NCBI C++ ToolKit
CIgBlast Member List

This is the complete list of members for CIgBlast, including all inherited members.

AddReference(void) constCObjectinline
CanBeDeleted(void) const THROWS_NONECObjectinline
CDebugDumpable(void)CDebugDumpableinline
CheckReferenceOverflow(TCount count) constCObjectprivate
CIgBlast(CRef< CBlastQueryVector > query_factory, CRef< CLocalDbAdapter > blastdb, CRef< CBlastOptionsHandle > options, CConstRef< CIgBlastOptions > ig_options, CRef< CScope > scope)CIgBlastinline
CIgBlast(CRef< CBlastQueryVector > query_factory, CRef< CSearchDatabase > blastdb, CRef< IQueryFactory > subjects, CRef< CBlastOptionsHandle > options, CConstRef< CIgBlastOptions > ig_options, string entrez_query, CRef< CScope > scope)CIgBlastinline
CIgBlast(const CIgBlast &rhs)CIgBlastprivate
CObject(void)CObject
CObject(const CObject &src)CObject
DebugDump(CDebugDumpContext ddc, unsigned int depth) constCObjectvirtual
DebugDumpFormat(CDebugDumpFormatter &ddf, const string &bundle, unsigned int depth) constCDebugDumpable
DebugDumpText(ostream &out, const string &bundle, unsigned int depth) constCDebugDumpable
DeleteThis(void)CObjectprotectedvirtual
DoDeleteThisObject(void)CObjectvirtual
DoNotDeleteThisObject(void)CObjectvirtual
DumpToConsole(void) constCDebugDumpable
EAllocFillMode enum nameCObject
eAllocFillNone enum valueCObject
eAllocFillPattern enum valueCObject
eAllocFillZero enum valueCObject
eCounterBitsCanBeDeletedCObjectstatic
eCounterBitsInPlainHeapCObjectstatic
eCounterBitsPlaceMaskCObjectstatic
eCounterStateMaskCObjectstatic
eCounterStepCObjectstatic
eCounterValidCObjectstatic
EnableDebugDump(bool on)CDebugDumpablestatic
GetAllocFillMode(void)CObjectstatic
GetRid()CIgBlastinline
InitCounter(void)CObjectinlineprivate
InvalidObject(void) constCObjectprivate
IsAllocatedInPool(void) const THROWS_NONECObjectinline
m_AnnotationInfoCIgBlastprivate
m_CounterCObjectmutableprivate
m_EntrezQueryCIgBlastprivate
m_IgOptionsCIgBlastprivate
m_IsLocalCIgBlastprivate
m_LocalDbCIgBlastprivate
m_NumThreadsCIgBlastprivate
m_OptionsCIgBlastprivate
m_QueryCIgBlastprivate
m_RemoteDbCIgBlastprivate
m_RIDCIgBlastprivate
m_ScopeCIgBlastprivate
m_SubjectCIgBlastprivate
ObjectStateCanBeDeleted(TCount count)CObjectinlineprivatestatic
ObjectStateIsAllocatedInPool(TCount count)CObjectinlineprivatestatic
ObjectStateReferenced(TCount count)CObjectinlineprivatestatic
ObjectStateReferencedOnlyOnce(TCount count)CObjectinlineprivatestatic
ObjectStateUnreferenced(TCount count)CObjectinlineprivatestatic
ObjectStateValid(TCount count)CObjectinlineprivatestatic
operator delete(void *ptr)CObject
operator delete(void *ptr, void *place)CObject
operator delete(void *ptr, CObjectMemoryPool *place)CObject
operator delete[](void *ptr)CObject
operator new(size_t size)CObject
operator new(size_t size, void *place)CObject
operator new(size_t size, CObjectMemoryPool *place)CObject
operator new[](size_t size)CObject
operator=(const CIgBlast &rhs)CIgBlastprivate
CObject::operator=(const CObject &src) THROWS_NONECObjectinline
Referenced(void) const THROWS_NONECObjectinline
ReferencedOnlyOnce(void) const THROWS_NONECObjectinline
ReleaseReference(void) constCObject
RemoveLastReference(TCount count) constCObjectprivate
RemoveReference(void) constCObjectinline
Run()CIgBlast
s_AppendResults(CRef< CSearchResultSet > &results, int num_aligns, int gene, CRef< CSearchResultSet > &final_results)CIgBlastprivatestatic
s_SortResultsByEvalue(CRef< CSearchResultSet > &results)CIgBlastprivatestatic
