NCBI C++ ToolKit
Classes | Typedefs | Enumerations | Enumerator | Functions | Variables
Code generated by DATATOOL from 'seqfeat.asn' (module 'NCBI-RNA')
+ Collaboration diagram for Code generated by DATATOOL from 'seqfeat.asn' (module 'NCBI-RNA'):

Classes

class  CRNA_gen_Base
 CRNA_gen_Base –. More...
 
class  CRNA_qual
 CRNA_qual –. More...
 
class  CRNA_qual_Base
 Additional data values for RNA-gen,. More...
 
class  CRNA_qual_set
 CRNA_qual_set –. More...
 
class  CRNA_qual_set_Base
 CRNA_qual_set_Base –. More...
 
class  CRNA_ref_Base
 *** rnas *********************************************** * * various rnas * minimal RNA sequence More...
 
class  CRNA_ref_Base::C_Ext
 C_Ext –. More...
 
class  CTrna_ext_Base
 tRNA feature extensions More...
 
class  CTrna_ext_Base::C_Aa
 aa this carries More...
 

Typedefs

typedef CSerialObject CRNA_gen_Base::Tparent
 
typedef string CRNA_gen_Base::TClass
 
typedef string CRNA_gen_Base::TProduct
 
typedef CRNA_qual_set CRNA_gen_Base::TQuals
 
typedef Tparent::CMemberIndex< E_memberIndex, 4 > CRNA_gen_Base::TmemberIndex
 
typedef CRNA_qual_Base CRNA_qual::Tparent
 
typedef CSerialObject CRNA_qual_Base::Tparent
 
typedef string CRNA_qual_Base::TQual
 
typedef string CRNA_qual_Base::TVal
 
typedef Tparent::CMemberIndex< E_memberIndex, 3 > CRNA_qual_Base::TmemberIndex
 
typedef CRNA_qual_set_Base CRNA_qual_set::Tparent
 
typedef CSerialObject CRNA_qual_set_Base::Tparent
 
typedef list< CRef< CRNA_qual > > CRNA_qual_set_Base::Tdata
 
typedef CSerialObject CRNA_ref_Base::Tparent
 
typedef CSerialObject CRNA_ref_Base::C_Ext::Tparent
 
typedef string CRNA_ref_Base::C_Ext::TName
 
typedef CTrna_ext CRNA_ref_Base::C_Ext::TTRNA
 
typedef CRNA_gen CRNA_ref_Base::C_Ext::TGen
 
typedef EType CRNA_ref_Base::TType
 
typedef bool CRNA_ref_Base::TPseudo
 
typedef C_Ext CRNA_ref_Base::TExt
 
typedef Tparent::CMemberIndex< E_memberIndex, 4 > CRNA_ref_Base::TmemberIndex
 
typedef CSerialObject CTrna_ext_Base::Tparent
 
typedef CSerialObject CTrna_ext_Base::C_Aa::Tparent
 
typedef int CTrna_ext_Base::C_Aa::TIupacaa
 
typedef int CTrna_ext_Base::C_Aa::TNcbieaa
 
typedef int CTrna_ext_Base::C_Aa::TNcbi8aa
 
typedef int CTrna_ext_Base::C_Aa::TNcbistdaa
 
typedef C_Aa CTrna_ext_Base::TAa
 
typedef list< intCTrna_ext_Base::TCodon
 
typedef CSeq_loc CTrna_ext_Base::TAnticodon
 
typedef Tparent::CMemberIndex< E_memberIndex, 4 > CTrna_ext_Base::TmemberIndex
 

Enumerations

enum class  CRNA_gen_Base::E_memberIndex { CRNA_gen_Base::e__allMandatory = 0 , CRNA_gen_Base::e_class , CRNA_gen_Base::e_product , CRNA_gen_Base::e_quals }
 
enum class  CRNA_qual_Base::E_memberIndex { CRNA_qual_Base::e__allMandatory = 0 , CRNA_qual_Base::e_qual , CRNA_qual_Base::e_val }
 
enum  CRNA_ref_Base::EType {
  CRNA_ref_Base::eType_unknown = 0 , CRNA_ref_Base::eType_premsg = 1 , CRNA_ref_Base::eType_mRNA = 2 , CRNA_ref_Base::eType_tRNA = 3 ,
  CRNA_ref_Base::eType_rRNA = 4 , CRNA_ref_Base::eType_snRNA = 5 , CRNA_ref_Base::eType_scRNA = 6 , CRNA_ref_Base::eType_snoRNA = 7 ,
  CRNA_ref_Base::eType_ncRNA = 8 , CRNA_ref_Base::eType_tmRNA = 9 , CRNA_ref_Base::eType_miscRNA = 10 , CRNA_ref_Base::eType_other = 255
}
 type of RNA feature More...
 
enum  CRNA_ref_Base::C_Ext::E_Choice { CRNA_ref_Base::C_Ext::e_not_set = 0 , CRNA_ref_Base::C_Ext::e_Name , CRNA_ref_Base::C_Ext::e_TRNA , CRNA_ref_Base::C_Ext::e_Gen }
 Choice variants. More...
 
enum  CRNA_ref_Base::C_Ext::E_ChoiceStopper { CRNA_ref_Base::C_Ext::e_MaxChoice = 4 }
 Maximum+1 value of the choice variant enumerator. More...
 
enum class  CRNA_ref_Base::E_memberIndex { CRNA_ref_Base::e__allMandatory = 0 , CRNA_ref_Base::e_type , CRNA_ref_Base::e_pseudo , CRNA_ref_Base::e_ext }
 
enum  CTrna_ext_Base::C_Aa::E_Choice {
  CTrna_ext_Base::C_Aa::e_not_set = 0 , CTrna_ext_Base::C_Aa::e_Iupacaa , CTrna_ext_Base::C_Aa::e_Ncbieaa , CTrna_ext_Base::C_Aa::e_Ncbi8aa ,
  CTrna_ext_Base::C_Aa::e_Ncbistdaa
}
 Choice variants. More...
 
enum  CTrna_ext_Base::C_Aa::E_ChoiceStopper { CTrna_ext_Base::C_Aa::e_MaxChoice = 5 }
 Maximum+1 value of the choice variant enumerator. More...
 
enum class  CTrna_ext_Base::E_memberIndex { CTrna_ext_Base::e__allMandatory = 0 , CTrna_ext_Base::e_aa , CTrna_ext_Base::e_codon , CTrna_ext_Base::e_anticodon }
 

Functions

 CRNA_gen_Base::CRNA_gen_Base (void)
 
virtual CRNA_gen_Base::~CRNA_gen_Base (void)
 
 CRNA_gen_Base::DECLARE_INTERNAL_TYPE_INFO ()
 
bool CRNA_gen_Base::IsSetClass (void) const
 for ncRNAs, the class of non-coding RNA: examples: antisense_RNA, guide_RNA, snRNA Check if a value has been assigned to Class data member. More...
 
bool CRNA_gen_Base::CanGetClass (void) const
 Check if it is safe to call GetClass method. More...
 
void CRNA_gen_Base::ResetClass (void)
 Reset Class data member. More...
 
const TClassCRNA_gen_Base::GetClass (void) const
 Get the Class member data. More...
 
void CRNA_gen_Base::SetClass (const TClass &value)
 Assign a value to Class data member. More...
 
void CRNA_gen_Base::SetClass (TClass &&value)
 
TClassCRNA_gen_Base::SetClass (void)
 Assign a value to Class data member. More...
 
bool CRNA_gen_Base::IsSetProduct (void) const
 Check if a value has been assigned to Product data member. More...
 
bool CRNA_gen_Base::CanGetProduct (void) const
 Check if it is safe to call GetProduct method. More...
 
void CRNA_gen_Base::ResetProduct (void)
 Reset Product data member. More...
 
const TProductCRNA_gen_Base::GetProduct (void) const
 Get the Product member data. More...
 
void CRNA_gen_Base::SetProduct (const TProduct &value)
 Assign a value to Product data member. More...
 
void CRNA_gen_Base::SetProduct (TProduct &&value)
 
TProductCRNA_gen_Base::SetProduct (void)
 Assign a value to Product data member. More...
 
bool CRNA_gen_Base::IsSetQuals (void) const
 e.g., tag_peptide qualifier for tmRNAs Check if a value has been assigned to Quals data member. More...
 
bool CRNA_gen_Base::CanGetQuals (void) const
 Check if it is safe to call GetQuals method. More...
 
void CRNA_gen_Base::ResetQuals (void)
 Reset Quals data member. More...
 
const TQualsCRNA_gen_Base::GetQuals (void) const
 Get the Quals member data. More...
 
void CRNA_gen_Base::SetQuals (TQuals &value)
 Assign a value to Quals data member. More...
 
TQualsCRNA_gen_Base::SetQuals (void)
 Assign a value to Quals data member. More...
 
virtual void CRNA_gen_Base::Reset (void)
 Reset the whole object. More...
 
 CRNA_gen_Base::CRNA_gen_Base (const CRNA_gen_Base &)
 
CRNA_gen_BaseCRNA_gen_Base::operator= (const CRNA_gen_Base &)
 
 CRNA_qual::CRNA_qual (void)
 
 CRNA_qual::~CRNA_qual (void)
 
 CRNA_qual::CRNA_qual (const CRNA_qual &value)
 
CRNA_qualCRNA_qual::operator= (const CRNA_qual &value)
 
 CRNA_qual_Base::CRNA_qual_Base (void)
 
virtual CRNA_qual_Base::~CRNA_qual_Base (void)
 
 CRNA_qual_Base::DECLARE_INTERNAL_TYPE_INFO ()
 
bool CRNA_qual_Base::IsSetQual (void) const
 in a tag (qual), value (val) format Check if a value has been assigned to Qual data member. More...
 
bool CRNA_qual_Base::CanGetQual (void) const
 Check if it is safe to call GetQual method. More...
 
void CRNA_qual_Base::ResetQual (void)
 Reset Qual data member. More...
 
const TQualCRNA_qual_Base::GetQual (void) const
 Get the Qual member data. More...
 
void CRNA_qual_Base::SetQual (const TQual &value)
 Assign a value to Qual data member. More...
 
void CRNA_qual_Base::SetQual (TQual &&value)
 
TQualCRNA_qual_Base::SetQual (void)
 Assign a value to Qual data member. More...
 
bool CRNA_qual_Base::IsSetVal (void) const
 Check if a value has been assigned to Val data member. More...
 
bool CRNA_qual_Base::CanGetVal (void) const
 Check if it is safe to call GetVal method. More...
 
void CRNA_qual_Base::ResetVal (void)
 Reset Val data member. More...
 
const TValCRNA_qual_Base::GetVal (void) const
 Get the Val member data. More...
 
void CRNA_qual_Base::SetVal (const TVal &value)
 Assign a value to Val data member. More...
 
void CRNA_qual_Base::SetVal (TVal &&value)
 
TValCRNA_qual_Base::SetVal (void)
 Assign a value to Val data member. More...
 
virtual void CRNA_qual_Base::Reset (void)
 Reset the whole object. More...
 
