: value Reference to value.

Definition at line 74 of file Seq_literal_.cpp.

References CSeq_literal_Base::m_Seq_data, and rapidjson::value.

Referenced by CDelta_ext::AddAndSplit(), AddLiteral(), BOOST_AUTO_TEST_CASE(), CBlobSplitterImpl::CopySequence(), CreateSeqDataChunk(), CreateSeqGap(), CRemoteBlastDbDataLoader::GetChunks(), CAddLinkageToGaps::GetCommand(), ReverseComplement(), variation_ref::CVariationUtil::s_CatLiterals(), variation::CVariationUtil::s_CatLiterals(), variation::CVariationUtil::s_SpliceLiterals(), CDelta_item::SetInsertion(), variation::CHgvsParser::x_AsHgvsExpression(), CHgvsNaIrepReader::x_CreateSSRVarref(), CSeqMap::x_DoUpdateSeq_inst(), variation_ref::CHgvsParser::x_expr2(), CWGSSeqIterator::x_GetSegmentsWithExplicitGaps(), CWGSSeqIterator::x_GetSegmentsWithRecoveredGaps(), CGapsEditor::x_SetGapParameters(), CVariationNormalization_base< T >::x_Shift(), CVcfReader::xAssignVariantDelins(), CVcfReader::xAssignVariantIns(), and CForeignContaminationScreenReportReader::xTrimLiteral().

◆ SetSeq_data() [3/4] ◆ SetSeq_data() [4/4] ◆ SetSeq_raw() [1/3] ◆ SetSeq_raw() [2/3] ◆ SetSeq_raw() [3/3] ◆ SetSeq_table() [1/2] void CSeq_annot_Base::C_Data::SetSeq_table ( TSeq_table & value ) ◆ SetSeq_table() [2/2] ◆ SetSource() [1/2] ◆ SetSource() [2/2]

Select the variant.

Returns: Reference to the variant data.

Definition at line 572 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Source, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

Referenced by AddGoodSource(), AddOrgmodDescriptor(), AddSource(), AddStrainDescriptor(), AddStrainDescriptorNew(), CConvertFeatToDescSource::apply(), CApplyFBOL::apply(), CMergeBiosources::apply(), COrgGeneralPanel::ApplyCommand(), CBarcodeTool::ApplyDbxrefs(), ApplySrcTableToSeqEntry(), CProSplign::AssignGeneticCode(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), BuildGoodSegSet(), CachedTaxonomyLookupCommand(), CCleanup::CleanupCollectionDates(), CSrcTableColumnBase::ClearVal(), CCleanup::ConvertSrcFeatsToSrcDescs(), CSequenceEditingEventHandler::CreateDescriptor(), FakeEmblBioSources(), FakeGenBankBioSources(), IEditingActionBiosource::Find(), IEditingAction::GetActionCommand(), GetBioSourceFromContext(), GetChangeStrainForwardingCommand(), CUnculTaxTool::GetCommandFromValuesTable(), GetRmCultureNotesCommand(), GetSprotDescr(), LaunchSrcEditor(), LoadFeat(), CCompareWithBiosample::OnClickOk(), CBioseqEditor::OnCreateBiosourceDesc(), CBioseqEditor::OnCreateDescriptor(), CFindASN1Dlg::ReplaceInDesc(), CAgpconvertApplication::Run(), CMacroBioData_BioSourceIter::RunEditCommand(), IEditingActionBiosource::SetDesc(), CMiscSeqTableColumn::SetVal(), SpecificHostCleanupCommand(), CCleanup::TaxonomyLookup(), TaxonomyLookupCommand(), CMacroFunction_MakeBoldXrefs::TheFunction(), CBiosampleChkApp::UpdateBioSource(), CTaxonomyUpdater::UpdateOrgFromTaxon(), CSrcDescEditorPanel::UpdateSeqdesc(), CSubmissionWizard::x_ApplySourceDescriptorToRecord(), CAppendModToOrg::x_ApplyToDescriptors(), CApplyGCode::x_ApplyToDescriptors(), CCountryConflict::x_ApplyToDescriptors(), CCountryFixup::x_ApplyToDescriptors(), CLatLonTool::x_ApplyToDescriptors(), IModifyBiosourceQuals::x_ApplyToDescriptors(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CNewCleanup_imp::x_CopyGBBlockDivToOrgnameDiv(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqdesc(), CFlatGatherer::x_GatherSourceOrganism(), CSeqDBVol::x_GetTaxonomy(), CAgpconvertApplication::x_HandleTaxArgs(), CSubmissionWizard::x_InitializeDescriptorList(), CNewCleanup_imp::x_MoveNpSrc(), CNewCleanup_imp::x_MoveSeqdescOrgToSourceOrg(), CStrainSerotypeInfluenza::x_ParseDescriptors(), CNewCleanup_imp::x_RemoveOldFeatures(), CNewCleanup_imp::x_RemovePopPhyBioSource(), CAgpConverter::x_SetChromosomeNameInSourceSubtype(), and XMLFakeBioSources().

◆ SetSp() [1/2] ◆ SetSp() [2/2] ◆ SetSrc() [1/2] ◆ SetSrc() [2/2] ◆ SetStrand() [1/2]

Assign a value to Strand data member.

Parameters

Definition at line 786 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_set_State, CSeq_inst_Base::m_Strand, and rapidjson::value.

Referenced by CMolInfoEditDlg::ApplyToInst(), CBlobSplitterImpl::CopySequence(), GetGenBankInst(), CWGSScaffoldIterator::GetSeq_inst(), s_GetEmblInst(), CMolInfoField::SetVal(), CEditingActionMolInfoStrand::SetValue(), CModAdder::x_SetStrand(), and XMLGetInst().

