Represents ASN.1 type SeqFeatData defined in file seqfeat.asn

Search Toolkit Book for CSeqFeatData_Base

#include <objects/seqfeat/SeqFeatData_.hpp>

Inheritance diagram for CSeqFeatData_Base:

Collaboration diagram for CSeqFeatData_Base:

Public Types
enum	EBond { eBond_disulfide = 1 , eBond_thiolester = 2 , eBond_xlink = 3 , eBond_thioether = 4 , eBond_other = 255 }

enum	ESite { eSite_active = 1 , eSite_binding = 2 , eSite_cleavage = 3 , eSite_inhibit = 4 , eSite_modified = 5 , eSite_glycosylation = 6 , eSite_myristoylation = 7 , eSite_mutagenized = 8 , eSite_metal_binding = 9 , eSite_phosphorylation = 10 , eSite_acetylation = 11 , eSite_amidation = 12 , eSite_methylation = 13 , eSite_hydroxylation = 14 , eSite_sulfatation = 15 , eSite_oxidative_deamination = 16 , eSite_pyrrolidone_carboxylic_acid = 17 , eSite_gamma_carboxyglutamic_acid = 18 , eSite_blocked = 19 , eSite_lipid_binding = 20 , eSite_np_binding = 21 , eSite_dna_binding = 22 , eSite_signal_peptide = 23 , eSite_transit_peptide = 24 , eSite_transmembrane_region = 25 , eSite_nitrosylation = 26 , eSite_other = 255 }

enum	EPsec_str { ePsec_str_helix = 1 , ePsec_str_sheet = 2 , ePsec_str_turn = 3 }
	protein secondary structure More...

enum	E_Choice { e_not_set = 0 , e_Gene , e_Org , e_Cdregion , e_Prot , e_Rna , e_Pub , e_Seq , e_Imp , e_Region , e_Comment , e_Bond , e_Site , e_Rsite , e_User , e_Txinit , e_Num , e_Psec_str , e_Non_std_residue , e_Het , e_Biosrc , e_Clone , e_Variation }
	Choice variants. More...

enum	E_ChoiceStopper { e_MaxChoice = 23 }
	Maximum+1 value of the choice variant enumerator. More...

typedef CGene_ref	TGene

typedef COrg_ref	TOrg

typedef CCdregion	TCdregion

typedef CProt_ref	TProt

typedef CRNA_ref	TRna

typedef CPubdesc	TPub

typedef CSeq_loc	TSeq

typedef CImp_feat	TImp

typedef string	TRegion

typedef EBond	TBond

typedef ESite	TSite

typedef CRsite_ref	TRsite

typedef CUser_object	TUser

typedef CTxinit	TTxinit

typedef CNumbering	TNum

typedef EPsec_str	TPsec_str

typedef string	TNon_std_residue

typedef CHeterogen	THet

typedef CBioSource	TBiosrc

typedef CClone_ref	TClone

typedef CVariation_ref	TVariation

Public Types inherited from CObject
enum	EAllocFillMode { eAllocFillNone = 1 , eAllocFillZero , eAllocFillPattern }
	Control filling of newly allocated memory. More...

typedef CObjectCounterLocker	TLockerType
	Default locker type for CRef. More...

typedef atomic< Uint8 >	TCounter
	Counter type is CAtomiCounter. More...

typedef Uint8	TCount
	Alias for value type of counter. More...

Public Member Functions
	CSeqFeatData_Base (void)

virtual	~CSeqFeatData_Base (void)

	DECLARE_INTERNAL_TYPE_INFO ()

virtual void	Reset (void)
	Reset the whole object. More...

virtual void	ResetSelection (void)
	Reset the selection (set it to e_not_set). More...

E_Choice	Which (void) const
	Which variant is currently selected. More...

void	CheckSelected (E_Choice index) const
	Verify selection, throw exception if it differs from the expected. More...

void	ThrowInvalidSelection (E_Choice index) const
	Throw 'InvalidSelection' exception. More...

void	Select (E_Choice index, EResetVariant reset=eDoResetVariant)
	Select the requested variant if needed. More...

void	Select (E_Choice index, EResetVariant reset, CObjectMemoryPool *pool)
	Select the requested variant if needed, allocating CObject variants from memory pool. More...

bool	IsGene (void) const
	Check if variant Gene is selected. More...

const TGene &	GetGene (void) const
	Get the variant data. More...