 CRNA_qual_Base::CRNA_qual_Base (const CRNA_qual_Base &)
 
CRNA_qual_BaseCRNA_qual_Base::operator= (const CRNA_qual_Base &)
 
 CRNA_qual_set::CRNA_qual_set (void)
 
 CRNA_qual_set::~CRNA_qual_set (void)
 
 CRNA_qual_set::CRNA_qual_set (const CRNA_qual_set &value)
 
CRNA_qual_setCRNA_qual_set::operator= (const CRNA_qual_set &value)
 
 CRNA_qual_set_Base::CRNA_qual_set_Base (void)
 
virtual CRNA_qual_set_Base::~CRNA_qual_set_Base (void)
 
 CRNA_qual_set_Base::DECLARE_INTERNAL_TYPE_INFO ()
 
bool CRNA_qual_set_Base::IsSet (void) const
 Check if a value has been assigned to data member. More...
 
bool CRNA_qual_set_Base::CanGet (void) const
 Check if it is safe to call Get method. More...
 
void CRNA_qual_set_Base::Reset (void)
 Reset data member. More...
 
const TdataCRNA_qual_set_Base::Get (void) const
 Get the member data. More...
 
TdataCRNA_qual_set_Base::Set (void)
 Assign a value to data member. More...
 
 CRNA_qual_set_Base::operator const Tdata & (void) const
 Conversion operator to 'const Tdata' type. More...
 
 CRNA_qual_set_Base::operator Tdata & (void)
 Conversion operator to 'Tdata' type. More...
 
 CRNA_qual_set_Base::CRNA_qual_set_Base (const CRNA_qual_set_Base &)
 
CRNA_qual_set_BaseCRNA_qual_set_Base::operator= (const CRNA_qual_set_Base &)
 
 CRNA_ref_Base::CRNA_ref_Base (void)
 
virtual CRNA_ref_Base::~CRNA_ref_Base (void)
 
 CRNA_ref_Base::DECLARE_INTERNAL_TYPE_INFO ()
 
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME() CRNA_ref_Base::EType (void)
 Access to EType's attributes (values, names) as defined in spec. More...
 
 CRNA_ref_Base::C_Ext::C_Ext (void)
 
 CRNA_ref_Base::C_Ext::~C_Ext (void)
 
 CRNA_ref_Base::C_Ext::DECLARE_INTERNAL_TYPE_INFO ()
 
void CRNA_ref_Base::C_Ext::Reset (void)
 Reset the whole object. More...
 
void CRNA_ref_Base::C_Ext::ResetSelection (void)
 Reset the selection (set it to e_not_set). More...
 
E_Choice CRNA_ref_Base::C_Ext::Which (void) const
 Which variant is currently selected. More...
 
void CRNA_ref_Base::C_Ext::CheckSelected (E_Choice index) const
 Verify selection, throw exception if it differs from the expected. More...
 
void CRNA_ref_Base::C_Ext::ThrowInvalidSelection (E_Choice index) const
 Throw 'InvalidSelection' exception. More...
 
static string CRNA_ref_Base::C_Ext::SelectionName (E_Choice index)
 Retrieve selection name (for diagnostic purposes). More...
 
void CRNA_ref_Base::C_Ext::Select (E_Choice index, EResetVariant reset=eDoResetVariant)
 Select the requested variant if needed. More...
 
void CRNA_ref_Base::C_Ext::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool)
 Select the requested variant if needed, allocating CObject variants from memory pool. More...
 
bool CRNA_ref_Base::C_Ext::IsName (void) const
 Check if variant Name is selected. More...
 
const TNameCRNA_ref_Base::C_Ext::GetName (void) const
 Get the variant data. More...
 
TNameCRNA_ref_Base::C_Ext::SetName (void)
 Select the variant. More...
 
void CRNA_ref_Base::C_Ext::SetName (const TName &value)
 Select the variant and set its data. More...
 
bool CRNA_ref_Base::C_Ext::IsTRNA (void) const
 Check if variant TRNA is selected. More...
 
const TTRNACRNA_ref_Base::C_Ext::GetTRNA (void) const
 Get the variant data. More...
 
TTRNACRNA_ref_Base::C_Ext::SetTRNA (void)
 Select the variant. More...
 
void CRNA_ref_Base::C_Ext::SetTRNA (TTRNA &value)
 Select the variant and set its data. More...
 
bool CRNA_ref_Base::C_Ext::IsGen (void) const
 Check if variant Gen is selected. More...
 
const TGenCRNA_ref_Base::C_Ext::GetGen (void) const
 Get the variant data. More...
 
TGenCRNA_ref_Base::C_Ext::SetGen (void)
 Select the variant. More...
 
void CRNA_ref_Base::C_Ext::SetGen (TGen &value)
 Select the variant and set its data. More...
 
 CRNA_ref_Base::C_Ext::C_Ext (const C_Ext &)
 
C_ExtCRNA_ref_Base::C_Ext::operator= (const C_Ext &)
 
void CRNA_ref_Base::C_Ext::DoSelect (E_Choice index, CObjectMemoryPool *pool=0)
 
bool CRNA_ref_Base::IsSetType (void) const
 Check if a value has been assigned to Type data member. More...
 
bool CRNA_ref_Base::CanGetType (void) const
 Check if it is safe to call GetType method. More...
 
void CRNA_ref_Base::ResetType (void)
 Reset Type data member. More...
 
TType CRNA_ref_Base::GetType (void) const
 Get the Type member data. More...
 
void CRNA_ref_Base::SetType (TType value)
 Assign a value to Type data member. More...
 
TTypeCRNA_ref_Base::SetType (void)
 Assign a value to Type data member. More...
 
bool CRNA_ref_Base::IsSetPseudo (void) const
 Check if a value has been assigned to Pseudo data member. More...
 
bool CRNA_ref_Base::CanGetPseudo (void) const
 Check if it is safe to call GetPseudo method. More...
 
void CRNA_ref_Base::ResetPseudo (void)
 Reset Pseudo data member. More...
 
TPseudo CRNA_ref_Base::GetPseudo (void) const
 Get the Pseudo member data. More...
 
void CRNA_ref_Base::SetPseudo (TPseudo value)
 Assign a value to Pseudo data member. More...
 
TPseudoCRNA_ref_Base::SetPseudo (void)
 Assign a value to Pseudo data member. More...
 
bool CRNA_ref_Base::IsSetExt (void) const
 generic fields for ncRNA, tmRNA, miscRNA Check if a value has been assigned to Ext data member. More...
 
bool CRNA_ref_Base::CanGetExt (void) const
 Check if it is safe to call GetExt method. More...
 
void CRNA_ref_Base::ResetExt (void)
 Reset Ext data member. More...
 
const TExtCRNA_ref_Base::GetExt (void) const
 Get the Ext member data. More...
 
void CRNA_ref_Base::SetExt (TExt &value)
 Assign a value to Ext data member. More...
 
TExtCRNA_ref_Base::SetExt (void)
 Assign a value to Ext data member. More...
 
virtual void CRNA_ref_Base::Reset (void)
 Reset the whole object. More...
 
 CRNA_ref_Base::CRNA_ref_Base (const CRNA_ref_Base &)
 
CRNA_ref_BaseCRNA_ref_Base::operator= (const CRNA_ref_Base &)
 
 CTrna_ext_Base::CTrna_ext_Base (void)
 
virtual CTrna_ext_Base::~CTrna_ext_Base (void)
 
 CTrna_ext_Base::DECLARE_INTERNAL_TYPE_INFO ()
 
 CTrna_ext_Base::C_Aa::C_Aa (void)
 
 CTrna_ext_Base::C_Aa::~C_Aa (void)
 
 CTrna_ext_Base::C_Aa::DECLARE_INTERNAL_TYPE_INFO ()
 
void CTrna_ext_Base::C_Aa::Reset (void)
 Reset the whole object. More...
 
void CTrna_ext_Base::C_Aa::ResetSelection (void)
 Reset the selection (set it to e_not_set). More...
 
E_Choice CTrna_ext_Base::C_Aa::Which (void) const
 Which variant is currently selected. More...
 
void CTrna_ext_Base::C_Aa::CheckSelected (E_Choice index) const
 Verify selection, throw exception if it differs from the expected. More...
 
void CTrna_ext_Base::C_Aa::ThrowInvalidSelection (E_Choice index) const
 Throw 'InvalidSelection' exception. More...
 
static string CTrna_ext_Base::C_Aa::SelectionName (E_Choice index)
 Retrieve selection name (for diagnostic purposes). More...
 
void CTrna_ext_Base::C_Aa::Select (E_Choice index, EResetVariant reset=eDoResetVariant)
 Select the requested variant if needed. More...
 
void CTrna_ext_Base::C_Aa::Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool)
 Select the requested variant if needed, allocating CObject variants from memory pool. More...
 
bool CTrna_ext_Base::C_Aa::IsIupacaa (void) const
 Check if variant Iupacaa is selected. More...
 
TIupacaa CTrna_ext_Base::C_Aa::GetIupacaa (void) const
 Get the variant data. More...
 
TIupacaaCTrna_ext_Base::C_Aa::SetIupacaa (void)
 Select the variant. More...
 
void CTrna_ext_Base::C_Aa::SetIupacaa (TIupacaa value)
 Select the variant and set its data. More...
 
bool CTrna_ext_Base::C_Aa::IsNcbieaa (void) const
 Check if variant Ncbieaa is selected. More...
 
TNcbieaa CTrna_ext_Base::C_Aa::GetNcbieaa (void) const
 Get the variant data. More...
 
TNcbieaaCTrna_ext_Base::C_Aa::SetNcbieaa (void)
 Select the variant. More...
 
void CTrna_ext_Base::C_Aa::SetNcbieaa (TNcbieaa value)
 Select the variant and set its data. More...
 
bool CTrna_ext_Base::C_Aa::IsNcbi8aa (void) const
 Check if variant Ncbi8aa is selected. More...
 
TNcbi8aa CTrna_ext_Base::C_Aa::GetNcbi8aa (void) const
 Get the variant data. More...
 
TNcbi8aaCTrna_ext_Base::C_Aa::SetNcbi8aa (void)
 Select the variant. More...
 
void CTrna_ext_Base::C_Aa::SetNcbi8aa (TNcbi8aa value)
 Select the variant and set its data. More...
 
bool CTrna_ext_Base::C_Aa::IsNcbistdaa (void) const
 Check if variant Ncbistdaa is selected. More...
 
TNcbistdaa CTrna_ext_Base::C_Aa::GetNcbistdaa (void) const
 Get the variant data. More...
 
TNcbistdaaCTrna_ext_Base::C_Aa::SetNcbistdaa (void)
 Select the variant. More...
 
void CTrna_ext_Base::C_Aa::SetNcbistdaa (TNcbistdaa value)
 Select the variant and set its data. More...
 
