#include <objects/homologene/HG_Gene.hpp>

Inheritance diagram for CHG_Gene:

Collaboration diagram for CHG_Gene:

Public Types
typedef list< string >	TAliases

typedef TAliases::const_iterator	TAliases_iter

typedef TGene_links	TLinks

Public Types inherited from CHG_Gene_Base
enum class	E_memberIndex { e__allMandatory = 0 , e_geneid , e_otherid , e_symbol , e_aliases , e_title , e_taxid , e_prot_gi , e_prot_acc , e_prot_len , e_nuc_gi , e_nuc_acc , e_gene_links , e_prot_links , e_domains , e_chr , e_location , e_locus_tag }

typedef int	TGeneid

typedef int	TOtherid

typedef string	TSymbol

typedef list< string >	TAliases

typedef string	TTitle

typedef int	TTaxid

typedef int	TProt_gi

typedef string	TProt_acc

typedef int	TProt_len

typedef int	TNuc_gi

typedef string	TNuc_acc

typedef list< CRef< CHG_Link > >	TGene_links

typedef list< CRef< CHG_Link > >	TProt_links

typedef list< CRef< CHG_Domain > >	TDomains

typedef string	TChr

typedef CSeq_loc	TLocation

typedef string	TLocus_tag

typedef Tparent::CMemberIndex< E_memberIndex, 18 >	TmemberIndex

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
	CHG_Gene (void)

	~CHG_Gene (void)

bool	IsSetLinks (void) const

bool	CanGetLinks (void) const

void	ResetLinks (void)

const TLinks &	GetLinks (void) const

TLinks &	SetLinks (void)

CHG_Gene::TSymbol	GetLabel (void) const

Public Member Functions inherited from CHG_Gene_Base
	CHG_Gene_Base (void)

virtual	~CHG_Gene_Base (void)

	DECLARE_INTERNAL_TYPE_INFO ()

bool	IsSetGeneid (void) const
	Check if a value has been assigned to Geneid data member. More...

bool	CanGetGeneid (void) const
	Check if it is safe to call GetGeneid method. More...

void	ResetGeneid (void)
	Reset Geneid data member. More...

TGeneid	GetGeneid (void) const
	Get the Geneid member data. More...

void	SetGeneid (TGeneid value)
	Assign a value to Geneid data member. More...

TGeneid &	SetGeneid (void)
	Assign a value to Geneid data member. More...

bool	IsSetOtherid (void) const
	internal use only!!!!! Check if a value has been assigned to Otherid data member. More...

bool	CanGetOtherid (void) const
	Check if it is safe to call GetOtherid method. More...

void	ResetOtherid (void)
	Reset Otherid data member. More...

TOtherid	GetOtherid (void) const
	Get the Otherid member data. More...

void	SetOtherid (TOtherid value)
	Assign a value to Otherid data member. More...

TOtherid &	SetOtherid (void)
	Assign a value to Otherid data member. More...

bool	IsSetSymbol (void) const
	Check if a value has been assigned to Symbol data member. More...

bool	CanGetSymbol (void) const
	Check if it is safe to call GetSymbol method. More...

void	ResetSymbol (void)
	Reset Symbol data member. More...

const TSymbol &	GetSymbol (void) const
	Get the Symbol member data. More...

void	SetSymbol (const TSymbol &value)
	Assign a value to Symbol data member. More...

void	SetSymbol (TSymbol &&value)

TSymbol &	SetSymbol (void)
	Assign a value to Symbol data member. More...

bool	IsSetAliases (void) const
	Check if a value has been assigned to Aliases data member. More...

bool	CanGetAliases (void) const
	Check if it is safe to call GetAliases method. More...

void	ResetAliases (void)
	Reset Aliases data member. More...

const TAliases &	GetAliases (void) const
	Get the Aliases member data. More...

TAliases &	SetAliases (void)
	Assign a value to Aliases data member. More...

bool	IsSetTitle (void) const
	Check if a value has been assigned to Title data member. More...

bool	CanGetTitle (void) const
	Check if it is safe to call GetTitle method. More...

void	ResetTitle (void)
	Reset Title data member. More...

const TTitle &	GetTitle (void) const
	Get the Title member data. More...

void	SetTitle (const TTitle &value)
	Assign a value to Title data member. More...

void	SetTitle (TTitle &&value)

TTitle &	SetTitle (void)
	Assign a value to Title data member. More...

bool	IsSetTaxid (void) const
	taxid of gene node Check if a value has been assigned to Taxid data member. More...

bool	CanGetTaxid (void) const
	Check if it is safe to call GetTaxid method. More...

void	ResetTaxid (void)
	Reset Taxid data member. More...

TTaxid	GetTaxid (void) const
	Get the Taxid member data. More...

void	SetTaxid (TTaxid value)
	Assign a value to Taxid data member. More...

