CBioseq_set_Handle Class Reference

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CBioseq_set_Handle –. More...

#include <objmgr/bioseq_set_handle.hpp>

Inheritance diagram for CBioseq_set_Handle:

Collaboration diagram for CBioseq_set_Handle:

Public Types
typedef CBioseq_set	TObject
	Unified interface for templates. More...
typedef CBioseq_set::TId	TId
typedef CBioseq_set::TColl	TColl
typedef CBioseq_set::TLevel	TLevel
typedef CBioseq_set::TClass	TClass
typedef CBioseq_set::TRelease	TRelease
typedef CBioseq_set::TDate	TDate
typedef CBioseq_set::TDescr	TDescr

Public Member Functions
	CBioseq_set_Handle (void)
CScope &	GetScope (void) const
	Get scope this handle belongs to. More...
CSeq_entry_Handle	GetParentEntry (void) const
	Return a handle for the parent seq-entry of the bioseq. More...
CBioseq_set_Handle	GetParentBioseq_set (void) const
	Return a handle for the parent Bioseq-set, or null handle. More...
CSeq_entry_Handle	GetTopLevelEntry (void) const
	Return a handle for the top-level seq-entry. More...
CBioseq_set_EditHandle	GetEditHandle (void) const
	Get 'edit' version of handle. More...
CConstRef< CBioseq_set >	GetCompleteBioseq_set (void) const
	Return the complete bioseq-set object. More...
CConstRef< CBioseq_set >	GetBioseq_setCore (void) const
	Return core data for the bioseq-set. More...
CConstRef< TObject >	GetCompleteObject (void) const
CConstRef< TObject >	GetObjectCore (void) const
const CBioObjectId &	GetBioObjectId (void) const
	Get unique object id. More...
bool	IsEmptySeq_set (void) const
	Check if the bioseq set is empty. More...
bool	IsSetId (void) const
bool	CanGetId (void) const
const TId &	GetId (void) const
bool	IsSetColl (void) const
bool	CanGetColl (void) const
const TColl &	GetColl (void) const
bool	IsSetLevel (void) const
bool	CanGetLevel (void) const
TLevel	GetLevel (void) const
bool	IsSetClass (void) const
bool	CanGetClass (void) const
TClass	GetClass (void) const
bool	IsSetRelease (void) const
bool	CanGetRelease (void) const
const TRelease &	GetRelease (void) const
bool	IsSetDate (void) const
bool	CanGetDate (void) const
const TDate &	GetDate (void) const
bool	IsSetDescr (void) const
bool	CanGetDescr (void) const
const TDescr &	GetDescr (void) const
bool	HasAnnots (void) const
	DECLARE_OPERATOR_BOOL (m_Info.IsValid())
	Check if handle points to a bioseq-set. More...
bool	IsRemoved (void) const
const CTSE_Handle &	GetTSE_Handle (void) const
void	Reset (void)
bool	operator== (const CBioseq_set_Handle &handle) const
	Check if handles point to the same bioseq. More...
bool	operator!= (const CBioseq_set_Handle &handle) const
bool	operator< (const CBioseq_set_Handle &handle) const
	For usage in containers. More...
CSeq_entry_Handle	GetComplexityLevel (CBioseq_set::EClass cls) const
	Go up to a certain complexity level (or the nearest level of the same priority if the required class is not found). More...
CSeq_entry_Handle	GetExactComplexityLevel (CBioseq_set::EClass cls) const
	Return level with exact complexity, or empty handle if not found. More...
int	GetSeq_entry_Index (const CSeq_entry_Handle &handle) const
const TScopeInfo &	x_GetScopeInfo (void) const
const CBioseq_set_Info &	x_GetInfo (void) const

Protected Types
typedef CBioseq_set_ScopeInfo	TScopeInfo
typedef CScopeInfo_Ref< TScopeInfo >	TLock
typedef int	TComplexityTable[25]

Protected Member Functions
	CBioseq_set_Handle (const CBioseq_set_Info &info, const CTSE_Handle &tse)
	CBioseq_set_Handle (const TLock &lock)
CScope_Impl &	x_GetScopeImpl (void) const

Static Protected Member Functions
static const TComplexityTable &	sx_GetComplexityTable (void)

Protected Attributes
TLock	m_Info

Static Protected Attributes
static TComplexityTable	sm_ComplexityTable

Friends
class	CScope_Impl
class	CBioseq_Handle
class	CSeq_entry_Handle
class	CSeq_entry_EditHandle
class	CSeqMap_CI
class	CSeq_entry_CI
class	CSeq_annot_CI
class	CAnnotTypes_CI

Detailed Description

CBioseq_set_Handle –.

Proxy to access the bioseq_set objects

Definition at line 106 of file bioseq_set_handle.hpp.

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

• include/objmgr/bioseq_set_handle.hpp
• src/objmgr/bioseq_set_handle.cpp