 CTrna_ext_Base::C_Aa::C_Aa (const C_Aa &)
 
C_AaCTrna_ext_Base::C_Aa::operator= (const C_Aa &)
 
void CTrna_ext_Base::C_Aa::DoSelect (E_Choice index, CObjectMemoryPool *pool=0)
 
bool CTrna_ext_Base::IsSetAa (void) const
 Check if a value has been assigned to Aa data member. More...
 
bool CTrna_ext_Base::CanGetAa (void) const
 Check if it is safe to call GetAa method. More...
 
void CTrna_ext_Base::ResetAa (void)
 Reset Aa data member. More...
 
const TAaCTrna_ext_Base::GetAa (void) const
 Get the Aa member data. More...
 
void CTrna_ext_Base::SetAa (TAa &value)
 Assign a value to Aa data member. More...
 
TAaCTrna_ext_Base::SetAa (void)
 Assign a value to Aa data member. More...
 
bool CTrna_ext_Base::IsSetCodon (void) const
 codon(s) as in Genetic-code Check if a value has been assigned to Codon data member. More...
 
bool CTrna_ext_Base::CanGetCodon (void) const
 Check if it is safe to call GetCodon method. More...
 
void CTrna_ext_Base::ResetCodon (void)
 Reset Codon data member. More...
 
const TCodonCTrna_ext_Base::GetCodon (void) const
 Get the Codon member data. More...
 
TCodonCTrna_ext_Base::SetCodon (void)
 Assign a value to Codon data member. More...
 
bool CTrna_ext_Base::IsSetAnticodon (void) const
 location of anticodon Check if a value has been assigned to Anticodon data member. More...
 
bool CTrna_ext_Base::CanGetAnticodon (void) const
 Check if it is safe to call GetAnticodon method. More...
 
void CTrna_ext_Base::ResetAnticodon (void)
 Reset Anticodon data member. More...
 
const TAnticodonCTrna_ext_Base::GetAnticodon (void) const
 Get the Anticodon member data. More...
 
void CTrna_ext_Base::SetAnticodon (TAnticodon &value)
 Assign a value to Anticodon data member. More...
 
TAnticodonCTrna_ext_Base::SetAnticodon (void)
 Assign a value to Anticodon data member. More...
 
virtual void CTrna_ext_Base::Reset (void)
 Reset the whole object. More...
 
 CTrna_ext_Base::CTrna_ext_Base (const CTrna_ext_Base &)
 
CTrna_ext_BaseCTrna_ext_Base::operator= (const CTrna_ext_Base &)
 

Variables

Uint4 CRNA_gen_Base::m_set_State [1]
 
string CRNA_gen_Base::m_Class
 
string CRNA_gen_Base::m_Product
 
CRef< TQualsCRNA_gen_Base::m_Quals
 
Uint4 CRNA_qual_Base::m_set_State [1]
 
string CRNA_qual_Base::m_Qual
 
string CRNA_qual_Base::m_Val
 
Uint4 CRNA_qual_set_Base::m_set_State [1]
 
list< CRef< CRNA_qual > > CRNA_qual_set_Base::m_data
 
E_Choice CRNA_ref_Base::C_Ext::m_choice
 
static const char *const CRNA_ref_Base::C_Ext::sm_SelectionNames []
 
NCBI_NS_NCBI::CUnionBuffer< NCBI_NS_STD::string >   CRNA_ref_Base::C_Ext::m_string
 
NCBI_NS_NCBI::CSerialObject *   CRNA_ref_Base::C_Ext::m_object
 
union {
   NCBI_NS_NCBI::CUnionBuffer< NCBI_NS_STD::string >   CRNA_ref_Base::C_Ext::m_string
 
   NCBI_NS_NCBI::CSerialObject *   CRNA_ref_Base::C_Ext::m_object
 
}; 
 
Uint4 CRNA_ref_Base::m_set_State [1]
 
EType CRNA_ref_Base::m_Type
 
bool CRNA_ref_Base::m_Pseudo
 
CRef< TExtCRNA_ref_Base::m_Ext
 
E_Choice CTrna_ext_Base::C_Aa::m_choice
 
static const char *const CTrna_ext_Base::C_Aa::sm_SelectionNames []
 
TIupacaa   CTrna_ext_Base::C_Aa::m_Iupacaa
 
TNcbieaa   CTrna_ext_Base::C_Aa::m_Ncbieaa
 
TNcbi8aa   CTrna_ext_Base::C_Aa::m_Ncbi8aa
 
TNcbistdaa   CTrna_ext_Base::C_Aa::m_Ncbistdaa
 
union {
   TIupacaa   CTrna_ext_Base::C_Aa::m_Iupacaa
 
   TNcbieaa   CTrna_ext_Base::C_Aa::m_Ncbieaa
 
   TNcbi8aa   CTrna_ext_Base::C_Aa::m_Ncbi8aa
 
   TNcbistdaa   CTrna_ext_Base::C_Aa::m_Ncbistdaa
 
}; 
 
Uint4 CTrna_ext_Base::m_set_State [1]
 
CRef< TAaCTrna_ext_Base::m_Aa
 
list< intCTrna_ext_Base::m_Codon
 
CRef< TAnticodonCTrna_ext_Base::m_Anticodon
 

Detailed Description

Typedef Documentation

◆ TAa

Definition at line 305 of file Trna_ext_.hpp.

◆ TAnticodon

Definition at line 307 of file Trna_ext_.hpp.

◆ TClass

Definition at line 89 of file RNA_gen_.hpp.

◆ TCodon

typedef list< int > CTrna_ext_Base::TCodon

Definition at line 306 of file Trna_ext_.hpp.

◆ Tdata

Definition at line 89 of file RNA_qual_set_.hpp.

◆ TExt

Definition at line 297 of file RNA_ref_.hpp.

◆ TGen

Definition at line 193 of file RNA_ref_.hpp.

◆ TIupacaa

Definition at line 169 of file Trna_ext_.hpp.

◆ TmemberIndex [1/4]

Definition at line 100 of file RNA_gen_.hpp.

◆ TmemberIndex [2/4]

Definition at line 95 of file RNA_qual_.hpp.

◆ TmemberIndex [3/4]

Definition at line 306 of file RNA_ref_.hpp.

◆ TmemberIndex [4/4]

Definition at line 316 of file Trna_ext_.hpp.

◆ TName

Definition at line 191 of file RNA_ref_.hpp.

◆ TNcbi8aa

Definition at line 171 of file Trna_ext_.hpp.

◆ TNcbieaa

Definition at line 170 of file Trna_ext_.hpp.

◆ TNcbistdaa

Definition at line 172 of file Trna_ext_.hpp.

◆ Tparent [1/9]

Definition at line 78 of file RNA_gen_.hpp.

◆ Tparent [2/9]

Definition at line 67 of file RNA_qual.hpp.

◆ Tparent [3/9]

Definition at line 75 of file RNA_qual_.hpp.

◆ Tparent [4/9]

Definition at line 67 of file RNA_qual_set.hpp.

◆ Tparent [5/9]

Definition at line 78 of file RNA_qual_set_.hpp.

◆ Tparent [6/9]

Definition at line 84 of file RNA_ref_.hpp.

◆ Tparent [7/9]

Definition at line 120 of file RNA_ref_.hpp.

◆ Tparent [8/9]

Definition at line 79 of file Trna_ext_.hpp.

◆ Tparent [9/9]

Definition at line 97 of file Trna_ext_.hpp.

◆ TProduct

Definition at line 90 of file RNA_gen_.hpp.

◆ TPseudo

Definition at line 296 of file RNA_ref_.hpp.

◆ TQual

Definition at line 86 of file RNA_qual_.hpp.

◆ TQuals

Definition at line 91 of file RNA_gen_.hpp.

◆ TTRNA

Definition at line 192 of file RNA_ref_.hpp.

◆ TType

Definition at line 295 of file RNA_ref_.hpp.

◆ TVal

Definition at line 87 of file RNA_qual_.hpp.

Enumeration Type Documentation

◆ E_Choice [1/2]

Choice variants.

Enumerator
e_not_set 

No variant selected.

e_Name 

for naming "other" type

e_TRNA 

for tRNAs

e_Gen 

Definition at line 132 of file RNA_ref_.hpp.

◆ E_Choice [2/2]

Choice variants.

Enumerator
e_not_set 

No variant selected.

e_Iupacaa 
e_Ncbieaa 
e_Ncbi8aa 
e_Ncbistdaa 

Definition at line 109 of file Trna_ext_.hpp.

◆ E_ChoiceStopper [1/2]

Maximum+1 value of the choice variant enumerator.

Enumerator
e_MaxChoice 

== e_Gen+1

Definition at line 139 of file RNA_ref_.hpp.

◆ E_ChoiceStopper [2/2]

Maximum+1 value of the choice variant enumerator.

Enumerator
e_MaxChoice 

== e_Ncbistdaa+1

Definition at line 117 of file Trna_ext_.hpp.

◆ E_memberIndex [1/4]

Enumerator
e__allMandatory 
e_class 
e_product 
e_quals 

Definition at line 94 of file RNA_gen_.hpp.

◆ E_memberIndex [2/4]

Enumerator
e__allMandatory 
e_qual 
e_val 

Definition at line 90 of file RNA_qual_.hpp.

◆ E_memberIndex [3/4]

Enumerator
e__allMandatory 
e_type 
e_pseudo 
e_ext 

Definition at line 300 of file RNA_ref_.hpp.

◆ E_memberIndex [4/4]

Enumerator
e__allMandatory 
e_aa 
e_codon 
e_anticodon 

Definition at line 310 of file Trna_ext_.hpp.

◆ EType

enum CRNA_ref_Base::EType ( void  )

type of RNA feature

Enumerator
eType_unknown 
eType_premsg 
eType_mRNA 
eType_tRNA 
eType_rRNA 
eType_snRNA 

will become ncRNA, with RNA-gen.class = snRNA

eType_scRNA 

will become ncRNA, with RNA-gen.class = scRNA

eType_snoRNA 

will become ncRNA, with RNA-gen.class = snoRNA

eType_ncRNA 

non-coding RNA; subsumes snRNA, scRNA, snoRNA

eType_tmRNA 
eType_miscRNA 
eType_other 

Definition at line 95 of file RNA_ref_.hpp.

Function Documentation

◆ C_Aa() [1/2]

CTrna_ext_Base::C_Aa::C_Aa ( const C_Aa )
private

◆ C_Aa() [2/2]

END_CHOICE_INFO CTrna_ext_Base::C_Aa::C_Aa ( void  )

Definition at line 118 of file Trna_ext_.cpp.

◆ C_Ext() [1/2]

CRNA_ref_Base::C_Ext::C_Ext ( const C_Ext )
private

◆ C_Ext() [2/2]

END_CHOICE_INFO CRNA_ref_Base::C_Ext::C_Ext ( void  )

Definition at line 194 of file RNA_ref_.cpp.