◆ SetStrand() [2/2] ◆ SetTech() [1/2]

Assign a value to Tech data member.

Parameters

Definition at line 503 of file MolInfo_.hpp.

References CMolInfo_Base::m_set_State, CMolInfo_Base::m_Tech, and rapidjson::value.

Referenced by CCleanup::AddMissingMolInfo(), CCleanup::AddProtein(), CMolInfoEditDlg::ApplyToMolInfo(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), fta_check_htg_kwds(), GetDescrEmblBlock(), GetGBBlock(), s_SetMolinfoTechFromString(), SetMolinfoFromGIBBMod(), CCleanup::SetMolinfoTech(), SetTech(), CMolInfoField::SetVal(), CEditingActionMolInfoTechnique::SetValue(), CPromote::x_PromoteCdregion(), CFeatTableEdit::xGenerate_mRNA_Product(), XMLGetEMBLBlock(), XMLGetGBBlock(), and CFeatureTableReader::xTranslateProtein().

◆ SetTech() [2/2] ◆ SetTechexp() [1/3] ◆ SetTechexp() [2/3] ◆ SetTechexp() [3/3] ◆ SetTitle() [1/4] void CAnnotdesc_Base::SetTitle ( const TTitle & value ) ◆ SetTitle() [2/4] ◆ SetTitle() [3/4] ◆ SetTitle() [4/4]

Select the variant.

Returns: Reference to the variant data.

Definition at line 1039 of file Seqdesc_.hpp.

References CSeqdesc_Base::e_Title, eDoNotResetVariant, CSeqdesc_Base::m_string, and CSeqdesc_Base::Select().

Referenced by AddModToDefline(), AddModVectorToDefline(), AddOrgToDefline(), CCleanup::AddProteinTitle(), AddTitle(), BOOST_AUTO_TEST_CASE(), BuildGoodEcoSet(), CDefinitionLineField::ClearVal(), CVDBBlastUtil::CreateBioseqFromOid(), CVDBBlastUtil::CreateBioseqFromVDBSeqId(), CSequenceEditingEventHandler::CreateDescriptor(), CChangeSeqdescTitleCommand::Execute(), CSeqDBVol::GetBioseq(), GetEmblDescr(), GetGenBankDescr(), GetProtRefDescr(), CCSraRefSeqIterator::GetRefBioseq(), CWGSProteinIterator::GetSeq_descr(), CCSraShortReadIterator::GetShortBioseq(), CCSraAlignIterator::GetShortBioseq(), CSraRun::GetSpotEntry(), GetSprotDescr(), InstantiateProteinTitles(), CMakeCdrProds::MakeCdrProds(), PssmMaker::modifyQuery(), CBioseqEditor::OnCreateDescriptor(), CApplyMods::operator()(), PSSMWrapper::OutputPSSM(), CDUpdater::reformatBioseq(), CDUpdater::reformatBioseqByBlastDefline(), CAutoDefWithTaxonomy::RegeneratePopsetTitles(), CAutoDef::RegenerateSequenceDefLines(), CFindASN1Dlg::ReplaceInDesc(), CAgpconvertApplication::Run(), CMacroFunction_RefreshDefline::s_RefreshDeflineCommand(), SeqLocToBioseq(), CSeqUtils::SeqLocToBioseq(), SetTitle(), CDefinitionLineField::SetVal(), CEditingActionDescDefline::SetValue(), SimplifyBioseqForCD(), UpdateOneDefLine(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CPsiBlastInputData::x_ExtractQueryForPssm(), CCddInputData::x_ExtractQueryForPssm(), CAutodefJob::x_MakeChanges(), CShortReadFastaInputSource::x_ReadFastaOneSeq(), CShortReadFastaInputSource::x_ReadFastc(), CShortReadFastaInputSource::x_ReadFastqOneSeq(), CFeatureTableReader::xAddProteinToSeqEntry(), and XMLGetDescr().

◆ SetTopology() [1/2]

Assign a value to Topology data member.

Parameters

Definition at line 739 of file Seq_inst_.hpp.

References CSeq_inst_Base::m_set_State, CSeq_inst_Base::m_Topology, and rapidjson::value.

Referenced by CMolInfoEditDlg::ApplyToInst(), CBlobSplitterImpl::CopySequence(), GetGenBankInst(), CCSraRefSeqIterator::GetRefBioseq(), CWGSScaffoldIterator::GetSeq_inst(), CEditingBtnsPanel::rRNAtoDNA(), s_GetEmblInst(), CMolInfoField::SetVal(), CEditingActionMolInfoTopology::SetValue(), CWGSSeqIterator::x_GetSeq_inst(), CModAdder::x_SetTopology(), and XMLGetInst().

◆ SetTopology() [2/2] ◆ SetType() [1/6] ◆ SetType() [2/6] ◆ SetType() [3/6] ◆ SetType() [4/6] ◆ SetType() [5/6] ◆ SetType() [6/6] ◆ SetUnits() [1/3] ◆ SetUnits() [2/3] ◆ SetUnits() [3/3] ◆ SetUpdate_date() [1/4] ◆ SetUpdate_date() [2/4] ◆ SetUpdate_date() [3/4] ◆ SetUpdate_date() [4/4]

Select the variant.

Returns: Reference to the variant data.

