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| CVariation_ref_Base (void) |
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virtual | ~CVariation_ref_Base (void) |
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| DECLARE_INTERNAL_TYPE_INFO () |
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bool | IsSetId (void) const |
| ids (i.e., SNP rsid / ssid, dbVar nsv/nssv) expected values include 'dbSNP|rs12334', 'dbSNP|ss12345', 'dbVar|nsv1' More...
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bool | CanGetId (void) const |
| Check if it is safe to call GetId method. More...
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void | ResetId (void) |
| Reset Id data member. More...
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const TId & | GetId (void) const |
| Get the Id member data. More...
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void | SetId (TId &value) |
| Assign a value to Id data member. More...
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TId & | SetId (void) |
| Assign a value to Id data member. More...
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bool | IsSetParent_id (void) const |
| Check if a value has been assigned to Parent_id data member. More...
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bool | CanGetParent_id (void) const |
| Check if it is safe to call GetParent_id method. More...
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void | ResetParent_id (void) |
| Reset Parent_id data member. More...
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const TParent_id & | GetParent_id (void) const |
| Get the Parent_id member data. More...
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void | SetParent_id (TParent_id &value) |
| Assign a value to Parent_id data member. More...
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TParent_id & | SetParent_id (void) |
| Assign a value to Parent_id data member. More...
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bool | IsSetSample_id (void) const |
| Check if a value has been assigned to Sample_id data member. More...
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bool | CanGetSample_id (void) const |
| Check if it is safe to call GetSample_id method. More...
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void | ResetSample_id (void) |
| Reset Sample_id data member. More...
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const TSample_id & | GetSample_id (void) const |
| Get the Sample_id member data. More...
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void | SetSample_id (TSample_id &value) |
| Assign a value to Sample_id data member. More...
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TSample_id & | SetSample_id (void) |
| Assign a value to Sample_id data member. More...
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bool | IsSetOther_ids (void) const |
| Check if a value has been assigned to Other_ids data member. More...
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bool | CanGetOther_ids (void) const |
| Check if it is safe to call GetOther_ids method. More...
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void | ResetOther_ids (void) |
| Reset Other_ids data member. More...
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const TOther_ids & | GetOther_ids (void) const |
| Get the Other_ids member data. More...
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TOther_ids & | SetOther_ids (void) |
| Assign a value to Other_ids data member. More...
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bool | IsSetName (void) const |
| names and synonyms some variants have well-known canonical names and possible accepted synonyms Check if a value has been assigned to Name data member. More...
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bool | CanGetName (void) const |
| Check if it is safe to call GetName method. More...
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void | ResetName (void) |
| Reset Name data member. More...
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const TName & | GetName (void) const |
| Get the Name member data. More...
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void | SetName (const TName &value) |
| Assign a value to Name data member. More...
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void | SetName (TName &&value) |
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TName & | SetName (void) |
| Assign a value to Name data member. More...
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bool | IsSetSynonyms (void) const |
| Check if a value has been assigned to Synonyms data member. More...
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bool | CanGetSynonyms (void) const |
| Check if it is safe to call GetSynonyms method. More...
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void | ResetSynonyms (void) |
| Reset Synonyms data member. More...
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const TSynonyms & | GetSynonyms (void) const |
| Get the Synonyms member data. More...
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TSynonyms & | SetSynonyms (void) |
| Assign a value to Synonyms data member. More...
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bool | IsSetDescription (void) const |
| tag for comment and descriptions Check if a value has been assigned to Description data member. More...
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bool | CanGetDescription (void) const |
| Check if it is safe to call GetDescription method. More...
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void | ResetDescription (void) |
| Reset Description data member. More...
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const TDescription & | GetDescription (void) const |
| Get the Description member data. More...
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void | SetDescription (const TDescription &value) |
| Assign a value to Description data member. More...
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void | SetDescription (TDescription &&value) |
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TDescription & | SetDescription (void) |
| Assign a value to Description data member. More...
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bool | IsSetPhenotype (void) const |
| phenotype Check if a value has been assigned to Phenotype data member. More...
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bool | CanGetPhenotype (void) const |
| Check if it is safe to call GetPhenotype method. More...