◆ CanGet()

bool CRNA_qual_set_Base::CanGet ( void  ) const
inline

Check if it is safe to call Get method.

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

Definition at line 158 of file RNA_qual_set_.hpp.

◆ CanGetAa()

bool CTrna_ext_Base::CanGetAa ( void  ) const
inline

Check if it is safe to call GetAa method.

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

Definition at line 597 of file Trna_ext_.hpp.

References CTrna_ext_Base::IsSetAa().

Referenced by get_my_feat_type(), get_trna_string(), and CTrna_ext_Base::GetAa().

◆ CanGetAnticodon()

bool CTrna_ext_Base::CanGetAnticodon ( void  ) const
inline

Check if it is safe to call GetAnticodon method.

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

Definition at line 643 of file Trna_ext_.hpp.

References CTrna_ext_Base::IsSetAnticodon().

Referenced by CTrna_ext_Base::GetAnticodon(), CAntiCodonColumn::GetFromFeat(), and CRNAValidator::x_ValidateTrnaData().

◆ CanGetClass()

bool CRNA_gen_Base::CanGetClass ( void  ) const
inline

Check if it is safe to call GetClass method.

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

Definition at line 253 of file RNA_gen_.hpp.

References CRNA_gen_Base::IsSetClass().

Referenced by CRNA_gen_Base::GetClass(), and CRna_feat_type::Match().

◆ CanGetCodon()

bool CTrna_ext_Base::CanGetCodon ( void  ) const
inline

Check if it is safe to call GetCodon method.

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

Definition at line 618 of file Trna_ext_.hpp.

Referenced by CCodonsRecColumn::GetFromFeat().

◆ CanGetExt()

bool CRNA_ref_Base::CanGetExt ( void  ) const
inline

◆ CanGetProduct()

bool CRNA_gen_Base::CanGetProduct ( void  ) const
inline

Check if it is safe to call GetProduct method.

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

Definition at line 300 of file RNA_gen_.hpp.

References CRNA_gen_Base::IsSetProduct().

Referenced by CRNA_gen_Base::GetProduct(), and GetRNAProductString().

◆ CanGetPseudo()

bool CRNA_ref_Base::CanGetPseudo ( void  ) const
inline

Check if it is safe to call GetPseudo method.

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

Definition at line 563 of file RNA_ref_.hpp.

References CRNA_ref_Base::IsSetPseudo().

Referenced by get_my_feat_type(), get_trna_string(), and CRNA_ref_Base::GetPseudo().

◆ CanGetQual()

bool CRNA_qual_Base::CanGetQual ( void  ) const
inline

Check if it is safe to call GetQual method.

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

Definition at line 208 of file RNA_qual_.hpp.

References CRNA_qual_Base::IsSetQual().

Referenced by CRNA_qual_Base::GetQual().

◆ CanGetQuals()

bool CRNA_gen_Base::CanGetQuals ( void  ) const
inline

Check if it is safe to call GetQuals method.

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

Definition at line 347 of file RNA_gen_.hpp.

References CRNA_gen_Base::IsSetQuals().

Referenced by CTagPeptideColumn::GetFromFeat(), and CRNA_gen_Base::GetQuals().

◆ CanGetType()

bool CRNA_ref_Base::CanGetType ( void  ) const
inline

Check if it is safe to call GetType method.

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

Definition at line 516 of file RNA_ref_.hpp.

References CRNA_ref_Base::IsSetType().

Referenced by get_my_feat_type(), get_trna_string(), GetRNAname(), CRNA_ref_Base::GetType(), and CFeatureGenerator::SImplementation::x_SetExceptText().

◆ CanGetVal()

bool CRNA_qual_Base::CanGetVal ( void  ) const
inline

Check if it is safe to call GetVal method.

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

Definition at line 255 of file RNA_qual_.hpp.

References CRNA_qual_Base::IsSetVal().

Referenced by CRNA_qual_Base::GetVal().

◆ CheckSelected() [1/2]

void CRNA_ref_Base::C_Ext::CheckSelected ( E_Choice  index) const
inline

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

Parameters
indexExpected selection.

Definition at line 455 of file RNA_ref_.hpp.

◆ CheckSelected() [2/2]

void CTrna_ext_Base::C_Aa::CheckSelected ( E_Choice  index) const
inline

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

Parameters
indexExpected selection.

Definition at line 460 of file Trna_ext_.hpp.

◆ CRNA_gen_Base() [1/2]

CRNA_gen_Base::CRNA_gen_Base ( const CRNA_gen_Base )
private

◆ CRNA_gen_Base() [2/2]

END_CLASS_INFO CRNA_gen_Base::CRNA_gen_Base ( void  )

Definition at line 100 of file RNA_gen_.cpp.

References CRNA_gen_Base::m_set_State.

◆ CRNA_qual() [1/2]

CRNA_qual::CRNA_qual ( const CRNA_qual value)
private

◆ CRNA_qual() [2/2]

CRNA_qual::CRNA_qual ( void  )
inline

Definition at line 86 of file RNA_qual.hpp.

◆ CRNA_qual_Base() [1/2]

CRNA_qual_Base::CRNA_qual_Base ( const CRNA_qual_Base )
private

◆ CRNA_qual_Base() [2/2]

END_CLASS_INFO CRNA_qual_Base::CRNA_qual_Base ( void  )

Definition at line 80 of file RNA_qual_.cpp.

References CRNA_qual_Base::m_set_State.

◆ CRNA_qual_set() [1/2]

CRNA_qual_set::CRNA_qual_set ( const CRNA_qual_set value)
private

◆ CRNA_qual_set() [2/2]

CRNA_qual_set::CRNA_qual_set ( void  )
inline

Definition at line 86 of file RNA_qual_set.hpp.

◆ CRNA_qual_set_Base() [1/2]

CRNA_qual_set_Base::CRNA_qual_set_Base ( const CRNA_qual_set_Base )
private

◆ CRNA_qual_set_Base() [2/2]

END_CLASS_INFO CRNA_qual_set_Base::CRNA_qual_set_Base ( void  )

Definition at line 68 of file RNA_qual_set_.cpp.

References CRNA_qual_set_Base::m_set_State.

◆ CRNA_ref_Base() [1/2]

CRNA_ref_Base::CRNA_ref_Base ( const CRNA_ref_Base )
private

◆ CRNA_ref_Base() [2/2]

END_CLASS_INFO CRNA_ref_Base::CRNA_ref_Base ( void  )

Definition at line 243 of file RNA_ref_.cpp.

References CRNA_ref_Base::m_set_State.

◆ CTrna_ext_Base() [1/2]

CTrna_ext_Base::CTrna_ext_Base ( const CTrna_ext_Base )
private

◆ CTrna_ext_Base() [2/2]

END_CLASS_INFO CTrna_ext_Base::CTrna_ext_Base ( void  )

Definition at line 190 of file Trna_ext_.cpp.

References CTrna_ext_Base::m_set_State.

◆ DECLARE_INTERNAL_TYPE_INFO() [1/7]

CRNA_gen_Base::DECLARE_INTERNAL_TYPE_INFO ( )

◆ DECLARE_INTERNAL_TYPE_INFO() [2/7]

CRNA_qual_Base::DECLARE_INTERNAL_TYPE_INFO ( )

◆ DECLARE_INTERNAL_TYPE_INFO() [3/7]

CRNA_qual_set_Base::DECLARE_INTERNAL_TYPE_INFO ( )

◆ DECLARE_INTERNAL_TYPE_INFO() [4/7]

CRNA_ref_Base::DECLARE_INTERNAL_TYPE_INFO ( )

◆ DECLARE_INTERNAL_TYPE_INFO() [5/7]

CRNA_ref_Base::C_Ext::DECLARE_INTERNAL_TYPE_INFO ( )

◆ DECLARE_INTERNAL_TYPE_INFO() [6/7]

CTrna_ext_Base::DECLARE_INTERNAL_TYPE_INFO ( )

◆ DECLARE_INTERNAL_TYPE_INFO() [7/7]

CTrna_ext_Base::C_Aa::DECLARE_INTERNAL_TYPE_INFO ( )

◆ DoSelect() [1/2]

void CRNA_ref_Base::C_Ext::DoSelect ( E_Choice  index,
CObjectMemoryPool pool = 0 
)
private

Definition at line 93 of file RNA_ref_.cpp.

References CObject::AddReference().

◆ DoSelect() [2/2]

void CTrna_ext_Base::C_Aa::DoSelect ( E_Choice  index,
CObjectMemoryPool pool = 0 
)
private

Definition at line 62 of file Trna_ext_.cpp.

◆ EType()

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

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

◆ Get()

const CRNA_qual_set_Base::Tdata & CRNA_qual_set_Base::Get ( void  ) const
inline

Get the member data.

Returns
Reference to the member data.

Definition at line 164 of file RNA_qual_set_.hpp.

References CRNA_qual_set_Base::m_data.

Referenced by CTagPeptideColumn::GetFromFeat().

◆ GetAa()

const CTrna_ext_Base::TAa & CTrna_ext_Base::GetAa ( void  ) const
inline

◆ GetAnticodon()

const CTrna_ext_Base::TAnticodon & CTrna_ext_Base::GetAnticodon ( void  ) const
inline

◆ GetClass()

const CRNA_gen_Base::TClass & CRNA_gen_Base::GetClass ( void  ) const
inline

◆ GetCodon()

const CTrna_ext_Base::TCodon & CTrna_ext_Base::GetCodon ( void  ) const
inline

◆ GetExt()

const CRNA_ref_Base::TExt & CRNA_ref_Base::GetExt ( void  ) const
inline

Get the Ext member data.

Returns
Reference to the member data.

Definition at line 616 of file RNA_ref_.hpp.

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

Referenced by AddMiscRNAFeatures(), CReportTrim::AdjustAndTranslate(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CFixProductNames::apply(), CDiscrepancyVisitorImpl< _Name >::Autofix(), BOOST_AUTO_TEST_CASE(), CEditObjectSeq_feat::CanClose(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), get_my_feat_type(), get_trna_string(), CEntrezgene::GetDescription(), CNcrnaClassColumn::GetFromFeat(), CCodonsRecColumn::GetFromFeat(), CAntiCodonColumn::GetFromFeat(), CTagPeptideColumn::GetFromFeat(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), GetRNAname(), CRNA_ref::GetRnaProductName(), GetRnaRef(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CRna_feat_type::Match(), CEditingActionFeatRnaQual::Modify(), CSuspectProductRulesEditor::OnApplyFixes(), CSuspectProductRulesEditor::OnListMatches(), CFindASN1Dlg::ReplaceInFeature(), CEditingActionFeatCodonsRecognized::ResetValue(), CEditingActionFeatAnticodon::ResetValue(), CEditingActionFeatNcRnaClass::ResetValue(), s_CheckQuals_ncRNA(), s_GetmRNAName(), IEditingActionFeat::s_GetncRNAClass(), IEditingActionFeat::s_IsSetncRNAClass(), s_SetProtRef(), s_UpdateCodeBreaksAndAnticodons(), CRNA_ref::SetRnaProductName(), CEditingActionFeatRnaQual::SetValue(), TestTrnaAnticodon(), TestTrnaAnticodonFromLastBioseq(), CValidError_bioseq::ValidateSeqFeatContext(), WeDontNeedToJoinThis(), CFastaOstreamEx::x_AddncRNAClassAttribute(), CFeatureTableReader_Imp::x_AddQualifierToRna(), CFeatGapInfo::x_AdjustAnticodons(), CSequenceUpdater::x_FuseFeatures(), CAutoDefNcRNAClause::x_GetProductName(), CSeqFeatData::x_InitFeatDataInfo(), CAutoDef::x_Is5SList(), CValidError_bioseq::x_IsMicroRNA(), CFeaturePropagator::x_PropagatetRNA(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), CSingleFeatValidator::x_ValidateNonImpFeat(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaData(), CGff3Writer::xAssignFeatureAttributeNote(), and CSoMap::xMapNcRna().