Definition at line 500 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_Update_date, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

Referenced by CTable2AsnContext::ApplyUpdateDate(), BOOST_AUTO_TEST_CASE(), BOOST_FIXTURE_TEST_CASE(), CSourceModParserWrapper::ExtractTitleAndApplyAllMods(), FixEmblUpdateDates(), GetEmblDescr(), GetGenBankDescr(), GetSprotDescr(), s_ActualizeUpdateDate(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CGFFReader::x_ParseDateComment(), CAgpConverter::x_SetCreateAndUpdateDatesToToday(), and XMLGetDescr().

◆ SetUser() [1/4] ◆ SetUser() [2/4] ◆ SetUser() [3/4]

Select the variant.

Returns: Reference to the variant data.

Definition at line 190 of file Annotdesc_.cpp.

References CAnnotdesc_Base::e_User, eDoNotResetVariant, CAnnotdesc_Base::m_object, and CAnnotdesc_Base::Select().

Referenced by CSeq_annot::AddUserObject(), BOOST_FIXTURE_TEST_CASE(), CBedAnnotAssembler::FinalizeAnnot(), CVDBGraphSeqIterator::GetAnnot(), CWig2tableApplication::MakeAnnot(), CCSraAlignIterator::MakeMatchAnnotIndicator(), CBam2Seq_graph::MakeSeq_annot(), CMicroArrayReader::ReadSeqAnnot(), CVcfReader::ReadSeqAnnot(), CDemoContigAssemblyApp::Run(), CProjectItemExtra::SetStr(), sx_GetMatchAnnotIndicator(), CTrackData::WriteToAnnot(), CReaderBase::xAddConversionInfo(), CBedReader::xAssignBedColumnCount(), CGvfReader::xParseStructuredComment(), CVcfReader::xProcessHeaderLine(), and CVcfReader::xProcessMetaLine().

◆ SetUser() [4/4]

Select the variant.

Returns: Reference to the variant data.

Definition at line 390 of file Seqdesc_.cpp.

References CSeqdesc_Base::e_User, eDoNotResetVariant, CSeqdesc_Base::m_object, and CSeqdesc_Base::Select().

◆ SetVersion() [1/2] ◆ SetVersion() [2/2] ◆ ThrowInvalidSelection() [1/9] void CAnnot_id_Base::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [2/9] void CAnnotdesc_Base::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [3/9] void CDelta_seq_Base::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [4/9] void CNumbering_Base::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [5/9] void CSeq_annot_Base::C_Data::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [6/9] void CSeq_data_Base::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [7/9] void CSeq_ext_Base::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [8/9] void CSeq_hist_Base::C_Deleted::ThrowInvalidSelection ( E_Choice index ) const ◆ ThrowInvalidSelection() [9/9] void CSeqdesc_Base::ThrowInvalidSelection ( E_Choice index ) const ◆ Which() [1/9] ◆ Which() [2/9] ◆ Which() [3/9] ◆ Which() [4/9] ◆ Which() [5/9]

Which variant is currently selected.

Returns: Choice state enumerator.

Definition at line 586 of file Seq_annot_.hpp.

References CSeq_annot_Base::C_Data::m_choice.

Referenced by CRemoveSeqAnnot::ApplyToSeqAnot(), Convert_Seq_annot_Seq_id(), Convert_Seq_annot_Seq_loc_All(), Convert_Seq_annot_Seq_loc_TotalRange(), CBlobSplitterImpl::CopyAnnot(), CSeq_annot_SplitInfo::CountAnnotObjects(), AnnotObjTrait< CSeq_feat >::GetCont(), AnnotObjTrait< CSeq_align >::GetCont(), AnnotObjTrait< CSeq_graph >::GetCont(), CDesktopAnnotItem::GetDescription(), CGuiObjectInfoSeq_annot::GetIcon(), CSeq_annotHandler::GetLabel(), CGuiObjectInfoSeq_annot::GetSubtype(), CGuiObjectInfoSeq_annot::GetViewCategory(), CBlobSplitterImpl::MakeSeq_annot(), CSeq_loc_Mapper_Base::Map(), CGFFReader::Read(), CEditsSaver::Remove(), s_AttachAnnotToScope(), s_GetAnnotContent(), s_GetAnnotType(), s_GetSeqAnnotChoiceMask(), CSeq_annot_SplitInfo::SetSeq_annot(), CSeq_annot_Handle::Which(), CAutogeneratedCleanup::x_BasicCleanupSeqAnnotData(), CGFFReader::x_CreateGeneFeatures(), CSeq_annot_Info::x_InitAnnotList(), CSplitDataLoader::x_SplitAnnot(), and CWiggleReader::xPostProcessAnnot().

◆ Which() [6/9]

Which variant is currently selected.

Returns: Choice state enumerator.

Definition at line 475 of file Seq_data_.hpp.

References CSeq_data_Base::m_choice.

◆ Which() [7/9] ◆ Which() [8/9] ◆ Which() [9/9]

Which variant is currently selected.

Returns: Choice state enumerator.

Definition at line 903 of file Seqdesc_.hpp.

References CSeqdesc_Base::m_choice.