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void | ResetPhenotype (void) |
| Reset Phenotype data member. More...
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const TPhenotype & | GetPhenotype (void) const |
| Get the Phenotype member data. More...
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TPhenotype & | SetPhenotype (void) |
| Assign a value to Phenotype data member. More...
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bool | IsSetMethod (void) const |
| Check if a value has been assigned to Method data member. More...
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bool | CanGetMethod (void) const |
| Check if it is safe to call GetMethod method. More...
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void | ResetMethod (void) |
| Reset Method data member. More...
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const TMethod & | GetMethod (void) const |
| Get the Method member data. More...
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TMethod & | SetMethod (void) |
| Assign a value to Method data member. More...
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bool | IsSetPopulation_data (void) const |
| Note about SNP representation and pretinent fields: allele-frequency, population, quality-codes: The case of multiple alleles for a SNP would be described by parent-feature of type Variation-set.diff-alleles, where the child features of type Variation-inst, all at the same location, would describe individual alleles. More...
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bool | CanGetPopulation_data (void) const |
| Check if it is safe to call GetPopulation_data method. More...
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void | ResetPopulation_data (void) |
| Reset Population_data data member. More...
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const TPopulation_data & | GetPopulation_data (void) const |
| Get the Population_data member data. More...
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TPopulation_data & | SetPopulation_data (void) |
| Assign a value to Population_data data member. More...
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bool | IsSetVariant_prop (void) const |
| variant properties bit fields Check if a value has been assigned to Variant_prop data member. More...
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bool | CanGetVariant_prop (void) const |
| Check if it is safe to call GetVariant_prop method. More...
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void | ResetVariant_prop (void) |
| Reset Variant_prop data member. More...
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const TVariant_prop & | GetVariant_prop (void) const |
| Get the Variant_prop member data. More...
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void | SetVariant_prop (TVariant_prop &value) |
| Assign a value to Variant_prop data member. More...
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TVariant_prop & | SetVariant_prop (void) |
| Assign a value to Variant_prop data member. More...
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bool | IsSetValidated (void) const |
| has this variant been validated? DEPRECATED: new field = VariantProperties.other-validation Check if a value has been assigned to Validated data member. More...
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bool | CanGetValidated (void) const |
| Check if it is safe to call GetValidated method. More...
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void | ResetValidated (void) |
| Reset Validated data member. More...
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TValidated | GetValidated (void) const |
| Get the Validated member data. More...
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void | SetValidated (TValidated value) |
| Assign a value to Validated data member. More...
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TValidated & | SetValidated (void) |
| Assign a value to Validated data member. More...
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bool | IsSetClinical_test (void) const |
| link-outs to GeneTests database DEPRECATED - do not use Check if a value has been assigned to Clinical_test data member. More...
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bool | CanGetClinical_test (void) const |
| Check if it is safe to call GetClinical_test method. More...
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void | ResetClinical_test (void) |
| Reset Clinical_test data member. More...
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const TClinical_test & | GetClinical_test (void) const |
| Get the Clinical_test member data. More...
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TClinical_test & | SetClinical_test (void) |
| Assign a value to Clinical_test data member. More...
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bool | IsSetAllele_origin (void) const |
| Check if a value has been assigned to Allele_origin data member. More...
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bool | CanGetAllele_origin (void) const |
| Check if it is safe to call GetAllele_origin method. More...
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void | ResetAllele_origin (void) |
| Reset Allele_origin data member. More...
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TAllele_origin | GetAllele_origin (void) const |
| Get the Allele_origin member data. More...
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void | SetAllele_origin (TAllele_origin value) |
| Assign a value to Allele_origin data member. More...
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TAllele_origin & | SetAllele_origin (void) |
| Assign a value to Allele_origin data member. More...
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bool | IsSetAllele_state (void) const |
| Check if a value has been assigned to Allele_state data member. More...
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bool | CanGetAllele_state (void) const |
| Check if it is safe to call GetAllele_state method. More...
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void | ResetAllele_state (void) |
| Reset Allele_state data member. More...
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TAllele_state | GetAllele_state (void) const |
| Get the Allele_state member data. More...
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void | SetAllele_state (TAllele_state value) |
| Assign a value to Allele_state data member. More...