TGene &	SetGene (void)
	Select the variant. More...

void	SetGene (TGene &value)
	Select the variant and set its data. More...

bool	IsOrg (void) const
	Check if variant Org is selected. More...

const TOrg &	GetOrg (void) const
	Get the variant data. More...

TOrg &	SetOrg (void)
	Select the variant. More...

void	SetOrg (TOrg &value)
	Select the variant and set its data. More...

bool	IsCdregion (void) const
	Check if variant Cdregion is selected. More...

const TCdregion &	GetCdregion (void) const
	Get the variant data. More...

TCdregion &	SetCdregion (void)
	Select the variant. More...

void	SetCdregion (TCdregion &value)
	Select the variant and set its data. More...

bool	IsProt (void) const
	Check if variant Prot is selected. More...

const TProt &	GetProt (void) const
	Get the variant data. More...

TProt &	SetProt (void)
	Select the variant. More...

void	SetProt (TProt &value)
	Select the variant and set its data. More...

bool	IsRna (void) const
	Check if variant Rna is selected. More...

const TRna &	GetRna (void) const
	Get the variant data. More...

TRna &	SetRna (void)
	Select the variant. More...

void	SetRna (TRna &value)
	Select the variant and set its data. More...

bool	IsPub (void) const
	Check if variant Pub is selected. More...

const TPub &	GetPub (void) const
	Get the variant data. More...

TPub &	SetPub (void)
	Select the variant. More...

void	SetPub (TPub &value)
	Select the variant and set its data. More...

bool	IsSeq (void) const
	Check if variant Seq is selected. More...

const TSeq &	GetSeq (void) const
	Get the variant data. More...

TSeq &	SetSeq (void)
	Select the variant. More...

void	SetSeq (TSeq &value)
	Select the variant and set its data. More...

bool	IsImp (void) const
	Check if variant Imp is selected. More...

const TImp &	GetImp (void) const
	Get the variant data. More...

TImp &	SetImp (void)
	Select the variant. More...

void	SetImp (TImp &value)
	Select the variant and set its data. More...

bool	IsRegion (void) const
	Check if variant Region is selected. More...

const TRegion &	GetRegion (void) const
	Get the variant data. More...

TRegion &	SetRegion (void)
	Select the variant. More...

void	SetRegion (const TRegion &value)
	Select the variant and set its data. More...

bool	IsComment (void) const
	Check if variant Comment is selected. More...

void	SetComment (void)
	Select the variant. More...

bool	IsBond (void) const
	Check if variant Bond is selected. More...

TBond	GetBond (void) const
	Get the variant data. More...

TBond &	SetBond (void)
	Select the variant. More...

void	SetBond (TBond value)
	Select the variant and set its data. More...

bool	IsSite (void) const
	Check if variant Site is selected. More...

TSite	GetSite (void) const
	Get the variant data. More...

TSite &	SetSite (void)
	Select the variant. More...

void	SetSite (TSite value)
	Select the variant and set its data. More...

bool	IsRsite (void) const
	Check if variant Rsite is selected. More...

const TRsite &	GetRsite (void) const
	Get the variant data. More...

TRsite &	SetRsite (void)
	Select the variant. More...

void	SetRsite (TRsite &value)
	Select the variant and set its data. More...

bool	IsUser (void) const
	Check if variant User is selected. More...

const TUser &	GetUser (void) const
	Get the variant data. More...

TUser &	SetUser (void)
	Select the variant. More...

void	SetUser (TUser &value)
	Select the variant and set its data. More...

bool	IsTxinit (void) const
	Check if variant Txinit is selected. More...

const TTxinit &	GetTxinit (void) const
	Get the variant data. More...

TTxinit &	SetTxinit (void)
	Select the variant. More...

void	SetTxinit (TTxinit &value)
	Select the variant and set its data. More...

bool	IsNum (void) const
	Check if variant Num is selected. More...

const TNum &	GetNum (void) const
	Get the variant data. More...

TNum &	SetNum (void)
	Select the variant. More...

void	SetNum (TNum &value)
	Select the variant and set its data. More...

bool	IsPsec_str (void) const
	Check if variant Psec_str is selected. More...