Referenced by AddMasterDescr(), CWGSDb_Impl::AddMasterDescr(), BioseqSetDescriptorPropagateDown(), CDescriptorIndex::CDescriptorIndex(), descr_cmp(), CSubmissionWizard::ExtractDescriptor(), CBioseq::GetClosestDescriptor(), CValidErrorFormat::GetDescriptorContent(), CEditObjectSeq_desc::GetDescriptorType(), CEditObjectSeq_desc::GetEditCommand(), CSeqdesc::GetLabel(), CWGSDb::GetMasterDescrType(), CTextDescriptorField::GetRelatedObjects(), GetSeqdescPriority(), CDiscrepancyObject::GetTextObjectDescription(), GetTextObjectDescription(), CPubField::GetVals(), seqsubmit_split::NeedToInclude(), SLaterDate::operator()(), SIsDate::operator()(), CPrimeCacheApplication::Run(), s_DetermineComponentType(), s_GetContentLabel(), s_IsGoodDescr(), s_SeqDescCompare(), s_SeqDescLessThan(), CValidError_bioseqset::ValidateNucProtSet(), CValidError_desc::ValidateSeqDesc(), CValidError_bioseq::ValidateSeqDescContext(), CValidError_descr::ValidateSeqDescr(), CSubmissionWizard::x_ApplyOrReplaceDescriptorToRecord(), CAutogeneratedCleanup::x_BasicCleanupBioseqDesc(), CAutogeneratedCleanup::x_BasicCleanupBioseqSetDesc(), CAutogeneratedExtendedCleanup::x_ExtendedCleanupSeqdesc(), CNewCleanup_imp::x_FixStructuredCommentKeywords(), CCommentItem::x_GatherDescInfo(), CDumpASNIndex::x_GetTaxId(), CBioseqIndex::x_InitDescs(), x_IsWgsSecondary(), CStartItem::x_SetDate(), and CPrimeCacheApplication::x_UpsertDescriptor().

◆ ~C_Data() CSeq_annot_Base::C_Data::~C_Data ( void ) ◆ ~C_Deleted() CSeq_hist_Base::C_Deleted::~C_Deleted ( void ) ◆ ~CAlign_def() CAlign_def::~CAlign_def ( void )

Definition at line 50 of file Align_def.cpp.

◆ ~CAlign_def_Base() CAlign_def_Base::~CAlign_def_Base ( void ) virtual

Definition at line 93 of file Align_def_.cpp.

◆ ~CAnnot_descr() ◆ ~CAnnot_descr_Base() CAnnot_descr_Base::~CAnnot_descr_Base ( void ) virtual

Definition at line 74 of file Annot_descr_.cpp.

◆ ~CAnnot_id() CAnnot_id::~CAnnot_id ( void )

Definition at line 50 of file Annot_id.cpp.

◆ ~CAnnot_id_Base() CAnnot_id_Base::~CAnnot_id_Base ( void ) virtual ◆ ~CAnnotdesc() CAnnotdesc::~CAnnotdesc ( void )

Definition at line 50 of file Annotdesc.cpp.

◆ ~CAnnotdesc_Base() CAnnotdesc_Base::~CAnnotdesc_Base ( void ) virtual ◆ ~CBioseq_Base() CBioseq_Base::~CBioseq_Base ( void ) virtual

Definition at line 128 of file Bioseq_.cpp.

◆ ~CDelta_ext_Base() CDelta_ext_Base::~CDelta_ext_Base ( void ) virtual

Definition at line 74 of file Delta_ext_.cpp.

◆ ~CDelta_seq() CDelta_seq::~CDelta_seq ( void )

Definition at line 50 of file Delta_seq.cpp.

◆ ~CDelta_seq_Base() CDelta_seq_Base::~CDelta_seq_Base ( void ) virtual ◆ ~CLinkage_evidence_Base() CLinkage_evidence_Base::~CLinkage_evidence_Base ( void ) virtual

Definition at line 92 of file Linkage_evidence_.cpp.

◆ ~CMap_ext() CMap_ext::~CMap_ext ( void )

Definition at line 50 of file Map_ext.cpp.

◆ ~CMap_ext_Base() CMap_ext_Base::~CMap_ext_Base ( void ) virtual

Definition at line 74 of file Map_ext_.cpp.

◆ ~CMolInfo_Base() CMolInfo_Base::~CMolInfo_Base ( void ) virtual

Definition at line 166 of file MolInfo_.cpp.

◆ ~CNum_cont() CNum_cont::~CNum_cont ( void )

Definition at line 50 of file Num_cont.cpp.

◆ ~CNum_cont_Base() CNum_cont_Base::~CNum_cont_Base ( void ) virtual

Definition at line 77 of file Num_cont_.cpp.

◆ ~CNum_enum() CNum_enum::~CNum_enum ( void )

Definition at line 50 of file Num_enum.cpp.

◆ ~CNum_enum_Base() CNum_enum_Base::~CNum_enum_Base ( void ) virtual

Definition at line 81 of file Num_enum_.cpp.

◆ ~CNum_real() CNum_real::~CNum_real ( void )

Definition at line 50 of file Num_real.cpp.

◆ ~CNum_real_Base() CNum_real_Base::~CNum_real_Base ( void ) virtual

Definition at line 83 of file Num_real_.cpp.

◆ ~CNum_ref() CNum_ref::~CNum_ref ( void )

Definition at line 50 of file Num_ref.cpp.

◆ ~CNum_ref_Base() CNum_ref_Base::~CNum_ref_Base ( void ) virtual

Definition at line 103 of file Num_ref_.cpp.

◆ ~CNumbering() CNumbering::~CNumbering ( void )

Definition at line 50 of file Numbering.cpp.

◆ ~CNumbering_Base() CNumbering_Base::~CNumbering_Base ( void ) virtual ◆ ~CPubdesc_Base() CPubdesc_Base::~CPubdesc_Base ( void ) virtual

Definition at line 170 of file Pubdesc_.cpp.

◆ ~CSeg_ext() CSeg_ext::~CSeg_ext ( void )

Definition at line 50 of file Seg_ext.cpp.