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TAllele_state & | SetAllele_state (void) |
| Assign a value to Allele_state data member. More...
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bool | IsSetAllele_frequency (void) const |
| NOTE: 'allele-frequency' here refers to the minor allele frequency of the default population DEPRECATED: new field = VariantProperties.allele-frequency Check if a value has been assigned to Allele_frequency data member. More...
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bool | CanGetAllele_frequency (void) const |
| Check if it is safe to call GetAllele_frequency method. More...
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void | ResetAllele_frequency (void) |
| Reset Allele_frequency data member. More...
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TAllele_frequency | GetAllele_frequency (void) const |
| Get the Allele_frequency member data. More...
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void | SetAllele_frequency (TAllele_frequency value) |
| Assign a value to Allele_frequency data member. More...
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TAllele_frequency & | SetAllele_frequency (void) |
| Assign a value to Allele_frequency data member. More...
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bool | IsSetIs_ancestral_allele (void) const |
| is this variant the ancestral allele? DEPRECATED: new field = VariantProperties.is-ancestral-allele Check if a value has been assigned to Is_ancestral_allele data member. More...
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bool | CanGetIs_ancestral_allele (void) const |
| Check if it is safe to call GetIs_ancestral_allele method. More...
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void | ResetIs_ancestral_allele (void) |
| Reset Is_ancestral_allele data member. More...
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TIs_ancestral_allele | GetIs_ancestral_allele (void) const |
| Get the Is_ancestral_allele member data. More...
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void | SetIs_ancestral_allele (TIs_ancestral_allele value) |
| Assign a value to Is_ancestral_allele data member. More...
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TIs_ancestral_allele & | SetIs_ancestral_allele (void) |
| Assign a value to Is_ancestral_allele data member. More...
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bool | IsSetPub (void) const |
| publication support. More...
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bool | CanGetPub (void) const |
| Check if it is safe to call GetPub method. More...
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void | ResetPub (void) |
| Reset Pub data member. More...
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const TPub & | GetPub (void) const |
| Get the Pub member data. More...
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void | SetPub (TPub &value) |
| Assign a value to Pub data member. More...
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TPub & | SetPub (void) |
| Assign a value to Pub data member. More...
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bool | IsSetData (void) const |
| Check if a value has been assigned to Data data member. More...
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bool | CanGetData (void) const |
| Check if it is safe to call GetData method. More...
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void | ResetData (void) |
| Reset Data data member. More...
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const TData & | GetData (void) const |
| Get the Data member data. More...
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void | SetData (TData &value) |
| Assign a value to Data data member. More...
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TData & | SetData (void) |
| Assign a value to Data data member. More...
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bool | IsSetConsequence (void) const |
| Check if a value has been assigned to Consequence data member. More...
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bool | CanGetConsequence (void) const |
| Check if it is safe to call GetConsequence method. More...
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void | ResetConsequence (void) |
| Reset Consequence data member. More...
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const TConsequence & | GetConsequence (void) const |
| Get the Consequence member data. More...
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TConsequence & | SetConsequence (void) |
| Assign a value to Consequence data member. More...
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bool | IsSetLocation (void) const |
| Observed location, if different from the parent set or feature.location. More...
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bool | CanGetLocation (void) const |
| Check if it is safe to call GetLocation method. More...
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void | ResetLocation (void) |
| Reset Location data member. More...
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const TLocation & | GetLocation (void) const |
| Get the Location member data. More...
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void | SetLocation (TLocation &value) |
| Assign a value to Location data member. More...
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TLocation & | SetLocation (void) |
| Assign a value to Location data member. More...
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bool | IsSetExt_locs (void) const |
| reference other locs, e.g. More...
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bool | CanGetExt_locs (void) const |
| Check if it is safe to call GetExt_locs method. More...
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void | ResetExt_locs (void) |
| Reset Ext_locs data member. More...
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const TExt_locs & | GetExt_locs (void) const |
| Get the Ext_locs member data. More...
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TExt_locs & | SetExt_locs (void) |
| Assign a value to Ext_locs data member. More...
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bool | IsSetExt (void) const |
| DEPRECATED - do not use; use Seq-feat.exts instead Check if a value has been assigned to Ext data member. More...
