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

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<

KeyType,

ValueType,

KeyCompare >

ChangeType(

linkage_type);

& GetNameToGapTypeInfoMap(

);

User-defined methods of the data storage class.

ELinkEvid

indicates which linkage-evidences a given gap-type can accept, if any

@ eLinkEvid_UnspecifiedOnly

only the "unspecified" linkage-evidence is allowed

@ eLinkEvid_Forbidden

no linkage-evidence is allowed

@ eLinkEvid_Required

any linkage-evidence is allowed, and at least one is required

CSeq_gap(const CSeq_gap &value)

CStaticArrayMap< const char *, SGapTypeInfo, PCase_CStr > TGapTypeMap

Map a gap-type string to its information Note that PCase_CStr, which means direct lookup is NOT insen...

CSeq_gap & operator=(const CSeq_gap &value)

class CStaticArrayMap<> provides access to a static array in much the same way as CStaticArraySet<>,...

CTempString implements a light-weight string on top of a storage buffer whose lifetime management is ...

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

const GenericPointer< typename T::ValueType > T2 value

void SetLinkageTypeScaffold(CSeq_ext &ext, CLinkage_evidence::TType evidence_type)

SetLinkageTypeScaffold A special case of SetLinkageType.

void SetLinkageTypeLinkedRepeat(CSeq_ext &ext, CLinkage_evidence::TType evidence_type)

void AddLinkageEvidence(CSeq_ext &ext, CLinkage_evidence::TType evidence_type)

AddLinkageEvidence A function to add linkage evidence for gaps in a delta sequence.

Holds information about a given gap-type string.

CSeq_gap::EType m_eType

The underlying type that the string corresponds to.

ELinkEvid m_eLinkEvid

Indicates what linkage-evidences are compatible with this.

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