TTaxid &	SetTaxid (void)
	Assign a value to Taxid data member. More...

bool	IsSetProt_gi (void) const
	Check if a value has been assigned to Prot_gi data member. More...

bool	CanGetProt_gi (void) const
	Check if it is safe to call GetProt_gi method. More...

void	ResetProt_gi (void)
	Reset Prot_gi data member. More...

TProt_gi	GetProt_gi (void) const
	Get the Prot_gi member data. More...

void	SetProt_gi (TProt_gi value)
	Assign a value to Prot_gi data member. More...

TProt_gi &	SetProt_gi (void)
	Assign a value to Prot_gi data member. More...

bool	IsSetProt_acc (void) const
	Check if a value has been assigned to Prot_acc data member. More...

bool	CanGetProt_acc (void) const
	Check if it is safe to call GetProt_acc method. More...

void	ResetProt_acc (void)
	Reset Prot_acc data member. More...

const TProt_acc &	GetProt_acc (void) const
	Get the Prot_acc member data. More...

void	SetProt_acc (const TProt_acc &value)
	Assign a value to Prot_acc data member. More...

void	SetProt_acc (TProt_acc &&value)

TProt_acc &	SetProt_acc (void)
	Assign a value to Prot_acc data member. More...

bool	IsSetProt_len (void) const
	Check if a value has been assigned to Prot_len data member. More...

bool	CanGetProt_len (void) const
	Check if it is safe to call GetProt_len method. More...

void	ResetProt_len (void)
	Reset Prot_len data member. More...

TProt_len	GetProt_len (void) const
	Get the Prot_len member data. More...

void	SetProt_len (TProt_len value)
	Assign a value to Prot_len data member. More...

TProt_len &	SetProt_len (void)
	Assign a value to Prot_len data member. More...

bool	IsSetNuc_gi (void) const
	Check if a value has been assigned to Nuc_gi data member. More...

bool	CanGetNuc_gi (void) const
	Check if it is safe to call GetNuc_gi method. More...

void	ResetNuc_gi (void)
	Reset Nuc_gi data member. More...

TNuc_gi	GetNuc_gi (void) const
	Get the Nuc_gi member data. More...

void	SetNuc_gi (TNuc_gi value)
	Assign a value to Nuc_gi data member. More...

TNuc_gi &	SetNuc_gi (void)
	Assign a value to Nuc_gi data member. More...

bool	IsSetNuc_acc (void) const
	Check if a value has been assigned to Nuc_acc data member. More...

bool	CanGetNuc_acc (void) const
	Check if it is safe to call GetNuc_acc method. More...

void	ResetNuc_acc (void)
	Reset Nuc_acc data member. More...

const TNuc_acc &	GetNuc_acc (void) const
	Get the Nuc_acc member data. More...

void	SetNuc_acc (const TNuc_acc &value)
	Assign a value to Nuc_acc data member. More...

void	SetNuc_acc (TNuc_acc &&value)

TNuc_acc &	SetNuc_acc (void)
	Assign a value to Nuc_acc data member. More...

bool	IsSetGene_links (void) const
	Check if a value has been assigned to Gene_links data member. More...

bool	CanGetGene_links (void) const
	Check if it is safe to call GetGene_links method. More...

void	ResetGene_links (void)
	Reset Gene_links data member. More...

const TGene_links &	GetGene_links (void) const
	Get the Gene_links member data. More...

TGene_links &	SetGene_links (void)
	Assign a value to Gene_links data member. More...

bool	IsSetProt_links (void) const
	Check if a value has been assigned to Prot_links data member. More...

bool	CanGetProt_links (void) const
	Check if it is safe to call GetProt_links method. More...

void	ResetProt_links (void)
	Reset Prot_links data member. More...

const TProt_links &	GetProt_links (void) const
	Get the Prot_links member data. More...

TProt_links &	SetProt_links (void)
	Assign a value to Prot_links data member. More...

bool	IsSetDomains (void) const
	Check if a value has been assigned to Domains data member. More...

bool	CanGetDomains (void) const
	Check if it is safe to call GetDomains method. More...

void	ResetDomains (void)
	Reset Domains data member. More...

const TDomains &	GetDomains (void) const
	Get the Domains member data. More...

TDomains &	SetDomains (void)
	Assign a value to Domains data member. More...

bool	IsSetChr (void) const
	Check if a value has been assigned to Chr data member. More...

bool	CanGetChr (void) const
	Check if it is safe to call GetChr method. More...

void	ResetChr (void)
	Reset Chr data member. More...

const TChr &	GetChr (void) const
	Get the Chr member data. More...

void	SetChr (const TChr &value)
	Assign a value to Chr data member. More...

void	SetChr (TChr &&value)

TChr &	SetChr (void)
	Assign a value to Chr data member. More...

bool	IsSetLocation (void) const
	location on the genome Check if a value has been assigned to Location data member. More...

bool	CanGetLocation (void) const
	Check if it is safe to call GetLocation method. More...

void	ResetLocation (void)
	Reset Location data member. More...

const TLocation &	GetLocation (void) const
	Get the Location member data. More...

void	SetLocation (TLocation &value)
	Assign a value to Location data member. More...

