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NCBI C++ ToolKit: CSpliced_exon_Base Class Reference
complete or partial exon two consecutive Spliced-exons may belong to one exon More...
enum class E_memberIndex {
e__allMandatory = 0 , e_product_start , e_product_end , e_genomic_start ,
e_genomic_end , e_product_id , e_genomic_id , e_product_strand ,
e_genomic_strand , e_parts , e_scores , e_acceptor_before_exon ,
e_donor_after_exon , e_partial , e_ext
} typedef CProduct_pos TProduct_start typedef CProduct_pos TProduct_end typedef TSeqPos TGenomic_start typedef TSeqPos TGenomic_end typedef CSeq_id TProduct_id typedef CSeq_id TGenomic_id typedef ENa_strand TProduct_strand typedef ENa_strand TGenomic_strand typedef list< CRef< CSpliced_exon_chunk > > TParts typedef CScore_set TScores typedef CSplice_site TAcceptor_before_exon typedef CSplice_site TDonor_after_exon typedef bool TPartial typedef list< CRef< CUser_object > > TExt typedef Tparent::CMemberIndex< E_memberIndex, 15 > TmemberIndex 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...
CSpliced_exon_Base (void) virtual ~CSpliced_exon_Base (void) DECLARE_INTERNAL_TYPE_INFO () bool IsSetProduct_start (void) const product-end >= product-start Check if a value has been assigned to Product_start data member. More...
bool CanGetProduct_start (void) const Check if it is safe to call GetProduct_start method. More...
void ResetProduct_start (void) Reset Product_start data member. More...
const TProduct_start & GetProduct_start (void) const Get the Product_start member data. More...
void SetProduct_start (TProduct_start &value) Assign a value to Product_start data member. More...
TProduct_start & SetProduct_start (void) Assign a value to Product_start data member. More...
bool IsSetProduct_end (void) const Check if a value has been assigned to Product_end data member. More...
bool CanGetProduct_end (void) const Check if it is safe to call GetProduct_end method. More...
void ResetProduct_end (void) Reset Product_end data member. More...
const TProduct_end & GetProduct_end (void) const Get the Product_end member data. More...
void SetProduct_end (TProduct_end &value) Assign a value to Product_end data member. More...
TProduct_end & SetProduct_end (void) Assign a value to Product_end data member. More...
bool IsSetGenomic_start (void) const genomic-end >= genomic-start Check if a value has been assigned to Genomic_start data member. More...
bool CanGetGenomic_start (void) const Check if it is safe to call GetGenomic_start method. More...
void ResetGenomic_start (void) Reset Genomic_start data member. More...
TGenomic_start GetGenomic_start (void) const Get the Genomic_start member data. More...
void SetGenomic_start (TGenomic_start value) Assign a value to Genomic_start data member. More...
TGenomic_start & SetGenomic_start (void) Assign a value to Genomic_start data member. More...
bool IsSetGenomic_end (void) const Check if a value has been assigned to Genomic_end data member. More...
bool CanGetGenomic_end (void) const Check if it is safe to call GetGenomic_end method. More...
void ResetGenomic_end (void) Reset Genomic_end data member. More...
TGenomic_end GetGenomic_end (void) const Get the Genomic_end member data. More...
void SetGenomic_end (TGenomic_end value) Assign a value to Genomic_end data member. More...
TGenomic_end & SetGenomic_end (void) Assign a value to Genomic_end data member. More...
bool IsSetProduct_id (void) const product is either protein or transcript (cDNA) Check if a value has been assigned to Product_id data member. More...
bool CanGetProduct_id (void) const Check if it is safe to call GetProduct_id method. More...
void ResetProduct_id (void) Reset Product_id data member. More...
const TProduct_id & GetProduct_id (void) const Get the Product_id member data. More...
void SetProduct_id (TProduct_id &value) Assign a value to Product_id data member. More...
TProduct_id & SetProduct_id (void) Assign a value to Product_id data member. More...
bool IsSetGenomic_id (void) const Check if a value has been assigned to Genomic_id data member. More...
bool CanGetGenomic_id (void) const Check if it is safe to call GetGenomic_id method. More...
void ResetGenomic_id (void) Reset Genomic_id data member. More...
const TGenomic_id & GetGenomic_id (void) const Get the Genomic_id member data. More...
void SetGenomic_id (TGenomic_id &value) Assign a value to Genomic_id data member. More...