◆ GetGen()

const CRNA_ref_Base::C_Ext::TGen & CRNA_ref_Base::C_Ext::GetGen ( void  ) const

◆ GetIupacaa()

CTrna_ext_Base::C_Aa::TIupacaa CTrna_ext_Base::C_Aa::GetIupacaa ( void  ) const
inline

◆ GetName()

const CRNA_ref_Base::C_Ext::TName & CRNA_ref_Base::C_Ext::GetName ( void  ) const
inline

◆ GetNcbi8aa()

CTrna_ext_Base::C_Aa::TNcbi8aa CTrna_ext_Base::C_Aa::GetNcbi8aa ( void  ) const
inline

Get the variant data.

Returns
Copy of the variant data.

Definition at line 543 of file Trna_ext_.hpp.

Referenced by s_ConvertTrnaAaToLetter(), s_GetAaAsChar(), CFeatureItem::x_AddFTableAnticodon(), and CRNAValidator::x_ValidateTrnaCodons().

◆ GetNcbieaa()

CTrna_ext_Base::C_Aa::TNcbieaa CTrna_ext_Base::C_Aa::GetNcbieaa ( void  ) const
inline

◆ GetNcbistdaa()

CTrna_ext_Base::C_Aa::TNcbistdaa CTrna_ext_Base::C_Aa::GetNcbistdaa ( void  ) const
inline

Get the variant data.

Returns
Copy of the variant data.

Definition at line 570 of file Trna_ext_.hpp.

Referenced by s_ConvertTrnaAaToLetter(), and CFeatureItem::x_AddFTableAnticodon().

◆ GetProduct()

const CRNA_gen_Base::TProduct & CRNA_gen_Base::GetProduct ( void  ) const
inline

◆ GetPseudo()

CRNA_ref_Base::TPseudo CRNA_ref_Base::GetPseudo ( void  ) const
inline

Get the Pseudo member data.

Returns
Copy of the member data.

Definition at line 576 of file RNA_ref_.hpp.

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

Referenced by CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), get_my_feat_type(), and get_trna_string().

◆ GetQual()

const CRNA_qual_Base::TQual & CRNA_qual_Base::GetQual ( void  ) const
inline

Get the Qual member data.

Returns
Reference to the member data.

Definition at line 214 of file RNA_qual_.hpp.

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

◆ GetQuals()

const CRNA_gen_Base::TQuals & CRNA_gen_Base::GetQuals ( void  ) const
inline

Get the Quals member data.

Returns
Reference to the member data.

Definition at line 353 of file RNA_gen_.hpp.

References CRNA_gen_Base::CanGetQuals(), CRNA_gen_Base::m_Quals, and CSerialObject::ThrowUnassigned().

Referenced by CTagPeptideColumn::GetFromFeat(), CFindASN1Dlg::ReplaceInFeature(), and CFeatureItem::x_AddQualsRna().

◆ GetTRNA()

const CRNA_ref_Base::C_Ext::TTRNA & CRNA_ref_Base::C_Ext::GetTRNA ( void  ) const

◆ GetType()

CRNA_ref_Base::TType CRNA_ref_Base::GetType ( void  ) const
inline

Get the Type member data.

Returns
Copy of the member data.

Definition at line 529 of file RNA_ref_.hpp.

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

Referenced by BOOST_AUTO_TEST_CASE(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), fta_parse_rrna_feat(), fta_rnas_cds_feat(), get_my_feat_type(), get_trna_string(), GetFeatNameAndLoc(), CCdsFromGeneMrnaExon::GetSuggestedName(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CRna_feat_type::Match(), CSuspectProductRulesEditor::OnApplyFixes(), CSuspectProductRulesEditor::OnListMatches(), CNewCleanup_imp::RnarefBC(), CRNA_ref::SetRnaProductName(), CEditingActionFeatCodonsRecognized::SetValue(), CEditingActionFeatAnticodon::SetValue(), CEditingActionFeatNcRnaClass::SetValue(), CEditingActionFeatProduct::SetValue(), UpdatemRNAProduct(), CValidError_bioseq::ValidateSeqFeatContext(), WeDontNeedToJoinThis(), CFeatureTableReader_Imp::x_AddQualifierToFeature(), CFeatureTableReader_Imp::x_AddQualifierToRna(), CSeqFeatData::x_InitFeatDataInfo(), CFeatureGenerator::SImplementation::x_SetExceptText(), CValidError_bioseq::x_ValidateOverlappingRNAFeatures(), CRNAValidator::x_ValidateRnaProductType(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaData(), CRNAValidator::x_ValidateTrnaOverlap(), CRNAValidator::x_ValidateTrnaType(), CGff3Writer::xAssignFeatureAttributeNote(), and CSoMap::xMapNcRna().

◆ GetVal()

const CRNA_qual_Base::TVal & CRNA_qual_Base::GetVal ( void  ) const
inline

Get the Val member data.

Returns
Reference to the member data.

Definition at line 261 of file RNA_qual_.hpp.

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

Referenced by CEditingActionFeatRnaQual::GetValue().

◆ IsGen()

bool CRNA_ref_Base::C_Ext::IsGen ( void  ) const
inline

◆ IsIupacaa()

bool CTrna_ext_Base::C_Aa::IsIupacaa ( void  ) const
inline

Check if variant Iupacaa is selected.

Iupacaa type is defined as 'typedef int TIupacaa'.

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

Definition at line 483 of file Trna_ext_.hpp.

Referenced by s_GetTrnaProduct(), and CNewCleanup_imp::x_SeqFeatTRNABC().

◆ IsName()

bool CRNA_ref_Base::C_Ext::IsName ( void  ) const
inline

◆ IsNcbi8aa()

bool CTrna_ext_Base::C_Aa::IsNcbi8aa ( void  ) const
inline

Check if variant Ncbi8aa is selected.

Ncbi8aa type is defined as 'typedef int TNcbi8aa'.

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

Definition at line 537 of file Trna_ext_.hpp.

◆ IsNcbieaa()

bool CTrna_ext_Base::C_Aa::IsNcbieaa ( void  ) const
inline

Check if variant Ncbieaa is selected.

Ncbieaa type is defined as 'typedef int TNcbieaa'.

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

Definition at line 510 of file Trna_ext_.hpp.

Referenced by get_aa_from_trna(), get_my_feat_type(), get_trna_string(), CWriteUtil::GetTrnaProductName(), s_GetTrnaProduct(), CFeatureItem::x_AddQualsRna(), and CNewCleanup_imp::x_HandleTrnaProductGBQual().

◆ IsNcbistdaa()

bool CTrna_ext_Base::C_Aa::IsNcbistdaa ( void  ) const
inline

Check if variant Ncbistdaa is selected.

Ncbistdaa type is defined as 'typedef int TNcbistdaa'.

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

Definition at line 564 of file Trna_ext_.hpp.

◆ IsSet()

bool CRNA_qual_set_Base::IsSet ( void  ) const
inline

Check if a value has been assigned to data member.

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

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

Definition at line 152 of file RNA_qual_set_.hpp.

References CRNA_qual_set_Base::m_set_State.

Referenced by CFindASN1Dlg::ReplaceInFeature(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_quals_ETC().

◆ IsSetAa()

bool CTrna_ext_Base::IsSetAa ( void  ) const
inline

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

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

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

Definition at line 591 of file Trna_ext_.hpp.

References CTrna_ext_Base::m_Aa.

Referenced by BOOST_AUTO_TEST_CASE(), CTrna_ext_Base::CanGetAa(), get_aa_from_trna(), CWriteUtil::GetTrnaProductName(), s_GetTrnaProduct(), s_IsEmpty(), CFeatureItem::x_AddQualsRna(), CNewCleanup_imp::x_HandleTrnaProductGBQual(), CNewCleanup_imp::x_SeqFeatTRNABC(), CNewCleanup_imp::x_tRNACodonEC(), and CRNAValidator::x_ValidateTrnaCodons().

◆ IsSetAnticodon()

bool CTrna_ext_Base::IsSetAnticodon ( void  ) const
inline

◆ IsSetClass()

bool CRNA_gen_Base::IsSetClass ( void  ) const
inline

◆ IsSetCodon()

bool CTrna_ext_Base::IsSetCodon ( void  ) const
inline

codon(s) as in Genetic-code Check if a value has been assigned to Codon data member.

Data member Codon is optional; its type is defined as 'typedef list< int > TCodon'

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

Definition at line 612 of file Trna_ext_.hpp.

References CTrna_ext_Base::m_set_State.

Referenced by CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), CFlatTrnaCodonsQVal::Format(), get_first_codon_from_trna(), CWriteUtil::GetTrnaCodons(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatCodonsRecognized::IsSetValue(), s_ComposeCodonRecognizedStr(), s_IsEmpty(), CCodonsStringListValidator::TransferToWindow(), CFeatureItem::x_AddQualsRna(), and CNewCleanup_imp::x_tRNACodonEC().

◆ IsSetExt()

bool CRNA_ref_Base::IsSetExt ( void  ) const
inline

generic fields for ncRNA, tmRNA, miscRNA Check if a value has been assigned to Ext data member.

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

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

Definition at line 604 of file RNA_ref_.hpp.

References CRNA_ref_Base::m_Ext.