SetAllocFillMode(EAllocFillMode mode)CObjectstatic
SetAllocFillMode(const string &value)CObjectstatic
SetNumberOfThreads(size_t nthreads)CIgBlastinline
sm_DumpEnabledCDebugDumpableprivatestatic
TCount typedefCObject
TCounter typedefCObject
ThrowNullPointerException(void)CObjectstatic
ThrowNullPointerException(const type_info &type)CObjectstatic
TLockerType typedefCObject
x_AnnotateC(CRef< CSearchResultSet > &results_c, CRef< CSearchResultSet > &results_j, vector< CRef< CIgAnnotation > > &annot)CIgBlastprivate
x_AnnotateD(CRef< CSearchResultSet > &results_D, vector< CRef< CIgAnnotation > > &annot)CIgBlastprivate
x_AnnotateDJ(CRef< CSearchResultSet > &results_D, CRef< CSearchResultSet > &results_J, vector< CRef< CIgAnnotation > > &annot)CIgBlastprivate
x_AnnotateDomain(CRef< CSearchResultSet > &gl_results, CRef< CSearchResultSet > &dm_results, vector< CRef< CIgAnnotation > > &annot)CIgBlastprivate
x_AnnotateJ(CRef< CSearchResultSet > &results_J, vector< CRef< CIgAnnotation > > &annot)CIgBlastprivate
x_AnnotateV(CRef< CSearchResultSet > &results, vector< CRef< CIgAnnotation > > &annot)CIgBlastprivate
x_ConvertResultType(CRef< CSearchResultSet > &results)CIgBlastprivate
x_ExtendAlign3end(CRef< CSearchResultSet > &results)CIgBlastprivate
x_ExtendAlign5end(CRef< CSearchResultSet > &results)CIgBlastprivate
x_FillJDomain(CRef< CSeq_align > &align, CRef< CIgAnnotation > &annot)CIgBlastprivate
x_FindDJ(CRef< CSearchResultSet > &results_D, CRef< CSearchResultSet > &results_J, CRef< CIgAnnotation > &annot, CRef< CSeq_align_set > &align_D, CRef< CSeq_align_set > &align_J, string q_ct, bool q_ms, ENa_strand q_st, int q_ve, int iq)CIgBlastprivate
x_FindDJAln(CRef< CSeq_align_set > &align_D, CRef< CSeq_align_set > &align_J, string q_ct, bool q_ms, ENa_strand q_st, int q_ve, int iq, bool va_or_vd_as_heavy_chain)CIgBlastprivate
x_ProcessCResult(CRef< CSearchResultSet > &results_C, vector< CRef< CIgAnnotation > > &annots)CIgBlastprivate
x_ProcessDGeneResult(CRef< CSearchResultSet > &results_V, CRef< CSearchResultSet > &results_D, CRef< CSearchResultSet > &results_J, vector< CRef< CIgAnnotation > > &annots)CIgBlastprivate
x_ProcessDJResult(CRef< CSearchResultSet > &results_V, CRef< CSearchResultSet > &results_D, CRef< CSearchResultSet > &results_J, vector< CRef< CIgAnnotation > > &annots)CIgBlastprivate
x_ScreenByAlignLength(CRef< CSearchResultSet > &results, int length)CIgBlastprivate
x_SetAnnotation(vector< CRef< CIgAnnotation > > &annot, CRef< CSearchResultSet > &final_results)CIgBlastprivate
x_SetChainType(CRef< CSearchResultSet > &results, vector< CRef< CIgAnnotation > > &annot)CIgBlastprivate
x_SetupCRegionSearch(const vector< CRef< CIgAnnotation > > &annots, CRef< IQueryFactory > &qf, CRef< CBlastOptionsHandle > &opts_hndl)CIgBlastprivate
x_SetupDbSearch(vector< CRef< CIgAnnotation > > &annot, CRef< IQueryFactory > &qf)CIgBlastprivate
x_SetupDJSearch(const vector< CRef< CIgAnnotation > > &annots, CRef< IQueryFactory > &qf, CRef< CBlastOptionsHandle > &opts_hndl, int db_type)CIgBlastprivate
x_SetupNoOverlapDSearch(const vector< CRef< CIgAnnotation > > &annots, CRef< CSearchResultSet > &results, CRef< IQueryFactory > &qf, CRef< CBlastOptionsHandle > &opts_hndl, int db_type)CIgBlastprivate
x_SetupVSearch(CRef< IQueryFactory > &qf, CRef< CBlastOptionsHandle > &opts_hndl)CIgBlastprivate
~CDebugDumpable(void)CDebugDumpablevirtual
~CIgBlast()CIgBlastinline
~CObject(void)CObjectvirtual
Modified on Wed Feb 21 09:58:24 2024 by modify_doxy.py rev. 669887