TGenomic_id & SetGenomic_id (void) Assign a value to Genomic_id data member. More...
bool IsSetProduct_strand (void) const should be 'plus' or 'minus' Check if a value has been assigned to Product_strand data member. More...
bool CanGetProduct_strand (void) const Check if it is safe to call GetProduct_strand method. More...
void ResetProduct_strand (void) Reset Product_strand data member. More...
TProduct_strand GetProduct_strand (void) const Get the Product_strand member data. More...
void SetProduct_strand (TProduct_strand value) Assign a value to Product_strand data member. More...
TProduct_strand & SetProduct_strand (void) Assign a value to Product_strand data member. More...
bool IsSetGenomic_strand (void) const genomic-strand represents the strand of translation Check if a value has been assigned to Genomic_strand data member. More...
bool CanGetGenomic_strand (void) const Check if it is safe to call GetGenomic_strand method. More...
void ResetGenomic_strand (void) Reset Genomic_strand data member. More...
TGenomic_strand GetGenomic_strand (void) const Get the Genomic_strand member data. More...
void SetGenomic_strand (TGenomic_strand value) Assign a value to Genomic_strand data member. More...
TGenomic_strand & SetGenomic_strand (void) Assign a value to Genomic_strand data member. More...
bool IsSetParts (void) const basic seqments always are in biologic order Check if a value has been assigned to Parts data member. More...
bool CanGetParts (void) const Check if it is safe to call GetParts method. More...
void ResetParts (void) Reset Parts data member. More...
const TParts & GetParts (void) const Get the Parts member data. More...
TParts & SetParts (void) Assign a value to Parts data member. More...
bool IsSetScores (void) const scores for this exon Check if a value has been assigned to Scores data member. More...
bool CanGetScores (void) const Check if it is safe to call GetScores method. More...
void ResetScores (void) Reset Scores data member. More...
const TScores & GetScores (void) const Get the Scores member data. More...
void SetScores (TScores &value) Assign a value to Scores data member. More...
TScores & SetScores (void) Assign a value to Scores data member. More...
bool IsSetAcceptor_before_exon (void) const splice sites Check if a value has been assigned to Acceptor_before_exon data member. More...
bool CanGetAcceptor_before_exon (void) const Check if it is safe to call GetAcceptor_before_exon method. More...
void ResetAcceptor_before_exon (void) Reset Acceptor_before_exon data member. More...
const TAcceptor_before_exon & GetAcceptor_before_exon (void) const Get the Acceptor_before_exon member data. More...
void SetAcceptor_before_exon (TAcceptor_before_exon &value) Assign a value to Acceptor_before_exon data member. More...
TAcceptor_before_exon & SetAcceptor_before_exon (void) Assign a value to Acceptor_before_exon data member. More...
bool IsSetDonor_after_exon (void) const Check if a value has been assigned to Donor_after_exon data member. More...
bool CanGetDonor_after_exon (void) const Check if it is safe to call GetDonor_after_exon method. More...
void ResetDonor_after_exon (void) Reset Donor_after_exon data member. More...
const TDonor_after_exon & GetDonor_after_exon (void) const Get the Donor_after_exon member data. More...
void SetDonor_after_exon (TDonor_after_exon &value) Assign a value to Donor_after_exon data member. More...
TDonor_after_exon & SetDonor_after_exon (void) Assign a value to Donor_after_exon data member. More...
bool IsSetPartial (void) const flag: is this exon complete or partial? Check if a value has been assigned to Partial data member. More...
bool CanGetPartial (void) const Check if it is safe to call GetPartial method. More...
void ResetPartial (void) Reset Partial data member. More...
TPartial GetPartial (void) const Get the Partial member data. More...
void SetPartial (TPartial value) Assign a value to Partial data member. More...
TPartial & SetPartial (void) Assign a value to Partial data member. More...
bool IsSetExt (void) const extra info Check if a value has been assigned to Ext data member. More...
bool CanGetExt (void) const Check if it is safe to call GetExt method. More...
void ResetExt (void) Reset Ext data member. More...
const TExt & GetExt (void) const Get the Ext member data. More...
TExt & SetExt (void) Assign a value to Ext data member. More...
virtual void Reset (void) Reset the whole object. More...
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...
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...
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
complete or partial exon two consecutive Spliced-exons may belong to one exon
CSpliced_exon_Base –
Definition at line 84 of file Spliced_exon_.hpp.
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