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NCBI C++ ToolKit: include/objects/seq/Bioseq.hpp Source File

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* GetFirstId()

;

* GetNonLocalId()

;

* GetLocalId()

;

IsNa(

)

;

IsAa(

)

;

IsSetLength(

)

;

PackAsDeltaSeq(

gaps_ok =

);

@ eBoth

Both preliminary and traceback stages.

*** Sequence ******************************** *

CSeq_entry * m_ParentEntry

CSeq_entry * GetParentEntry(void) const

void SetParentEntry(CSeq_entry *entry)

static int sm_ConstructedId

CBioseq(const CBioseq &value)

CSeq_entry * m_ParentEntry

Base class for user-defined serializable classes to allow for objects assignment and comparison.

unsigned int TSeqPos

Type for sequence locations and lengths.

SStrictId_Tax::TId TTaxId

Taxon id type.

virtual bool UserOp_Equals(const CSerialUserOp &object) const =0

Will be called after comparing the datatool-generated members.

virtual void UserOp_Assign(const CSerialUserOp &source)=0

Will be called after copying the datatool-generated members.

string GetLabel(const CSeq_id &id)

ELabelType

For compatibility with legacy code.

TSeqPos GetLength(const CSeq_id &id, CScope *scope)

Get sequence length if scope not null, else return max possible TSeqPos.

TTaxId GetTaxId(const CBioseq_Handle &handle)

return the tax-id associated with a given sequence.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

static const char label[]

E_Choice

Choice variants.

CBioseq_Base & operator=(const CBioseq_Base &)

const GenericPointer< typename T::ValueType > T2 value

const CharType(& source)[N]

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