◆ ~CSeg_ext_Base() CSeg_ext_Base::~CSeg_ext_Base ( void ) virtual

Definition at line 74 of file Seg_ext_.cpp.

◆ ~CSeq_annot_Base() CSeq_annot_Base::~CSeq_annot_Base ( void ) virtual

Definition at line 283 of file Seq_annot_.cpp.

◆ ~CSeq_data_Base() CSeq_data_Base::~CSeq_data_Base ( void ) virtual ◆ ~CSeq_descr_Base() CSeq_descr_Base::~CSeq_descr_Base ( void ) virtual

Definition at line 74 of file Seq_descr_.cpp.

◆ ~CSeq_ext() CSeq_ext::~CSeq_ext ( void )

Definition at line 50 of file Seq_ext.cpp.

◆ ~CSeq_ext_Base() CSeq_ext_Base::~CSeq_ext_Base ( void ) virtual ◆ ~CSeq_gap_Base() CSeq_gap_Base::~CSeq_gap_Base ( void ) virtual

Definition at line 113 of file Seq_gap_.cpp.

◆ ~CSeq_hist() CSeq_hist::~CSeq_hist ( void )

Definition at line 50 of file Seq_hist.cpp.

◆ ~CSeq_hist_Base() CSeq_hist_Base::~CSeq_hist_Base ( void ) virtual

Definition at line 236 of file Seq_hist_.cpp.

◆ ~CSeq_hist_rec() ◆ ~CSeq_hist_rec_Base() CSeq_hist_rec_Base::~CSeq_hist_rec_Base ( void ) virtual

Definition at line 99 of file Seq_hist_rec_.cpp.

◆ ~CSeq_inst_Base() CSeq_inst_Base::~CSeq_inst_Base ( void ) virtual

Definition at line 215 of file Seq_inst_.cpp.

◆ ~CSeq_literal_Base() CSeq_literal_Base::~CSeq_literal_Base ( void ) virtual

Definition at line 113 of file Seq_literal_.cpp.

◆ ~CSeqdesc_Base() CSeqdesc_Base::~CSeqdesc_Base ( void ) virtual ◆ ~CTextannot_id() ◆ ~CTextannot_id_Base() CTextannot_id_Base::~CTextannot_id_Base ( void ) virtual

Definition at line 97 of file Textannot_id_.cpp.

◆ ◆ ◆ ◆ ◆ ◆ ◆ m_A double CNum_real_Base::m_A private ◆ m_Accession string CTextannot_id_Base::m_Accession private ◆ m_Align [1/2] ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TAlign> { ... } ::m_Align

Definition at line 348 of file Seq_annot_.hpp.

◆ m_Align_group int CPubdesc_Base::m_Align_group private ◆ m_Align_type int CAlign_def_Base::m_Align_type private ◆ m_Aligns ◆ m_Annot ◆ m_Ascending bool CNum_cont_Base::m_Ascending private ◆ m_Assembly ◆ m_B double CNum_real_Base::m_B private ◆ m_Biomol int CMolInfo_Base::m_Biomol private ◆ [1/2] ◆ m_Bool [2/2] ◆ m_choice [1/9]

Definition at line 267 of file Annot_id_.hpp.

Referenced by CAnnot_id_Base::CheckSelected(), CAnnot_id_Base::DoSelect(), CAnnot_id_Base::IsGeneral(), CAnnot_id_Base::IsLocal(), CAnnot_id_Base::IsNcbi(), CAnnot_id_Base::IsOther(), CAnnot_id_Base::Reset(), CAnnot_id_Base::ResetSelection(), CAnnot_id_Base::SetGeneral(), CAnnot_id_Base::SetLocal(), CAnnot_id_Base::SetOther(), CAnnot_id_Base::ThrowInvalidSelection(), and CAnnot_id_Base::Which().

◆ m_choice [2/9]

Definition at line 444 of file Annotdesc_.hpp.

◆ m_choice [3/9] ◆ m_choice [4/9]

Definition at line 268 of file Numbering_.hpp.

Referenced by CNumbering_Base::CheckSelected(), CNumbering_Base::DoSelect(), CNumbering_Base::IsCont(), CNumbering_Base::IsEnum(), CNumbering_Base::IsReal(), CNumbering_Base::IsRef(), CNumbering_Base::Reset(), CNumbering_Base::ResetSelection(), CNumbering_Base::SetCont(), CNumbering_Base::SetEnum(), CNumbering_Base::SetReal(), CNumbering_Base::SetRef(), CNumbering_Base::ThrowInvalidSelection(), and CNumbering_Base::Which().

◆ m_choice [5/9] E_Choice CSeq_annot_Base::C_Data::m_choice private ◆ m_choice [6/9]

Definition at line 444 of file Seq_data_.hpp.

◆ m_choice [7/9]

Definition at line 270 of file Seq_ext_.hpp.

Referenced by CSeq_ext_Base::CheckSelected(), CSeq_ext_Base::DoSelect(), CSeq_ext_Base::IsDelta(), CSeq_ext_Base::IsMap(), CSeq_ext_Base::IsRef(), CSeq_ext_Base::IsSeg(), CSeq_ext_Base::Reset(), CSeq_ext_Base::ResetSelection(), CSeq_ext_Base::SetDelta(), CSeq_ext_Base::SetMap(), CSeq_ext_Base::SetRef(), CSeq_ext_Base::SetSeg(), CSeq_ext_Base::ThrowInvalidSelection(), and CSeq_ext_Base::Which().

◆ m_choice [8/9] E_Choice CSeq_hist_Base::C_Deleted::m_choice private ◆ m_choice [9/9]

Definition at line 877 of file Seqdesc_.hpp.

