NCBI C++ ToolKit
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CObjMgr_QueryFactory Class Reference

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NCBI C++ Object Manager dependant implementation of IQueryFactory. More...

#include <algo/blast/api/objmgr_query_data.hpp>

+ Inheritance diagram for CObjMgr_QueryFactory:
+ Collaboration diagram for CObjMgr_QueryFactory:

Public Member Functions

 CObjMgr_QueryFactory (TSeqLocVector &queries)
 ctor that takes a vector of SSeqLoc More...
 
 CObjMgr_QueryFactory (CBlastQueryVector &queries)
 ctor that takes a CBlastQueryVector (preferred) More...
 
vector< CRef< objects::CScope > > ExtractScopes ()
 Retrieve the CScope objects associated with the query sequences associated with this object. More...
 
TSeqLocInfoVector ExtractUserSpecifiedMasks ()
 Retrieve any user specified masking locations. More...
 
TSeqLocVector GetTSeqLocVector ()
 Retrieves the TSeqLocVector used to construct this object or a conversion of the CBlastQueryVector provided. More...
 
- Public Member Functions inherited from IQueryFactory
virtual ~IQueryFactory ()
 
CRef< ILocalQueryDataMakeLocalQueryData (const CBlastOptions *opts)
 Creates and caches an ILocalQueryData. More...
 
CRef< IRemoteQueryDataMakeRemoteQueryData ()
 Creates and caches an IRemoteQueryData. More...
 
- Public Member Functions inherited from CObject
 CObject (void)
 Constructor. More...
 
 CObject (const CObject &src)
 Copy constructor. More...
 
virtual ~CObject (void)
 Destructor. More...
 
CObjectoperator= (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...
 
virtual void DebugDump (CDebugDumpContext ddc, unsigned int depth) const
 Define method for dumping debug information. More...
 
- Public Member Functions inherited from CDebugDumpable
 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
 

Protected Member Functions

CRef< ILocalQueryDatax_MakeLocalQueryData (const CBlastOptions *opts)
 factory method to create an ILocalQueryData, only called if the data members above are not set More...
 
CRef< IRemoteQueryDatax_MakeRemoteQueryData ()
 factory method to create an IRemoteQueryData, only called if the data members above are not set More...
 
- Protected Member Functions inherited from CObject
virtual void DeleteThis (void)
 Virtual method "deleting" this object. More...
 

Private Attributes

TSeqLocVector m_SSeqLocVector
 
CRef< CBlastQueryVectorm_QueryVector
 

Additional Inherited Members

- Public Types inherited from CObject
enum  EAllocFillMode { eAllocFillNone = 1 , eAllocFillZero , eAllocFillPattern }
 Control filling of newly allocated memory. More...
 
typedef CObjectCounterLocker TLockerType
 Default locker type for CRef. More...
 
typedef atomic< Uint8TCounter
 Counter type is CAtomiCounter. More...
 
typedef Uint8 TCount
 Alias for value type of counter. More...
 
- Static Public Member Functions inherited from CObject
static NCBI_XNCBI_EXPORT void ThrowNullPointerException (void)
 Define method to throw null pointer exception. More...
 
static NCBI_XNCBI_EXPORT void ThrowNullPointerException (const type_info &type)
 
static EAllocFillMode GetAllocFillMode (void)
 
static void SetAllocFillMode (EAllocFillMode mode)
 
static void SetAllocFillMode (const string &value)
 Set mode from configuration parameter value. More...
 
- Static Public Member Functions inherited from CDebugDumpable
static void EnableDebugDump (bool on)
 
- Static Public Attributes inherited from CObject
static const TCount eCounterBitsCanBeDeleted = 1 << 0
 Define possible object states. More...
 
static const TCount eCounterBitsInPlainHeap = 1 << 1
 Heap signature was found. More...
 
static const TCount eCounterBitsPlaceMask
 Mask for 'in heap' state flags. More...
 
static const int eCounterStep = 1 << 2
 Skip over the "in heap" bits. More...
 
static const TCount eCounterValid = TCount(1) << (sizeof(TCount) * 8 - 2)
 Minimal value for valid objects (reference counter is zero) Must be a single bit value. More...
 
static const TCount eCounterStateMask
 Valid object, and object in heap. More...
 
- Protected Attributes inherited from IQueryFactory
CRef< ILocalQueryDatam_LocalQueryData
 
CRef< IRemoteQueryDatam_RemoteQueryData
 

Detailed Description

NCBI C++ Object Manager dependant implementation of IQueryFactory.

Definition at line 50 of file objmgr_query_data.hpp.


The documentation for this class was generated from the following files:
Modified on Sat Mar 02 10:56:01 2024 by modify_doxy.py rev. 669887