TPsec_str	GetPsec_str (void) const
	Get the variant data. More...

TPsec_str &	SetPsec_str (void)
	Select the variant. More...

void	SetPsec_str (TPsec_str value)
	Select the variant and set its data. More...

bool	IsNon_std_residue (void) const
	Check if variant Non_std_residue is selected. More...

const TNon_std_residue &	GetNon_std_residue (void) const
	Get the variant data. More...

TNon_std_residue &	SetNon_std_residue (void)
	Select the variant. More...

void	SetNon_std_residue (const TNon_std_residue &value)
	Select the variant and set its data. More...

bool	IsHet (void) const
	Check if variant Het is selected. More...

const THet &	GetHet (void) const
	Get the variant data. More...

THet &	SetHet (void)
	Select the variant. More...

void	SetHet (const THet &value)
	Select the variant and set its data. More...

bool	IsBiosrc (void) const
	Check if variant Biosrc is selected. More...

const TBiosrc &	GetBiosrc (void) const
	Get the variant data. More...

TBiosrc &	SetBiosrc (void)
	Select the variant. More...

void	SetBiosrc (TBiosrc &value)
	Select the variant and set its data. More...

bool	IsClone (void) const
	Check if variant Clone is selected. More...

const TClone &	GetClone (void) const
	Get the variant data. More...

TClone &	SetClone (void)
	Select the variant. More...

void	SetClone (TClone &value)
	Select the variant and set its data. More...

bool	IsVariation (void) const
	Check if variant Variation is selected. More...

const TVariation &	GetVariation (void) const
	Get the variant data. More...

TVariation &	SetVariation (void)
	Select the variant. More...

void	SetVariation (TVariation &value)
	Select the variant and set its data. More...

Public Member Functions inherited from CSerialObject
	CSerialObject (void)

virtual	~CSerialObject (void)

virtual const CTypeInfo *	GetThisTypeInfo (void) const =0

virtual void	Assign (const CSerialObject &source, ESerialRecursionMode how=eRecursive)
	Set object to copy of another one. More...

virtual bool	Equals (const CSerialObject &object, ESerialRecursionMode how=eRecursive) const
	Check if both objects contain the same values. More...

virtual void	DebugDump (CDebugDumpContext ddc, unsigned int depth) const
	Define method for dumping debug information. More...

void	ThrowUnassigned (TMemberIndex index) const

void	ThrowUnassigned (TMemberIndex index, const char *file_name, int file_line) const

bool	HasNamespaceName (void) const
	Check if object data type has namespace name. More...

const string &	GetNamespaceName (void) const
	Get namespace name. More...

bool	HasNamespacePrefix (void) const
	Check if data type has namespace prefix. More...

const string &	GetNamespacePrefix (void) const
	Get namespace prefix. More...

Public Member Functions inherited from CObject
	CObject (void)
	Constructor. More...

	CObject (const CObject &src)
	Copy constructor. More...

virtual	~CObject (void)
	Destructor. More...

CObject &	operator= (const CObject &src) THROWS_NONE
	Assignment operator. More...

bool	CanBeDeleted (void) const THROWS_NONE
	Check if object can be deleted. More...

bool	IsAllocatedInPool (void) const THROWS_NONE
	Check if object is allocated in memory pool (not system heap) More...

bool	Referenced (void) const THROWS_NONE
	Check if object is referenced. More...

bool	ReferencedOnlyOnce (void) const THROWS_NONE
	Check if object is referenced only once. More...

void	AddReference (void) const
	Add reference to object. More...

void	RemoveReference (void) const
	Remove reference to object. More...

void	ReleaseReference (void) const
	Remove reference without deleting object. More...

virtual void	DoNotDeleteThisObject (void)
	Mark this object as not allocated in heap – do not delete this object. More...

virtual void	DoDeleteThisObject (void)
	Mark this object as allocated in heap – object can be deleted. More...

void *	operator new (size_t size)
	Define new operator for memory allocation. More...

void *	operator new[] (size_t size)
	Define new[] operator for 'array' memory allocation. More...

void	operator delete (void *ptr)
	Define delete operator for memory deallocation. More...

void	operator delete[] (void *ptr)
	Define delete[] operator for memory deallocation. More...

void *	operator new (size_t size, void *place)
	Define new operator. More...

void	operator delete (void ptr, void place)
	Define delete operator. More...

void *	operator new (size_t size, CObjectMemoryPool *place)
	Define new operator using memory pool. More...

void	operator delete (void ptr, CObjectMemoryPool place)
	Define delete operator. More...