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bool | CanGetExt (void) const |
| Check if it is safe to call GetExt method. More...
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void | ResetExt (void) |
| Reset Ext data member. More...
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const TExt & | GetExt (void) const |
| Get the Ext member data. More...
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void | SetExt (TExt &value) |
| Assign a value to Ext data member. More...
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TExt & | SetExt (void) |
| Assign a value to Ext data member. More...
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bool | IsSetSomatic_origin (void) const |
| Check if a value has been assigned to Somatic_origin data member. More...
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bool | CanGetSomatic_origin (void) const |
| Check if it is safe to call GetSomatic_origin method. More...
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void | ResetSomatic_origin (void) |
| Reset Somatic_origin data member. More...
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const TSomatic_origin & | GetSomatic_origin (void) const |
| Get the Somatic_origin member data. More...
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TSomatic_origin & | SetSomatic_origin (void) |
| Assign a value to Somatic_origin data member. More...
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virtual void | Reset (void) |
| Reset the whole object. More...
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| CSerialObject (void) |
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virtual | ~CSerialObject (void) |
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virtual const CTypeInfo * | GetThisTypeInfo (void) const =0 |
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virtual void | Assign (const CSerialObject &source, ESerialRecursionMode how=eRecursive) |
| Set object to copy of another one. More...
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virtual bool | Equals (const CSerialObject &object, ESerialRecursionMode how=eRecursive) const |
| Check if both objects contain the same values. More...
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virtual void | DebugDump (CDebugDumpContext ddc, unsigned int depth) const |
| Define method for dumping debug information. More...
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void | ThrowUnassigned (TMemberIndex index) const |
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void | ThrowUnassigned (TMemberIndex index, const char *file_name, int file_line) const |
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bool | HasNamespaceName (void) const |
| Check if object data type has namespace name. More...
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const string & | GetNamespaceName (void) const |
| Get namespace name. More...
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bool | HasNamespacePrefix (void) const |
| Check if data type has namespace prefix. More...
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const string & | GetNamespacePrefix (void) const |
| Get namespace prefix. More...
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| CObject (void) |
| Constructor. More...
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| CObject (const CObject &src) |
| Copy constructor. More...
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virtual | ~CObject (void) |
| Destructor. More...
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CObject & | operator= (const CObject &src) THROWS_NONE |
| Assignment operator. More...
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bool | CanBeDeleted (void) const THROWS_NONE |
| Check if object can be deleted. More...
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bool | IsAllocatedInPool (void) const THROWS_NONE |
| Check if object is allocated in memory pool (not system heap) More...
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bool | Referenced (void) const THROWS_NONE |
| Check if object is referenced. More...
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bool | ReferencedOnlyOnce (void) const THROWS_NONE |
| Check if object is referenced only once. More...
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void | AddReference (void) const |
| Add reference to object. More...
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void | RemoveReference (void) const |
| Remove reference to object. More...
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void | ReleaseReference (void) const |
| Remove reference without deleting object. More...
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virtual void | DoNotDeleteThisObject (void) |
| Mark this object as not allocated in heap – do not delete this object. More...
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virtual void | DoDeleteThisObject (void) |
| Mark this object as allocated in heap – object can be deleted. More...
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void * | operator new (size_t size) |
| Define new operator for memory allocation. More...
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void * | operator new[] (size_t size) |
| Define new[] operator for 'array' memory allocation. More...
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void | operator delete (void *ptr) |
| Define delete operator for memory deallocation. More...
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void | operator delete[] (void *ptr) |
| Define delete[] operator for memory deallocation. More...
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void * | operator new (size_t size, void *place) |
| Define new operator. More...
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void | operator delete (void *ptr, void *place) |
| Define delete operator. More...
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void * | operator new (size_t size, CObjectMemoryPool *place) |
| Define new operator using memory pool. More...
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void | operator delete (void *ptr, CObjectMemoryPool *place) |
| Define delete operator. More...
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| CDebugDumpable (void) |
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virtual | ~CDebugDumpable (void) |
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void | DebugDumpText (ostream &out, const string &bundle, unsigned int depth) const |
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void | DebugDumpFormat (CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) const |
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void | DumpToConsole (void) const |
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