◆ m_Comment string CPubdesc_Base::m_Comment private ◆ m_Completeness int CMolInfo_Base::m_Completeness private ◆ m_data [1/5] ◆ m_data [2/5] ◆ m_data [3/5] ◆ m_data [4/5] ◆ m_Data ◆ m_data [5/5] ◆ m_Date ◆ m_Db int CSeq_annot_Base::m_Db private ◆ m_Deleted ◆ m_Desc ◆ m_Descr ◆ m_Ext ◆ m_Fig ◆ m_Ftable [1/2] ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TFtable> { ... } ::m_Ftable

Definition at line 347 of file Seq_annot_.hpp.

◆ m_Fuzz [1/2] ◆ m_Fuzz [2/2] ◆ m_Gbmoltype string CMolInfo_Base::m_Gbmoltype private ◆ m_Graph [1/2] ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TGraph> { ... } ::m_Graph

Definition at line 349 of file Seq_annot_.hpp.

◆ m_Has_zero bool CNum_cont_Base::m_Has_zero private ◆ m_Het [1/2] NCBI_NS_NCBI::CUnionBuffer<THet> CSeqdesc_Base::m_Het ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<THet> { ... } ::m_Het

Definition at line 887 of file Seqdesc_.hpp.

◆ m_Hist ◆ m_Id [1/2] ◆ m_Id [2/2] ◆ m_Ids [1/4] ◆ m_Ids [2/4] NCBI_NS_NCBI::CUnionBuffer<TIds> CSeq_annot_Base::C_Data::m_Ids

Definition at line 350 of file Seq_annot_.hpp.

◆ [3/4] NCBI_NS_NCBI::CUnionBuffer<TIds> { ... } ::m_Ids

Definition at line 350 of file Seq_annot_.hpp.

◆ m_Ids [4/4] ◆ m_Inst ◆ m_Iupacaa [1/2] NCBI_NS_NCBI::CUnionBuffer<TIupacaa> CSeq_data_Base::m_Iupacaa ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TIupacaa> { ... } ::m_Iupacaa

Definition at line 452 of file Seq_data_.hpp.

◆ m_Iupacna [1/2] NCBI_NS_NCBI::CUnionBuffer<TIupacna> CSeq_data_Base::m_Iupacna ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TIupacna> { ... } ::m_Iupacna

Definition at line 451 of file Seq_data_.hpp.

◆ m_Length [1/2] ◆ m_Length [2/2] TSeqPos CSeq_literal_Base::m_Length private ◆ m_Linkage int CSeq_gap_Base::m_Linkage private ◆ m_Linkage_evidence ◆ m_Locs [1/2] NCBI_NS_NCBI::CUnionBuffer<TLocs> CSeq_annot_Base::C_Data::m_Locs

Definition at line 351 of file Seq_annot_.hpp.

◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TLocs> { ... } ::m_Locs

Definition at line 351 of file Seq_annot_.hpp.

◆ m_Maploc string CPubdesc_Base::m_Maploc private ◆ m_Method [1/2] ◆ [2/2] ◆ [1/2] NCBI_NS_NCBI::CUnionBuffer<TModif> { ... } ::m_Modif

Definition at line 885 of file Seqdesc_.hpp.

◆ m_Modif [2/2] NCBI_NS_NCBI::CUnionBuffer<TModif> CSeqdesc_Base::m_Modif ◆ m_Mol EMol CSeq_inst_Base::m_Mol private ◆ m_Mol_type [1/2] ◆ [2/2] TMol_type { ... } ::m_Mol_type

Definition at line 884 of file Seqdesc_.hpp.

◆ m_Name [1/3] ◆ m_Name [2/3] string CSeq_annot_Base::m_Name private ◆ m_Name [3/3] string CTextannot_id_Base::m_Name private ◆ m_Names list< string > CNum_enum_Base::m_Names private ◆ m_Ncbi [1/2] ◆ [2/2] ◆ m_Ncbi2na [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi2na> CSeq_data_Base::m_Ncbi2na ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi2na> { ... } ::m_Ncbi2na

Definition at line 453 of file Seq_data_.hpp.

◆ m_Ncbi4na [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi4na> CSeq_data_Base::m_Ncbi4na ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi4na> { ... } ::m_Ncbi4na

Definition at line 454 of file Seq_data_.hpp.

◆ m_Ncbi8aa [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi8aa> CSeq_data_Base::m_Ncbi8aa ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi8aa> { ... } ::m_Ncbi8aa

Definition at line 457 of file Seq_data_.hpp.

◆ [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi8na> { ... } ::m_Ncbi8na

Definition at line 455 of file Seq_data_.hpp.

◆ m_Ncbi8na [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbi8na> CSeq_data_Base::m_Ncbi8na ◆ m_Ncbieaa [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbieaa> CSeq_data_Base::m_Ncbieaa ◆ [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbieaa> { ... } ::m_Ncbieaa

Definition at line 458 of file Seq_data_.hpp.

◆ [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbipaa> { ... } ::m_Ncbipaa

Definition at line 459 of file Seq_data_.hpp.

◆ m_Ncbipaa [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbipaa> CSeq_data_Base::m_Ncbipaa ◆ [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbipna> { ... } ::m_Ncbipna

Definition at line 456 of file Seq_data_.hpp.

◆ m_Ncbipna [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbipna> CSeq_data_Base::m_Ncbipna ◆ [1/2] NCBI_NS_NCBI::CUnionBuffer<TNcbistdaa> { ... } ::m_Ncbistdaa

Definition at line 460 of file Seq_data_.hpp.

