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NCBI C++ ToolKit: src/objmgr/annot_finder.cpp Source File

ret.second = ret.first+1;

( !

.IsFeat() )

;

( !

.GetFeat().Equals(

) )

;

( !

.IsAlign() )

;

( !

.GetAlign().Equals(

) )

;

( !

.IsGraph() )

;

( !

.GetGraph().Equals(

) )

;

(annot.

() == name) {

(annot.

() == name) {

vector<CHandleRangeMap> hrmaps;

.CollectRangeMaps(hrmaps);

(hrmaps.empty()) {

(

index = range.first; index < range.second; ++index) {

(it && it.

() == overlap_range) {

.CheckAnnotObject(annot_info) ) {

}

( run_again );

User-defined methods of the data storage class.

User-defined methods of the data storage class.

User-defined methods of the data storage class.

virtual void CollectRangeMaps(vector< CHandleRangeMap > &hrmaps) const

virtual CAnnotType_Index::TIndexRange GetIndexRange() const

virtual ~CAlignFindContext()

virtual bool CheckAnnotObject(const CAnnotObject_Info &info)

CAlignFindContext(const CSeq_align &align)

const CSeq_align & m_Align

const CTSE_Chunk_Info & GetChunk_Info(void) const

const CSeq_entry_Info & GetSeq_entry_Info(void) const

static void x_ProcessFeat(vector< CHandleRangeMap > &hrmaps, const CSeq_feat &feat, const CMasterSeqSegments *master)

static void x_ProcessAlign(vector< CHandleRangeMap > &hrmaps, const CSeq_align &align, const CMasterSeqSegments *master)

static void x_ProcessGraph(vector< CHandleRangeMap > &hrmaps, const CSeq_graph &graph, const CMasterSeqSegments *master)

bool IsChunkStub(void) const

pair< size_t, size_t > TIndexRange

static size_t GetSubtypeIndex(CSeqFeatData::ESubtype subtype)

static TIndexRange GetAnnotTypeRange(CSeq_annot::C_Data::E_Choice type)

virtual void CollectRangeMaps(vector< CHandleRangeMap > &hrmaps) const

virtual CAnnotType_Index::TIndexRange GetIndexRange() const

virtual bool CheckAnnotObject(const CAnnotObject_Info &info)

CFeatFindContext(const CSeq_feat &feat)

virtual ~CFeatFindContext()

virtual CAnnotType_Index::TIndexRange GetIndexRange() const

virtual ~CGraphFindContext()

virtual void CollectRangeMaps(vector< CHandleRangeMap > &hrmaps) const

virtual bool CheckAnnotObject(const CAnnotObject_Info &info)

CGraphFindContext(const CSeq_graph &graph)

const CSeq_graph & m_Graph

void Guard(resource_type &resource)

Manually force the guard to protect some other resource.

void Release()

Manually force the resource to be released.

ESubtype GetSubtype(void) const

void x_Find(const CSeq_entry_Info &entry, const CAnnotName &name, IFindContext &context)

const CAnnotObject_Info * Find(const CSeq_entry_Info &entry, const CAnnotName &name, const CSeq_feat &feat)

CConstRef< TObject > GetCompleteSeq_annot(void) const

const CAnnotName & GetName(void) const

const TAnnot & GetLoadedAnnot(void) const

vector< CRef< CSeq_annot_Info > > TAnnot

namespace ncbi::objects::

bool NotLoaded(void) const

void UpdateAnnotIndex(const CSeq_id_Handle &id) const

TAnnotLock & GetAnnotLock(void) const

const SIdAnnotObjs * x_GetIdObjects(const TAnnotObjs &objs, const CSeq_id_Handle &idh) const

const SIdAnnotObjs * x_GetUnnamedIdObjects(const CSeq_id_Handle &id) const

const CAnnotObject_Info * m_FoundObj

virtual void CollectRangeMaps(vector< CHandleRangeMap > &) const =0

virtual CAnnotType_Index::TIndexRange GetIndexRange() const =0

virtual bool CheckAnnotObject(const CAnnotObject_Info &)=0

const CAnnotObject_Info * GetFoundObj() const

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

virtual bool Equals(const CSerialObject &object, ESerialRecursionMode how=eRecursive) const

Check if both objects contain the same values.

range_type GetInterval(void) const

const_iterator find(const key_type &key) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

const TData & GetData(void) const

Get the Data member data.

const Tdata & Get(void) const

Get the member data.

const TDesc & GetDesc(void) const

Get the Desc member data.

bool IsSetDesc(void) const

used only for stand alone Seq-annots Check if a value has been assigned to Desc data member.

bool IsSet(void) const

Check if a value has been assigned to data member.

static const sljit_gpr r0

const TRangeMap & x_GetRangeMap(size_t index) const

bool x_RangeMapIsEmpty(size_t index) const

static CS_CONTEXT * context

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