TLocation &	SetLocation (void)
	Assign a value to Location data member. More...

bool	IsSetLocus_tag (void) const
	Check if a value has been assigned to Locus_tag data member. More...

bool	CanGetLocus_tag (void) const
	Check if it is safe to call GetLocus_tag method. More...

void	ResetLocus_tag (void)
	Reset Locus_tag data member. More...

const TLocus_tag &	GetLocus_tag (void) const
	Get the Locus_tag member data. More...

void	SetLocus_tag (const TLocus_tag &value)
	Assign a value to Locus_tag data member. More...

void	SetLocus_tag (TLocus_tag &&value)

TLocus_tag &	SetLocus_tag (void)
	Assign a value to Locus_tag data member. More...

virtual void	Reset (void)
	Reset the whole object. 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

Private Types
typedef CHG_Gene_Base	Tparent

Private Member Functions
	CHG_Gene (const CHG_Gene &value)

CHG_Gene &	operator= (const CHG_Gene &value)

CHG_Gene::TSymbol	x_GetGeneidLabel (void) const

Additional Inherited Members
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)

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

Definition at line 50 of file HG_Gene.hpp.

Member Typedef Documentation

◆ TAliases

typedef list<string> CHG_Gene::TAliases

Definition at line 59 of file HG_Gene.hpp.

◆ TAliases_iter

typedef TAliases::const_iterator CHG_Gene::TAliases_iter

Definition at line 60 of file HG_Gene.hpp.

◆ TLinks

typedef TGene_links CHG_Gene::TLinks

Definition at line 62 of file HG_Gene.hpp.

◆ Tparent

typedef CHG_Gene_Base CHG_Gene::Tparent

private

Definition at line 52 of file HG_Gene.hpp.

Constructor & Destructor Documentation

◆ CHG_Gene() [1/2]

CHG_Gene::CHG_Gene ( void )

inline

Definition at line 83 of file HG_Gene.hpp.

◆ ~CHG_Gene()

CHG_Gene::~CHG_Gene ( void )

Definition at line 51 of file HG_Gene.cpp.

◆ CHG_Gene() [2/2]

CHG_Gene::CHG_Gene ( const CHG_Gene & value )

private

Member Function Documentation

◆ CanGetLinks()

bool CHG_Gene::CanGetLinks ( void ) const

inline

Definition at line 64 of file HG_Gene.hpp.

References CHG_Gene_Base::CanGetGene_links().

◆ GetLabel()

CHG_Gene::TSymbol CHG_Gene::GetLabel ( void ) const

Definition at line 62 of file HG_Gene.cpp.

References CHG_Gene_Base::GetAliases(), CHG_Gene_Base::GetLocus_tag(), CHG_Gene_Base::GetSymbol(), CHG_Gene_Base::IsSetAliases(), CHG_Gene_Base::IsSetGeneid(), CHG_Gene_Base::IsSetLocus_tag(), CHG_Gene_Base::IsSetSymbol(), and x_GetGeneidLabel().

◆ GetLinks()

const TLinks& CHG_Gene::GetLinks ( void ) const

inline

Definition at line 66 of file HG_Gene.hpp.

References CHG_Gene_Base::GetGene_links().

◆ IsSetLinks()

bool CHG_Gene::IsSetLinks ( void ) const

inline

Definition at line 63 of file HG_Gene.hpp.

References CHG_Gene_Base::IsSetGene_links().

◆ operator=()

CHG_Gene& CHG_Gene::operator= ( const CHG_Gene & value )

private

◆ ResetLinks()

void CHG_Gene::ResetLinks ( void )

inline

Definition at line 65 of file HG_Gene.hpp.

References CHG_Gene_Base::ResetGene_links().

◆ SetLinks()

TLinks& CHG_Gene::SetLinks ( void )

inline

Definition at line 67 of file HG_Gene.hpp.

References CHG_Gene_Base::SetGene_links().

◆ x_GetGeneidLabel()

CHG_Gene::TSymbol CHG_Gene::x_GetGeneidLabel ( void ) const

inlineprivate

Definition at line 56 of file HG_Gene.cpp.

References CHG_Gene_Base::GetGeneid(), and NStr::IntToString().

Referenced by GetLabel().

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

include/objects/homologene/HG_Gene.hpp
src/objects/homologene/HG_Gene.cpp

Public Types

Public Member Functions

Private Types

Private Member Functions

Additional Inherited Members

Detailed Description

Member Typedef Documentation

◆ TAliases

◆ TAliases_iter

◆ TLinks

◆ Tparent

Constructor & Destructor Documentation

◆ CHG_Gene() [1/2]

◆ ~CHG_Gene()

◆ CHG_Gene() [2/2]

Member Function Documentation

◆ CanGetLinks()

◆ GetLabel()

◆ GetLinks()

◆ IsSetLinks()

◆ operator=()

◆ ResetLinks()

◆ SetLinks()

◆ x_GetGeneidLabel()