Referenced by AddMiscRNAFeatures(), CReportTrim::AdjustAndTranslate(), CEditSeqEndsWithAlign::AdjustFeatureLocations(), CAlignmentAssistant::AdjustFeatureLocations(), CFixProductNames::apply(), CEditObjectSeq_feat::CanClose(), CRNA_ref_Base::CanGetExt(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), CEntrezgene::GetDescription(), CNcrnaClassColumn::GetFromFeat(), CCdsFromGeneMrnaExon::GetNameFromMRNA(), CRNA_ref::GetRnaProductName(), GetRnaRef(), CEditingActionFeatCodonsRecognized::GetValue(), CEditingActionFeatAnticodon::GetValue(), CEditingActionFeatCodonsRecognized::IsSetValue(), CEditingActionFeatAnticodon::IsSetValue(), CEditingActionFeatRnaQual::Modify(), CSuspectProductRulesEditor::OnApplyFixes(), CSuspectProductRulesEditor::OnListMatches(), CFindASN1Dlg::ReplaceInFeature(), CEditingActionFeatCodonsRecognized::ResetValue(), CEditingActionFeatAnticodon::ResetValue(), CEditingActionFeatNcRnaClass::ResetValue(), s_CheckQuals_ncRNA(), s_GetmRNAName(), IEditingActionFeat::s_IsSetncRNAClass(), s_SetProtRef(), CSequenceUpdater::s_Shift_tRNAAntiCodon(), s_UpdateCodeBreaksAndAnticodons(), CCleanup::SetMrnaName(), CEditingActionFeatRnaQual::SetValue(), WeDontNeedToJoinThis(), CFastaOstreamEx::x_AddncRNAClassAttribute(), CFeatureTableReader_Imp::x_AddQualifierToRna(), CFeatGapInfo::x_AdjustAnticodons(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_data_data_rna(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_ETC(), CSequenceUpdater::x_FuseFeatures(), CAutoDefNcRNAClause::x_GetProductName(), CAutoDef::x_Is5SList(), CValidError_bioseq::x_IsMicroRNA(), CFeaturePropagator::x_PropagatetRNA(), CModifySeqId::x_UpdateFeat(), CEditObjectSeq_feat::x_UpdatemRNA(), CSingleFeatValidator::x_ValidateNonImpFeat(), CRNAValidator::x_ValidateTrnaCodons(), CRNAValidator::x_ValidateTrnaData(), CGff3Writer::xAssignFeatureAttributeNote(), and CSoMap::xMapNcRna().

◆ IsSetProduct()

bool CRNA_gen_Base::IsSetProduct ( void  ) const
inline

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

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

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

Definition at line 294 of file RNA_gen_.hpp.

References CRNA_gen_Base::m_set_State.

Referenced by AddMiscRNAFeatures(), CFixProductNames::apply(), CRNA_gen_Base::CanGetProduct(), CRNAPanel::CreateControls(), CFindASN1Dlg::ReplaceInFeature(), CRNA_gen_Base::SetProduct(), CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_ETC(), and CAutoDefNcRNAClause::x_GetProductName().

◆ IsSetPseudo()

bool CRNA_ref_Base::IsSetPseudo ( void  ) const
inline

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

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

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

Definition at line 557 of file RNA_ref_.hpp.

References CRNA_ref_Base::m_set_State.

Referenced by CRNA_ref_Base::CanGetPseudo(), CSeq_loc_Conversion::ConvertRna(), CSeq_loc_Conversion_Set::ConvertRna(), and CRNA_ref_Base::SetPseudo().

◆ IsSetQual()

bool CRNA_qual_Base::IsSetQual ( void  ) const
inline

in a tag (qual), value (val) format Check if a value has been assigned to Qual data member.

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

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

Definition at line 202 of file RNA_qual_.hpp.

References CRNA_qual_Base::m_set_State.

Referenced by CRNA_qual_Base::CanGetQual(), CRNA_qual_Base::SetQual(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_quals_quals_E_E_ETC().

◆ IsSetQuals()

bool CRNA_gen_Base::IsSetQuals ( void  ) const
inline

e.g., tag_peptide qualifier for tmRNAs Check if a value has been assigned to Quals data member.

Data member Quals is optional; its type is defined as 'typedef CRNA_qual_set TQuals'

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

Definition at line 341 of file RNA_gen_.hpp.

References CRNA_gen_Base::m_Quals.

Referenced by CRNA_gen_Base::CanGetQuals(), CEditingActionFeatRnaQual::Modify(), CFindASN1Dlg::ReplaceInFeature(), CFeatureItem::x_AddQualsRna(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_ETC().

◆ IsSetType()

bool CRNA_ref_Base::IsSetType ( void  ) const
inline

◆ IsSetVal()

bool CRNA_qual_Base::IsSetVal ( void  ) const
inline

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

Data member Val is mandatory; its type is defined as 'typedef string TVal'

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

Definition at line 249 of file RNA_qual_.hpp.

References CRNA_qual_Base::m_set_State.

Referenced by CRNA_qual_Base::CanGetVal(), CEditingActionFeatRnaQual::IsSetValue(), CRNA_qual_Base::SetVal(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_quals_quals_E_E_ETC().

◆ IsTRNA()

bool CRNA_ref_Base::C_Ext::IsTRNA ( void  ) const
inline

◆ operator const Tdata &()

CRNA_qual_set_Base::operator const CRNA_qual_set_Base::Tdata & ( void  ) const
inline

Conversion operator to 'const Tdata' type.

Definition at line 177 of file RNA_qual_set_.hpp.

◆ operator Tdata &()

CRNA_qual_set_Base::operator CRNA_qual_set_Base::Tdata & ( void  )
inline

Conversion operator to 'Tdata' type.

Definition at line 183 of file RNA_qual_set_.hpp.

◆ operator=() [1/9]

C_Aa& CTrna_ext_Base::C_Aa::operator= ( const C_Aa )
private

◆ operator=() [2/9]

C_Ext& CRNA_ref_Base::C_Ext::operator= ( const C_Ext )
private

◆ operator=() [3/9]

CRNA_gen_Base& CRNA_gen_Base::operator= ( const CRNA_gen_Base )
private

◆ operator=() [4/9]

CRNA_qual& CRNA_qual::operator= ( const CRNA_qual value)
private

◆ operator=() [5/9]

CRNA_qual_Base& CRNA_qual_Base::operator= ( const CRNA_qual_Base )
private

◆ operator=() [6/9]

CRNA_qual_set& CRNA_qual_set::operator= ( const CRNA_qual_set value)
private

◆ operator=() [7/9]

CRNA_qual_set_Base& CRNA_qual_set_Base::operator= ( const CRNA_qual_set_Base )
private

◆ operator=() [8/9]

CRNA_ref_Base& CRNA_ref_Base::operator= ( const CRNA_ref_Base )
private

◆ operator=() [9/9]

CTrna_ext_Base& CTrna_ext_Base::operator= ( const CTrna_ext_Base )
private

◆ Reset() [1/7]

void CRNA_gen_Base::Reset ( void  )
virtual

Reset the whole object.

Definition at line 80 of file RNA_gen_.cpp.

References CRNA_gen_Base::ResetClass(), CRNA_gen_Base::ResetProduct(), and CRNA_gen_Base::ResetQuals().

◆ Reset() [2/7]

void CRNA_qual_Base::Reset ( void  )
virtual

Reset the whole object.

Definition at line 62 of file RNA_qual_.cpp.

References CRNA_qual_Base::ResetQual(), and CRNA_qual_Base::ResetVal().

◆ Reset() [3/7]

void CRNA_qual_set_Base::Reset ( void  )

Reset data member.

Definition at line 51 of file RNA_qual_set_.cpp.

References CRNA_qual_set_Base::m_data, and CRNA_qual_set_Base::m_set_State.

◆ Reset() [4/7]

END_ENUM_INFO void CRNA_ref_Base::C_Ext::Reset ( void  )

Reset the whole object.

Definition at line 71 of file RNA_ref_.cpp.

References CRNA_ref_Base::C_Ext::e_not_set, CRNA_ref_Base::C_Ext::m_choice, and CRNA_ref_Base::C_Ext::ResetSelection().

◆ Reset() [5/7]

void CRNA_ref_Base::Reset ( void  )
virtual

Reset the whole object.

Definition at line 223 of file RNA_ref_.cpp.

References CRNA_ref_Base::ResetExt(), CRNA_ref_Base::ResetPseudo(), and CRNA_ref_Base::ResetType().

Referenced by CRNA_ref_Base::C_Ext::~C_Ext().

◆ Reset() [6/7]

void CTrna_ext_Base::C_Aa::Reset ( void  )

Reset the whole object.

Definition at line 51 of file Trna_ext_.cpp.

References CTrna_ext_Base::C_Aa::e_not_set, CTrna_ext_Base::C_Aa::m_choice, and CTrna_ext_Base::C_Aa::ResetSelection().

◆ Reset() [7/7]

void CTrna_ext_Base::Reset ( void  )
virtual

Reset the whole object.

Definition at line 170 of file Trna_ext_.cpp.

References CTrna_ext_Base::ResetAa(), CTrna_ext_Base::ResetAnticodon(), and CTrna_ext_Base::ResetCodon().

Referenced by CTrna_ext_Base::C_Aa::~C_Aa().

◆ ResetAa()

void CTrna_ext_Base::ResetAa ( void  )

Reset Aa data member.

Definition at line 130 of file Trna_ext_.cpp.

References CTrna_ext_Base::m_Aa.

Referenced by CTrna_ext_Base::Reset(), s_SetTrnaProduct(), and CFeatureTableReader_Imp::x_ParseTrnaExtString().

◆ ResetAnticodon()

void CTrna_ext_Base::ResetAnticodon ( void  )

◆ ResetClass()

void CRNA_gen_Base::ResetClass ( void  )

Reset Class data member.

Definition at line 51 of file RNA_gen_.cpp.

References CRNA_gen_Base::m_Class, and CRNA_gen_Base::m_set_State.

Referenced by CRNA_gen_Base::Reset().

◆ ResetCodon()

void CTrna_ext_Base::ResetCodon ( void  )

◆ ResetExt()

void CRNA_ref_Base::ResetExt ( void  )

Reset Ext data member.

Definition at line 206 of file RNA_ref_.cpp.

References CRNA_ref_Base::m_Ext.

Referenced by GetRnaRef(), CRNA_ref_Base::Reset(), and CRNA_ref::SetRnaProductName().

◆ ResetProduct()

void CRNA_gen_Base::ResetProduct ( void  )

Reset Product data member.

Definition at line 57 of file RNA_gen_.cpp.

References CRNA_gen_Base::m_Product, and CRNA_gen_Base::m_set_State.

Referenced by CRNA_gen_Base::Reset(), and CRNA_ref::SetRnaProductName().

◆ ResetPseudo()

void CRNA_ref_Base::ResetPseudo ( void  )
inline

Reset Pseudo data member.

Definition at line 569 of file RNA_ref_.hpp.

References CRNA_ref_Base::m_Pseudo, and CRNA_ref_Base::m_set_State.

Referenced by CRNA_ref_Base::Reset().

◆ ResetQual()

void CRNA_qual_Base::ResetQual ( void  )

Reset Qual data member.

Definition at line 50 of file RNA_qual_.cpp.

References CRNA_qual_Base::m_Qual, and CRNA_qual_Base::m_set_State.

Referenced by CRNA_qual_Base::Reset().

◆ ResetQuals()

void CRNA_gen_Base::ResetQuals ( void  )

Reset Quals data member.

Definition at line 63 of file RNA_gen_.cpp.

References CRNA_gen_Base::m_Quals.