◆ m_Ncbistdaa [2/2] NCBI_NS_NCBI::CUnionBuffer<TNcbistdaa> CSeq_data_Base::m_Ncbistdaa ◆ m_Num [1/2] ◆ m_Num [2/2] ◆ m_Numexc bool CPubdesc_Base::m_Numexc private ◆ m_object [1/15] NCBI_NS_NCBI::CSerialObject* CAnnot_id_Base::m_object ◆ [2/15] NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 275 of file Annot_id_.hpp.

◆ m_object [3/15] NCBI_NS_NCBI::CSerialObject* CAnnotdesc_Base::m_object

Definition at line 452 of file Annotdesc_.hpp.

◆ [4/15] NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 452 of file Annotdesc_.hpp.

◆ m_object [5/15] NCBI_NS_NCBI::CSerialObject* CDelta_seq_Base::m_object private ◆ m_object [6/15] NCBI_NS_NCBI::CSerialObject* CNumbering_Base::m_object private ◆ m_object [7/15] NCBI_NS_NCBI::CSerialObject* CSeq_annot_Base::C_Data::m_object

Definition at line 352 of file Seq_annot_.hpp.

◆ [8/15] NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 352 of file Seq_annot_.hpp.

◆ [9/15] NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 461 of file Seq_data_.hpp.

◆ m_object [10/15] NCBI_NS_NCBI::CSerialObject* CSeq_data_Base::m_object ◆ m_object [11/15] NCBI_NS_NCBI::CSerialObject* CSeq_ext_Base::m_object private ◆ m_object [12/15] NCBI_NS_NCBI::CSerialObject* CSeq_hist_Base::C_Deleted::m_object

Definition at line 244 of file Seq_hist_.hpp.

◆ [13/15] NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 244 of file Seq_hist_.hpp.

◆ m_object [14/15] NCBI_NS_NCBI::CSerialObject* CSeqdesc_Base::m_object

Definition at line 889 of file Seqdesc_.hpp.

◆ [15/15] NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 889 of file Seqdesc_.hpp.

◆ m_Poly_a bool CPubdesc_Base::m_Poly_a private ◆ m_Pub ◆ m_Refnum ◆ m_Reftype int CPubdesc_Base::m_Reftype private ◆ m_Release string CTextannot_id_Base::m_Release private ◆ m_Replaced_by ◆ m_Replaces ◆ m_Repr ERepr CSeq_inst_Base::m_Repr private ◆ m_Seq_data [1/2] ◆ m_Seq_data [2/2] ◆ m_Seq_raw string CPubdesc_Base::m_Seq_raw private ◆ m_set_State [1/21] Uint4 CAlign_def_Base::m_set_State[1] private ◆ m_set_State [2/21] Uint4 CAnnot_descr_Base::m_set_State[1] private ◆ m_set_State [3/21] Uint4 CBioseq_Base::m_set_State[1] private ◆ m_set_State [4/21] Uint4 CDelta_ext_Base::m_set_State[1] private ◆ m_set_State [5/21] Uint4 CLinkage_evidence_Base::m_set_State[1] private ◆ m_set_State [6/21] Uint4 CMap_ext_Base::m_set_State[1] private ◆ m_set_State [7/21] Uint4 CMolInfo_Base::m_set_State[1] private

Definition at line 404 of file MolInfo_.hpp.

Referenced by CMolInfo_Base::CMolInfo_Base(), CMolInfo_Base::IsSetBiomol(), CMolInfo_Base::IsSetCompleteness(), CMolInfo_Base::IsSetGbmoltype(), CMolInfo_Base::IsSetTech(), CMolInfo_Base::IsSetTechexp(), CMolInfo_Base::ResetBiomol(), CMolInfo_Base::ResetCompleteness(), CMolInfo_Base::ResetGbmoltype(), CMolInfo_Base::ResetTech(), CMolInfo_Base::ResetTechexp(), CMolInfo_Base::SetBiomol(), CMolInfo_Base::SetCompleteness(), CMolInfo_Base::SetGbmoltype(), CMolInfo_Base::SetTech(), and CMolInfo_Base::SetTechexp().

◆ m_set_State [8/21] Uint4 CNum_cont_Base::m_set_State[1] private ◆ m_set_State [9/21] Uint4 CNum_enum_Base::m_set_State[1] private ◆ m_set_State [10/21] Uint4 CNum_real_Base::m_set_State[1] private ◆ m_set_State [11/21] Uint4 CNum_ref_Base::m_set_State[1] private ◆ m_set_State [12/21] Uint4 CPubdesc_Base::m_set_State[1] private

Definition at line 569 of file Pubdesc_.hpp.

◆ m_set_State [13/21] Uint4 CSeg_ext_Base::m_set_State[1] private ◆ m_set_State [14/21] Uint4 CSeq_annot_Base::m_set_State[1] private

Definition at line 568 of file Seq_annot_.hpp.

Referenced by BEGIN_NAMED_BASE_CLASS_INFO(), CSeq_annot_Base::CSeq_annot_Base(), CSeq_annot_Base::IsSetDb(), CSeq_annot_Base::IsSetId(), CSeq_annot_Base::IsSetName(), CSeq_annot_Base::ResetDb(), CSeq_annot_Base::ResetId(), CSeq_annot_Base::ResetName(), CSeq_annot_Base::SetDb(), CSeq_annot_Base::SetId(), and CSeq_annot_Base::SetName().