Public Member Functions inherited from CDebugDumpable
	CDebugDumpable (void)

virtual	~CDebugDumpable (void)

void	DebugDumpText (ostream &out, const string &bundle, unsigned int depth) const

void	DebugDumpFormat (CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) const

void	DumpToConsole (void) const

Static Public Member Functions
static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	EBond (void)
	Access to EBond's attributes (values, names) as defined in spec. More...

static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	ESite (void)
	Access to ESite's attributes (values, names) as defined in spec. More...

static const NCBI_NS_NCBI::CEnumeratedTypeValues *ENUM_METHOD_NAME()	EPsec_str (void)
	Access to EPsec_str's attributes (values, names) as defined in spec. More...

static string	SelectionName (E_Choice index)
	Retrieve selection name (for diagnostic purposes). More...

Static Public Member Functions inherited from CSerialObject
static void	SetVerifyDataThread (ESerialVerifyData verify)

static void	SetVerifyDataGlobal (ESerialVerifyData verify)

static string	UnassignedString (void)

static CStringUTF8	UnassignedStringUTF8 (void)

static char	UnassignedByte (void)

Static Public Member Functions inherited from CObject
static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (void)
	Define method to throw null pointer exception. More...

static NCBI_XNCBI_EXPORT void	ThrowNullPointerException (const type_info &type)

static EAllocFillMode	GetAllocFillMode (void)

static void	SetAllocFillMode (EAllocFillMode mode)

static void	SetAllocFillMode (const string &value)
	Set mode from configuration parameter value. More...

Static Public Member Functions inherited from CDebugDumpable
static void	EnableDebugDump (bool on)

Private Types
typedef CSerialObject	Tparent

Private Member Functions
	CSeqFeatData_Base (const CSeqFeatData_Base &)

CSeqFeatData_Base &	operator= (const CSeqFeatData_Base &)

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

Private Attributes
E_Choice	m_choice

union {
TBond CSeqFeatData_Base::m_Bond

TSite CSeqFeatData_Base::m_Site

TPsec_str CSeqFeatData_Base::m_Psec_str

NCBI_NS_NCBI::CUnionBuffer< THet > CSeqFeatData_Base::m_Het

NCBI_NS_NCBI::CUnionBuffer< NCBI_NS_STD::string > CSeqFeatData_Base::m_string

NCBI_NS_NCBI::CSerialObject * CSeqFeatData_Base::m_object

};

Static Private Attributes
static const char *const	sm_SelectionNames []

Additional Inherited Members
Static Public Attributes inherited from CSerialObject
static const char *	ms_UnassignedStr = "<unassigned>"

static const char	ms_UnassignedByte = char(0xcd)

Static Public Attributes inherited from CObject
static const TCount	eCounterBitsCanBeDeleted = 1 << 0
	Define possible object states. More...

static const TCount	eCounterBitsInPlainHeap = 1 << 1
	Heap signature was found. More...

static const TCount	eCounterBitsPlaceMask
	Mask for 'in heap' state flags. More...

static const int	eCounterStep = 1 << 2
	Skip over the "in heap" bits. More...

static const TCount	eCounterValid = TCount(1) << (sizeof(TCount) * 8 - 2)
	Minimal value for valid objects (reference counter is zero) Must be a single bit value. More...

static const TCount	eCounterStateMask
	Valid object, and object in heap. More...

Protected Member Functions inherited from CObject
virtual void	DeleteThis (void)
	Virtual method "deleting" this object. More...

Detailed Description

CSeqFeatData_Base –.

Definition at line 91 of file SeqFeatData_.hpp.

The documentation for this class was generated from the following files:

include/objects/seqfeat/SeqFeatData_.hpp
src/objects/seqfeat/SeqFeatData_.cpp

Public Types

Public Member Functions

Static Public Member Functions

Private Types

Private Member Functions

Private Attributes

Static Private Attributes

Additional Inherited Members

Detailed Description