Referenced by CRNA_gen_Base::Reset().

◆ ResetSelection() [1/2]

void CRNA_ref_Base::C_Ext::ResetSelection ( void  )

Reset the selection (set it to e_not_set).

Definition at line 77 of file RNA_ref_.cpp.

References e_not_set.

Referenced by CRNA_ref_Base::C_Ext::Reset().

◆ ResetSelection() [2/2]

void CTrna_ext_Base::C_Aa::ResetSelection ( void  )

Reset the selection (set it to e_not_set).

Definition at line 57 of file Trna_ext_.cpp.

References e_not_set.

Referenced by CTrna_ext_Base::C_Aa::Reset().

◆ ResetType()

void CRNA_ref_Base::ResetType ( void  )
inline

Reset Type data member.

Definition at line 522 of file RNA_ref_.hpp.

References CRNA_ref_Base::m_set_State, and CRNA_ref_Base::m_Type.

Referenced by CRNA_ref_Base::Reset().

◆ ResetVal()

void CRNA_qual_Base::ResetVal ( void  )

Reset Val data member.

Definition at line 56 of file RNA_qual_.cpp.

References CRNA_qual_Base::m_set_State, and CRNA_qual_Base::m_Val.

Referenced by CRNA_qual_Base::Reset().

◆ Select() [1/4]

void CRNA_ref_Base::C_Ext::Select ( E_Choice  index,
EResetVariant  reset,
CObjectMemoryPool pool 
)

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

◆ Select() [2/4]

void CTrna_ext_Base::C_Aa::Select ( E_Choice  index,
EResetVariant  reset,
CObjectMemoryPool pool 
)

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

◆ Select() [3/4]

void CRNA_ref_Base::C_Ext::Select ( E_Choice  index,
EResetVariant  reset = eDoResetVariant 
)

Select the requested variant if needed.

Parameters
indexNew selection state.
resetFlag 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() [4/4]

void CTrna_ext_Base::C_Aa::Select ( E_Choice  index,
EResetVariant  reset = eDoResetVariant 
)

Select the requested variant if needed.

Parameters
indexNew selection state.
resetFlag 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() [1/2]

NCBI_NS_STD::string CRNA_ref_Base::C_Ext::SelectionName ( E_Choice  index)
static

Retrieve selection name (for diagnostic purposes).

Parameters
indexOne of possible selection states.
Returns
Name string.

Definition at line 118 of file RNA_ref_.cpp.

◆ SelectionName() [2/2]

NCBI_NS_STD::string CTrna_ext_Base::C_Aa::SelectionName ( E_Choice  index)
static

Retrieve selection name (for diagnostic purposes).

Parameters
indexOne of possible selection states.
Returns
Name string.

Definition at line 91 of file Trna_ext_.cpp.

◆ Set()

CRNA_qual_set_Base::Tdata & CRNA_qual_set_Base::Set ( void  )
inline

Assign a value to data member.

Returns
Reference to the data value.

Definition at line 170 of file RNA_qual_set_.hpp.

References CRNA_qual_set_Base::m_data, and CRNA_qual_set_Base::m_set_State.

Referenced by GetRnaRef(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_quals_ETC().

◆ SetAa() [1/2]

void CTrna_ext_Base::SetAa ( CTrna_ext_Base::TAa value)

◆ SetAa() [2/2]

CTrna_ext_Base::TAa & CTrna_ext_Base::SetAa ( void  )

Assign a value to Aa data member.

Returns
Reference to the data value.

Definition at line 140 of file Trna_ext_.cpp.

References CTrna_ext_Base::m_Aa.

◆ SetAnticodon() [1/2]

void CTrna_ext_Base::SetAnticodon ( CTrna_ext_Base::TAnticodon value)

◆ SetAnticodon() [2/2]

CTrna_ext_Base::TAnticodon & CTrna_ext_Base::SetAnticodon ( void  )

Assign a value to Anticodon data member.

Returns
Reference to the data value.

Definition at line 163 of file Trna_ext_.cpp.

References CTrna_ext_Base::m_Anticodon.

◆ SetClass() [1/3]

void CRNA_gen_Base::SetClass ( const TClass value)
inline

Assign a value to Class data member.

Parameters
valueValue to assign

Definition at line 268 of file RNA_gen_.hpp.

References CRNA_gen_Base::m_Class, CRNA_gen_Base::m_set_State, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_ETC().

◆ SetClass() [2/3]

void CRNA_gen_Base::SetClass ( CRNA_gen_Base::TClass &&  value)
inline

◆ SetClass() [3/3]

CRNA_gen_Base::TClass & CRNA_gen_Base::SetClass ( void  )
inline

Assign a value to Class data member.

Returns
Reference to the data value.

Definition at line 282 of file RNA_gen_.hpp.

References CRNA_gen_Base::IsSetClass(), CRNA_gen_Base::m_Class, CRNA_gen_Base::m_set_State, and CSerialObject::UnassignedString().

◆ SetCodon()

CTrna_ext_Base::TCodon & CTrna_ext_Base::SetCodon ( void  )
inline

◆ SetExt() [1/2]

void CRNA_ref_Base::SetExt ( CRNA_ref_Base::TExt value)

◆ SetExt() [2/2]

CRNA_ref_Base::TExt & CRNA_ref_Base::SetExt ( void  )

Assign a value to Ext data member.

Returns
Reference to the data value.

Definition at line 216 of file RNA_ref_.cpp.

References CRNA_ref_Base::m_Ext.

Referenced by CRNA_ref::SetRnaProductName().

◆ SetGen() [1/2]

void CRNA_ref_Base::C_Ext::SetGen ( TGen value)

Select the variant and set its data.

Parameters
valueReference to the data.

Definition at line 168 of file RNA_ref_.cpp.

References CObject::AddReference(), and rapidjson::value.

◆ SetGen() [2/2]

CRNA_ref_Base::C_Ext::TGen & CRNA_ref_Base::C_Ext::SetGen ( void  )

Select the variant.

Returns
Reference to the variant data.

Definition at line 162 of file RNA_ref_.cpp.

References eDoNotResetVariant.

Referenced by CNewCleanup_imp::RnarefBC(), CRNA_ref::SetRnaProductName(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_ETC().

◆ SetIupacaa() [1/2]

void CTrna_ext_Base::C_Aa::SetIupacaa ( TIupacaa  value)
inline

Select the variant and set its data.

Parameters
valueVariant data.

Definition at line 503 of file Trna_ext_.hpp.

References eDoNotResetVariant, and rapidjson::value.

◆ SetIupacaa() [2/2]

CTrna_ext_Base::C_Aa::TIupacaa & CTrna_ext_Base::C_Aa::SetIupacaa ( void  )
inline

Select the variant.

Returns
Reference to the variant data.

Definition at line 496 of file Trna_ext_.hpp.

References eDoNotResetVariant.

◆ SetName() [1/2]

void CRNA_ref_Base::C_Ext::SetName ( const TName value)

Select the variant and set its data.

Parameters
valueVariant data.

Definition at line 128 of file RNA_ref_.cpp.

References eDoNotResetVariant, and rapidjson::value.

◆ SetName() [2/2]

CRNA_ref_Base::C_Ext::TName & CRNA_ref_Base::C_Ext::SetName ( void  )
inline

Select the variant.

Returns
Reference to the variant data.

Definition at line 491 of file RNA_ref_.hpp.

References eDoNotResetVariant.

Referenced by CRNA_ref::SetRnaProductName(), CFeatureTableReader_Imp::x_AddQualifierToRna(), and CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_ETC().

◆ SetNcbi8aa() [1/2]

void CTrna_ext_Base::C_Aa::SetNcbi8aa ( TNcbi8aa  value)
inline

Select the variant and set its data.

Parameters
valueVariant data.

Definition at line 557 of file Trna_ext_.hpp.

References eDoNotResetVariant, and rapidjson::value.

◆ SetNcbi8aa() [2/2]

CTrna_ext_Base::C_Aa::TNcbi8aa & CTrna_ext_Base::C_Aa::SetNcbi8aa ( void  )
inline

Select the variant.

Returns
Reference to the variant data.

Definition at line 550 of file Trna_ext_.hpp.

References eDoNotResetVariant.

◆ SetNcbieaa() [1/2]

void CTrna_ext_Base::C_Aa::SetNcbieaa ( TNcbieaa  value)
inline

Select the variant and set its data.

Parameters
valueVariant data.

Definition at line 530 of file Trna_ext_.hpp.

References eDoNotResetVariant, and rapidjson::value.

◆ SetNcbieaa() [2/2]

CTrna_ext_Base::C_Aa::TNcbieaa & CTrna_ext_Base::C_Aa::SetNcbieaa ( void  )
inline

Select the variant.

Returns
Reference to the variant data.

Definition at line 523 of file Trna_ext_.hpp.

References eDoNotResetVariant.

◆ SetNcbistdaa() [1/2]

void CTrna_ext_Base::C_Aa::SetNcbistdaa ( TNcbistdaa  value)
inline

Select the variant and set its data.

Parameters
valueVariant data.

Definition at line 584 of file Trna_ext_.hpp.

References eDoNotResetVariant, and rapidjson::value.

◆ SetNcbistdaa() [2/2]

CTrna_ext_Base::C_Aa::TNcbistdaa & CTrna_ext_Base::C_Aa::SetNcbistdaa ( void  )
inline

Select the variant.

Returns
Reference to the variant data.

Definition at line 577 of file Trna_ext_.hpp.

References eDoNotResetVariant.

◆ SetProduct() [1/3]

void CRNA_gen_Base::SetProduct ( const TProduct value)
inline

◆ SetProduct() [2/3]

void CRNA_gen_Base::SetProduct ( CRNA_gen_Base::TProduct &&  value)
inline

◆ SetProduct() [3/3]

CRNA_gen_Base::TProduct & CRNA_gen_Base::SetProduct ( void  )
inline

Assign a value to Product data member.

Returns
Reference to the data value.

Definition at line 329 of file RNA_gen_.hpp.

References CRNA_gen_Base::IsSetProduct(), CRNA_gen_Base::m_Product, CRNA_gen_Base::m_set_State, and CSerialObject::UnassignedString().

◆ SetPseudo() [1/2]

void CRNA_ref_Base::SetPseudo ( CRNA_ref_Base::TPseudo  value)
inline

Assign a value to Pseudo data member.

Parameters
valueValue to assign

Definition at line 585 of file RNA_ref_.hpp.

References CRNA_ref_Base::m_Pseudo, CRNA_ref_Base::m_set_State, and rapidjson::value.

◆ SetPseudo() [2/2]

CRNA_ref_Base::TPseudo & CRNA_ref_Base::SetPseudo ( void  )
inline

Assign a value to Pseudo data member.

Returns
Reference to the data value.

Definition at line 592 of file RNA_ref_.hpp.

References CRNA_ref_Base::IsSetPseudo(), CRNA_ref_Base::m_Pseudo, CRNA_ref_Base::m_set_State, and CSerialObject::UnassignedByte().