◆ m_set_State [15/21] Uint4 CSeq_descr_Base::m_set_State[1] private ◆ m_set_State [16/21] Uint4 CSeq_gap_Base::m_set_State[1] private ◆ m_set_State [17/21] Uint4 CSeq_hist_Base::m_set_State[1] private ◆ m_set_State [18/21] Uint4 CSeq_hist_rec_Base::m_set_State[1] private ◆ m_set_State [19/21] Uint4 CSeq_inst_Base::m_set_State[1] private

Definition at line 524 of file Seq_inst_.hpp.

Referenced by CSeq_inst_Base::CSeq_inst_Base(), CSeq_inst_Base::IsSetLength(), CSeq_inst_Base::IsSetMol(), CSeq_inst_Base::IsSetRepr(), CSeq_inst_Base::IsSetStrand(), CSeq_inst_Base::IsSetTopology(), CSeq_inst_Base::ResetLength(), CSeq_inst_Base::ResetMol(), CSeq_inst_Base::ResetRepr(), CSeq_inst_Base::ResetStrand(), CSeq_inst_Base::ResetTopology(), CSeq_inst_Base::SetLength(), CSeq_inst_Base::SetMol(), CSeq_inst_Base::SetRepr(), CSeq_inst_Base::SetStrand(), and CSeq_inst_Base::SetTopology().

◆ m_set_State [20/21] Uint4 CSeq_literal_Base::m_set_State[1] private ◆ m_set_State [21/21] Uint4 CTextannot_id_Base::m_set_State[1] private

Definition at line 270 of file Textannot_id_.hpp.

Referenced by CTextannot_id_Base::CTextannot_id_Base(), CTextannot_id_Base::IsSetAccession(), CTextannot_id_Base::IsSetName(), CTextannot_id_Base::IsSetRelease(), CTextannot_id_Base::IsSetVersion(), CTextannot_id_Base::ResetAccession(), CTextannot_id_Base::ResetName(), CTextannot_id_Base::ResetRelease(), CTextannot_id_Base::ResetVersion(), CTextannot_id_Base::SetAccession(), CTextannot_id_Base::SetName(), CTextannot_id_Base::SetRelease(), and CTextannot_id_Base::SetVersion().

◆ m_Strand ◆ m_string [1/4] ◆ [2/4] NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> { ... } ::m_string

Definition at line 451 of file Annotdesc_.hpp.

◆ [3/4] NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> { ... } ::m_string

Definition at line 888 of file Seqdesc_.hpp.

◆ m_string [4/4] ◆ m_Tech int CMolInfo_Base::m_Tech private ◆ m_Techexp string CMolInfo_Base::m_Techexp private ◆ m_Topology ◆ m_Type [1/3] int CLinkage_evidence_Base::m_Type private ◆ m_Type [2/3] EType CNum_ref_Base::m_Type private ◆ m_Type [3/3] int CSeq_gap_Base::m_Type private ◆ m_Units string CNum_real_Base::m_Units private ◆ m_Version int CTextannot_id_Base::m_Version private ◆ sm_SelectionNames [1/9] const char *const CAnnot_id_Base::sm_SelectionNames staticprivate ◆ sm_SelectionNames [2/9] const char *const CAnnotdesc_Base::sm_SelectionNames staticprivate Initial value:

= {

"not set",

"name",

"title",

"comment",

"pub",

"user",

"create-date",

"update-date",

"src",

"align",

"region"

}

Definition at line 448 of file Annotdesc_.hpp.

Referenced by CAnnotdesc_Base::SelectionName(), and CAnnotdesc_Base::ThrowInvalidSelection().

◆ sm_SelectionNames [3/9] const char *const CDelta_seq_Base::sm_SelectionNames staticprivate ◆ sm_SelectionNames [4/9] const char *const CNumbering_Base::sm_SelectionNames staticprivate ◆ sm_SelectionNames [5/9] const char *const CSeq_annot_Base::C_Data::sm_SelectionNames staticprivate Initial value:

= {

"not set",

"ftable",

"align",

"graph",

"ids",

"locs",

"seq-table"

}

Definition at line 344 of file Seq_annot_.hpp.

◆ sm_SelectionNames [6/9] const char *const CSeq_data_Base::sm_SelectionNames staticprivate Initial value:

= {

"not set",

"iupacna",

"iupacaa",

"ncbi2na",

"ncbi4na",

"ncbi8na",

"ncbipna",

"ncbi8aa",

"ncbieaa",

"ncbipaa",

"ncbistdaa",

"gap"

}

Definition at line 448 of file Seq_data_.hpp.

Referenced by CSeq_data_Base::SelectionName(), and CSeq_data_Base::ThrowInvalidSelection().

◆ sm_SelectionNames [7/9] const char *const CSeq_ext_Base::sm_SelectionNames staticprivate ◆ sm_SelectionNames [8/9] const char *const CSeq_hist_Base::C_Deleted::sm_SelectionNames staticprivate Initial value:

= {

"not set",

"bool",

"date"

}

Definition at line 240 of file Seq_hist_.hpp.

◆ sm_SelectionNames [9/9] const char *const CSeqdesc_Base::sm_SelectionNames staticprivate Initial value:

= {

"not set",

"mol-type",

"modif",

"method",

"name",

"title",

"org",

"comment",

"num",

"maploc",

"pir",

"genbank",

"pub",

"region",

"user",

"sp",

"dbxref",

"embl",

"create-date",

"update-date",

"prf",

"pdb",

"het",

"source",

"molinfo",

"modelev"

}

Definition at line 881 of file Seqdesc_.hpp.

Referenced by CSeqdesc_Base::SelectionName(), and CSeqdesc_Base::ThrowInvalidSelection().

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