◆ SetQual() [1/3]

void CRNA_qual_Base::SetQual ( const TQual value)
inline

◆ SetQual() [2/3]

void CRNA_qual_Base::SetQual ( CRNA_qual_Base::TQual &&  value)
inline

◆ SetQual() [3/3]

CRNA_qual_Base::TQual & CRNA_qual_Base::SetQual ( void  )
inline

Assign a value to Qual data member.

Returns
Reference to the data value.

Definition at line 237 of file RNA_qual_.hpp.

References CRNA_qual_Base::IsSetQual(), CRNA_qual_Base::m_Qual, CRNA_qual_Base::m_set_State, and CSerialObject::UnassignedString().

◆ SetQuals() [1/2]

void CRNA_gen_Base::SetQuals ( CRNA_gen_Base::TQuals value)

Assign a value to Quals data member.

Parameters
valueReference to value.

Definition at line 68 of file RNA_gen_.cpp.

References CRNA_gen_Base::m_Quals, and rapidjson::value.

Referenced by CAutogeneratedCleanup::x_BasicCleanupSeqFeat_xref_E_E_data_data_rna_rna_ext_gen_gen_ETC().

◆ SetQuals() [2/2]

CRNA_gen_Base::TQuals & CRNA_gen_Base::SetQuals ( void  )

Assign a value to Quals data member.

Returns
Reference to the data value.

Definition at line 73 of file RNA_gen_.cpp.

References CRNA_gen_Base::m_Quals.

◆ SetTRNA() [1/2]

void CRNA_ref_Base::C_Ext::SetTRNA ( TTRNA value)

Select the variant and set its data.

Parameters
valueReference to the data.

Definition at line 146 of file RNA_ref_.cpp.

References CObject::AddReference(), and rapidjson::value.

◆ SetTRNA() [2/2]

CRNA_ref_Base::C_Ext::TTRNA & CRNA_ref_Base::C_Ext::SetTRNA ( void  )

◆ SetType() [1/2]

void CRNA_ref_Base::SetType ( CRNA_ref_Base::TType  value)
inline

◆ SetType() [2/2]

CRNA_ref_Base::TType & CRNA_ref_Base::SetType ( void  )
inline

Assign a value to Type data member.

Returns
Reference to the data value.

Definition at line 545 of file RNA_ref_.hpp.

References CRNA_ref_Base::IsSetType(), CRNA_ref_Base::m_set_State, CRNA_ref_Base::m_Type, and CSerialObject::UnassignedByte().

◆ SetVal() [1/3]

void CRNA_qual_Base::SetVal ( const TVal value)
inline

◆ SetVal() [2/3]

void CRNA_qual_Base::SetVal ( CRNA_qual_Base::TVal &&  value)
inline

◆ SetVal() [3/3]

CRNA_qual_Base::TVal & CRNA_qual_Base::SetVal ( void  )
inline

Assign a value to Val data member.

Returns
Reference to the data value.

Definition at line 284 of file RNA_qual_.hpp.

References CRNA_qual_Base::IsSetVal(), CRNA_qual_Base::m_set_State, CRNA_qual_Base::m_Val, and CSerialObject::UnassignedString().

◆ ThrowInvalidSelection() [1/2]

void CRNA_ref_Base::C_Ext::ThrowInvalidSelection ( E_Choice  index) const

Throw 'InvalidSelection' exception.

Parameters
indexExpected selection.

Definition at line 123 of file RNA_ref_.cpp.

References DIAG_COMPILE_INFO.

◆ ThrowInvalidSelection() [2/2]

void CTrna_ext_Base::C_Aa::ThrowInvalidSelection ( E_Choice  index) const

Throw 'InvalidSelection' exception.

Parameters
indexExpected selection.

Definition at line 96 of file Trna_ext_.cpp.

References DIAG_COMPILE_INFO.

◆ Which() [1/2]

CRNA_ref_Base::C_Ext::E_Choice CRNA_ref_Base::C_Ext::Which ( void  ) const
inline

◆ Which() [2/2]

CTrna_ext_Base::C_Aa::E_Choice CTrna_ext_Base::C_Aa::Which ( void  ) const
inline

Which variant is currently selected.

Returns
Choice state enumerator.

Definition at line 454 of file Trna_ext_.hpp.

References CTrna_ext_Base::C_Aa::m_choice.

Referenced by CNewCleanup_imp::RnarefBC(), s_ConvertTrnaAaToLetter(), s_GetAaAsChar(), CFeatureItem::x_AddFTableAnticodon(), and CRNAValidator::x_ValidateTrnaCodons().

◆ ~C_Aa()

CTrna_ext_Base::C_Aa::~C_Aa ( void  )

Definition at line 124 of file Trna_ext_.cpp.

References CTrna_ext_Base::Reset().

◆ ~C_Ext()

CRNA_ref_Base::C_Ext::~C_Ext ( void  )

Definition at line 200 of file RNA_ref_.cpp.

References CRNA_ref_Base::Reset().

◆ ~CRNA_gen_Base()

CRNA_gen_Base::~CRNA_gen_Base ( void  )
virtual

Definition at line 106 of file RNA_gen_.cpp.

◆ ~CRNA_qual()

CRNA_qual::~CRNA_qual ( void  )

Definition at line 50 of file RNA_qual.cpp.

◆ ~CRNA_qual_Base()

CRNA_qual_Base::~CRNA_qual_Base ( void  )
virtual

Definition at line 86 of file RNA_qual_.cpp.

◆ ~CRNA_qual_set()

CRNA_qual_set::~CRNA_qual_set ( void  )

Definition at line 50 of file RNA_qual_set.cpp.

◆ ~CRNA_qual_set_Base()

CRNA_qual_set_Base::~CRNA_qual_set_Base ( void  )
virtual

Definition at line 74 of file RNA_qual_set_.cpp.

◆ ~CRNA_ref_Base()

CRNA_ref_Base::~CRNA_ref_Base ( void  )
virtual

Definition at line 250 of file RNA_ref_.cpp.

◆ ~CTrna_ext_Base()

CTrna_ext_Base::~CTrna_ext_Base ( void  )
virtual

Definition at line 196 of file Trna_ext_.cpp.

Variable Documentation

◆ 

union { ... }

◆ 

union { ... }

◆ m_Aa

CRef< TAa > CTrna_ext_Base::m_Aa
private

◆ m_Anticodon

CRef< TAnticodon > CTrna_ext_Base::m_Anticodon
private

◆ m_choice [1/2]

E_Choice CRNA_ref_Base::C_Ext::m_choice
private

Definition at line 283 of file RNA_ref_.hpp.

Referenced by CRNA_ref_Base::C_Ext::Reset(), and CRNA_ref_Base::C_Ext::Which().

◆ m_choice [2/2]

E_Choice CTrna_ext_Base::C_Aa::m_choice
private

Definition at line 291 of file Trna_ext_.hpp.

Referenced by CTrna_ext_Base::C_Aa::Reset(), and CTrna_ext_Base::C_Aa::Which().

◆ m_Class

string CRNA_gen_Base::m_Class
private

◆ m_Codon

list< int > CTrna_ext_Base::m_Codon
private

◆ m_data

list< CRef< CRNA_qual > > CRNA_qual_set_Base::m_data
private

◆ m_Ext

CRef< TExt > CRNA_ref_Base::m_Ext
private

◆ m_Iupacaa [1/2]

TIupacaa CTrna_ext_Base::C_Aa::m_Iupacaa

Definition at line 298 of file Trna_ext_.hpp.

◆  [2/2]

TIupacaa { ... } ::m_Iupacaa

Definition at line 298 of file Trna_ext_.hpp.

◆ m_Ncbi8aa [1/2]

TNcbi8aa CTrna_ext_Base::C_Aa::m_Ncbi8aa

Definition at line 300 of file Trna_ext_.hpp.

◆  [2/2]

TNcbi8aa { ... } ::m_Ncbi8aa

Definition at line 300 of file Trna_ext_.hpp.

◆  [1/2]

TNcbieaa { ... } ::m_Ncbieaa

Definition at line 299 of file Trna_ext_.hpp.

◆ m_Ncbieaa [2/2]

TNcbieaa CTrna_ext_Base::C_Aa::m_Ncbieaa

Definition at line 299 of file Trna_ext_.hpp.

◆  [1/2]

TNcbistdaa { ... } ::m_Ncbistdaa

Definition at line 301 of file Trna_ext_.hpp.

◆ m_Ncbistdaa [2/2]

TNcbistdaa CTrna_ext_Base::C_Aa::m_Ncbistdaa

Definition at line 301 of file Trna_ext_.hpp.

◆ m_object [1/2]

NCBI_NS_NCBI::CSerialObject* CRNA_ref_Base::C_Ext::m_object

Definition at line 291 of file RNA_ref_.hpp.

◆  [2/2]

NCBI_NS_NCBI::CSerialObject* { ... } ::m_object

Definition at line 291 of file RNA_ref_.hpp.

◆ m_Product

string CRNA_gen_Base::m_Product
private

◆ m_Pseudo

bool CRNA_ref_Base::m_Pseudo
private

◆ m_Qual

string CRNA_qual_Base::m_Qual
private

◆ m_Quals

CRef< TQuals > CRNA_gen_Base::m_Quals
private

◆ m_set_State [1/5]

Uint4 CRNA_gen_Base::m_set_State[1]
private

◆ m_set_State [2/5]

Uint4 CRNA_qual_Base::m_set_State[1]
private

◆ m_set_State [3/5]

Uint4 CRNA_qual_set_Base::m_set_State[1]
private

◆ m_set_State [4/5]

Uint4 CRNA_ref_Base::m_set_State[1]
private

◆ m_set_State [5/5]

Uint4 CTrna_ext_Base::m_set_State[1]
private

◆  [1/2]

NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> { ... } ::m_string

Definition at line 290 of file RNA_ref_.hpp.

◆ m_string [2/2]

NCBI_NS_NCBI::CUnionBuffer<NCBI_NS_STD::string> CRNA_ref_Base::C_Ext::m_string

Definition at line 290 of file RNA_ref_.hpp.

◆ m_Type

EType CRNA_ref_Base::m_Type
private

◆ m_Val

string CRNA_qual_Base::m_Val
private

◆ sm_SelectionNames [1/2]

const char *const CRNA_ref_Base::C_Ext::sm_SelectionNames
staticprivate
Initial value:
= {
"not set",
"name",
"tRNA",
"gen"
}

Definition at line 287 of file RNA_ref_.hpp.

◆ sm_SelectionNames [2/2]

const char *const CTrna_ext_Base::C_Aa::sm_SelectionNames
staticprivate
Initial value:
= {
"not set",
"iupacaa",
"ncbieaa",
"ncbi8aa",
"ncbistdaa"
}

Definition at line 295 of file Trna_ext_.hpp.

Modified on Tue May 28 05:53:44 2024 by modify_doxy.py rev. 669887